diff --git a/dev/CODE_OF_CONDUCT.html b/dev/CODE_OF_CONDUCT.html
index 166f78b35..af13508fd 100644
--- a/dev/CODE_OF_CONDUCT.html
+++ b/dev/CODE_OF_CONDUCT.html
@@ -113,7 +113,7 @@ <h2 id="attribution">Attribution<a class="anchor" aria-label="anchor" href="#att
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/authors.html b/dev/authors.html
index 7ad1713d9..1c11deb78 100644
--- a/dev/authors.html
+++ b/dev/authors.html
@@ -134,7 +134,7 @@ <h2 id="citation">Citation</h2>
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/deps/bootstrap-5.3.1/bootstrap.min.css b/dev/deps/bootstrap-5.3.1/bootstrap.min.css
index 0e55c33b4..f7ea1ff71 100644
--- a/dev/deps/bootstrap-5.3.1/bootstrap.min.css
+++ b/dev/deps/bootstrap-5.3.1/bootstrap.min.css
@@ -2,4 +2,4 @@
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    * Copyright 2011-2023 The Bootstrap Authors
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rgba(23,36,49,0.125);--bs-btn-disabled-color: #737A82;--bs-btn-disabled-bg: transparent;--bs-btn-disabled-border-color: #737A82;--bs-btn-bg: transparent;--bs-gradient: none}.btn-outline-success{--bs-btn-color: #198754;--bs-btn-border-color: #198754;--bs-btn-hover-color: #FCFCFC;--bs-btn-hover-bg: #198754;--bs-btn-hover-border-color: #198754;--bs-btn-focus-shadow-rgb: 25,135,84;--bs-btn-active-color: #FCFCFC;--bs-btn-active-bg: #198754;--bs-btn-active-border-color: #198754;--bs-btn-active-shadow: inset 0 3px 5px rgba(23,36,49,0.125);--bs-btn-disabled-color: #198754;--bs-btn-disabled-bg: transparent;--bs-btn-disabled-border-color: #198754;--bs-btn-bg: transparent;--bs-gradient: none}.btn-outline-info{--bs-btn-color: #0dcaf0;--bs-btn-border-color: #0dcaf0;--bs-btn-hover-color: #172431;--bs-btn-hover-bg: #0dcaf0;--bs-btn-hover-border-color: #0dcaf0;--bs-btn-focus-shadow-rgb: 13,202,240;--bs-btn-active-color: #172431;--bs-btn-active-bg: #0dcaf0;--bs-btn-active-border-color: 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var(--bs-border-width);--bs-dropdown-inner-border-radius: calc(var(--bs-border-radius) - var(--bs-border-width));--bs-dropdown-divider-bg: var(--bs-border-color-translucent);--bs-dropdown-divider-margin-y: .5rem;--bs-dropdown-box-shadow: 0 0.5rem 1rem rgba(23,36,49,0.15);--bs-dropdown-link-color: var(--bs-body-color);--bs-dropdown-link-hover-color: var(--bs-body-color);--bs-dropdown-link-hover-bg: var(--bs-tertiary-bg);--bs-dropdown-link-active-color: #FCFCFC;--bs-dropdown-link-active-bg: #447099;--bs-dropdown-link-disabled-color: var(--bs-tertiary-color);--bs-dropdown-item-padding-x: 1rem;--bs-dropdown-item-padding-y: .25rem;--bs-dropdown-header-color: #737A82;--bs-dropdown-header-padding-x: 1rem;--bs-dropdown-header-padding-y: .5rem;position:absolute;z-index:var(--bs-dropdown-zindex);display:none;min-width:var(--bs-dropdown-min-width);padding:var(--bs-dropdown-padding-y) 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0)}.dropdown-item:hover,.dropdown-item:focus{color:var(--bs-dropdown-link-hover-color);background-color:var(--bs-dropdown-link-hover-bg)}.dropdown-item.active,.dropdown-item:active{color:var(--bs-dropdown-link-active-color);text-decoration:none;background-color:var(--bs-dropdown-link-active-bg)}.dropdown-item.disabled,.dropdown-item:disabled{color:var(--bs-dropdown-link-disabled-color);pointer-events:none;background-color:transparent}.dropdown-menu.show{display:block}.dropdown-header{display:block;padding:var(--bs-dropdown-header-padding-y) var(--bs-dropdown-header-padding-x);margin-bottom:0;font-size:1.05rem;color:var(--bs-dropdown-header-color);white-space:nowrap}.dropdown-item-text{display:block;padding:var(--bs-dropdown-item-padding-y) var(--bs-dropdown-item-padding-x);color:var(--bs-dropdown-link-color)}.dropdown-menu-dark{--bs-dropdown-color: #B7BBBF;--bs-dropdown-bg: #454F5A;--bs-dropdown-border-color: var(--bs-border-color-translucent);--bs-dropdown-box-shadow: ;--bs-dropdown-link-color: #B7BBBF;--bs-dropdown-link-hover-color: #FCFCFC;--bs-dropdown-divider-bg: var(--bs-border-color-translucent);--bs-dropdown-link-hover-bg: rgba(252,252,252,0.15);--bs-dropdown-link-active-color: #FCFCFC;--bs-dropdown-link-active-bg: #447099;--bs-dropdown-link-disabled-color: #8A9096;--bs-dropdown-header-color: #8A9096}.btn-group,.btn-group-vertical{position:relative;display:inline-flex;vertical-align:middle}.btn-group>.btn,.btn-group-vertical>.btn{position:relative;flex:1 1 auto;-webkit-flex:1 1 auto}.btn-group>.btn-check:checked+.btn,.btn-group>.btn-check:focus+.btn,.btn-group>.btn:hover,.btn-group>.btn:focus,.btn-group>.btn:active,.btn-group>.btn.active,.btn-group-vertical>.btn-check:checked+.btn,.btn-group-vertical>.btn-check:focus+.btn,.btn-group-vertical>.btn:hover,.btn-group-vertical>.btn:focus,.btn-group-vertical>.btn:active,.btn-group-vertical>.btn.active{z-index:1}.btn-toolbar{display:flex;display:-webkit-flex;flex-wrap:wrap;-webkit-flex-wrap:wrap;justify-content:flex-start;-webkit-justify-content:flex-start}.btn-toolbar .input-group{width:auto}.btn-group{border-radius:3px}.btn-group>:not(.btn-check:first-child)+.btn,.btn-group>.btn-group:not(:first-child){margin-left:calc(var(--bs-border-width) * -1)}.btn-group>.btn:not(:last-child):not(.dropdown-toggle),.btn-group>.btn.dropdown-toggle-split:first-child,.btn-group>.btn-group:not(:last-child)>.btn{border-top-right-radius:0;border-bottom-right-radius:0}.btn-group>.btn:nth-child(n + 3),.btn-group>:not(.btn-check)+.btn,.btn-group>.btn-group:not(:first-child)>.btn{border-top-left-radius:0;border-bottom-left-radius:0}.dropdown-toggle-split{padding-right:.5625rem;padding-left:.5625rem}.dropdown-toggle-split::after,.dropup .dropdown-toggle-split::after,.dropend .dropdown-toggle-split::after{margin-left:0}.dropstart .dropdown-toggle-split::before{margin-right:0}.btn-sm+.dropdown-toggle-split,.btn-group-sm>.btn+.dropdown-toggle-split{padding-right:.375rem;padding-left:.375rem}.btn-lg+.dropdown-toggle-split,.btn-group-lg>.btn+.dropdown-toggle-split{padding-right:.75rem;padding-left:.75rem}.btn-group-vertical{flex-direction:column;-webkit-flex-direction:column;align-items:flex-start;-webkit-align-items:flex-start;justify-content:center;-webkit-justify-content:center}.btn-group-vertical>.btn,.btn-group-vertical>.btn-group{width:100%}.btn-group-vertical>.btn:not(:first-child),.btn-group-vertical>.btn-group:not(:first-child){margin-top:calc(var(--bs-border-width) * -1)}.btn-group-vertical>.btn:not(:last-child):not(.dropdown-toggle),.btn-group-vertical>.btn-group:not(:last-child)>.btn{border-bottom-right-radius:0;border-bottom-left-radius:0}.btn-group-vertical>.btn~.btn,.btn-group-vertical>.btn-group:not(:first-child)>.btn{border-top-left-radius:0;border-top-right-radius:0}.nav{--bs-nav-link-padding-x: 1rem;--bs-nav-link-padding-y: .5rem;--bs-nav-link-font-weight: ;--bs-nav-link-color: var(--bs-link-color);--bs-nav-link-hover-color: var(--bs-link-hover-color);--bs-nav-link-disabled-color: var(--bs-secondary-color);display:flex;display:-webkit-flex;flex-wrap:wrap;-webkit-flex-wrap:wrap;padding-left:0;margin-bottom:0;list-style:none}.nav-link{display:block;padding:var(--bs-nav-link-padding-y) 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url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 16 16' fill='%231b2d3d'%3e%3cpath fill-rule='evenodd' d='M1.646 4.646a.5.5 0 0 1 .708 0L8 10.293l5.646-5.647a.5.5 0 0 1 .708.708l-6 6a.5.5 0 0 1-.708 0l-6-6a.5.5 0 0 1 0-.708z'/%3e%3c/svg%3e");--bs-accordion-btn-focus-border-color: #a2b8cc;--bs-accordion-btn-focus-box-shadow: 0 0 0 .25rem rgba(68,112,153,0.25);--bs-accordion-body-padding-x: 1.25rem;--bs-accordion-body-padding-y: 1rem;--bs-accordion-active-color: var(--bs-primary-text-emphasis);--bs-accordion-active-bg: var(--bs-primary-bg-subtle)}.accordion-button{position:relative;display:flex;display:-webkit-flex;align-items:center;-webkit-align-items:center;width:100%;padding:var(--bs-accordion-btn-padding-y) var(--bs-accordion-btn-padding-x);font-size:1.2rem;color:var(--bs-accordion-btn-color);text-align:left;background-color:var(--bs-accordion-btn-bg);border:0;border-radius:0;overflow-anchor:none;transition:var(--bs-accordion-transition)}@media 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reduce){.accordion-button::after{transition:none}}.accordion-button:hover{z-index:2}.accordion-button:focus{z-index:3;border-color:var(--bs-accordion-btn-focus-border-color);outline:0;box-shadow:var(--bs-accordion-btn-focus-box-shadow)}.accordion-header{margin-bottom:0}.accordion-item{color:var(--bs-accordion-color);background-color:var(--bs-accordion-bg);border:var(--bs-accordion-border-width) solid var(--bs-accordion-border-color)}.accordion-item:first-of-type{border-top-left-radius:var(--bs-accordion-border-radius);border-top-right-radius:var(--bs-accordion-border-radius)}.accordion-item:first-of-type .accordion-button{border-top-left-radius:var(--bs-accordion-inner-border-radius);border-top-right-radius:var(--bs-accordion-inner-border-radius)}.accordion-item:not(:first-of-type){border-top:0}.accordion-item:last-of-type{border-bottom-right-radius:var(--bs-accordion-border-radius);border-bottom-left-radius:var(--bs-accordion-border-radius)}.accordion-item:last-of-type .accordion-button.collapsed{border-bottom-right-radius:var(--bs-accordion-inner-border-radius);border-bottom-left-radius:var(--bs-accordion-inner-border-radius)}.accordion-item:last-of-type .accordion-collapse{border-bottom-right-radius:var(--bs-accordion-border-radius);border-bottom-left-radius:var(--bs-accordion-border-radius)}.accordion-body{padding:var(--bs-accordion-body-padding-y) var(--bs-accordion-body-padding-x)}.accordion-flush .accordion-collapse{border-width:0}.accordion-flush .accordion-item{border-right:0;border-left:0;border-radius:0}.accordion-flush .accordion-item:first-child{border-top:0}.accordion-flush .accordion-item:last-child{border-bottom:0}.accordion-flush .accordion-item .accordion-button,.accordion-flush .accordion-item .accordion-button.collapsed{border-radius:0}[data-bs-theme="dark"] .accordion-button::after{--bs-accordion-btn-icon: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 16 16' fill='%238fa9c2'%3e%3cpath fill-rule='evenodd' d='M1.646 4.646a.5.5 0 0 1 .708 0L8 10.293l5.646-5.647a.5.5 0 0 1 .708.708l-6 6a.5.5 0 0 1-.708 0l-6-6a.5.5 0 0 1 0-.708z'/%3e%3c/svg%3e");--bs-accordion-btn-active-icon: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 16 16' fill='%238fa9c2'%3e%3cpath fill-rule='evenodd' d='M1.646 4.646a.5.5 0 0 1 .708 0L8 10.293l5.646-5.647a.5.5 0 0 1 .708.708l-6 6a.5.5 0 0 1-.708 0l-6-6a.5.5 0 0 1 0-.708z'/%3e%3c/svg%3e")}.breadcrumb{--bs-breadcrumb-padding-x: 0;--bs-breadcrumb-padding-y: 0;--bs-breadcrumb-margin-bottom: 1rem;--bs-breadcrumb-bg: ;--bs-breadcrumb-border-radius: ;--bs-breadcrumb-divider-color: var(--bs-secondary-color);--bs-breadcrumb-item-padding-x: .5rem;--bs-breadcrumb-item-active-color: var(--bs-secondary-color);display:flex;display:-webkit-flex;flex-wrap:wrap;-webkit-flex-wrap:wrap;padding:var(--bs-breadcrumb-padding-y) var(--bs-breadcrumb-padding-x);margin-bottom:var(--bs-breadcrumb-margin-bottom);font-size:var(--bs-breadcrumb-font-size);list-style:none;background-color:var(--bs-breadcrumb-bg);border-radius:var(--bs-breadcrumb-border-radius)}.breadcrumb-item+.breadcrumb-item{padding-left:var(--bs-breadcrumb-item-padding-x)}.breadcrumb-item+.breadcrumb-item::before{float:left;padding-right:var(--bs-breadcrumb-item-padding-x);color:var(--bs-breadcrumb-divider-color);content:var(--bs-breadcrumb-divider, "/") /* rtl: var(--bs-breadcrumb-divider, "/") */}.breadcrumb-item.active{color:var(--bs-breadcrumb-item-active-color)}.pagination{--bs-pagination-padding-x: .75rem;--bs-pagination-padding-y: .375rem;--bs-pagination-font-size:1.2rem;--bs-pagination-color: var(--bs-link-color);--bs-pagination-bg: var(--bs-body-bg);--bs-pagination-border-width: var(--bs-border-width);--bs-pagination-border-color: var(--bs-border-color);--bs-pagination-border-radius: var(--bs-border-radius);--bs-pagination-hover-color: var(--bs-link-hover-color);--bs-pagination-hover-bg: var(--bs-tertiary-bg);--bs-pagination-hover-border-color: var(--bs-border-color);--bs-pagination-focus-color: var(--bs-link-hover-color);--bs-pagination-focus-bg: var(--bs-secondary-bg);--bs-pagination-focus-box-shadow: 0 0 0 .25rem rgba(68,112,153,0.25);--bs-pagination-active-color: #FCFCFC;--bs-pagination-active-bg: #447099;--bs-pagination-active-border-color: #447099;--bs-pagination-disabled-color: var(--bs-secondary-color);--bs-pagination-disabled-bg: var(--bs-secondary-bg);--bs-pagination-disabled-border-color: var(--bs-border-color);display:flex;display:-webkit-flex;padding-left:0;list-style:none}.page-link{position:relative;display:block;padding:var(--bs-pagination-padding-y) var(--bs-pagination-padding-x);font-size:var(--bs-pagination-font-size);color:var(--bs-pagination-color);text-decoration:none;-webkit-text-decoration:none;-moz-text-decoration:none;-ms-text-decoration:none;-o-text-decoration:none;background-color:var(--bs-pagination-bg);border:var(--bs-pagination-border-width) solid var(--bs-pagination-border-color);transition:color 0.15s ease-in-out,background-color 0.15s ease-in-out,border-color 0.15s ease-in-out,box-shadow 0.15s ease-in-out}@media (prefers-reduced-motion: reduce){.page-link{transition:none}}.page-link:hover{z-index:2;color:var(--bs-pagination-hover-color);background-color:var(--bs-pagination-hover-bg);border-color:var(--bs-pagination-hover-border-color)}.page-link:focus{z-index:3;color:var(--bs-pagination-focus-color);background-color:var(--bs-pagination-focus-bg);outline:0;box-shadow:var(--bs-pagination-focus-box-shadow)}.page-link.active,.active>.page-link{z-index:3;color:var(--bs-pagination-active-color);background-color:var(--bs-pagination-active-bg);border-color:var(--bs-pagination-active-border-color)}.page-link.disabled,.disabled>.page-link{color:var(--bs-pagination-disabled-color);pointer-events:none;background-color:var(--bs-pagination-disabled-bg);border-color:var(--bs-pagination-disabled-border-color)}.page-item:not(:first-child) .page-link{margin-left:calc(var(--bs-border-width) * -1)}.page-item:first-child .page-link{border-top-left-radius:var(--bs-pagination-border-radius);border-bottom-left-radius:var(--bs-pagination-border-radius)}.page-item:last-child .page-link{border-top-right-radius:var(--bs-pagination-border-radius);border-bottom-right-radius:var(--bs-pagination-border-radius)}.pagination-lg{--bs-pagination-padding-x: 1.5rem;--bs-pagination-padding-y: .75rem;--bs-pagination-font-size:calc(1.275rem + .3vw);--bs-pagination-border-radius: var(--bs-border-radius-lg)}@media (min-width: 1200px){.pagination-lg{--bs-pagination-font-size:1.5rem}}.pagination-sm{--bs-pagination-padding-x: .5rem;--bs-pagination-padding-y: .25rem;--bs-pagination-font-size:1.05rem;--bs-pagination-border-radius: var(--bs-border-radius-sm)}.badge{--bs-badge-padding-x: .65em;--bs-badge-padding-y: .35em;--bs-badge-font-size:.75em;--bs-badge-font-weight: 700;--bs-badge-color: #FCFCFC;--bs-badge-border-radius: var(--bs-border-radius);display:inline-block;padding:var(--bs-badge-padding-y) var(--bs-badge-padding-x);font-size:var(--bs-badge-font-size);font-weight:var(--bs-badge-font-weight);line-height:1;color:var(--bs-badge-color);text-align:center;white-space:nowrap;vertical-align:baseline;border-radius:var(--bs-badge-border-radius)}.badge:empty{display:none}.btn .badge{position:relative;top:-1px}.alert{--bs-alert-bg: transparent;--bs-alert-padding-x: 1rem;--bs-alert-padding-y: 1rem;--bs-alert-margin-bottom: 1rem;--bs-alert-color: inherit;--bs-alert-border-color: transparent;--bs-alert-border: var(--bs-border-width) solid var(--bs-alert-border-color);--bs-alert-border-radius: var(--bs-border-radius);--bs-alert-link-color: inherit;position:relative;padding:var(--bs-alert-padding-y) var(--bs-alert-padding-x);margin-bottom:var(--bs-alert-margin-bottom);color:var(--bs-alert-color);background-color:var(--bs-alert-bg);border:var(--bs-alert-border);border-radius:var(--bs-alert-border-radius)}.alert-heading{color:inherit}.alert-link{font-weight:700;color:var(--bs-alert-link-color)}.alert-dismissible{padding-right:3rem}.alert-dismissible .btn-close{position:absolute;top:0;right:0;z-index:2;padding:1.25rem 1rem}.alert-default{--bs-alert-color: var(--bs-default-text-emphasis);--bs-alert-bg: var(--bs-default-bg-subtle);--bs-alert-border-color: var(--bs-default-border-subtle);--bs-alert-link-color: var(--bs-default-text-emphasis)}.alert-primary{--bs-alert-color: var(--bs-primary-text-emphasis);--bs-alert-bg: var(--bs-primary-bg-subtle);--bs-alert-border-color: var(--bs-primary-border-subtle);--bs-alert-link-color: var(--bs-primary-text-emphasis)}.alert-secondary{--bs-alert-color: var(--bs-secondary-text-emphasis);--bs-alert-bg: var(--bs-secondary-bg-subtle);--bs-alert-border-color: var(--bs-secondary-border-subtle);--bs-alert-link-color: var(--bs-secondary-text-emphasis)}.alert-success{--bs-alert-color: var(--bs-success-text-emphasis);--bs-alert-bg: var(--bs-success-bg-subtle);--bs-alert-border-color: var(--bs-success-border-subtle);--bs-alert-link-color: var(--bs-success-text-emphasis)}.alert-info{--bs-alert-color: var(--bs-info-text-emphasis);--bs-alert-bg: var(--bs-info-bg-subtle);--bs-alert-border-color: var(--bs-info-border-subtle);--bs-alert-link-color: var(--bs-info-text-emphasis)}.alert-warning{--bs-alert-color: var(--bs-warning-text-emphasis);--bs-alert-bg: var(--bs-warning-bg-subtle);--bs-alert-border-color: var(--bs-warning-border-subtle);--bs-alert-link-color: var(--bs-warning-text-emphasis)}.alert-danger{--bs-alert-color: var(--bs-danger-text-emphasis);--bs-alert-bg: var(--bs-danger-bg-subtle);--bs-alert-border-color: var(--bs-danger-border-subtle);--bs-alert-link-color: var(--bs-danger-text-emphasis)}.alert-light{--bs-alert-color: var(--bs-light-text-emphasis);--bs-alert-bg: var(--bs-light-bg-subtle);--bs-alert-border-color: var(--bs-light-border-subtle);--bs-alert-link-color: var(--bs-light-text-emphasis)}.alert-dark{--bs-alert-color: var(--bs-dark-text-emphasis);--bs-alert-bg: var(--bs-dark-bg-subtle);--bs-alert-border-color: var(--bs-dark-border-subtle);--bs-alert-link-color: var(--bs-dark-text-emphasis)}@keyframes progress-bar-stripes{0%{background-position-x:1rem}}.progress,.progress-stacked{--bs-progress-height: 1rem;--bs-progress-font-size:.9rem;--bs-progress-bg: var(--bs-secondary-bg);--bs-progress-border-radius: var(--bs-border-radius);--bs-progress-box-shadow: var(--bs-box-shadow-inset);--bs-progress-bar-color: #FCFCFC;--bs-progress-bar-bg: #447099;--bs-progress-bar-transition: width 0.6s ease;display:flex;display:-webkit-flex;height:var(--bs-progress-height);overflow:hidden;font-size:var(--bs-progress-font-size);background-color:var(--bs-progress-bg);border-radius:var(--bs-progress-border-radius)}.progress-bar{display:flex;display:-webkit-flex;flex-direction:column;-webkit-flex-direction:column;justify-content:center;-webkit-justify-content:center;overflow:hidden;color:var(--bs-progress-bar-color);text-align:center;white-space:nowrap;background-color:var(--bs-progress-bar-bg);transition:var(--bs-progress-bar-transition)}@media (prefers-reduced-motion: reduce){.progress-bar{transition:none}}.progress-bar-striped{background-image:linear-gradient(45deg, rgba(252,252,252,0.15) 25%, transparent 25%, transparent 50%, rgba(252,252,252,0.15) 50%, rgba(252,252,252,0.15) 75%, transparent 75%, transparent);background-size:var(--bs-progress-height) var(--bs-progress-height)}.progress-stacked>.progress{overflow:visible}.progress-stacked>.progress>.progress-bar{width:100%}.progress-bar-animated{animation:1s linear infinite progress-bar-stripes}@media (prefers-reduced-motion: reduce){.progress-bar-animated{animation:none}}.list-group{--bs-list-group-color: var(--bs-body-color);--bs-list-group-bg: var(--bs-body-bg);--bs-list-group-border-color: var(--bs-border-color);--bs-list-group-border-width: var(--bs-border-width);--bs-list-group-border-radius: var(--bs-border-radius);--bs-list-group-item-padding-x: 1rem;--bs-list-group-item-padding-y: .5rem;--bs-list-group-action-color: var(--bs-secondary-color);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-tertiary-bg);--bs-list-group-action-active-color: var(--bs-body-color);--bs-list-group-action-active-bg: var(--bs-secondary-bg);--bs-list-group-disabled-color: var(--bs-secondary-color);--bs-list-group-disabled-bg: var(--bs-body-bg);--bs-list-group-active-color: #FCFCFC;--bs-list-group-active-bg: #447099;--bs-list-group-active-border-color: #447099;display:flex;display:-webkit-flex;flex-direction:column;-webkit-flex-direction:column;padding-left:0;margin-bottom:0;border-radius:var(--bs-list-group-border-radius)}.list-group-numbered{list-style-type:none;counter-reset:section}.list-group-numbered>.list-group-item::before{content:counters(section, ".") ". ";counter-increment:section}.list-group-item-action{width:100%;color:var(--bs-list-group-action-color);text-align:inherit}.list-group-item-action:hover,.list-group-item-action:focus{z-index:1;color:var(--bs-list-group-action-hover-color);text-decoration:none;background-color:var(--bs-list-group-action-hover-bg)}.list-group-item-action:active{color:var(--bs-list-group-action-active-color);background-color:var(--bs-list-group-action-active-bg)}.list-group-item{position:relative;display:block;padding:var(--bs-list-group-item-padding-y) var(--bs-list-group-item-padding-x);color:var(--bs-list-group-color);text-decoration:none;-webkit-text-decoration:none;-moz-text-decoration:none;-ms-text-decoration:none;-o-text-decoration:none;background-color:var(--bs-list-group-bg);border:var(--bs-list-group-border-width) solid var(--bs-list-group-border-color)}.list-group-item:first-child{border-top-left-radius:inherit;border-top-right-radius:inherit}.list-group-item:last-child{border-bottom-right-radius:inherit;border-bottom-left-radius:inherit}.list-group-item.disabled,.list-group-item:disabled{color:var(--bs-list-group-disabled-color);pointer-events:none;background-color:var(--bs-list-group-disabled-bg)}.list-group-item.active{z-index:2;color:var(--bs-list-group-active-color);background-color:var(--bs-list-group-active-bg);border-color:var(--bs-list-group-active-border-color)}.list-group-item+.list-group-item{border-top-width:0}.list-group-item+.list-group-item.active{margin-top:calc(-1 * var(--bs-list-group-border-width));border-top-width:var(--bs-list-group-border-width)}.list-group-horizontal{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal>.list-group-item.active{margin-top:0}.list-group-horizontal>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}@media (min-width: 576px){.list-group-horizontal-sm{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-sm>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-sm>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-sm>.list-group-item.active{margin-top:0}.list-group-horizontal-sm>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-sm>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media (min-width: 768px){.list-group-horizontal-md{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-md>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-md>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-md>.list-group-item.active{margin-top:0}.list-group-horizontal-md>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-md>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media (min-width: 992px){.list-group-horizontal-lg{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-lg>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-lg>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-lg>.list-group-item.active{margin-top:0}.list-group-horizontal-lg>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-lg>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media (min-width: 1200px){.list-group-horizontal-xl{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-xl>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-xl>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-xl>.list-group-item.active{margin-top:0}.list-group-horizontal-xl>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-xl>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media (min-width: 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var(--bs-list-group-border-width)}.list-group-flush>.list-group-item:last-child{border-bottom-width:0}.list-group-item-default{--bs-list-group-color: var(--bs-default-text-emphasis);--bs-list-group-bg: var(--bs-default-bg-subtle);--bs-list-group-border-color: var(--bs-default-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-default-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-default-border-subtle);--bs-list-group-active-color: var(--bs-default-bg-subtle);--bs-list-group-active-bg: var(--bs-default-text-emphasis);--bs-list-group-active-border-color: var(--bs-default-text-emphasis)}.list-group-item-primary{--bs-list-group-color: var(--bs-primary-text-emphasis);--bs-list-group-bg: var(--bs-primary-bg-subtle);--bs-list-group-border-color: var(--bs-primary-border-subtle);--bs-list-group-action-hover-color: 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var(--bs-secondary-text-emphasis);--bs-list-group-active-border-color: var(--bs-secondary-text-emphasis)}.list-group-item-success{--bs-list-group-color: var(--bs-success-text-emphasis);--bs-list-group-bg: var(--bs-success-bg-subtle);--bs-list-group-border-color: var(--bs-success-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-success-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-success-border-subtle);--bs-list-group-active-color: var(--bs-success-bg-subtle);--bs-list-group-active-bg: var(--bs-success-text-emphasis);--bs-list-group-active-border-color: var(--bs-success-text-emphasis)}.list-group-item-info{--bs-list-group-color: var(--bs-info-text-emphasis);--bs-list-group-bg: var(--bs-info-bg-subtle);--bs-list-group-border-color: var(--bs-info-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-info-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-info-border-subtle);--bs-list-group-active-color: var(--bs-info-bg-subtle);--bs-list-group-active-bg: var(--bs-info-text-emphasis);--bs-list-group-active-border-color: var(--bs-info-text-emphasis)}.list-group-item-warning{--bs-list-group-color: var(--bs-warning-text-emphasis);--bs-list-group-bg: var(--bs-warning-bg-subtle);--bs-list-group-border-color: var(--bs-warning-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-warning-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-warning-border-subtle);--bs-list-group-active-color: var(--bs-warning-bg-subtle);--bs-list-group-active-bg: var(--bs-warning-text-emphasis);--bs-list-group-active-border-color: var(--bs-warning-text-emphasis)}.list-group-item-danger{--bs-list-group-color: var(--bs-danger-text-emphasis);--bs-list-group-bg: var(--bs-danger-bg-subtle);--bs-list-group-border-color: var(--bs-danger-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-danger-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-danger-border-subtle);--bs-list-group-active-color: var(--bs-danger-bg-subtle);--bs-list-group-active-bg: var(--bs-danger-text-emphasis);--bs-list-group-active-border-color: var(--bs-danger-text-emphasis)}.list-group-item-light{--bs-list-group-color: var(--bs-light-text-emphasis);--bs-list-group-bg: var(--bs-light-bg-subtle);--bs-list-group-border-color: var(--bs-light-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-light-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-light-border-subtle);--bs-list-group-active-color: var(--bs-light-bg-subtle);--bs-list-group-active-bg: var(--bs-light-text-emphasis);--bs-list-group-active-border-color: var(--bs-light-text-emphasis)}.list-group-item-dark{--bs-list-group-color: var(--bs-dark-text-emphasis);--bs-list-group-bg: var(--bs-dark-bg-subtle);--bs-list-group-border-color: var(--bs-dark-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-dark-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-dark-border-subtle);--bs-list-group-active-color: var(--bs-dark-bg-subtle);--bs-list-group-active-bg: var(--bs-dark-text-emphasis);--bs-list-group-active-border-color: var(--bs-dark-text-emphasis)}.btn-close{--bs-btn-close-color: #172431;--bs-btn-close-bg: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' 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var(--bs-toast-padding-x));margin-left:var(--bs-toast-padding-x)}.toast-body{padding:var(--bs-toast-padding-x);word-wrap:break-word}.modal{--bs-modal-zindex: 1055;--bs-modal-width: 500px;--bs-modal-padding: 1rem;--bs-modal-margin: .5rem;--bs-modal-color: ;--bs-modal-bg: var(--bs-body-bg);--bs-modal-border-color: var(--bs-border-color-translucent);--bs-modal-border-width: var(--bs-border-width);--bs-modal-border-radius: var(--bs-border-radius-lg);--bs-modal-box-shadow: 0 0.125rem 0.25rem rgba(23,36,49,0.075);--bs-modal-inner-border-radius: calc(var(--bs-border-radius-lg) - (var(--bs-border-width)));--bs-modal-header-padding-x: 1rem;--bs-modal-header-padding-y: 1rem;--bs-modal-header-padding: 1rem 1rem;--bs-modal-header-border-color: var(--bs-border-color);--bs-modal-header-border-width: var(--bs-border-width);--bs-modal-title-line-height: 1.5;--bs-modal-footer-gap: .5rem;--bs-modal-footer-bg: ;--bs-modal-footer-border-color: var(--bs-border-color);--bs-modal-footer-border-width: 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.4rem;z-index:var(--bs-tooltip-zindex);display:block;margin:var(--bs-tooltip-margin);font-family:"Source Sans Pro";font-style:normal;font-weight:400;line-height:1.5;text-align:left;text-align:start;text-decoration:none;text-shadow:none;text-transform:none;letter-spacing:normal;word-break:normal;white-space:normal;word-spacing:normal;line-break:auto;font-size:var(--bs-tooltip-font-size);word-wrap:break-word;opacity:0}.tooltip.show{opacity:var(--bs-tooltip-opacity)}.tooltip .tooltip-arrow{display:block;width:var(--bs-tooltip-arrow-width);height:var(--bs-tooltip-arrow-height)}.tooltip .tooltip-arrow::before{position:absolute;content:"";border-color:transparent;border-style:solid}.bs-tooltip-top .tooltip-arrow,.bs-tooltip-auto[data-popper-placement^="top"] .tooltip-arrow{bottom:calc(-1 * var(--bs-tooltip-arrow-height))}.bs-tooltip-top .tooltip-arrow::before,.bs-tooltip-auto[data-popper-placement^="top"] .tooltip-arrow::before{top:-1px;border-width:var(--bs-tooltip-arrow-height) 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46,58,69;--bs-btn-active-color: #FCFCFC;--bs-btn-active-bg: #2E3A45;--bs-btn-active-border-color: #2E3A45;--bs-btn-active-shadow: inset 0 3px 5px rgba(23,36,49,0.125);--bs-btn-disabled-color: #2E3A45;--bs-btn-disabled-bg: transparent;--bs-btn-disabled-border-color: #2E3A45;--bs-btn-bg: transparent;--bs-gradient: none}.btn-link{--bs-btn-font-weight: 400;--bs-btn-color: var(--bs-link-color);--bs-btn-bg: transparent;--bs-btn-border-color: transparent;--bs-btn-hover-color: var(--bs-link-hover-color);--bs-btn-hover-border-color: transparent;--bs-btn-active-color: var(--bs-link-hover-color);--bs-btn-active-border-color: transparent;--bs-btn-disabled-color: #737A82;--bs-btn-disabled-border-color: transparent;--bs-btn-box-shadow: 0 0 0 #000;--bs-btn-focus-shadow-rgb: 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auto}.btn-group>.btn-check:checked+.btn,.btn-group>.btn-check:focus+.btn,.btn-group>.btn:hover,.btn-group>.btn:focus,.btn-group>.btn:active,.btn-group>.btn.active,.btn-group-vertical>.btn-check:checked+.btn,.btn-group-vertical>.btn-check:focus+.btn,.btn-group-vertical>.btn:hover,.btn-group-vertical>.btn:focus,.btn-group-vertical>.btn:active,.btn-group-vertical>.btn.active{z-index:1}.btn-toolbar{display:flex;display:-webkit-flex;flex-wrap:wrap;-webkit-flex-wrap:wrap;justify-content:flex-start;-webkit-justify-content:flex-start}.btn-toolbar .input-group{width:auto}.btn-group{border-radius:3px}.btn-group>:not(.btn-check:first-child)+.btn,.btn-group>.btn-group:not(:first-child){margin-left:calc(var(--bs-border-width) * -1)}.btn-group>.btn:not(:last-child):not(.dropdown-toggle),.btn-group>.btn.dropdown-toggle-split:first-child,.btn-group>.btn-group:not(:last-child)>.btn{border-top-right-radius:0;border-bottom-right-radius:0}.btn-group>.btn:nth-child(n + 3),.btn-group>:not(.btn-check)+.btn,.btn-group>.btn-group:not(:first-child)>.btn{border-top-left-radius:0;border-bottom-left-radius:0}.dropdown-toggle-split{padding-right:.5625rem;padding-left:.5625rem}.dropdown-toggle-split::after,.dropup .dropdown-toggle-split::after,.dropend .dropdown-toggle-split::after{margin-left:0}.dropstart .dropdown-toggle-split::before{margin-right:0}.btn-sm+.dropdown-toggle-split,.btn-group-sm>.btn+.dropdown-toggle-split{padding-right:.375rem;padding-left:.375rem}.btn-lg+.dropdown-toggle-split,.btn-group-lg>.btn+.dropdown-toggle-split{padding-right:.75rem;padding-left:.75rem}.btn-group-vertical{flex-direction:column;-webkit-flex-direction:column;align-items:flex-start;-webkit-align-items:flex-start;justify-content:center;-webkit-justify-content:center}.btn-group-vertical>.btn,.btn-group-vertical>.btn-group{width:100%}.btn-group-vertical>.btn:not(:first-child),.btn-group-vertical>.btn-group:not(:first-child){margin-top:calc(var(--bs-border-width) * 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.offcanvas{position:static;z-index:auto;flex-grow:1;-webkit-flex-grow:1;width:auto !important;height:auto !important;visibility:visible !important;background-color:transparent !important;border:0 !important;transform:none !important;transition:none}.navbar-expand-xxl .offcanvas .offcanvas-header{display:none}.navbar-expand-xxl .offcanvas .offcanvas-body{display:flex;display:-webkit-flex;flex-grow:0;-webkit-flex-grow:0;padding:0;overflow-y:visible}}.navbar-expand{flex-wrap:nowrap;-webkit-flex-wrap:nowrap;justify-content:flex-start;-webkit-justify-content:flex-start}.navbar-expand .navbar-nav{flex-direction:row;-webkit-flex-direction:row}.navbar-expand .navbar-nav .dropdown-menu{position:absolute}.navbar-expand .navbar-nav .nav-link{padding-right:var(--bs-navbar-nav-link-padding-x);padding-left:var(--bs-navbar-nav-link-padding-x)}.navbar-expand .navbar-nav-scroll{overflow:visible}.navbar-expand .navbar-collapse{display:flex !important;display:-webkit-flex !important;flex-basis:auto;-webkit-flex-basis:auto}.navbar-expand .navbar-toggler{display:none}.navbar-expand .offcanvas{position:static;z-index:auto;flex-grow:1;-webkit-flex-grow:1;width:auto !important;height:auto !important;visibility:visible !important;background-color:transparent !important;border:0 !important;transform:none !important;transition:none}.navbar-expand .offcanvas .offcanvas-header{display:none}.navbar-expand .offcanvas .offcanvas-body{display:flex;display:-webkit-flex;flex-grow:0;-webkit-flex-grow:0;padding:0;overflow-y:visible}.navbar-dark,.navbar[data-bs-theme="dark"]{--bs-navbar-color: rgba(var(--bs-emphasis-color-rgb), 0.55);--bs-navbar-hover-color: rgba(var(--bs-emphasis-color-rgb), 0.75);--bs-navbar-disabled-color: rgba(var(--bs-emphasis-color-rgb), 0.25);--bs-navbar-active-color: rgba(var(--bs-emphasis-color-rgb), 1);--bs-navbar-brand-color: rgba(var(--bs-emphasis-color-rgb), 1);--bs-navbar-brand-hover-color: rgba(var(--bs-emphasis-color-rgb), 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;--bs-card-inner-border-radius: calc(var(--bs-border-radius) - (var(--bs-border-width)));--bs-card-cap-padding-y: .5rem;--bs-card-cap-padding-x: 1rem;--bs-card-cap-bg: rgba(var(--bs-body-color-rgb), 0.03);--bs-card-cap-color: ;--bs-card-height: ;--bs-card-color: ;--bs-card-bg: var(--bs-body-bg);--bs-card-img-overlay-padding: 1rem;--bs-card-group-margin: 1.5rem;position:relative;display:flex;display:-webkit-flex;flex-direction:column;-webkit-flex-direction:column;min-width:0;height:var(--bs-card-height);color:var(--bs-body-color);word-wrap:break-word;background-color:var(--bs-card-bg);background-clip:border-box;border:var(--bs-card-border-width) solid var(--bs-card-border-color);border-radius:var(--bs-card-border-radius)}.card>hr{margin-right:0;margin-left:0}.card>.list-group{border-top:inherit;border-bottom:inherit}.card>.list-group:first-child{border-top-width:0;border-top-left-radius:var(--bs-card-inner-border-radius);border-top-right-radius:var(--bs-card-inner-border-radius)}.card>.list-group:last-child{border-bottom-width:0;border-bottom-right-radius:var(--bs-card-inner-border-radius);border-bottom-left-radius:var(--bs-card-inner-border-radius)}.card>.card-header+.list-group,.card>.list-group+.card-footer{border-top:0}.card-body{flex:1 1 auto;-webkit-flex:1 1 auto;padding:var(--bs-card-spacer-y) var(--bs-card-spacer-x);color:var(--bs-card-color)}.card-title{margin-bottom:var(--bs-card-title-spacer-y);color:var(--bs-card-title-color)}.card-subtitle{margin-top:calc(-.5 * 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ease-in-out,border-color 0.15s ease-in-out,box-shadow 0.15s ease-in-out,border-radius 0.15s ease;--bs-accordion-border-color: var(--bs-border-color);--bs-accordion-border-width: var(--bs-border-width);--bs-accordion-border-radius: var(--bs-border-radius);--bs-accordion-inner-border-radius: calc(var(--bs-border-radius) - (var(--bs-border-width)));--bs-accordion-btn-padding-x: 1.25rem;--bs-accordion-btn-padding-y: 1rem;--bs-accordion-btn-color: var(--bs-body-color);--bs-accordion-btn-bg: var(--bs-accordion-bg);--bs-accordion-btn-icon: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 16 16' fill='%232E3A45'%3e%3cpath fill-rule='evenodd' d='M1.646 4.646a.5.5 0 0 1 .708 0L8 10.293l5.646-5.647a.5.5 0 0 1 .708.708l-6 6a.5.5 0 0 1-.708 0l-6-6a.5.5 0 0 1 0-.708z'/%3e%3c/svg%3e");--bs-accordion-btn-icon-width: 1.25rem;--bs-accordion-btn-icon-transform: rotate(-180deg);--bs-accordion-btn-icon-transition: transform 0.2s ease-in-out;--bs-accordion-btn-active-icon: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 16 16' fill='%231b2d3d'%3e%3cpath fill-rule='evenodd' d='M1.646 4.646a.5.5 0 0 1 .708 0L8 10.293l5.646-5.647a.5.5 0 0 1 .708.708l-6 6a.5.5 0 0 1-.708 0l-6-6a.5.5 0 0 1 0-.708z'/%3e%3c/svg%3e");--bs-accordion-btn-focus-border-color: #a2b8cc;--bs-accordion-btn-focus-box-shadow: 0 0 0 .25rem rgba(68,112,153,0.25);--bs-accordion-body-padding-x: 1.25rem;--bs-accordion-body-padding-y: 1rem;--bs-accordion-active-color: var(--bs-primary-text-emphasis);--bs-accordion-active-bg: var(--bs-primary-bg-subtle)}.accordion-button{position:relative;display:flex;display:-webkit-flex;align-items:center;-webkit-align-items:center;width:100%;padding:var(--bs-accordion-btn-padding-y) var(--bs-accordion-btn-padding-x);font-size:1.2rem;color:var(--bs-accordion-btn-color);text-align:left;background-color:var(--bs-accordion-btn-bg);border:0;border-radius:0;overflow-anchor:none;transition:var(--bs-accordion-transition)}@media (prefers-reduced-motion: reduce){.accordion-button{transition:none}}.accordion-button:not(.collapsed){color:var(--bs-accordion-active-color);background-color:var(--bs-accordion-active-bg);box-shadow:inset 0 calc(-1 * var(--bs-accordion-border-width)) 0 var(--bs-accordion-border-color)}.accordion-button:not(.collapsed)::after{background-image:var(--bs-accordion-btn-active-icon);transform:var(--bs-accordion-btn-icon-transform)}.accordion-button::after{flex-shrink:0;-webkit-flex-shrink:0;width:var(--bs-accordion-btn-icon-width);height:var(--bs-accordion-btn-icon-width);margin-left:auto;content:"";background-image:var(--bs-accordion-btn-icon);background-repeat:no-repeat;background-size:var(--bs-accordion-btn-icon-width);transition:var(--bs-accordion-btn-icon-transition)}@media (prefers-reduced-motion: reduce){.accordion-button::after{transition:none}}.accordion-button:hover{z-index:2}.accordion-button:focus{z-index:3;border-color:var(--bs-accordion-btn-focus-border-color);outline:0;box-shadow:var(--bs-accordion-btn-focus-box-shadow)}.accordion-header{margin-bottom:0}.accordion-item{color:var(--bs-accordion-color);background-color:var(--bs-accordion-bg);border:var(--bs-accordion-border-width) solid var(--bs-accordion-border-color)}.accordion-item:first-of-type{border-top-left-radius:var(--bs-accordion-border-radius);border-top-right-radius:var(--bs-accordion-border-radius)}.accordion-item:first-of-type .accordion-button{border-top-left-radius:var(--bs-accordion-inner-border-radius);border-top-right-radius:var(--bs-accordion-inner-border-radius)}.accordion-item:not(:first-of-type){border-top:0}.accordion-item:last-of-type{border-bottom-right-radius:var(--bs-accordion-border-radius);border-bottom-left-radius:var(--bs-accordion-border-radius)}.accordion-item:last-of-type .accordion-button.collapsed{border-bottom-right-radius:var(--bs-accordion-inner-border-radius);border-bottom-left-radius:var(--bs-accordion-inner-border-radius)}.accordion-item:last-of-type .accordion-collapse{border-bottom-right-radius:var(--bs-accordion-border-radius);border-bottom-left-radius:var(--bs-accordion-border-radius)}.accordion-body{padding:var(--bs-accordion-body-padding-y) var(--bs-accordion-body-padding-x)}.accordion-flush .accordion-collapse{border-width:0}.accordion-flush .accordion-item{border-right:0;border-left:0;border-radius:0}.accordion-flush .accordion-item:first-child{border-top:0}.accordion-flush .accordion-item:last-child{border-bottom:0}.accordion-flush .accordion-item .accordion-button,.accordion-flush .accordion-item .accordion-button.collapsed{border-radius:0}[data-bs-theme="dark"] .accordion-button::after{--bs-accordion-btn-icon: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 16 16' fill='%238fa9c2'%3e%3cpath fill-rule='evenodd' d='M1.646 4.646a.5.5 0 0 1 .708 0L8 10.293l5.646-5.647a.5.5 0 0 1 .708.708l-6 6a.5.5 0 0 1-.708 0l-6-6a.5.5 0 0 1 0-.708z'/%3e%3c/svg%3e");--bs-accordion-btn-active-icon: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 16 16' fill='%238fa9c2'%3e%3cpath fill-rule='evenodd' d='M1.646 4.646a.5.5 0 0 1 .708 0L8 10.293l5.646-5.647a.5.5 0 0 1 .708.708l-6 6a.5.5 0 0 1-.708 0l-6-6a.5.5 0 0 1 0-.708z'/%3e%3c/svg%3e")}.breadcrumb{--bs-breadcrumb-padding-x: 0;--bs-breadcrumb-padding-y: 0;--bs-breadcrumb-margin-bottom: 1rem;--bs-breadcrumb-bg: ;--bs-breadcrumb-border-radius: ;--bs-breadcrumb-divider-color: var(--bs-secondary-color);--bs-breadcrumb-item-padding-x: .5rem;--bs-breadcrumb-item-active-color: var(--bs-secondary-color);display:flex;display:-webkit-flex;flex-wrap:wrap;-webkit-flex-wrap:wrap;padding:var(--bs-breadcrumb-padding-y) var(--bs-breadcrumb-padding-x);margin-bottom:var(--bs-breadcrumb-margin-bottom);font-size:var(--bs-breadcrumb-font-size);list-style:none;background-color:var(--bs-breadcrumb-bg);border-radius:var(--bs-breadcrumb-border-radius)}.breadcrumb-item+.breadcrumb-item{padding-left:var(--bs-breadcrumb-item-padding-x)}.breadcrumb-item+.breadcrumb-item::before{float:left;padding-right:var(--bs-breadcrumb-item-padding-x);color:var(--bs-breadcrumb-divider-color);content:var(--bs-breadcrumb-divider, "/") /* rtl: var(--bs-breadcrumb-divider, "/") */}.breadcrumb-item.active{color:var(--bs-breadcrumb-item-active-color)}.pagination{--bs-pagination-padding-x: .75rem;--bs-pagination-padding-y: .375rem;--bs-pagination-font-size:1.2rem;--bs-pagination-color: var(--bs-link-color);--bs-pagination-bg: var(--bs-body-bg);--bs-pagination-border-width: var(--bs-border-width);--bs-pagination-border-color: var(--bs-border-color);--bs-pagination-border-radius: var(--bs-border-radius);--bs-pagination-hover-color: var(--bs-link-hover-color);--bs-pagination-hover-bg: var(--bs-tertiary-bg);--bs-pagination-hover-border-color: var(--bs-border-color);--bs-pagination-focus-color: var(--bs-link-hover-color);--bs-pagination-focus-bg: var(--bs-secondary-bg);--bs-pagination-focus-box-shadow: 0 0 0 .25rem rgba(68,112,153,0.25);--bs-pagination-active-color: #FCFCFC;--bs-pagination-active-bg: #447099;--bs-pagination-active-border-color: #447099;--bs-pagination-disabled-color: var(--bs-secondary-color);--bs-pagination-disabled-bg: var(--bs-secondary-bg);--bs-pagination-disabled-border-color: var(--bs-border-color);display:flex;display:-webkit-flex;padding-left:0;list-style:none}.page-link{position:relative;display:block;padding:var(--bs-pagination-padding-y) var(--bs-pagination-padding-x);font-size:var(--bs-pagination-font-size);color:var(--bs-pagination-color);text-decoration:none;-webkit-text-decoration:none;-moz-text-decoration:none;-ms-text-decoration:none;-o-text-decoration:none;background-color:var(--bs-pagination-bg);border:var(--bs-pagination-border-width) solid var(--bs-pagination-border-color);transition:color 0.15s ease-in-out,background-color 0.15s ease-in-out,border-color 0.15s ease-in-out,box-shadow 0.15s ease-in-out}@media (prefers-reduced-motion: reduce){.page-link{transition:none}}.page-link:hover{z-index:2;color:var(--bs-pagination-hover-color);background-color:var(--bs-pagination-hover-bg);border-color:var(--bs-pagination-hover-border-color)}.page-link:focus{z-index:3;color:var(--bs-pagination-focus-color);background-color:var(--bs-pagination-focus-bg);outline:0;box-shadow:var(--bs-pagination-focus-box-shadow)}.page-link.active,.active>.page-link{z-index:3;color:var(--bs-pagination-active-color);background-color:var(--bs-pagination-active-bg);border-color:var(--bs-pagination-active-border-color)}.page-link.disabled,.disabled>.page-link{color:var(--bs-pagination-disabled-color);pointer-events:none;background-color:var(--bs-pagination-disabled-bg);border-color:var(--bs-pagination-disabled-border-color)}.page-item:not(:first-child) .page-link{margin-left:calc(var(--bs-border-width) * -1)}.page-item:first-child .page-link{border-top-left-radius:var(--bs-pagination-border-radius);border-bottom-left-radius:var(--bs-pagination-border-radius)}.page-item:last-child .page-link{border-top-right-radius:var(--bs-pagination-border-radius);border-bottom-right-radius:var(--bs-pagination-border-radius)}.pagination-lg{--bs-pagination-padding-x: 1.5rem;--bs-pagination-padding-y: .75rem;--bs-pagination-font-size:calc(1.275rem + .3vw);--bs-pagination-border-radius: var(--bs-border-radius-lg)}@media (min-width: 1200px){.pagination-lg{--bs-pagination-font-size:1.5rem}}.pagination-sm{--bs-pagination-padding-x: .5rem;--bs-pagination-padding-y: .25rem;--bs-pagination-font-size:1.05rem;--bs-pagination-border-radius: var(--bs-border-radius-sm)}.badge{--bs-badge-padding-x: .65em;--bs-badge-padding-y: .35em;--bs-badge-font-size:.75em;--bs-badge-font-weight: 700;--bs-badge-color: #FCFCFC;--bs-badge-border-radius: var(--bs-border-radius);display:inline-block;padding:var(--bs-badge-padding-y) var(--bs-badge-padding-x);font-size:var(--bs-badge-font-size);font-weight:var(--bs-badge-font-weight);line-height:1;color:var(--bs-badge-color);text-align:center;white-space:nowrap;vertical-align:baseline;border-radius:var(--bs-badge-border-radius)}.badge:empty{display:none}.btn .badge{position:relative;top:-1px}.alert{--bs-alert-bg: transparent;--bs-alert-padding-x: 1rem;--bs-alert-padding-y: 1rem;--bs-alert-margin-bottom: 1rem;--bs-alert-color: inherit;--bs-alert-border-color: transparent;--bs-alert-border: var(--bs-border-width) solid var(--bs-alert-border-color);--bs-alert-border-radius: var(--bs-border-radius);--bs-alert-link-color: inherit;position:relative;padding:var(--bs-alert-padding-y) var(--bs-alert-padding-x);margin-bottom:var(--bs-alert-margin-bottom);color:var(--bs-alert-color);background-color:var(--bs-alert-bg);border:var(--bs-alert-border);border-radius:var(--bs-alert-border-radius)}.alert-heading{color:inherit}.alert-link{font-weight:700;color:var(--bs-alert-link-color)}.alert-dismissible{padding-right:3rem}.alert-dismissible .btn-close{position:absolute;top:0;right:0;z-index:2;padding:1.25rem 1rem}.alert-default{--bs-alert-color: var(--bs-default-text-emphasis);--bs-alert-bg: var(--bs-default-bg-subtle);--bs-alert-border-color: var(--bs-default-border-subtle);--bs-alert-link-color: var(--bs-default-text-emphasis)}.alert-primary{--bs-alert-color: var(--bs-primary-text-emphasis);--bs-alert-bg: var(--bs-primary-bg-subtle);--bs-alert-border-color: var(--bs-primary-border-subtle);--bs-alert-link-color: var(--bs-primary-text-emphasis)}.alert-secondary{--bs-alert-color: var(--bs-secondary-text-emphasis);--bs-alert-bg: var(--bs-secondary-bg-subtle);--bs-alert-border-color: var(--bs-secondary-border-subtle);--bs-alert-link-color: var(--bs-secondary-text-emphasis)}.alert-success{--bs-alert-color: var(--bs-success-text-emphasis);--bs-alert-bg: var(--bs-success-bg-subtle);--bs-alert-border-color: var(--bs-success-border-subtle);--bs-alert-link-color: var(--bs-success-text-emphasis)}.alert-info{--bs-alert-color: var(--bs-info-text-emphasis);--bs-alert-bg: var(--bs-info-bg-subtle);--bs-alert-border-color: var(--bs-info-border-subtle);--bs-alert-link-color: var(--bs-info-text-emphasis)}.alert-warning{--bs-alert-color: var(--bs-warning-text-emphasis);--bs-alert-bg: var(--bs-warning-bg-subtle);--bs-alert-border-color: var(--bs-warning-border-subtle);--bs-alert-link-color: var(--bs-warning-text-emphasis)}.alert-danger{--bs-alert-color: var(--bs-danger-text-emphasis);--bs-alert-bg: var(--bs-danger-bg-subtle);--bs-alert-border-color: var(--bs-danger-border-subtle);--bs-alert-link-color: var(--bs-danger-text-emphasis)}.alert-light{--bs-alert-color: var(--bs-light-text-emphasis);--bs-alert-bg: var(--bs-light-bg-subtle);--bs-alert-border-color: var(--bs-light-border-subtle);--bs-alert-link-color: var(--bs-light-text-emphasis)}.alert-dark{--bs-alert-color: var(--bs-dark-text-emphasis);--bs-alert-bg: var(--bs-dark-bg-subtle);--bs-alert-border-color: var(--bs-dark-border-subtle);--bs-alert-link-color: var(--bs-dark-text-emphasis)}@keyframes progress-bar-stripes{0%{background-position-x:1rem}}.progress,.progress-stacked{--bs-progress-height: 1rem;--bs-progress-font-size:.9rem;--bs-progress-bg: var(--bs-secondary-bg);--bs-progress-border-radius: var(--bs-border-radius);--bs-progress-box-shadow: var(--bs-box-shadow-inset);--bs-progress-bar-color: #FCFCFC;--bs-progress-bar-bg: #447099;--bs-progress-bar-transition: width 0.6s ease;display:flex;display:-webkit-flex;height:var(--bs-progress-height);overflow:hidden;font-size:var(--bs-progress-font-size);background-color:var(--bs-progress-bg);border-radius:var(--bs-progress-border-radius)}.progress-bar{display:flex;display:-webkit-flex;flex-direction:column;-webkit-flex-direction:column;justify-content:center;-webkit-justify-content:center;overflow:hidden;color:var(--bs-progress-bar-color);text-align:center;white-space:nowrap;background-color:var(--bs-progress-bar-bg);transition:var(--bs-progress-bar-transition)}@media (prefers-reduced-motion: reduce){.progress-bar{transition:none}}.progress-bar-striped{background-image:linear-gradient(45deg, rgba(252,252,252,0.15) 25%, transparent 25%, transparent 50%, rgba(252,252,252,0.15) 50%, rgba(252,252,252,0.15) 75%, transparent 75%, transparent);background-size:var(--bs-progress-height) var(--bs-progress-height)}.progress-stacked>.progress{overflow:visible}.progress-stacked>.progress>.progress-bar{width:100%}.progress-bar-animated{animation:1s linear infinite progress-bar-stripes}@media (prefers-reduced-motion: reduce){.progress-bar-animated{animation:none}}.list-group{--bs-list-group-color: var(--bs-body-color);--bs-list-group-bg: var(--bs-body-bg);--bs-list-group-border-color: var(--bs-border-color);--bs-list-group-border-width: var(--bs-border-width);--bs-list-group-border-radius: var(--bs-border-radius);--bs-list-group-item-padding-x: 1rem;--bs-list-group-item-padding-y: .5rem;--bs-list-group-action-color: var(--bs-secondary-color);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-tertiary-bg);--bs-list-group-action-active-color: var(--bs-body-color);--bs-list-group-action-active-bg: var(--bs-secondary-bg);--bs-list-group-disabled-color: var(--bs-secondary-color);--bs-list-group-disabled-bg: var(--bs-body-bg);--bs-list-group-active-color: #FCFCFC;--bs-list-group-active-bg: #447099;--bs-list-group-active-border-color: #447099;display:flex;display:-webkit-flex;flex-direction:column;-webkit-flex-direction:column;padding-left:0;margin-bottom:0;border-radius:var(--bs-list-group-border-radius)}.list-group-numbered{list-style-type:none;counter-reset:section}.list-group-numbered>.list-group-item::before{content:counters(section, ".") 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";counter-increment:section}.list-group-item-action{width:100%;color:var(--bs-list-group-action-color);text-align:inherit}.list-group-item-action:hover,.list-group-item-action:focus{z-index:1;color:var(--bs-list-group-action-hover-color);text-decoration:none;background-color:var(--bs-list-group-action-hover-bg)}.list-group-item-action:active{color:var(--bs-list-group-action-active-color);background-color:var(--bs-list-group-action-active-bg)}.list-group-item{position:relative;display:block;padding:var(--bs-list-group-item-padding-y) var(--bs-list-group-item-padding-x);color:var(--bs-list-group-color);text-decoration:none;-webkit-text-decoration:none;-moz-text-decoration:none;-ms-text-decoration:none;-o-text-decoration:none;background-color:var(--bs-list-group-bg);border:var(--bs-list-group-border-width) solid var(--bs-list-group-border-color)}.list-group-item:first-child{border-top-left-radius:inherit;border-top-right-radius:inherit}.list-group-item:last-child{border-bottom-right-radius:inherit;border-bottom-left-radius:inherit}.list-group-item.disabled,.list-group-item:disabled{color:var(--bs-list-group-disabled-color);pointer-events:none;background-color:var(--bs-list-group-disabled-bg)}.list-group-item.active{z-index:2;color:var(--bs-list-group-active-color);background-color:var(--bs-list-group-active-bg);border-color:var(--bs-list-group-active-border-color)}.list-group-item+.list-group-item{border-top-width:0}.list-group-item+.list-group-item.active{margin-top:calc(-1 * var(--bs-list-group-border-width));border-top-width:var(--bs-list-group-border-width)}.list-group-horizontal{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal>.list-group-item.active{margin-top:0}.list-group-horizontal>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}@media (min-width: 576px){.list-group-horizontal-sm{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-sm>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-sm>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-sm>.list-group-item.active{margin-top:0}.list-group-horizontal-sm>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-sm>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media (min-width: 768px){.list-group-horizontal-md{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-md>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-md>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-md>.list-group-item.active{margin-top:0}.list-group-horizontal-md>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-md>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media (min-width: 992px){.list-group-horizontal-lg{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-lg>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-lg>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-lg>.list-group-item.active{margin-top:0}.list-group-horizontal-lg>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-lg>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media (min-width: 1200px){.list-group-horizontal-xl{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-xl>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-xl>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-xl>.list-group-item.active{margin-top:0}.list-group-horizontal-xl>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-xl>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media (min-width: 1400px){.list-group-horizontal-xxl{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-xxl>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-xxl>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-xxl>.list-group-item.active{margin-top:0}.list-group-horizontal-xxl>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-xxl>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}.list-group-flush{border-radius:0}.list-group-flush>.list-group-item{border-width:0 0 var(--bs-list-group-border-width)}.list-group-flush>.list-group-item:last-child{border-bottom-width:0}.list-group-item-default{--bs-list-group-color: var(--bs-default-text-emphasis);--bs-list-group-bg: var(--bs-default-bg-subtle);--bs-list-group-border-color: var(--bs-default-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-default-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-default-border-subtle);--bs-list-group-active-color: var(--bs-default-bg-subtle);--bs-list-group-active-bg: var(--bs-default-text-emphasis);--bs-list-group-active-border-color: var(--bs-default-text-emphasis)}.list-group-item-primary{--bs-list-group-color: var(--bs-primary-text-emphasis);--bs-list-group-bg: var(--bs-primary-bg-subtle);--bs-list-group-border-color: var(--bs-primary-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-primary-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-primary-border-subtle);--bs-list-group-active-color: var(--bs-primary-bg-subtle);--bs-list-group-active-bg: var(--bs-primary-text-emphasis);--bs-list-group-active-border-color: var(--bs-primary-text-emphasis)}.list-group-item-secondary{--bs-list-group-color: var(--bs-secondary-text-emphasis);--bs-list-group-bg: var(--bs-secondary-bg-subtle);--bs-list-group-border-color: var(--bs-secondary-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-secondary-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-secondary-border-subtle);--bs-list-group-active-color: var(--bs-secondary-bg-subtle);--bs-list-group-active-bg: var(--bs-secondary-text-emphasis);--bs-list-group-active-border-color: var(--bs-secondary-text-emphasis)}.list-group-item-success{--bs-list-group-color: var(--bs-success-text-emphasis);--bs-list-group-bg: var(--bs-success-bg-subtle);--bs-list-group-border-color: var(--bs-success-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-success-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-success-border-subtle);--bs-list-group-active-color: var(--bs-success-bg-subtle);--bs-list-group-active-bg: var(--bs-success-text-emphasis);--bs-list-group-active-border-color: var(--bs-success-text-emphasis)}.list-group-item-info{--bs-list-group-color: var(--bs-info-text-emphasis);--bs-list-group-bg: var(--bs-info-bg-subtle);--bs-list-group-border-color: var(--bs-info-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-info-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-info-border-subtle);--bs-list-group-active-color: var(--bs-info-bg-subtle);--bs-list-group-active-bg: var(--bs-info-text-emphasis);--bs-list-group-active-border-color: var(--bs-info-text-emphasis)}.list-group-item-warning{--bs-list-group-color: var(--bs-warning-text-emphasis);--bs-list-group-bg: var(--bs-warning-bg-subtle);--bs-list-group-border-color: var(--bs-warning-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-warning-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-warning-border-subtle);--bs-list-group-active-color: var(--bs-warning-bg-subtle);--bs-list-group-active-bg: var(--bs-warning-text-emphasis);--bs-list-group-active-border-color: var(--bs-warning-text-emphasis)}.list-group-item-danger{--bs-list-group-color: var(--bs-danger-text-emphasis);--bs-list-group-bg: var(--bs-danger-bg-subtle);--bs-list-group-border-color: var(--bs-danger-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-danger-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-danger-border-subtle);--bs-list-group-active-color: var(--bs-danger-bg-subtle);--bs-list-group-active-bg: var(--bs-danger-text-emphasis);--bs-list-group-active-border-color: var(--bs-danger-text-emphasis)}.list-group-item-light{--bs-list-group-color: var(--bs-light-text-emphasis);--bs-list-group-bg: var(--bs-light-bg-subtle);--bs-list-group-border-color: var(--bs-light-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-light-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-light-border-subtle);--bs-list-group-active-color: var(--bs-light-bg-subtle);--bs-list-group-active-bg: var(--bs-light-text-emphasis);--bs-list-group-active-border-color: var(--bs-light-text-emphasis)}.list-group-item-dark{--bs-list-group-color: var(--bs-dark-text-emphasis);--bs-list-group-bg: var(--bs-dark-bg-subtle);--bs-list-group-border-color: var(--bs-dark-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-dark-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-dark-border-subtle);--bs-list-group-active-color: var(--bs-dark-bg-subtle);--bs-list-group-active-bg: var(--bs-dark-text-emphasis);--bs-list-group-active-border-color: var(--bs-dark-text-emphasis)}.btn-close{--bs-btn-close-color: #172431;--bs-btn-close-bg: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 16 16' fill='%23172431'%3e%3cpath d='M.293.293a1 1 0 0 1 1.414 0L8 6.586 14.293.293a1 1 0 1 1 1.414 1.414L9.414 8l6.293 6.293a1 1 0 0 1-1.414 1.414L8 9.414l-6.293 6.293a1 1 0 0 1-1.414-1.414L6.586 8 .293 1.707a1 1 0 0 1 0-1.414z'/%3e%3c/svg%3e");--bs-btn-close-opacity: .5;--bs-btn-close-hover-opacity: .75;--bs-btn-close-focus-shadow: 0 0 0 .25rem rgba(68,112,153,0.25);--bs-btn-close-focus-opacity: 1;--bs-btn-close-disabled-opacity: .25;--bs-btn-close-white-filter: invert(1) grayscale(100%) brightness(200%);box-sizing:content-box;width:1em;height:1em;padding:.25em .25em;color:var(--bs-btn-close-color);background:transparent var(--bs-btn-close-bg) center/1em auto no-repeat;border:0;border-radius:0;opacity:var(--bs-btn-close-opacity)}.btn-close:hover{color:var(--bs-btn-close-color);text-decoration:none;opacity:var(--bs-btn-close-hover-opacity)}.btn-close:focus{outline:0;box-shadow:var(--bs-btn-close-focus-shadow);opacity:var(--bs-btn-close-focus-opacity)}.btn-close:disabled,.btn-close.disabled{pointer-events:none;user-select:none;-webkit-user-select:none;-moz-user-select:none;-ms-user-select:none;-o-user-select:none;opacity:var(--bs-btn-close-disabled-opacity)}.btn-close-white{filter:var(--bs-btn-close-white-filter)}[data-bs-theme="dark"] .btn-close{filter:var(--bs-btn-close-white-filter)}.toast{--bs-toast-zindex: 1090;--bs-toast-padding-x: .75rem;--bs-toast-padding-y: .5rem;--bs-toast-spacing: 3rem;--bs-toast-max-width: 350px;--bs-toast-font-size:.875rem;--bs-toast-color: ;--bs-toast-bg: rgba(var(--bs-body-bg-rgb), 0.85);--bs-toast-border-width: var(--bs-border-width);--bs-toast-border-color: var(--bs-border-color-translucent);--bs-toast-border-radius: var(--bs-border-radius);--bs-toast-box-shadow: var(--bs-box-shadow);--bs-toast-header-color: var(--bs-secondary-color);--bs-toast-header-bg: rgba(var(--bs-body-bg-rgb), 0.85);--bs-toast-header-border-color: var(--bs-border-color-translucent);width:var(--bs-toast-max-width);max-width:100%;font-size:var(--bs-toast-font-size);color:var(--bs-toast-color);pointer-events:auto;background-color:var(--bs-toast-bg);background-clip:padding-box;border:var(--bs-toast-border-width) solid var(--bs-toast-border-color);box-shadow:var(--bs-toast-box-shadow);border-radius:var(--bs-toast-border-radius)}.toast.showing{opacity:0}.toast:not(.show){display:none}.toast-container{--bs-toast-zindex: 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diff --git a/dev/index.html b/dev/index.html
index 4e581fe31..05f21a1ca 100644
--- a/dev/index.html
+++ b/dev/index.html
@@ -99,49 +99,49 @@ <h4 id="install-or-update-packages-from-cran-or-bioconductor">Install or update
 #&gt; <span style="color: #2AA198;">ℹ</span> Getting 11 pkgs (4.55 MB)
 #&gt; <span style="color: #859900;">✔</span> Got <span style="color: #268BD2;">pkgconfig</span> 2.0.3 (source) (6.08 kB)
 #&gt; <span style="color: #859900;">✔</span> Got <span style="color: #268BD2;">glue</span> 1.8.0 (source) (126.68 kB)
-#&gt; <span style="color: #859900;">✔</span> Got <span style="color: #268BD2;">magrittr</span> 2.0.3 (source) (267.07 kB)
-#&gt; <span style="color: #859900;">✔</span> Got <span style="color: #268BD2;">cli</span> 3.6.3 (source) (568.16 kB)
-#&gt; <span style="color: #859900;">✔</span> Got <span style="color: #268BD2;">fansi</span> 1.0.6 (source) (482.48 kB)
-#&gt; <span style="color: #859900;">✔</span> Got <span style="color: #268BD2;">tibble</span> 3.2.1 (source) (565.98 kB)
 #&gt; <span style="color: #859900;">✔</span> Got <span style="color: #268BD2;">lifecycle</span> 1.0.4 (source) (107.66 kB)
+#&gt; <span style="color: #859900;">✔</span> Got <span style="color: #268BD2;">fansi</span> 1.0.6 (source) (482.48 kB)
 #&gt; <span style="color: #859900;">✔</span> Got <span style="color: #268BD2;">utf8</span> 1.2.4 (source) (241.08 kB)
+#&gt; <span style="color: #859900;">✔</span> Got <span style="color: #268BD2;">cli</span> 3.6.3 (source) (568.16 kB)
+#&gt; <span style="color: #859900;">✔</span> Got <span style="color: #268BD2;">magrittr</span> 2.0.3 (source) (267.07 kB)
 #&gt; <span style="color: #859900;">✔</span> Got <span style="color: #268BD2;">rlang</span> 1.1.4 (source) (767.04 kB)
 #&gt; <span style="color: #859900;">✔</span> Got <span style="color: #268BD2;">pillar</span> 1.9.0 (source) (444.53 kB)
+#&gt; <span style="color: #859900;">✔</span> Got <span style="color: #268BD2;">tibble</span> 3.2.1 (source) (565.98 kB)
 #&gt; <span style="color: #859900;">✔</span> Got <span style="color: #268BD2;">vctrs</span> 0.6.5 (source) (969.07 kB)
 #&gt; <span style="color: #2AA198;">ℹ</span> Building <span style="color: #268BD2;">cli</span> 3.6.3
 #&gt; <span style="color: #2AA198;">ℹ</span> Building <span style="color: #268BD2;">fansi</span> 1.0.6
 #&gt; <span style="color: #2AA198;">ℹ</span> Building <span style="color: #268BD2;">glue</span> 1.8.0
 #&gt; <span style="color: #2AA198;">ℹ</span> Building <span style="color: #268BD2;">magrittr</span> 2.0.3
-#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">magrittr</span> 2.0.3 <span style="color: #a3a3a3;">(1.9s)</span>
+#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">magrittr</span> 2.0.3 <span style="color: #a3a3a3;">(2s)</span>
 #&gt; <span style="color: #2AA198;">ℹ</span> Building <span style="color: #268BD2;">pkgconfig</span> 2.0.3
-#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">glue</span> 1.8.0 <span style="color: #a3a3a3;">(2.5s)</span>
+#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">glue</span> 1.8.0 <span style="color: #a3a3a3;">(2.6s)</span>
 #&gt; <span style="color: #2AA198;">ℹ</span> Building <span style="color: #268BD2;">rlang</span> 1.1.4
-#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">pkgconfig</span> 2.0.3 <span style="color: #a3a3a3;">(1.3s)</span>
+#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">pkgconfig</span> 2.0.3 <span style="color: #a3a3a3;">(1.4s)</span>
 #&gt; <span style="color: #2AA198;">ℹ</span> Building <span style="color: #268BD2;">utf8</span> 1.2.4
-#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">fansi</span> 1.0.6 <span style="color: #a3a3a3;">(6.3s)</span>
-#&gt; <span style="color: #859900;">✔</span> Installed <span style="color: #268BD2;">fansi</span> 1.0.6  <span style="color: #a3a3a3;">(44ms)</span>
+#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">fansi</span> 1.0.6 <span style="color: #a3a3a3;">(6.4s)</span>
+#&gt; <span style="color: #859900;">✔</span> Installed <span style="color: #268BD2;">fansi</span> 1.0.6  <span style="color: #a3a3a3;">(65ms)</span>
 #&gt; <span style="color: #859900;">✔</span> Installed <span style="color: #268BD2;">glue</span> 1.8.0  <span style="color: #a3a3a3;">(39ms)</span>
 #&gt; <span style="color: #859900;">✔</span> Installed <span style="color: #268BD2;">magrittr</span> 2.0.3  <span style="color: #a3a3a3;">(40ms)</span>
-#&gt; <span style="color: #859900;">✔</span> Installed <span style="color: #268BD2;">pkgconfig</span> 2.0.3  <span style="color: #a3a3a3;">(29ms)</span>
-#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">utf8</span> 1.2.4 <span style="color: #a3a3a3;">(5s)</span>
+#&gt; <span style="color: #859900;">✔</span> Installed <span style="color: #268BD2;">pkgconfig</span> 2.0.3  <span style="color: #a3a3a3;">(28ms)</span>
+#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">utf8</span> 1.2.4 <span style="color: #a3a3a3;">(4.8s)</span>
 #&gt; <span style="color: #859900;">✔</span> Installed <span style="color: #268BD2;">utf8</span> 1.2.4  <span style="color: #a3a3a3;">(1s)</span>
-#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">cli</span> 3.6.3 <span style="color: #a3a3a3;">(12.3s)</span>
-#&gt; <span style="color: #859900;">✔</span> Installed <span style="color: #268BD2;">cli</span> 3.6.3  <span style="color: #a3a3a3;">(41ms)</span>
-#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">rlang</span> 1.1.4 <span style="color: #a3a3a3;">(12.6s)</span>
-#&gt; <span style="color: #859900;">✔</span> Installed <span style="color: #268BD2;">rlang</span> 1.1.4  <span style="color: #a3a3a3;">(40ms)</span>
+#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">cli</span> 3.6.3 <span style="color: #a3a3a3;">(12.5s)</span>
+#&gt; <span style="color: #859900;">✔</span> Installed <span style="color: #268BD2;">cli</span> 3.6.3  <span style="color: #a3a3a3;">(1s)</span>
+#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">rlang</span> 1.1.4 <span style="color: #a3a3a3;">(12.7s)</span>
+#&gt; <span style="color: #859900;">✔</span> Installed <span style="color: #268BD2;">rlang</span> 1.1.4  <span style="color: #a3a3a3;">(38ms)</span>
 #&gt; <span style="color: #2AA198;">ℹ</span> Building <span style="color: #268BD2;">lifecycle</span> 1.0.4
 #&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">lifecycle</span> 1.0.4 <span style="color: #a3a3a3;">(1.4s)</span>
 #&gt; <span style="color: #859900;">✔</span> Installed <span style="color: #268BD2;">lifecycle</span> 1.0.4  <span style="color: #a3a3a3;">(1s)</span>
 #&gt; <span style="color: #2AA198;">ℹ</span> Building <span style="color: #268BD2;">vctrs</span> 0.6.5
-#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">vctrs</span> 0.6.5 <span style="color: #a3a3a3;">(15.8s)</span>
-#&gt; <span style="color: #859900;">✔</span> Installed <span style="color: #268BD2;">vctrs</span> 0.6.5  <span style="color: #a3a3a3;">(46ms)</span>
+#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">vctrs</span> 0.6.5 <span style="color: #a3a3a3;">(15.6s)</span>
+#&gt; <span style="color: #859900;">✔</span> Installed <span style="color: #268BD2;">vctrs</span> 0.6.5  <span style="color: #a3a3a3;">(1s)</span>
 #&gt; <span style="color: #2AA198;">ℹ</span> Building <span style="color: #268BD2;">pillar</span> 1.9.0
-#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">pillar</span> 1.9.0 <span style="color: #a3a3a3;">(3.3s)</span>
+#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">pillar</span> 1.9.0 <span style="color: #a3a3a3;">(3.1s)</span>
 #&gt; <span style="color: #859900;">✔</span> Installed <span style="color: #268BD2;">pillar</span> 1.9.0  <span style="color: #a3a3a3;">(1s)</span>
 #&gt; <span style="color: #2AA198;">ℹ</span> Building <span style="color: #268BD2;">tibble</span> 3.2.1
 #&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">tibble</span> 3.2.1 <span style="color: #a3a3a3;">(2.9s)</span>
-#&gt; <span style="color: #859900;">✔</span> Installed <span style="color: #268BD2;">tibble</span> 3.2.1  <span style="color: #a3a3a3;">(1s)</span>
-#&gt; <span style="color: #859900;">✔</span> 1 pkg + 10 deps: added 11, dld 11 (4.55 MB) <span style="color: #b8b8b8;">[49.9s]</span>
+#&gt; <span style="color: #859900;">✔</span> Installed <span style="color: #268BD2;">tibble</span> 3.2.1  <span style="color: #a3a3a3;">(30ms)</span>
+#&gt; <span style="color: #859900;">✔</span> 1 pkg + 10 deps: added 11, dld 11 (4.55 MB) <span style="color: #b8b8b8;">[49.2s]</span>
 </pre>
 </div>
 </div>
@@ -162,9 +162,9 @@ <h4 id="install-packages-from-github">Install packages from GitHub<a class="anch
 #&gt; <span style="color: #2AA198;">ℹ</span> Packaging <span style="color: #268BD2;">tibble</span> 3.2.1.9040
 #&gt; <span style="color: #859900;">✔</span> Packaged <span style="color: #268BD2;">tibble</span> 3.2.1.9040 <span style="color: #a3a3a3;">(1.2s)</span>
 #&gt; <span style="color: #2AA198;">ℹ</span> Building <span style="color: #268BD2;">tibble</span> 3.2.1.9040
-#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">tibble</span> 3.2.1.9040 <span style="color: #a3a3a3;">(2.8s)</span>
+#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">tibble</span> 3.2.1.9040 <span style="color: #a3a3a3;">(2.7s)</span>
 #&gt; <span style="color: #859900;">✔</span> Installed <span style="color: #268BD2;">tibble</span> 3.2.1.9040 (github::tidyverse/tibble@7a17e07) <span style="color: #a3a3a3;">(1s)</span>
-#&gt; <span style="color: #859900;">✔</span> 1 pkg + 10 deps: kept 10, upd 1, dld 1 (NA B) <span style="color: #b8b8b8;">[9.1s]</span>
+#&gt; <span style="color: #859900;">✔</span> 1 pkg + 10 deps: kept 10, upd 1, dld 1 (NA B) <span style="color: #b8b8b8;">[8.5s]</span>
 </pre>
 </div>
 </div>
@@ -235,11 +235,11 @@ <h4 id="install-a-local-package-and-its-dependencies">Install a local package an
 #&gt; <span style="color: #2AA198;">ℹ</span> No downloads are needed, 1 pkg is cached
 #&gt; <span style="color: #859900;">✔</span> Got <span style="color: #268BD2;">cli</span> 3.6.3 (source) (568.16 kB)
 #&gt; <span style="color: #2AA198;">ℹ</span> Packaging <span style="color: #268BD2;">cli</span> 3.6.3
-#&gt; <span style="color: #859900;">✔</span> Packaged <span style="color: #268BD2;">cli</span> 3.6.3 <span style="color: #a3a3a3;">(959ms)</span>
+#&gt; <span style="color: #859900;">✔</span> Packaged <span style="color: #268BD2;">cli</span> 3.6.3 <span style="color: #a3a3a3;">(938ms)</span>
 #&gt; <span style="color: #2AA198;">ℹ</span> Building <span style="color: #268BD2;">cli</span> 3.6.3
-#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">cli</span> 3.6.3 <span style="color: #a3a3a3;">(7.8s)</span>
-#&gt; <span style="color: #859900;">✔</span> Installed <span style="color: #268BD2;">cli</span> 3.6.3 (local) <span style="color: #a3a3a3;">(34ms)</span>
-#&gt; <span style="color: #859900;">✔</span> 1 pkg: upd 1, dld 1 (568.16 kB) <span style="color: #b8b8b8;">[9.6s]</span>
+#&gt; <span style="color: #859900;">✔</span> Built <span style="color: #268BD2;">cli</span> 3.6.3 <span style="color: #a3a3a3;">(7.6s)</span>
+#&gt; <span style="color: #859900;">✔</span> Installed <span style="color: #268BD2;">cli</span> 3.6.3 (local) <span style="color: #a3a3a3;">(36ms)</span>
+#&gt; <span style="color: #859900;">✔</span> 1 pkg: upd 1, dld 1 (568.16 kB) <span style="color: #b8b8b8;">[9.3s]</span>
 </pre>
 </div>
 </div>
@@ -417,7 +417,7 @@ <h2 data-toc-skip>Dev status</h2>
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer>
diff --git a/dev/news/index.html b/dev/news/index.html
index 475316cfb..272ea085e 100644
--- a/dev/news/index.html
+++ b/dev/news/index.html
@@ -186,7 +186,7 @@ <h2 class="pkg-version" data-toc-text="0.1.2" id="pak-012">pak 0.1.2<a class="an
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/pkgdown.yml b/dev/pkgdown.yml
index 397453af4..9b30c09ca 100644
--- a/dev/pkgdown.yml
+++ b/dev/pkgdown.yml
@@ -1,8 +1,8 @@
 pandoc: 3.1.11
-pkgdown: 2.1.1
-pkgdown_sha: ~
+pkgdown: 2.1.1.9000
+pkgdown_sha: dfa28bef27858bd442334b5cce8f645d555914be
 articles: {}
-last_built: 2024-12-03T21:14Z
+last_built: 2024-12-03T21:34Z
 urls:
   reference: https://pak.r-lib.org/reference
   article: https://pak.r-lib.org/articles
diff --git a/dev/reference/cache.html b/dev/reference/cache.html
index a1516d0e5..64cd0fd6a 100644
--- a/dev/reference/cache.html
+++ b/dev/reference/cache.html
@@ -168,7 +168,7 @@ <h2 id="examples">Examples<a class="anchor" aria-label="anchor" href="#examples"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/faq.html b/dev/reference/faq.html
index 1a3d166e5..5956cd9ad 100644
--- a/dev/reference/faq.html
+++ b/dev/reference/faq.html
@@ -202,7 +202,7 @@ <h3 id="how-can-i-use-pak-with-renv-">How can I use pak with renv?<a class="anch
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/features.html b/dev/reference/features.html
index 228cb1085..0afc85ff4 100644
--- a/dev/reference/features.html
+++ b/dev/reference/features.html
@@ -198,7 +198,7 @@ <h3 id="pak-can-install-dependencies-of-local-packages">pak can install dependen
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/get-started.html b/dev/reference/get-started.html
index 3da1ce783..796690416 100644
--- a/dev/reference/get-started.html
+++ b/dev/reference/get-started.html
@@ -858,7 +858,7 @@ <h3 id="list-packages-in-a-library">List packages in a library<a class="anchor"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/handle_package_not_found.html b/dev/reference/handle_package_not_found.html
index 26c577952..8b8473961 100644
--- a/dev/reference/handle_package_not_found.html
+++ b/dev/reference/handle_package_not_found.html
@@ -97,7 +97,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/index.html b/dev/reference/index.html
index 1bc7cb36a..033e9eb1b 100644
--- a/dev/reference/index.html
+++ b/dev/reference/index.html
@@ -500,7 +500,7 @@ <h2 id="pak-housekeeping">pak housekeeping<a class="anchor" aria-label="anchor"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/install.html b/dev/reference/install.html
index 72d7171bc..8af67fe4a 100644
--- a/dev/reference/install.html
+++ b/dev/reference/install.html
@@ -316,7 +316,7 @@ <h4 id="stable-rc-and-devel-streams"><code>stable</code>, <code>rc</code> and <c
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/lib_status.html b/dev/reference/lib_status.html
index 112679a04..fb66d63f6 100644
--- a/dev/reference/lib_status.html
+++ b/dev/reference/lib_status.html
@@ -58,7 +58,51 @@ <h2 id="arguments">Arguments<a class="anchor" aria-label="anchor" href="#argumen
     <h2 id="value">Value<a class="anchor" aria-label="anchor" href="#value"></a></h2>
     <p>Data frame the contains data about the packages
 installed in the library.
-include_docs("pkgdepends", "docs/lib-status-return.rds")</p>
+It has always has columns:
+</p><ul><li><p><code>biocviews</code>: the corresponding field from <code>DESCRIPTION</code>, it must be
+present for all Bioconductor packages, other packages typically don't
+have it.</p></li>
+<li><p><code>built</code>: the <code>Built</code> field from <code>DESCRIPTION</code>.</p></li>
+<li><p><code>depends</code>, <code>suggests</code>, <code>Imports</code>, <code>linkingto</code>, <code>enhances</code>: the corresponding
+fields from the <code>DESCRIPTION</code> files.</p></li>
+<li><p><code>deps</code>: A list or data frames, the dependencies of the package. It has
+columns: <code>ref</code>, <code>type</code> (dependency type in lowercase), <code>package</code>
+(dependent package, or <code>R</code>), <code>op</code> and <code>version</code>, for last two are for
+version requirement. <code>op</code> can be <code>&gt;=</code>, <code>&gt;</code>, <code>==</code> or <code>&lt;=</code>, although the
+only the first one is common in practice.</p></li>
+<li><p><code>library</code>: path to the package library containing the package.</p></li>
+<li><p><code>license</code>: from <code>DESCRIPTION</code>.</p></li>
+<li><p><code>md5sum</code>: from <code>DESCTIPTION</code>, typically <code>NA</code>, except on Windows.</p></li>
+<li><p><code>needscompilation</code>: from <code>DESCRIPTION</code>, this column is logical.</p></li>
+<li><p><code>package</code>: package name.</p></li>
+<li><p><code>platform</code>: from the <code>Built</code> field in <code>DESCRIPTION</code>, the current platform
+if missing from <code>DESCRIPTION</code>.</p></li>
+<li><p><code>priority</code>: from <code>DESCRIPTION</code>, usually <code>base</code>, <code>recommended</code>, or missing.</p></li>
+<li><p><code>ref</code>: the corresponding <code>installed::*</code> package reference.</p></li>
+<li><p><code>repository</code>: from <code>DESCRIPTION</code>. For packages from a CRAN repository this
+is <code>CRAN</code>, some other repositories, e.g. R-universe adds the repository
+URL here.</p></li>
+<li><p><code>repotype</code>: <code>cran</code>, <code>bioc</code> or missing.</p></li>
+<li><p><code>rversion</code>: from the <code>Built</code> field. If no such field, then the current
+R version.</p></li>
+<li><p><code>sysreqs</code>: the <code>SystemRequirements</code> field from <code>DESCRIPTION</code>.</p></li>
+<li><p><code>title</code>: package title.</p></li>
+<li><p><code>type</code>: always <code>installed</code>.</p></li>
+<li><p><code>version</code>: package version (as string).</p></li>
+</ul>Most of these columns are unchanged from <code>DESCRIPTION</code>, but
+pak also adds a couple.
+<div class="section">
+<h3 id="notes-">Notes:<a class="anchor" aria-label="anchor" href="#notes-"></a></h3><ul><li><p>In addition, it also has all <code>remote*</code> and <code>config/needs/*</code> entries from
+the <code>DESCRIPTION</code> files. (Case insensitive.)</p></li>
+<li><p>All columns are of type <code>character</code>, except for <code>needscompilation</code>, which
+is logical and <code>deps</code>, which is a list columns.</p></li>
+<li><p>If an entry is missing for a package, it is set to <code>NA</code>.</p></li>
+<li><p>Note that column names are lowercase, even if the corresponding entries
+are not in <code>DESCRIPTION</code>.</p></li>
+<li><p>The order of the columns is not deterministic, so don't assume any order.</p></li>
+<li><p>Additional columns might be present, these are internal for
+pak and should not be used in user code.</p></li>
+</ul></div>
     </div>
     <div class="section level2">
     <h2 id="examples">Examples<a class="anchor" aria-label="anchor" href="#examples"></a></h2>
@@ -113,7 +157,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/local_deps.html b/dev/reference/local_deps.html
index 0515cd200..89bc68e66 100644
--- a/dev/reference/local_deps.html
+++ b/dev/reference/local_deps.html
@@ -103,7 +103,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/local_deps_explain.html b/dev/reference/local_deps_explain.html
index bbfb6be5d..8330a0cc7 100644
--- a/dev/reference/local_deps_explain.html
+++ b/dev/reference/local_deps_explain.html
@@ -103,7 +103,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/local_install.html b/dev/reference/local_install.html
index f49cd3388..356bdce5c 100644
--- a/dev/reference/local_install.html
+++ b/dev/reference/local_install.html
@@ -129,7 +129,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/local_install_deps.html b/dev/reference/local_install_deps.html
index 773dadd59..743dd0289 100644
--- a/dev/reference/local_install_deps.html
+++ b/dev/reference/local_install_deps.html
@@ -131,7 +131,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/local_install_dev_deps.html b/dev/reference/local_install_dev_deps.html
index 7f6882163..111ea5a63 100644
--- a/dev/reference/local_install_dev_deps.html
+++ b/dev/reference/local_install_dev_deps.html
@@ -127,7 +127,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/local_package_trees.html b/dev/reference/local_package_trees.html
index 651ddd1c1..b9380792e 100644
--- a/dev/reference/local_package_trees.html
+++ b/dev/reference/local_package_trees.html
@@ -90,7 +90,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/local_system_requirements.html b/dev/reference/local_system_requirements.html
index 52a2994c2..2ad2b34c0 100644
--- a/dev/reference/local_system_requirements.html
+++ b/dev/reference/local_system_requirements.html
@@ -178,7 +178,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/lockfile_create.html b/dev/reference/lockfile_create.html
index 1c8580b5a..85880d6e3 100644
--- a/dev/reference/lockfile_create.html
+++ b/dev/reference/lockfile_create.html
@@ -134,7 +134,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/lockfile_install.html b/dev/reference/lockfile_install.html
index 50506ba69..cedd4576b 100644
--- a/dev/reference/lockfile_install.html
+++ b/dev/reference/lockfile_install.html
@@ -79,7 +79,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/metadata.html b/dev/reference/metadata.html
index 3f918905a..c4d86d193 100644
--- a/dev/reference/metadata.html
+++ b/dev/reference/metadata.html
@@ -192,7 +192,7 @@ <h2 id="examples">Examples<a class="anchor" aria-label="anchor" href="#examples"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/package-dependency-types.html b/dev/reference/package-dependency-types.html
index 1653df649..4a835c6b8 100644
--- a/dev/reference/package-dependency-types.html
+++ b/dev/reference/package-dependency-types.html
@@ -42,10 +42,57 @@ <h1>Various types of R package dependencies</h1>
 
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    <p>include_docs("pkgdepends", "docs/deps.rds")</p>
+    <p>R packages may have various types of dependencies, see
+<a href="https://cran.r-project.org/doc/manuals/R-exts.html" class="external-link">Writing R Extensions</a>.pak groups dependencies into three groups:
+</p><ul><li><p>hard dependencies: "Depends", "Imports", and "LinkingTo",</p></li>
+<li><p>soft dependencies: "Suggests" and "Enhances",</p></li>
+<li><p>extra dependencies, see below.</p></li>
+</ul>pak supports concise ways of specifying which types of
+dependencies of a package should be installed.
+It is similar to how <code><a href="https://rdrr.io/r/utils/install.packages.html" class="external-link">utils::install.packages()</a></code> interprets its
+<code>dependencies</code> argument.You typically use one of these values:
+<ul><li><p><code>NA</code> or <code>"hard"</code> to install a package and its required dependencies,</p></li>
+<li><p><code>TRUE</code> to install all required dependencies, plus optional and development
+dependencies.</p></li>
+</ul>If you need more flexibility, the full description of possible values for
+the <code>dependencies</code> argument are:
+<ul><li><p><code>TRUE</code>: This means all hard dependencies plus <code>Suggests</code> for
+direct installations, and hard dependencies only for dependent
+packages.</p></li>
+<li><p><code>FALSE</code>: no dependencies are installed at all.</p></li>
+<li><p><code>NA</code> (any atomic type, so <code>NA_character_</code>, etc. as well): only hard
+dependencies are installed.</p></li>
+<li><p>If a list with two entries named <code>direct</code> and <code>indirect</code>, it is taken
+as the requested dependency types, for direct installations and
+dependent packages.</p></li>
+<li><p>If a character vector, then it is taken as the dependency types
+for direct installations, and the hard dependencies are
+used for the dependent packages.</p></li>
+</ul>If <code>"hard"</code> is included in the value or a list element, then it is replaced
+by the hard dependency types.
+If <code>"soft"</code> or <code>"all"</code> is included, then it is replaced by all
+hard and soft dependency.
+<div class="section">
+<h3 id="extra-dependencies">Extra dependencies<a class="anchor" aria-label="anchor" href="#extra-dependencies"></a></h3><p>pak supports extra dependency types for direct
+installations not from CRAN-like repositories.
+These are specified with a <code>Config/Needs/</code> prefix in the <code>DESCRIPTION</code>
+and they can contain package references, separated by commas.
+For example you can specify packages that are only needed for the
+pkgdown website of the package:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>Config<span class="sc">/</span>Needs<span class="sc">/</span>website<span class="sc">:</span> r<span class="sc">-</span>lib<span class="sc">/</span>pkgdown</span></code></pre><p></p></div>
+<p>To use these dependency types, you need to specify them in the
+<code>dependencies</code> argument to
+pak functions.</p>
+<p>Note that <code>Config/Needs/*</code> fields are currently <em>not</em> used from CRAN
+packages, and packages in CRAN-like repositories in general.</p>
+<p>Usually you specify that a <code>Config/Needs/*</code> dependency type should be
+installed together with <code>"hard"</code> or <code>"all"</code>, to install all hard or
+soft dependencies as well.</p>
+</div>
     </div>
 
-  </main></div>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
+    </nav></aside></div>
 
 
    </div>
@@ -55,7 +102,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/pak-config.html b/dev/reference/pak-config.html
index 36a1091f4..5bb683aa9 100644
--- a/dev/reference/pak-config.html
+++ b/dev/reference/pak-config.html
@@ -75,8 +75,94 @@ <h2 id="pak-configuration">pak configuration<a class="anchor" aria-label="anchor
 <h3 id="pak-configuration-entries">pak configuration entries<a class="anchor" aria-label="anchor" href="#pak-configuration-entries"></a></h3>
 
 
-<p>doc_config()</p>
-</div>
+<p></p><ul><li><p>‘cache_dir’: (Env var: <code>PKG_CACHE_DIR</code>, option: <code>pkg.cache_dir</code>.) Directory to download the packages to. Defaults to a temporary
+directory within the R session temporary directory, see
+<code><a href="https://rdrr.io/r/base/tempfile.html" class="external-link">base::tempdir()</a></code>.</p></li>
+<li><p>‘cran_mirror’: (Env var: <code>PKG_CRAN_MIRROR</code>, option: <code>pkg.cran_mirror</code>.) CRAN mirror to use. Defaults to the <code>repos</code> option
+(see <code><a href="https://rdrr.io/r/base/options.html" class="external-link">base::options()</a></code>), if that's not set then
+<code>https://cran.rstudio.com</code>. See also <code><a href="repo_add.html">pak::repo_add()</a></code> and
+<code><a href="repo_get.html">pak::repo_get()</a></code></p></li>
+<li><p>‘git_submodules’: (Env var: <code>PKG_GIT_SUBMODULES</code>, option: <code>pkg.git_submodules</code>.) Whether or not to update submodules in git repositories. This
+affects <code>git::</code> and <code>gitlab::</code> package sources only.
+If the R package is in a subdirectory then only the submodules
+within that directory are updated. If a submodule appears in
+<code>.Rbuildignore</code>, then it is skipped.</p></li>
+<li><p>‘include_linkingto’: (Env var: <code>PKG_INCLUDE_LINKINGTO</code>, option: <code>pkg.include_linkingto</code>.) Whether to always include <code>LinkingTo</code> dependencies in the solution
+of and installation, even if they are needed because the packages
+are installed from binaries. This is sometimes useful, see e.g.
+<a href="https://github.com/r-lib/pak/issues/485" class="external-link">https://github.com/r-lib/pak/issues/485</a> for an example use case.</p></li>
+<li><p>‘library’: (Env var: <code>PKG_LIBRARY</code>, option: <code>pkg.library</code>.) Package library to install packages to. It is also used for
+already installed packages when considering dependencies.</p></li>
+<li><p>‘metadata_cache_dir’: (Env var: <code>PKG_METADATA_CACHE_DIR</code>, option: <code>pkg.metadata_cache_dir</code>.) Location of metadata replica of
+<code><a href="https://r-lib.github.io/pkgcache/reference/cranlike_metadata_cache.html" class="external-link">pkgcache::cranlike_metadata_cache</a></code>. Defaults to a temporary
+directory within the R session temporary directory, see
+<code><a href="https://rdrr.io/r/base/tempfile.html" class="external-link">base::tempdir()</a></code>.</p></li>
+<li><p>‘metadata_update_after’: (Env var: <code>PKG_METADATA_UPDATE_AFTER</code>, option: <code>pkg.metadata_update_after</code>.) A time interval as a <a href="https://rdrr.io/r/base/difftime.html" class="external-link">difftime</a> object. pak will update the
+metadata cache if it is older than this. The default is one day.
+The <code>PKG_METADATA_UPDATE_AFTER</code> environment variable may be set
+in seconds (<code>s</code> suffix), minutes (<code>m</code> suffix), hours (<code>h</code> suffix),
+or days (<code>d</code> suffix). E.g: <code>1d</code> means one day.</p></li>
+<li><p>‘package_cache_dir’: (Env var: <code>PKG_PACKAGE_CACHE_DIR</code>, option: <code>pkg.package_cache_dir</code>.) Location of the package cache on the disk. See
+<code><a href="cache.html">pak::cache_summary()</a></code>. Default is selected by pkgcache.</p></li>
+<li><p>‘platforms’: (Env var: <code>PKG_PLATFORMS</code>, option: <code>pkg.platforms</code>.) Character vector of platforms to <em>download</em> or <em>install</em> packages
+for. See <code><a href="https://r-lib.github.io/pkgdepends/reference/default_platforms.html" class="external-link">pkgdepends::default_platforms()</a></code> for possible platform
+names. Defaults to the platform of the current R session, plus
+<code>"source"</code>.</p></li>
+<li><p>‘r_versions’: (Env var: <code>PKG_R_VERSIONS</code>, option: <code>pkg.r_versions</code>.) Character vector, R versions to download or install
+packages for. It defaults to the current R version.</p></li>
+<li><p>‘sysreqs’: (Env var: <code>PKG_SYSREQS</code>, option: <code>pkg.sysreqs</code>.) Whether to automatically look up and install system requirements.
+If <code>TRUE</code>, then pkgdepends will try to install required
+system packages. If <code>FALSE</code>, then system requirements are still
+printed (including OS packages on supported platforms), but they
+are not installed.
+By default it is <code>TRUE</code> on supported platforms,
+if the current user is the root user or password-less <code>sudo</code> is
+configured for the current user.</p></li>
+<li><p>‘sysreqs_db_update’: (Env var: <code>PKG_SYSREQS_DB_UPDATE</code>, option: <code>pkg.sysreqs_db_update</code>.) Whether to try to update the system requirements database from
+GitHub. If the update fails, then the cached or the build-in
+database if used. Defaults to TRUE.</p></li>
+<li><p>‘sysreqs_db_update_timeout’: (Env var: <code>PKG_SYSREQS_DB_UPDATE_TIMEOUT</code>, option: <code>pkg.sysreqs_db_update_timeout</code>.) Timeout for the system requirements database update.
+Defaults to five seconds.</p></li>
+<li><p>‘sysreqs_dry_run’: (Env var: <code>PKG_SYSREQS_DRY_RUN</code>, option: <code>pkg.sysreqs_dry_run</code>.) If <code>TRUE</code>, then pak only prints the system commands to
+install system requirements, but does not execute them.</p></li>
+<li><p>‘sysreqs_platform’: (Env var: <code>PKG_SYSREQS_PLATFORM</code>, option: <code>pkg.sysreqs_platform</code>.) The platform to use for system requirements lookup. On Linux, where
+system requirements are currently supported, it must be a string
+containing the distribution name and release, separated by a dash.
+E.g.: <code>"ubuntu-22.04"</code>, or <code>"rhel-9"</code>.</p></li>
+<li><p>‘sysreqs_rspm_repo_id’: (Env var: <code>PKG_SYSREQS_RSPM_REPO_ID</code>, option: <code>pkg.sysreqs_rspm_repo_id</code>.) Posit Package Manager (formerly RStudio Package Manager) repository
+id to use for CRAN system requirements lookup. Defaults to the
+<code>RSPM_REPO_ID</code> environment variable, if set. If not set, then it
+defaults to <code>1</code>.</p></li>
+<li><p>‘sysreqs_rspm_url’: (Env var: <code>PKG_SYSREQS_RSPM_URL</code>, option: <code>pkg.sysreqs_rspm_url</code>.) Root URL of Posit Package Manager (formerly RStudio Package
+Manager) for system requirements lookup. By default the <code>RSPM_ROOT</code>
+environment variable is used, if set. If not set,
+it defaults to <code>https://packagemanager.posit.co</code>.</p></li>
+<li><p>‘sysreqs_sudo’: (Env var: <code>PKG_SYSREQS_SUDO</code>, option: <code>pkg.sysreqs_sudo</code>.) Whether to use <code>sudo</code> to install system requirements,
+on Unix. By default it is <code>TRUE</code> on Linux if the effective user id
+of the current process is not the <code>root</code> user.</p></li>
+<li><p>‘sysreqs_update’: (Env var: <code>PKG_SYSREQS_UPDATE</code>, option: <code>pkg.sysreqs_update</code>.) Whether to try to update system packages that are already installed.
+It defaults to <code>TRUE</code> on CI systems: if the <code>CI</code> environment
+variable is set to <code>true</code>.</p></li>
+<li><p>‘sysreqs_verbose’: (Env var: <code>PKG_SYSREQS_VERBOSE</code>, option: <code>pkg.sysreqs_verbose</code>.) Whether to echo the output of system requirements installation.
+Defaults to <code>TRUE</code> if the <code>CI</code> environment variable is set.</p></li>
+<li><p>‘use_bioconductor’: (Env var: <code>PKG_USE_BIOCONDUCTOR</code>, option: <code>pkg.use_bioconductor</code>.) Whether to automatically use the Bioconductor repositories.
+Defaults to <code>TRUE</code>.</p></li>
+<li><p>‘windows_archs’: (Env var: <code>PKG_WINDOWS_ARCHS</code>, option: <code>pkg.windows_archs</code>.) Character scalar specifying which architectures
+to download/install for on Windows. Its possible values are:</p><ul><li><p><code>"prefer-x64"</code>: Generally prefer x64 binaries. If the current R
+session is <code>x64</code>, then we download/install x64 packages.
+(These packages might still be multi-architecture binaries!)
+If the current R session is <code>i386</code>, then we download/install
+packages for both architectures. This might mean compiling
+packages from source if the binary packages are for <code>x64</code> only,
+like the CRAN Windows binaries for R 4.2.x currently.
+<code>"prefer-x64"</code> is the default for R 4.2.0 and later.</p></li>
+<li><p><code>"both"</code>: Always download/install packages for both <code>i386</code> and
+<code>x64</code> architectures. This might need compilation from source
+if the available binaries are for <code>x64</code> only, like the CRAN
+Windows binaries for R 4.2.x currently. <code>"both"</code> is the default
+for R 4.2.0 and earlier.</p></li>
+</ul></li>
+</ul></div>
 
 <div class="section">
 <h3 id="notes">Notes<a class="anchor" aria-label="anchor" href="#notes"></a></h3>
@@ -101,7 +187,7 @@ <h3 id="notes">Notes<a class="anchor" aria-label="anchor" href="#notes"></a></h3
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/pak-package.html b/dev/reference/pak-package.html
index 03e7b6868..b317917ee 100644
--- a/dev/reference/pak-package.html
+++ b/dev/reference/pak-package.html
@@ -79,7 +79,7 @@ <h2 id="author">Author<a class="anchor" aria-label="anchor" href="#author"></a><
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/pak.html b/dev/reference/pak.html
index 12333b490..eac18781b 100644
--- a/dev/reference/pak.html
+++ b/dev/reference/pak.html
@@ -103,7 +103,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/pak_cleanup.html b/dev/reference/pak_cleanup.html
index 577e814a2..23710f462 100644
--- a/dev/reference/pak_cleanup.html
+++ b/dev/reference/pak_cleanup.html
@@ -88,7 +88,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/pak_install_extra.html b/dev/reference/pak_install_extra.html
index cda22b6d2..7fbaae921 100644
--- a/dev/reference/pak_install_extra.html
+++ b/dev/reference/pak_install_extra.html
@@ -78,7 +78,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
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diff --git a/dev/reference/pak_package_sources.html b/dev/reference/pak_package_sources.html
index 9a3fceca5..2e500cef7 100644
--- a/dev/reference/pak_package_sources.html
+++ b/dev/reference/pak_package_sources.html
@@ -54,10 +54,332 @@ <h1>Install packages from CRAN, Bioconductor, GitHub, URLs, etc.</h1>
 
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    <p>include_docs("pkgdepends", "docs/pkg-refs.rds", top = FALSE)</p>
+    <p></p><div class="section">
+<h3 id="package-references">Package references<a class="anchor" aria-label="anchor" href="#package-references"></a></h3>
+<p>Many pkgdepends and pak functions take package names as arguments.
+E.g. <code><a href="pkg_install.html">pak::pkg_install()</a></code> takes the names of the packages to install and
+<code><a href="pkg_deps_tree.html">pak::pkg_deps_tree()</a></code> takes the names of the packages to draw dependency
+trees for.</p>
+<p>Most of these functions can also take more generic <em>package references</em>
+instead of package names.
+A package reference also tells pak where to find the
+package source.</p>
+<p>To specify a package source, use its name as a prefix, with a <code>::</code>
+separator.
+E.g. <code>cran::mypkg</code> means the <code>mypkg</code> package from CRAN.</p>
+<p>A package name is a special package reference that implicitly specifies
+the configured CRAN(-like) repositories as the package source
+(we call this the <code>standard</code> package source).
+So <code>mypkg</code> is equivalent to <code>standard::mypkg</code> and pak
+looks for mypkg in any of the configured CRAN-like repositories.
+If you did not explicitly specify any CRAN-like repositories (e.g. with
+<code>options("repos")</code>), then pak uses the CRAN and
+Bioconductor repositories by default.</p>
+<p>This is the list of the currently supported package sources.
+We will discuss each in detail below.</p><ul><li><p><code>cran</code>: a CRAN package.</p></li>
+<li><p><code>bioc</code>: a Bioconductor package.</p></li>
+<li><p><code>standard</code>: a package from a configured CRAN-like repository.</p></li>
+<li><p><code>github</code>: a package from GitHub.</p></li>
+<li><p><code>gitlab</code>: a package from GitLab.</p></li>
+<li><p><code>git</code>: a package in a Git repository.</p></li>
+<li><p><code>local</code>: a local package file or directory.</p></li>
+<li><p><code>url</code>: an URL that points to a package archive.</p></li>
+<li><p><code>installed</code>: an installed package.</p></li>
+<li><p><code>deps</code>: the dependencies of a local package file or directory.</p></li>
+<li><p><code>any</code>: a special reference type that accepts a package from any source.
+See below.</p></li>
+<li><p><code>param</code>: a special reference to change how other references are downloaded
+or installed. See "Parameters" below.</p></li>
+</ul><div class="section">
+<h4 id="shorthands">Shorthands<a class="anchor" aria-label="anchor" href="#shorthands"></a></h4><p>To save typing, you do not always need to fully specify the package source
+in a package reference.
+You have seen before that a package name implicitly has a <code>standard</code>
+package source.
+Here are the complete rules for such shorthands, in the order they are
+applied:</p>
+<p>If the package reference is</p><ul><li><p>a valid package name, or a package name with an <code>@</code>
+version specification, the <code>standard</code> package source is used. E.g. <code>pkg</code> is
+equivalent to <code>standard::pkg</code> and <code>pkg@1.0</code> is equivalent to
+<code>standard::pkg@1.0</code>.</p></li>
+<li><p>a valid <code>github</code> ref type without the <code>github::</code> prefix,
+then <code>github</code> is used. E.g. <code>user/repo</code> is equivalent to
+<code>github::user/repo</code> and <code>user/repo@tag</code> is equivalent to
+<code>github::user/repo@tag</code>, etc.</p></li>
+<li><p>a GitHub URL (see below) without the <code>github::</code> prefix,
+then <code>github</code> is used.</p></li>
+<li><p>a path that starts with <code>.</code> or <code>/</code> or <code>\</code> or <code>~</code>, then
+<code>local</code> is used. (pak does not check if the path
+exists.)</p></li>
+<li><p>of the form <code>&lt;package-name&gt;=?&lt;parameters&gt;</code>,
+then it will be the special <code>param</code> type. See "Parameters" below.</p></li>
+</ul><p>If the package reference does not have an explicit package source,
+and the package source cannot be determined from these rules, then
+pak throws an error.</p>
+</div><div class="section">
+<h4 id="package-names">Package names<a class="anchor" aria-label="anchor" href="#package-names"></a></h4><p>When pak is looking up the dependencies of a package,
+it needs to be able to determine the name of the dependency from the
+package reference.
+This is sometimes not easy for dependencies in <code>Remotes</code> (or similar) fields.</p><ul><li><p>For <code>github::</code> and <code>gitlab::</code> dependencies pak assumes
+that the package name is the same as the name of the repository. If this
+does not hold, then you need to specify the package name explicitly, using
+a <code>&lt;package&gt;=</code> prefix. E.g. <code>pins=rstudio/pins-r</code>. To specify both the
+package source type and the package name at the same time, write it like this:
+<code>pins=github::rstudio/pins-r</code>.</p></li>
+<li><p>For <code>git::</code> dependencies, pak assumes that the package
+name is the same as the last component of the repository. If this does not
+hold, then you need to specify the package name explicitly, using a
+<code>&lt;package&gt;=</code> prefix. E.g. <code>pins=git::https://github.com/rstudio/pins-r</code>.</p></li>
+<li><p>For <code>local::</code> dependencies, you always need to specify the package name
+explicitly. E.g. <code>pins=local::~/works/pins</code>.</p></li>
+<li><p>For <code>url::</code> dependencies, you always need to specify the package name
+explicitly. E.g. <code>ggplot2=url::https://cloud.r-project.org/src/contrib/...</code>.</p></li>
+</ul></div><div class="section">
+<h4 id="parameters">Parameters<a class="anchor" aria-label="anchor" href="#parameters"></a></h4><p>Package references may have optional parameters, added after a question
+mark.
+Different parameters are separated by an ampersand (<code>&amp;</code>) character.
+(This is very similar to how HTTP URLs take query parameters.)</p>
+<p>Parameters may be flags that turn on some behavior, or they can have a
+string value, assigned with an equal sign (<code>=</code>).
+If no value is assigned, then a <code>true</code> value is assumed. For example,
+these two package references are equivalent:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>cran<span class="sc">::</span>testthat?source<span class="sc">&amp;</span>nocache</span>
+<span id="cb1-2"><a href="#cb1-2" tabindex="-1"></a>cran<span class="sc">::</span>testthat?source<span class="ot">=</span>true<span class="sc">&amp;</span>nocache<span class="ot">=</span>true</span></code></pre><p></p></div><div class="section">
+<h5 id="parameters-for-downstream-packages">Parameters for downstream packages<a class="anchor" aria-label="anchor" href="#parameters-for-downstream-packages"></a></h5><p>pak allows specifying parameters for downstream packages,
+using the <code>&lt;package&gt;=?&lt;params&gt;</code> special package reference, where <code>package</code> is
+the name of the package, and <code>&lt;params&gt;</code> are the parameters, as above.
+This is useful if you want to add a parameter to a downstream dependency.</p>
+<p>For example, to install ggplot2, and always reinstall its cli package
+dependency, you could use the <code>ggplot2</code> and <code>cli=?reinstall</code> package
+references.
+The latter tells pak to always reinstall cli, even if
+it is already installed.</p>
+</div><div class="section">
+<h5 id="currently-supported-parameters">Currently supported parameters<a class="anchor" aria-label="anchor" href="#currently-supported-parameters"></a></h5><ul><li><p><code>ignore</code> is a flag parameter. If specified, the package is ignored.
+This usually makes sense in the <code>packagename=?ignore</code> form, to ignore a
+downstream soft dependency. If all versions of a hard dependency are
+ignored that will lead to a solution error.</p></li>
+<li><p><code>ignore-before-r</code> is a version number parameter. The package will be
+ignored on R versions that are older than the specified one. E.g.
+<code>Matrix=?ignore-before-r=4.1.2</code> will ignore the Matrix package on R versions
+that are older than 4.1.2. This parameter really only makes sense in the
+<code>packgename=?ignore-before-r</code> form.</p></li>
+<li><p><code>ignore-unavailable</code> is a flag. It can only be specified for soft
+dependencies. If specified and the package is not available, it will be
+ignored. This parameter really only makes sense in the
+<code>packagename=?ignore-unavailable</code> form.</p></li>
+<li><p><code>source</code> is a flag parameter. If specified, then a source R package
+is requested from a CRAN-like repository. For package installations,
+<code>source</code> always triggers a re-install. In other words, <code>source</code> implies the
+<code>reinstall</code> parameter. This parameter is supported for <code>bioc::</code>, <code>cran::</code>
+and <code>standard::</code> remote types, and it is ignored for others.</p></li>
+<li><p><code>reinstall</code> requests a re-install for package installations. It is
+supported by the <code>bioc::</code>, <code>cran::</code>, <code>git::</code>, <code>github::</code>, <code>gitlab::</code>,
+<code>local::</code>, <code>standard::</code>, and <code>url::</code> remote types.</p></li>
+<li><p><code>nocache</code> will ignore the package cache. It will always download the
+package file, and it will not add the downloaded (and built) package(s)
+to the package cache. It is supported by the <code>bioc::</code>, <code>cran::</code>, <code>git::</code>,
+<code>github::</code>, <code>gitlab::</code>, <code>standard::</code> and <code>url::</code> remote types.</p></li>
+</ul></div></div><div class="section">
+<h4 id="package-source-details">Package source details<a class="anchor" aria-label="anchor" href="#package-source-details"></a></h4><div class="section">
+<h5 id="cran-packages-cran-">CRAN packages (<code>cran::</code>)<a class="anchor" aria-label="anchor" href="#cran-packages-cran-"></a></h5><p>A package from CRAN. Full syntax:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>[cran<span class="sc">::</span>]<span class="sc">&lt;</span>package<span class="sc">&gt;</span>[<span class="sc">@</span>[<span class="sc">&gt;=</span>]<span class="sc">&lt;</span>version<span class="sc">&gt;</span> <span class="er">|</span> <span class="er">@</span>current <span class="sc">|</span> <span class="er">@</span>last]</span></code></pre><p></p></div><ul><li><p><code>&lt;package&gt;</code> is a valid package name.</p></li>
+<li><p><code>&lt;version&gt;</code> is a version or a version requirement.</p></li>
+</ul><p>Examples:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>forecast</span>
+<span id="cb1-2"><a href="#cb1-2" tabindex="-1"></a>forecast<span class="sc">@</span><span class="fl">8.8</span></span>
+<span id="cb1-3"><a href="#cb1-3" tabindex="-1"></a>forecast<span class="sc">@</span><span class="er">&gt;=</span><span class="fl">8.8</span></span>
+<span id="cb1-4"><a href="#cb1-4" tabindex="-1"></a>cran<span class="sc">::</span>forecast</span>
+<span id="cb1-5"><a href="#cb1-5" tabindex="-1"></a>forecast<span class="sc">@</span>last</span>
+<span id="cb1-6"><a href="#cb1-6" tabindex="-1"></a>forecast<span class="sc">@</span>current</span></code></pre><p></p></div>
+<p>Note: pak currently parses the version specification part
+(everything after <code>@</code>), but does not use it.</p>
+</div><div class="section">
+<h5 id="bioconductor-packages-bioc-">Bioconductor packages (<code>bioc::</code>)<a class="anchor" aria-label="anchor" href="#bioconductor-packages-bioc-"></a></h5><p>A package from Bioconductor. The syntax is the same as for CRAN packages,
+except for the prefix.</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>[bioc<span class="sc">::</span>]<span class="sc">&lt;</span>package<span class="sc">&gt;</span>[<span class="sc">@</span>[<span class="sc">&gt;=</span>]<span class="sc">&lt;</span>version<span class="sc">&gt;</span> <span class="er">|</span> <span class="er">@</span>current <span class="sc">|</span> <span class="er">@</span>last]</span></code></pre><p></p></div>
+</div><div class="section">
+<h5 id="standard-packages-standard-">Standard packages (<code>standard::</code>)<a class="anchor" aria-label="anchor" href="#standard-packages-standard-"></a></h5><p>These are packages either from CRAN or Bioconductor, the full syntax
+is the same as for CRAN packages, except for the prefix:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>[standard<span class="sc">::</span>]<span class="sc">&lt;</span>package<span class="sc">&gt;</span>[<span class="sc">@</span>[<span class="sc">&gt;=</span>]<span class="sc">&lt;</span>version<span class="sc">&gt;</span> <span class="er">|</span> current <span class="sc">|</span> last]</span></code></pre><p></p></div>
+</div><div class="section">
+<h5 id="github-packages-github-">GitHub packages (<code>github::</code>)<a class="anchor" aria-label="anchor" href="#github-packages-github-"></a></h5><p>Packages from a GitHub repository. Full syntax:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>[<span class="sc">&lt;</span>package<span class="sc">&gt;=</span>][github<span class="sc">::</span>]<span class="sc">&lt;</span>username<span class="sc">&gt;</span><span class="er">/&lt;</span>repository<span class="sc">&gt;</span>[<span class="sc">/</span><span class="er">&lt;</span>subdir<span class="sc">&gt;</span>][<span class="sc">&lt;</span>detail<span class="sc">&gt;</span>]</span></code></pre><p></p></div><ul><li><p><code>&lt;package&gt;</code> is the name of the package. If this is missing, then
+the name of the repository is used.</p></li>
+<li><p><code>&lt;username&gt;</code> is a GitHub username or organization name.</p></li>
+<li><p><code>&lt;repository&gt;</code> is the name of the repository.</p></li>
+<li><p><code>&lt;subdir&gt;</code> specifies an optional subdirectory, if the package is within a
+subdirectory in the repository.</p></li>
+<li><p><code>&lt;detail&gt;</code> specifies a certain version of the package, see below.</p></li>
+</ul><p><code>&lt;detail&gt;</code> may specify:</p><ul><li><p>a Git branch, tag or (prefix of) a commit hash: <code>@&lt;commitish&gt;</code>;</p></li>
+<li><p>a pull request: <code>#&lt;pull-request&gt;</code>; or</p></li>
+<li><p>the latest release: <code>@*release</code>.</p></li>
+</ul><p>If <code>&lt;detail&gt;</code> is missing, then the latest commit of the <em>default</em>
+branch is used.</p>
+<p>Examples:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>r<span class="sc">-</span>lib<span class="sc">/</span>crayon</span>
+<span id="cb1-2"><a href="#cb1-2" tabindex="-1"></a>github<span class="sc">::</span>r<span class="sc">-</span>lib<span class="sc">/</span>crayon</span>
+<span id="cb1-3"><a href="#cb1-3" tabindex="-1"></a>r<span class="sc">-</span>lib<span class="sc">/</span>crayon<span class="sc">@</span><span class="dv">84</span>be6207</span>
+<span id="cb1-4"><a href="#cb1-4" tabindex="-1"></a>r<span class="sc">-</span>lib<span class="sc">/</span>crayon<span class="sc">@</span>branch</span>
+<span id="cb1-5"><a href="#cb1-5" tabindex="-1"></a>r<span class="sc">-</span>lib<span class="sc">/</span>crayon<span class="co">#41</span></span>
+<span id="cb1-6"><a href="#cb1-6" tabindex="-1"></a>r<span class="sc">-</span>lib<span class="sc">/</span>crayon<span class="sc">@</span>release</span></code></pre><p></p></div>
+<p>For convenience, GitHub HTTP URLs can also be used to specify a
+package from GitHub. Examples:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>https<span class="sc">:</span><span class="er">//</span>github.com<span class="sc">/</span>r<span class="sc">-</span>lib<span class="sc">/</span>withr</span>
+<span id="cb1-2"><a href="#cb1-2" tabindex="-1"></a><span class="co"># A branch:</span></span>
+<span id="cb1-3"><a href="#cb1-3" tabindex="-1"></a>https<span class="sc">:</span><span class="er">//</span>github.com<span class="sc">/</span>r<span class="sc">-</span>lib<span class="sc">/</span>withr<span class="sc">/</span>tree<span class="sc">/</span>ghactions</span>
+<span id="cb1-4"><a href="#cb1-4" tabindex="-1"></a><span class="co"># A tag:</span></span>
+<span id="cb1-5"><a href="#cb1-5" tabindex="-1"></a>https<span class="sc">:</span><span class="er">//</span>github.com<span class="sc">/</span>r<span class="sc">-</span>lib<span class="sc">/</span>withr<span class="sc">/</span>tree<span class="sc">/</span>v2.<span class="fl">1.1</span></span>
+<span id="cb1-6"><a href="#cb1-6" tabindex="-1"></a><span class="co"># A commit:</span></span>
+<span id="cb1-7"><a href="#cb1-7" tabindex="-1"></a>https<span class="sc">:</span><span class="er">//</span>github.com<span class="sc">/</span>r<span class="sc">-</span>lib<span class="sc">/</span>withr<span class="sc">/</span>commit<span class="sc">/</span><span class="dv">8</span>fbcb548e316</span>
+<span id="cb1-8"><a href="#cb1-8" tabindex="-1"></a><span class="co"># A pull request:</span></span>
+<span id="cb1-9"><a href="#cb1-9" tabindex="-1"></a>https<span class="sc">:</span><span class="er">//</span>github.com<span class="sc">/</span>r<span class="sc">-</span>lib<span class="sc">/</span>withr<span class="sc">/</span>pull<span class="sc">/</span><span class="dv">76</span></span>
+<span id="cb1-10"><a href="#cb1-10" tabindex="-1"></a><span class="co"># A release:</span></span>
+<span id="cb1-11"><a href="#cb1-11" tabindex="-1"></a>https<span class="sc">:</span><span class="er">//</span>github.com<span class="sc">/</span>r<span class="sc">-</span>lib<span class="sc">/</span>withr<span class="sc">/</span>releases<span class="sc">/</span>tag<span class="sc">/</span>v2.<span class="fl">1.0</span></span></code></pre><p></p></div>
+<p>A GitHub remote string can also be used instead of a URL, for example:
+<code>git@github.com:r-lib/pak.git</code></p>
+</div><div class="section">
+<h5 id="gitlab-packages-gitlab-">GitLab packages (<code>gitlab::</code>)<a class="anchor" aria-label="anchor" href="#gitlab-packages-gitlab-"></a></h5><p>Packages from a GitLab repository. Full syntax:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>[<span class="sc">&lt;</span>package<span class="sc">&gt;=</span>][gitlab<span class="sc">::</span>]<span class="sc">&lt;</span>project<span class="sc">-</span>path<span class="sc">&gt;</span><span class="er">/&lt;</span>repository<span class="sc">&gt;</span>[<span class="sc">/-</span><span class="er">/&lt;</span>subdir<span class="sc">&gt;</span>][<span class="sc">&lt;</span>detail<span class="sc">&gt;</span>]</span></code></pre><p></p></div><ul><li><p><code>&lt;package&gt;</code> is the name of the package. If this is missing, then
+the name of the repository is used.</p></li>
+<li><p><code>&lt;project-path&gt;</code> is typically the GitLab user or group name, but
+it may contain subgroups.</p></li>
+<li><p><code>&lt;repository&gt;</code> is the name of the repository, or the project in GitLab
+terminology. GitLab
+<a href="https://docs.gitlab.com/ee/user/group/subgroups/" class="external-link">subgroups</a> are
+fully supported.</p></li>
+<li><p><code>&lt;subdir&gt;</code> specifies an optional subdirectory, if the package is within a
+subdirectory in the repository. Note that for GitLab, this must come
+after a <code>/-</code> prefix, to be able to distinguish it from subgroups.</p></li>
+<li><p><code>&lt;detail&gt;</code> may specify a Git branch, tag or (prefix of) a commit hash.</p></li>
+</ul><p>If <code>&lt;detail&gt;</code> is missing, then the latest commit of the <em>default</em>
+branch is used.</p>
+<p><code>gitlab::</code> supports Git submodules, see the <code>git-submodules</code> configuration
+entry.</p>
+<p>Examples:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>gitlab<span class="sc">::</span>gaborcsardi<span class="sc">/</span>cli</span>
+<span id="cb1-2"><a href="#cb1-2" tabindex="-1"></a>gitlab<span class="sc">::</span>r<span class="sc">-</span>hub<span class="sc">/</span>filelock<span class="sc">@</span>main</span>
+<span id="cb1-3"><a href="#cb1-3" tabindex="-1"></a>gitlab<span class="sc">::</span>group<span class="sc">/</span>subgroup<span class="sc">/</span>subsubgroup<span class="sc">/</span>project<span class="sc">/-</span><span class="er">/</span>subdir<span class="sc">@</span>ref</span></code></pre><p></p></div>
+</div><div class="section">
+<h5 id="packages-in-git-repositories-git-">Packages in Git repositories (<code>git::</code>)<a class="anchor" aria-label="anchor" href="#packages-in-git-repositories-git-"></a></h5><p>Full syntax:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>[<span class="sc">&lt;</span>package<span class="sc">&gt;=</span>]git<span class="sc">::</span>https?<span class="sc">:</span><span class="er">//&lt;</span>host<span class="sc">&gt;</span>[<span class="sc">&lt;</span>detail<span class="sc">&gt;</span>]</span></code></pre><p></p></div><ul><li><p><code>&lt;package&gt;</code> is the name of the package. If this is missing, then
+the last component of the <code>&lt;host&gt;</code> is used.</p></li>
+<li><p><code>&lt;host&gt;</code> is the host name and path of the Git repository. Some Git
+repositories need the <code>.git</code> suffix here, others are more forgiving.</p></li>
+<li><p><code>&lt;detail&gt;</code> specifies a certain version of the package:
+a Git branch, tag or (prefix of) a commit hash: <code>@&lt;commitish&gt;</code>.</p></li>
+</ul><p>If <code>&lt;detail&gt;</code> is missing, then the latest commit of the <em>default</em>
+branch is used.</p>
+<p><code>git::</code> supports Git submodules, see the <code>git-submodules</code> configuration
+entry.</p>
+<p>Examples:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>git<span class="sc">::</span>https<span class="sc">:</span><span class="er">//</span>github.com<span class="sc">/</span>r<span class="sc">-</span>lib<span class="sc">/</span>crayon</span>
+<span id="cb1-2"><a href="#cb1-2" tabindex="-1"></a>git<span class="sc">::</span>https<span class="sc">:</span><span class="er">//</span>github.com<span class="sc">/</span>r<span class="sc">-</span>lib<span class="sc">/</span>crayon.git</span>
+<span id="cb1-3"><a href="#cb1-3" tabindex="-1"></a>git<span class="sc">::</span>https<span class="sc">:</span><span class="er">//</span>github.com<span class="sc">/</span>r<span class="sc">-</span>lib<span class="sc">/</span>crayon.git<span class="sc">@</span><span class="dv">84</span>be6207</span>
+<span id="cb1-4"><a href="#cb1-4" tabindex="-1"></a>git<span class="sc">::</span>https<span class="sc">:</span><span class="er">//</span>github.com<span class="sc">/</span>r<span class="sc">-</span>lib<span class="sc">/</span>crayon.git<span class="sc">@</span>branch</span>
+<span id="cb1-5"><a href="#cb1-5" tabindex="-1"></a>git<span class="sc">::</span>https<span class="sc">:</span><span class="er">//</span>gitlab.com<span class="sc">/</span>gaborcsardi<span class="sc">/</span>cli.git</span></code></pre><p></p></div>
+<p>Note that pak has a built-in Git client, and does
+<strong>not</strong> require a system Git installation.</p>
+<p>If the system has Git installed, then pak will use the
+credentials stored in the configured Git credential store, automatically,
+via the gitcreds package.</p>
+</div><div class="section">
+<h5 id="local-packages-local-">Local packages (<code>local::</code>)<a class="anchor" aria-label="anchor" href="#local-packages-local-"></a></h5><p>A path that refers to a package file built with <code>R CMD build</code>, or a
+directory that contains a package. Full syntax:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>local<span class="sc">::</span><span class="er">&lt;</span>path<span class="sc">&gt;</span></span></code></pre><p></p></div>
+<p>For brevity, you can omit the <code>local::</code> prefix, if you specify an
+absolute path, a path from the user's home directory, starting with <code>~</code>,
+or a relative path starting with <code>./</code> or <code>.\\</code>.</p>
+<p>A single dot (<code>"."</code>) is considered to be a local package in the current
+working directory.</p>
+<p>Examples:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>local<span class="sc">::</span><span class="er">/</span>foo<span class="sc">/</span>bar<span class="sc">/</span>package_1.<span class="dv">0</span>.<span class="fl">0.</span>tar.gz</span>
+<span id="cb1-2"><a href="#cb1-2" tabindex="-1"></a>local<span class="sc">::</span><span class="er">/</span>foo<span class="sc">/</span>bar<span class="sc">/</span>pkg</span>
+<span id="cb1-3"><a href="#cb1-3" tabindex="-1"></a>local<span class="sc">::</span>.</span>
+<span id="cb1-4"><a href="#cb1-4" tabindex="-1"></a><span class="sc">/</span>absolute<span class="sc">/</span>path<span class="sc">/</span>package_1.<span class="dv">0</span>.<span class="fl">0.</span>tar.gz</span>
+<span id="cb1-5"><a href="#cb1-5" tabindex="-1"></a><span class="sc">~</span><span class="er">/</span>path<span class="sc">/</span>from<span class="sc">/</span>home</span>
+<span id="cb1-6"><a href="#cb1-6" tabindex="-1"></a>.<span class="sc">/</span>relative<span class="sc">/</span>path</span>
+<span id="cb1-7"><a href="#cb1-7" tabindex="-1"></a>.</span></code></pre><p></p></div>
+<p>If you specify a local package in a dependency (i.e. in <code>DESCRIPTION</code>), then
+you also need to specify the name of the package, see "Package names"
+above.</p>
+</div><div class="section">
+<h5 id="urls-url-">URLs (<code>url::</code>)<a class="anchor" aria-label="anchor" href="#urls-url-"></a></h5><p>You can use <code>url::</code> to refer to URLs that hold R package archives
+(i.e. properly built with <code>R CMD build</code>), or compressed directories
+of package trees (i.e. not built with <code>R CMD build</code>). pak will
+figure out if it needs to run <code>R CMD build</code> on the package first.</p>
+<p>This remote type supports <code>.tar.gz</code> and <code>.zip</code> files.</p>
+<p>Note that URLs are not ideal remote types, because pak needs to
+download the package file to resolve its dependencies. When this happens,
+it puts the package file in the cache, so no further downloads are
+needed when installing the package later.</p>
+<p>Examples:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>url<span class="sc">::</span>https<span class="sc">:</span><span class="er">//</span>cloud.r<span class="sc">-</span>project.org<span class="sc">/</span>src<span class="sc">/</span>contrib<span class="sc">/</span>Archive<span class="sc">/</span>cli<span class="sc">/</span>cli_1.<span class="dv">0</span>.<span class="fl">0.</span>tar.gz</span>
+<span id="cb1-2"><a href="#cb1-2" tabindex="-1"></a>url<span class="sc">::</span>https<span class="sc">:</span><span class="er">//</span>github.com<span class="sc">/</span>tidyverse<span class="sc">/</span>stringr<span class="sc">/</span>archive<span class="sc">/</span>HEAD.zip</span></code></pre><p></p></div>
+<p>If you specify a package from a URL in a dependency (i.e. in <code>DESCRIPTION</code>),
+then you also need to specify the name of the package, see "Package names"
+above.</p>
+</div><div class="section">
+<h5 id="installed-packages-installed-">Installed packages (<code>installed::</code>)<a class="anchor" aria-label="anchor" href="#installed-packages-installed-"></a></h5><p>This is usually used internally, but can also be used directly.
+Full syntax:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>installed<span class="sc">::</span><span class="er">&lt;</span>path<span class="sc">&gt;</span><span class="er">/&lt;</span>package<span class="sc">&gt;</span></span></code></pre><p></p></div><ul><li><p><code>&lt;path&gt;</code> is the library the package is installed to.</p></li>
+<li><p><code>&lt;package&gt;</code> is the package name.</p></li>
+</ul><p>Example:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>installed<span class="sc">::</span><span class="er">~/</span>R<span class="sc">/</span><span class="fl">3.6</span><span class="sc">/</span>crayon</span></code></pre><p></p></div>
+</div><div class="section">
+<h5 id="package-dependencies-deps-">Package dependencies (<code>deps::</code>)<a class="anchor" aria-label="anchor" href="#package-dependencies-deps-"></a></h5><p>Usually used internally, it specifies the dependencies of a local
+package. It can be used to download or install the dependencies of a
+package, without downloading or installing the package itself.
+Full syntax:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>deps<span class="sc">::</span><span class="er">&lt;</span>path<span class="sc">&gt;</span></span></code></pre><p></p></div>
+<p>Examples:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>deps<span class="sc">::</span><span class="er">/</span>foo<span class="sc">/</span>bar<span class="sc">/</span>package_1.<span class="dv">0</span>.<span class="fl">0.</span>tar.gz</span>
+<span id="cb1-2"><a href="#cb1-2" tabindex="-1"></a>deps<span class="sc">::</span><span class="er">/</span>foo<span class="sc">/</span>bar<span class="sc">/</span>pkg</span>
+<span id="cb1-3"><a href="#cb1-3" tabindex="-1"></a>deps<span class="sc">::</span>.</span></code></pre><p></p></div>
+</div><div class="section">
+<h5 id="any-packages"><code>any::</code> packages<a class="anchor" aria-label="anchor" href="#any-packages"></a></h5><p>Sometimes you need to install additional packages, but you don't mind
+where they are installed from. Here is an example. You want to install
+cli from GitHub, from <code>r-lib/cli</code>. You also want to install glue, and
+you don't mind which version of glue is installed, as long as it is
+compatible with the requested cli version. If cli specifies the
+development version of glue, then that is fine. If cli is fine with the
+CRAN version of glue, that's OK, too. If a future version of cli does
+not depend on glue, you still want glue installed, from CRAN. The <code>any::</code>
+reference type does exactly this.</p>
+<p>In our example you might write</p>
+<p></p><div class="sourceCode r"><p> </p><pre><code><span><span class="fu">pak</span><span class="fu">::</span><span class="fu"><a href="../reference/pkg_install.html">pkg_install</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"glue"</span>, <span class="st">"r-lib/cli"</span><span class="op">)</span><span class="op">)</span></span></code></pre><p></p></div>
+<p>first, but this will fail if <code>rlib/cli</code> requests (say) <code>tidyverse/glue</code>,
+because in <code><a href="pkg_install.html">pkg_install()</a></code> <code>"glue"</code> is interpreted as <code>"standard::glue"</code>,
+creating a conflict with <code>tidyverse/glue</code>. On the other hand</p>
+<p></p><div class="sourceCode r"><p> </p><pre><code><span><span class="fu">pak</span><span class="fu">::</span><span class="fu"><a href="../reference/pkg_install.html">pkg_install</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"any::glue"</span>, <span class="st">"r-lib/cli"</span><span class="op">)</span><span class="op">)</span></span></code></pre><p></p></div>
+<p>works, independently of which glue version is requested by cli.</p>
+</div><div class="section">
+<h5 id="parameter-refs-param-">Parameter refs (<code>param::</code>)<a class="anchor" aria-label="anchor" href="#parameter-refs-param-"></a></h5><p>See "Parameters" above.</p>
+</div></div><div class="section">
+<h4 id="the-remotes-field">The <code>Remotes</code> field<a class="anchor" aria-label="anchor" href="#the-remotes-field"></a></h4><p>In the <code>DESCRIPTION</code> file of an R package you can mark any regular
+dependency defined in the <code>Depends</code>, <code>Imports</code>, <code>Suggests</code> or <code>Enhances</code>
+fields as being installed from a non-standard package source by adding
+a package reference to a <code>Remotes</code> entry.
+pak will download and install the package from the
+specified location, instead of a CRAN-like repository.</p>
+<p>The remote dependencies specified in <code>Remotes</code> are a comma separated
+list of package sources:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>Remotes<span class="sc">:</span> <span class="er">&lt;</span>pkg<span class="sc">-</span>source<span class="dv">-1</span><span class="sc">&gt;</span>, <span class="sc">&lt;</span>pkg<span class="sc">-</span>source<span class="dv">-2</span><span class="sc">&gt;</span>, [ ... ]</span></code></pre><p></p></div>
+<p>Note that you will still need to add the package to one of the regular
+dependency fields, i.e. <code>Imports</code>, <code>Suggests</code>, etc. Here is a concrete
+example that specifies the <code>r-lib/glue</code> package:</p>
+<p></p><div class="sourceCode"><p> </p><pre><code><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>Imports<span class="sc">:</span> glue</span>
+<span id="cb1-2"><a href="#cb1-2" tabindex="-1"></a>Remotes<span class="sc">:</span> r<span class="sc">-</span>lib<span class="sc">/</span>glue,</span>
+<span id="cb1-3"><a href="#cb1-3" tabindex="-1"></a>  r<span class="sc">-</span>lib<span class="sc">/</span>httr<span class="sc">@</span>v0<span class="fl">.4</span>,</span>
+<span id="cb1-4"><a href="#cb1-4" tabindex="-1"></a>  klutometis<span class="sc">/</span>roxygen<span class="co">#142,</span></span>
+<span id="cb1-5"><a href="#cb1-5" tabindex="-1"></a>  r<span class="sc">-</span>lib<span class="sc">/</span>testthat<span class="sc">@</span>c67018fa4970</span></code></pre><p></p></div>
+<p>The CRAN and Bioconductor repositories do not support the <code>Remotes</code>
+field, so you need to remove this field, before submitting your package
+to either of them.</p>
+</div></div>
     </div>
 
-  </main></div>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
+    </nav></aside></div>
 
 
    </div>
@@ -67,7 +389,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/pak_setup.html b/dev/reference/pak_setup.html
index 0b3554514..c41e338a5 100644
--- a/dev/reference/pak_setup.html
+++ b/dev/reference/pak_setup.html
@@ -78,7 +78,7 @@ <h2 id="value">Value<a class="anchor" aria-label="anchor" href="#value"></a></h2
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/pak_sitrep.html b/dev/reference/pak_sitrep.html
index 67c23cadc..2ecf1dd94 100644
--- a/dev/reference/pak_sitrep.html
+++ b/dev/reference/pak_sitrep.html
@@ -104,7 +104,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/pak_solver.html b/dev/reference/pak_solver.html
index 0e2dd3480..091983c01 100644
--- a/dev/reference/pak_solver.html
+++ b/dev/reference/pak_solver.html
@@ -97,7 +97,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/pak_update.html b/dev/reference/pak_update.html
index 9e432b8e8..5c9479fed 100644
--- a/dev/reference/pak_update.html
+++ b/dev/reference/pak_update.html
@@ -78,7 +78,7 @@ <h2 id="value">Value<a class="anchor" aria-label="anchor" href="#value"></a></h2
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/pkg_deps.html b/dev/reference/pkg_deps.html
index 98b512721..23e1bc27f 100644
--- a/dev/reference/pkg_deps.html
+++ b/dev/reference/pkg_deps.html
@@ -79,7 +79,61 @@ <h2 id="arguments">Arguments<a class="anchor" aria-label="anchor" href="#argumen
     <h2 id="value">Value<a class="anchor" aria-label="anchor" href="#value"></a></h2>
     <p>A data frame with the dependency data, it includes <code>pkg</code>
 as well. It has the following columns.
-include_docs("pkgdepends", "docs/resolution-result.rds")</p>
+</p><ul><li><p><code>built</code>: the <code>Built</code> field from the <code>DESCRIPTION</code> file of binary
+packages, for which this information is available.</p></li>
+<li><p><code>cache_status</code>: whether the package file is in the package cache.
+It is <code>NA</code> for <code>installed::</code> package refs.</p></li>
+<li><p><code>dep_types</code>: character vector of dependency types that were
+considered for this package. (This is a list column.)</p></li>
+<li><p><code>deps</code>: dependencies of the package, in a data frame. See
+"Package dependency tables" below.</p></li>
+<li><p><code>direct</code>: whether this package (ref, really) was directly specified,
+or added as a dependency.</p></li>
+<li><p><code>error</code>: this is a list column that contains error objects for the
+refs that pkgdepends failed to resolve.</p></li>
+<li><p><code>filesize</code>: the file size in bytes, or <code>NA</code> if this information is
+not available.</p></li>
+<li><p><code>license</code>: license of the package, or <code>NA</code> if not available.</p></li>
+<li><p><code>md5sum</code>: MD5 checksum of the package file, if available, or <code>NA</code> if
+not.</p></li>
+<li><p><code>metadata</code>: a named character vector. These fields will be (should be)
+added to the installed <code>DESCRIPTION</code> file of the package.</p></li>
+<li><p><code>mirror</code>: URL of the CRAN(-like) mirror site where the metadata was
+obtained from. It is NA for non-CRAN-like sources, e.g. local files,
+installed packages, GitHub, etc.</p></li>
+<li><p><code>needscompilation</code>: whether the package needs compilation.</p></li>
+<li><p><code>package</code>: package name.</p></li>
+<li><p><code>priority</code>: this is <code>"base"</code> for base packages, <code>"recommended"</code> for
+recommended packages, and <code>NA</code> otherwise.</p></li>
+<li><p><code>ref</code>: package reference.</p></li>
+<li><p><code>remote</code>: the parsed <code>remote_ref</code> objects, see <code>parse_pkg_refs()</code>.
+This is a list column.</p></li>
+<li><p><code>repodir</code>: the directory where this package should be in a CRAN-like
+repository.</p></li>
+<li><p><code>sha256</code>: SHA256 hash of the package file, if available, otherwise
+<code>NA</code>.</p></li>
+<li><p><code>sources</code>: URLs where this package can be downloaded from. This is not
+necessarily a URL that you can download with a HTTP client. E.g. for
+<code>local::</code> refs it is a path, and for <code>git::</code> refs it is a URL for git.
+It is a zero length vector for <code>installed::</code> refs.</p></li>
+<li><p><code>status</code>: status of the dependency resolution, <code>"OK"</code> or <code>"FAILED"</code>.</p></li>
+<li><p><code>target</code>: path where this package should be saved in a CRAN-repository.</p></li>
+<li><p><code>type</code>: ref type.</p></li>
+<li><p><code>version</code>: package version.</p></li>
+</ul>Additional columns might be present. They are either used internally or
+they are experimental. They might be removed or changed at any time.All columns are of type character, except for <code>direct</code> (logical),
+<code>needscompilation</code> (logical), <code>filesize</code> (integer), <code>deps</code> (list column, see
+"Package dependency tables" below), <code>sources</code> (list of character vectors),
+<code>remote</code> (list), <code>error</code> (list), <code>metadata</code> (list), <code>dep_types</code> (list).
+<div class="section">
+<h3 id="package-dependency-tables">Package dependency tables<a class="anchor" aria-label="anchor" href="#package-dependency-tables"></a></h3><p>A package dependency tables in the <code>deps</code> list column have five columns
+currently:</p><ul><li><p><code>ref</code>: the package ref of the dependency.</p></li>
+<li><p><code>type</code>: the dependency type, in all lowercase. I.e. <code>imports</code>,
+<code>suggests</code>, etc.</p></li>
+<li><p><code>package</code>: package name of the dependency.</p></li>
+<li><p><code>op</code>: operator for version requirements, e.g. <code>&gt;=</code>.</p></li>
+<li><p><code>version</code>: version number, for version requirements.</p></li>
+</ul></div>
     </div>
     <div class="section level2">
     <h2 id="examples">Examples<a class="anchor" aria-label="anchor" href="#examples"></a></h2>
@@ -159,7 +213,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/pkg_deps_explain.html b/dev/reference/pkg_deps_explain.html
index 119410489..13dcb30e5 100644
--- a/dev/reference/pkg_deps_explain.html
+++ b/dev/reference/pkg_deps_explain.html
@@ -145,7 +145,7 @@ <h2 id="examples">Examples<a class="anchor" aria-label="anchor" href="#examples"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/pkg_deps_tree.html b/dev/reference/pkg_deps_tree.html
index 514e411f1..89aed902e 100644
--- a/dev/reference/pkg_deps_tree.html
+++ b/dev/reference/pkg_deps_tree.html
@@ -209,7 +209,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/pkg_download.html b/dev/reference/pkg_download.html
index 511124654..f5b6c2d92 100644
--- a/dev/reference/pkg_download.html
+++ b/dev/reference/pkg_download.html
@@ -96,7 +96,73 @@ <h2 id="arguments">Arguments<a class="anchor" aria-label="anchor" href="#argumen
     <h2 id="value">Value<a class="anchor" aria-label="anchor" href="#value"></a></h2>
     <p>Data frame with information about the downloaded
 packages, invisibly. Columns:
-include_docs("pkgdepends", "docs/download-result.rds")</p>
+</p><ul><li><p><code>built</code>: the <code>Built</code> field from the <code>DESCRIPTION</code> file of binary
+packages, for which this information is available.</p></li>
+<li><p><code>cache_status</code>: whether the package file is in the package cache.
+It is <code>NA</code> for <code>installed::</code> package refs.</p></li>
+<li><p><code>dep_types</code>: character vector of dependency types that were
+considered for this package. (This is a list column.)</p></li>
+<li><p><code>deps</code>: dependencies of the package, in a data frame. See
+"Package dependency tables" below.</p></li>
+<li><p><code>direct</code>: whether this package (ref, really) was directly specified,
+or added as a dependency.</p></li>
+<li><p><code>error</code>: this is a list column that contains error objects for the
+refs that pkgdepends failed to resolve.</p></li>
+<li><p><code>filesize</code>: the file size in bytes, or <code>NA</code> if this information is
+not available.</p></li>
+<li><p><code>license</code>: license of the package, or <code>NA</code> if not available.</p></li>
+<li><p><code>md5sum</code>: MD5 checksum of the package file, if available, or <code>NA</code> if
+not.</p></li>
+<li><p><code>metadata</code>: a named character vector. These fields will be (should be)
+added to the installed <code>DESCRIPTION</code> file of the package.</p></li>
+<li><p><code>mirror</code>: URL of the CRAN(-like) mirror site where the metadata was
+obtained from. It is NA for non-CRAN-like sources, e.g. local files,
+installed packages, GitHub, etc.</p></li>
+<li><p><code>needscompilation</code>: whether the package needs compilation.</p></li>
+<li><p><code>package</code>: package name.</p></li>
+<li><p><code>priority</code>: this is <code>"base"</code> for base packages, <code>"recommended"</code> for
+recommended packages, and <code>NA</code> otherwise.</p></li>
+<li><p><code>ref</code>: package reference.</p></li>
+<li><p><code>remote</code>: the parsed <code>remote_ref</code> objects, see <code>parse_pkg_refs()</code>.
+This is a list column.</p></li>
+<li><p><code>repodir</code>: the directory where this package should be in a CRAN-like
+repository.</p></li>
+<li><p><code>sha256</code>: SHA256 hash of the package file, if available, otherwise
+<code>NA</code>.</p></li>
+<li><p><code>sources</code>: URLs where this package can be downloaded from. This is not
+necessarily a URL that you can download with a HTTP client. E.g. for
+<code>local::</code> refs it is a path, and for <code>git::</code> refs it is a URL for git.
+It is a zero length vector for <code>installed::</code> refs.</p></li>
+<li><p><code>status</code>: status of the dependency resolution, <code>"OK"</code> or <code>"FAILED"</code>.</p></li>
+<li><p><code>target</code>: path where this package should be saved in a CRAN-repository.</p></li>
+<li><p><code>type</code>: ref type.</p></li>
+<li><p><code>version</code>: package version.</p></li>
+<li><p><code>fulltarget</code>: absolute path to the downloaded file. At most one of
+<code>fulltarget</code> and <code>fulltarget_tree</code> must exist on the disk.</p></li>
+<li><p><code>fulltarget_tree</code>: absolute path to a package tree directory. At most
+one of <code>fulltarget</code> and <code>fulltarget_tree</code> must exist on the disk.</p></li>
+<li><p><code>download_status</code>: <code>"Had"</code> or <code>"Got"</code>, depending on whether the file
+was obtained from the cache.</p></li>
+<li><p><code>download_error</code>: error object for failed downloads.</p></li>
+<li><p><code>file_size</code>: Size of the file, or <code>NA</code>. For <code>installed::</code> refs, it is
+<code>NA</code>, and it is also <code>NA</code> for refs that created <code>fulltarget_tree</code>
+instead of <code>fulltarget</code>.</p></li>
+</ul><code>fulltarget</code>, if it exists, contains a packaged (via <code>R CMD build</code>)
+source R package. If <code>fulltarget_tree</code> exists, it is a package tree
+directory, that still needs an <code>R CMD build</code> call.Additional columns might be present. They are either used internally or
+they are experimental. They might be removed or changed at any time.All columns are of type character, except for <code>direct</code> (logical),
+<code>needscompilation</code> (logical), <code>filesize</code> (integer), <code>deps</code> (list column, see
+"Package dependency tables" below), <code>sources</code> (list of character vectors),
+<code>remote</code> (list), <code>error</code> (list), <code>metadata</code> (list), <code>dep_types</code> (list).
+<div class="section">
+<h3 id="package-dependency-tables">Package dependency tables<a class="anchor" aria-label="anchor" href="#package-dependency-tables"></a></h3><p>A package dependency tables in the <code>deps</code> list column have five columns
+currently:</p><ul><li><p><code>ref</code>: the package ref of the dependency.</p></li>
+<li><p><code>type</code>: the dependency type, in all lowercase. I.e. <code>imports</code>,
+<code>suggests</code>, etc.</p></li>
+<li><p><code>package</code>: package name of the dependency.</p></li>
+<li><p><code>op</code>: operator for version requirements, e.g. <code>&gt;=</code>.</p></li>
+<li><p><code>version</code>: version number, for version requirements.</p></li>
+</ul></div>
     </div>
     <div class="section level2">
     <h2 id="examples">Examples<a class="anchor" aria-label="anchor" href="#examples"></a></h2>
@@ -159,7 +225,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/pkg_history.html b/dev/reference/pkg_history.html
index a9bd56176..a30af7b54 100644
--- a/dev/reference/pkg_history.html
+++ b/dev/reference/pkg_history.html
@@ -99,7 +99,7 @@ <h2 id="examples">Examples<a class="anchor" aria-label="anchor" href="#examples"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/pkg_install.html b/dev/reference/pkg_install.html
index 60c2a35a2..ed4bcdcba 100644
--- a/dev/reference/pkg_install.html
+++ b/dev/reference/pkg_install.html
@@ -267,7 +267,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/pkg_name_check.html b/dev/reference/pkg_name_check.html
index 262266cb8..237d93653 100644
--- a/dev/reference/pkg_name_check.html
+++ b/dev/reference/pkg_name_check.html
@@ -159,7 +159,7 @@ <h2 id="examples">Examples<a class="anchor" aria-label="anchor" href="#examples"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/pkg_remove.html b/dev/reference/pkg_remove.html
index 330a669c8..2e405d640 100644
--- a/dev/reference/pkg_remove.html
+++ b/dev/reference/pkg_remove.html
@@ -84,7 +84,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/pkg_search.html b/dev/reference/pkg_search.html
index 0fdeabdd1..7b2dd4596 100644
--- a/dev/reference/pkg_search.html
+++ b/dev/reference/pkg_search.html
@@ -154,7 +154,7 @@ <h2 id="examples">Examples<a class="anchor" aria-label="anchor" href="#examples"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/pkg_status.html b/dev/reference/pkg_status.html
index 701b86766..0fc683f9a 100644
--- a/dev/reference/pkg_status.html
+++ b/dev/reference/pkg_status.html
@@ -60,7 +60,51 @@ <h2 id="arguments">Arguments<a class="anchor" aria-label="anchor" href="#argumen
     <div class="section level2">
     <h2 id="value">Value<a class="anchor" aria-label="anchor" href="#value"></a></h2>
     <p>Data frame with data about installations of <code>pkg</code>.
-include_docs("pkgdepends", "docs/lib-status-return.rds")</p>
+It has always has columns:
+</p><ul><li><p><code>biocviews</code>: the corresponding field from <code>DESCRIPTION</code>, it must be
+present for all Bioconductor packages, other packages typically don't
+have it.</p></li>
+<li><p><code>built</code>: the <code>Built</code> field from <code>DESCRIPTION</code>.</p></li>
+<li><p><code>depends</code>, <code>suggests</code>, <code>Imports</code>, <code>linkingto</code>, <code>enhances</code>: the corresponding
+fields from the <code>DESCRIPTION</code> files.</p></li>
+<li><p><code>deps</code>: A list or data frames, the dependencies of the package. It has
+columns: <code>ref</code>, <code>type</code> (dependency type in lowercase), <code>package</code>
+(dependent package, or <code>R</code>), <code>op</code> and <code>version</code>, for last two are for
+version requirement. <code>op</code> can be <code>&gt;=</code>, <code>&gt;</code>, <code>==</code> or <code>&lt;=</code>, although the
+only the first one is common in practice.</p></li>
+<li><p><code>library</code>: path to the package library containing the package.</p></li>
+<li><p><code>license</code>: from <code>DESCRIPTION</code>.</p></li>
+<li><p><code>md5sum</code>: from <code>DESCTIPTION</code>, typically <code>NA</code>, except on Windows.</p></li>
+<li><p><code>needscompilation</code>: from <code>DESCRIPTION</code>, this column is logical.</p></li>
+<li><p><code>package</code>: package name.</p></li>
+<li><p><code>platform</code>: from the <code>Built</code> field in <code>DESCRIPTION</code>, the current platform
+if missing from <code>DESCRIPTION</code>.</p></li>
+<li><p><code>priority</code>: from <code>DESCRIPTION</code>, usually <code>base</code>, <code>recommended</code>, or missing.</p></li>
+<li><p><code>ref</code>: the corresponding <code>installed::*</code> package reference.</p></li>
+<li><p><code>repository</code>: from <code>DESCRIPTION</code>. For packages from a CRAN repository this
+is <code>CRAN</code>, some other repositories, e.g. R-universe adds the repository
+URL here.</p></li>
+<li><p><code>repotype</code>: <code>cran</code>, <code>bioc</code> or missing.</p></li>
+<li><p><code>rversion</code>: from the <code>Built</code> field. If no such field, then the current
+R version.</p></li>
+<li><p><code>sysreqs</code>: the <code>SystemRequirements</code> field from <code>DESCRIPTION</code>.</p></li>
+<li><p><code>title</code>: package title.</p></li>
+<li><p><code>type</code>: always <code>installed</code>.</p></li>
+<li><p><code>version</code>: package version (as string).</p></li>
+</ul>Most of these columns are unchanged from <code>DESCRIPTION</code>, but
+pak also adds a couple.
+<div class="section">
+<h3 id="notes-">Notes:<a class="anchor" aria-label="anchor" href="#notes-"></a></h3><ul><li><p>In addition, it also has all <code>remote*</code> and <code>config/needs/*</code> entries from
+the <code>DESCRIPTION</code> files. (Case insensitive.)</p></li>
+<li><p>All columns are of type <code>character</code>, except for <code>needscompilation</code>, which
+is logical and <code>deps</code>, which is a list columns.</p></li>
+<li><p>If an entry is missing for a package, it is set to <code>NA</code>.</p></li>
+<li><p>Note that column names are lowercase, even if the corresponding entries
+are not in <code>DESCRIPTION</code>.</p></li>
+<li><p>The order of the columns is not deterministic, so don't assume any order.</p></li>
+<li><p>Additional columns might be present, these are internal for
+pak and should not be used in user code.</p></li>
+</ul></div>
     </div>
     <div class="section level2">
     <h2 id="examples">Examples<a class="anchor" aria-label="anchor" href="#examples"></a></h2>
@@ -107,7 +151,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/pkg_sysreqs.html b/dev/reference/pkg_sysreqs.html
index 95729e97a..d8fc2eac5 100644
--- a/dev/reference/pkg_sysreqs.html
+++ b/dev/reference/pkg_sysreqs.html
@@ -84,9 +84,12 @@ <h2 id="arguments">Arguments<a class="anchor" aria-label="anchor" href="#argumen
 <dt id="arg-sysreqs-platform">sysreqs_platform<a class="anchor" aria-label="anchor" href="#arg-sysreqs-platform"></a></dt>
 <dd><p>System requirements platform.</p>
 <p>If <code>NULL</code>, then the <code>sysreqs_platform</code>
-man_config_link("configuration option") is used, which defaults to
+<a href="pak-config.html">configuration option</a>
+ is used, which defaults to
 the current platform.</p>
-<p>Set this option if to one of platforms() if .packageName
+<p>Set this option if to one of <code>"alpine"</code>, <code>"centos"</code>, <code>"debian"</code>, <code>"fedora"</code>, <code>"opensuse"</code>, <code>"redhat"</code>, <code>"redhat"</code>, <code>"redhat"</code>, <code>"rhel"</code>, <code>"rhel"</code>, <code>"rhel"</code>, <code>"rhel"</code>, <code>"rhel"</code>, <code>"rhel"</code>, <code>"rhel"</code>, <code>"rhel"</code>, <code>"rhel"</code>, <code>"rhel"</code>, <code>"rhel"</code>, <code>"rockylinux"</code>, <code>"sle"</code>, <code>"ubuntu"</code>
+ if pak
+
 fails to correctly detect your platform or if you want to see the system
 requirements for a different platform.</p></dd>
 
@@ -148,7 +151,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/ppm_has_binaries.html b/dev/reference/ppm_has_binaries.html
index cba041489..cb894955c 100644
--- a/dev/reference/ppm_has_binaries.html
+++ b/dev/reference/ppm_has_binaries.html
@@ -78,7 +78,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/ppm_platforms.html b/dev/reference/ppm_platforms.html
index c8a6bd8b8..d63c12afd 100644
--- a/dev/reference/ppm_platforms.html
+++ b/dev/reference/ppm_platforms.html
@@ -83,7 +83,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/ppm_r_versions.html b/dev/reference/ppm_r_versions.html
index 2dd52c57c..f83166382 100644
--- a/dev/reference/ppm_r_versions.html
+++ b/dev/reference/ppm_r_versions.html
@@ -78,7 +78,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/ppm_repo_url.html b/dev/reference/ppm_repo_url.html
index 2c8a12e84..7cec76a6e 100644
--- a/dev/reference/ppm_repo_url.html
+++ b/dev/reference/ppm_repo_url.html
@@ -101,7 +101,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/ppm_snapshots.html b/dev/reference/ppm_snapshots.html
index d7f0e355a..15cff44b2 100644
--- a/dev/reference/ppm_snapshots.html
+++ b/dev/reference/ppm_snapshots.html
@@ -95,7 +95,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/repo_add.html b/dev/reference/repo_add.html
index ea2950e79..a804a4e19 100644
--- a/dev/reference/repo_add.html
+++ b/dev/reference/repo_add.html
@@ -179,7 +179,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/repo_get.html b/dev/reference/repo_get.html
index d98f96fb0..56b679e6e 100644
--- a/dev/reference/repo_get.html
+++ b/dev/reference/repo_get.html
@@ -109,7 +109,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/repo_status.html b/dev/reference/repo_status.html
index 702fa02d7..6737a28a3 100644
--- a/dev/reference/repo_status.html
+++ b/dev/reference/repo_status.html
@@ -187,7 +187,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/sysreqs.html b/dev/reference/sysreqs.html
index 82294a219..f23388c11 100644
--- a/dev/reference/sysreqs.html
+++ b/dev/reference/sysreqs.html
@@ -665,7 +665,7 @@ <h3 id="macos">macOS<a class="anchor" aria-label="anchor" href="#macos"></a></h3
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/sysreqs_check_installed.html b/dev/reference/sysreqs_check_installed.html
index d4e464a8f..38d5121ce 100644
--- a/dev/reference/sysreqs_check_installed.html
+++ b/dev/reference/sysreqs_check_installed.html
@@ -84,7 +84,8 @@ <h2 id="value">Value<a class="anchor" aria-label="anchor" href="#value"></a></h2
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>These functions use the <code>sysreqs_platform</code> configuration option,
-see man_config_link("Configuration"). Set this if
+see <a href="pak-config.html">Configuration</a>
+. Set this if
 pak does not detect your platform correctly.</p>
     </div>
     <div class="section level2">
@@ -105,23 +106,26 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu">sysreqs_check_installed</span><span class="op">(</span><span class="op">)</span></span></span>
 <span class="r-out co"><span class="r-pr">#&gt;</span> system package       installed required by                   </span>
 <span class="r-out co"><span class="r-pr">#&gt;</span> --------------       --        -----------                   </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> git                  <span style="color: #00BB00;">✔</span>         gitcreds                      </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> gsfonts              <span style="color: #00BB00;">✔</span>         magick                        </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> libcurl4-openssl-dev <span style="color: #00BB00;">✔</span>         curl                          </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> libfontconfig1-dev   <span style="color: #00BB00;">✔</span>         systemfonts                   </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> libfreetype6-dev     <span style="color: #00BB00;">✔</span>         ragg, systemfonts, textshaping</span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> libfribidi-dev       <span style="color: #00BB00;">✔</span>         textshaping                   </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> libharfbuzz-dev      <span style="color: #00BB00;">✔</span>         textshaping                   </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> libicu-dev           <span style="color: #00BB00;">✔</span>         stringi                       </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> libjpeg-dev          <span style="color: #00BB00;">✔</span>         ragg                          </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> libmagick++-dev      <span style="color: #00BB00;">✔</span>         magick                        </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> libnode-dev          <span style="color: #00BB00;">✔</span>         V8                            </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> libpng-dev           <span style="color: #00BB00;">✔</span>         ragg                          </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> libssl-dev           <span style="color: #00BB00;">✔</span>         curl, openssl                 </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> libtiff-dev          <span style="color: #00BB00;">✔</span>         ragg                          </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> libxml2-dev          <span style="color: #00BB00;">✔</span>         xml2                          </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> make                 <span style="color: #00BB00;">✔</span>         fs, sass                      </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> pandoc               <span style="color: #00BB00;">✔</span>         knitr, pkgdown, rmarkdown     </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> git                  ✔         credentials, gitcreds         </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> gsfonts              ✔         magick                        </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> libcurl4-openssl-dev ✔         curl                          </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> libfontconfig1-dev   ✔         systemfonts                   </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> libfreetype6-dev     ✔         ragg, systemfonts, textshaping</span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> libfribidi-dev       ✔         textshaping                   </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> libgit2-dev          ✔         gert                          </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> libharfbuzz-dev      ✔         textshaping                   </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> libicu-dev           ✔         stringi                       </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> libjpeg-dev          ✔         ragg                          </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> libmagick++-dev      ✔         magick                        </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> libnode-dev          ✔         V8                            </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> libpng-dev           ✔         ragg                          </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> libssl-dev           ✔         curl, openssl, PKI            </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> libtiff-dev          ✔         ragg                          </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> libx11-dev           ✔         clipr                         </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> libxml2-dev          ✔         xml2                          </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> make                 ✔         fs, httpuv, rticles, sass     </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> pandoc               ✔         knitr, pkgdown, rmarkdown     </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> zlib1g-dev           ✔         httpuv                        </span>
 </code></pre></div>
     </div>
   </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
@@ -135,7 +139,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/sysreqs_db_list.html b/dev/reference/sysreqs_db_list.html
index 1049af15c..af87150f9 100644
--- a/dev/reference/sysreqs_db_list.html
+++ b/dev/reference/sysreqs_db_list.html
@@ -1,9 +1,11 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>List contents of the system requirements DB, for a platform — sysreqs_db_list • pak</title><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/Source_Sans_Pro-0.4.9/font.css" rel="stylesheet"><link href="../deps/Source_Code_Pro-0.4.9/font.css" rel="stylesheet"><link href="../deps/font-awesome-6.5.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.5.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="List contents of the system requirements DB, for a platform — sysreqs_db_list"><meta name="description" content='It also tries to update the system dependency database, if it is
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>List contents of the system requirements DB, for a platform — sysreqs_db_list • pak</title><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/Source_Sans_Pro-0.4.9/font.css" rel="stylesheet"><link href="../deps/Source_Code_Pro-0.4.9/font.css" rel="stylesheet"><link href="../deps/font-awesome-6.5.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.5.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="List contents of the system requirements DB, for a platform — sysreqs_db_list"><meta name="description" content="It also tries to update the system dependency database, if it is
 outdated. (I.e. older than allowed in the metadata_update_after
-man_config_link("configuration option").'><meta property="og:description" content='It also tries to update the system dependency database, if it is
+configuration option
+."><meta property="og:description" content="It also tries to update the system dependency database, if it is
 outdated. (I.e. older than allowed in the metadata_update_after
-man_config_link("configuration option").'><meta name="robots" content="noindex"><script defer data-domain="/pak.r-lib.org,all.tidyverse.org" src="https://plausible.io/js/plausible.js"></script></head><body>
+configuration option
+."><meta name="robots" content="noindex"><script defer data-domain="/pak.r-lib.org,all.tidyverse.org" src="https://plausible.io/js/plausible.js"></script></head><body>
     <a href="#container" class="visually-hidden-focusable">Skip to content</a>
 
 
@@ -42,7 +44,8 @@ <h1>List contents of the system requirements DB, for a platform</h1>
     <div class="ref-description section level2">
     <p>It also tries to update the system dependency database, if it is
 outdated. (I.e. older than allowed in the <code>metadata_update_after</code>
-man_config_link("configuration option").</p>
+<a href="pak-config.html">configuration option</a>
+.</p>
     </div>
 
     <div class="section level2">
@@ -56,9 +59,11 @@ <h2 id="arguments">Arguments<a class="anchor" aria-label="anchor" href="#argumen
 
 <dl><dt id="arg-sysreqs-platform">sysreqs_platform<a class="anchor" aria-label="anchor" href="#arg-sysreqs-platform"></a></dt>
 <dd><p>System requirements platform. If <code>NULL</code>, then the
-<code>sysreqs_platform</code> man_config_link("configuration option")
+<code>sysreqs_platform</code> <a href="pak-config.html">configuration option</a>
+
 is used, which defaults to the current platform. Set this option if
-.packageName does not detect your platform correctly.</p></dd>
+pak
+ does not detect your platform correctly.</p></dd>
 
 </dl></div>
     <div class="section level2">
@@ -88,16 +93,16 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #949494;"># A data frame: 122 × 5</span></span>
 <span class="r-out co"><span class="r-pr">#&gt;</span>    name       patterns  packages  pre_install post_install</span>
 <span class="r-out co"><span class="r-pr">#&gt;</span>    <span style="color: #949494; font-style: italic;">&lt;chr&gt;</span>      <span style="color: #949494; font-style: italic;">&lt;list&gt;</span>    <span style="color: #949494; font-style: italic;">&lt;list&gt;</span>    <span style="color: #949494; font-style: italic;">&lt;list&gt;</span>      <span style="color: #949494; font-style: italic;">&lt;list&gt;</span>      </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;"> 1</span> QuantLib   <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;NULL&gt;</span>      <span style="color: #949494;">&lt;NULL&gt;</span>      </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;"> 2</span> apparmor   <span style="color: #949494;">&lt;chr [2]&gt;</span> <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;NULL&gt;</span>      <span style="color: #949494;">&lt;NULL&gt;</span>      </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;"> 3</span> atk        <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;NULL&gt;</span>      <span style="color: #949494;">&lt;NULL&gt;</span>      </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;"> 4</span> automake   <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;NULL&gt;</span>      <span style="color: #949494;">&lt;NULL&gt;</span>      </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;"> 5</span> berkeleydb <span style="color: #949494;">&lt;chr [2]&gt;</span> <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;NULL&gt;</span>      <span style="color: #949494;">&lt;NULL&gt;</span>      </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;"> 6</span> blender    <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;NULL&gt;</span>      <span style="color: #949494;">&lt;NULL&gt;</span>      </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;"> 7</span> boost      <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;NULL&gt;</span>      <span style="color: #949494;">&lt;NULL&gt;</span>      </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;"> 8</span> bowtie2    <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;NULL&gt;</span>      <span style="color: #949494;">&lt;NULL&gt;</span>      </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;"> 9</span> bwidget    <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;NULL&gt;</span>      <span style="color: #949494;">&lt;NULL&gt;</span>      </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;">10</span> cairo      <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;NULL&gt;</span>      <span style="color: #949494;">&lt;NULL&gt;</span>      </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;"> 1</span> apparmor   <span style="color: #949494;">&lt;chr [2]&gt;</span> <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;NULL&gt;</span>      <span style="color: #949494;">&lt;NULL&gt;</span>      </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;"> 2</span> atk        <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;NULL&gt;</span>      <span style="color: #949494;">&lt;NULL&gt;</span>      </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;"> 3</span> automake   <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;NULL&gt;</span>      <span style="color: #949494;">&lt;NULL&gt;</span>      </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;"> 4</span> berkeleydb <span style="color: #949494;">&lt;chr [2]&gt;</span> <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;NULL&gt;</span>      <span style="color: #949494;">&lt;NULL&gt;</span>      </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;"> 5</span> blender    <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;NULL&gt;</span>      <span style="color: #949494;">&lt;NULL&gt;</span>      </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;"> 6</span> boost      <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;NULL&gt;</span>      <span style="color: #949494;">&lt;NULL&gt;</span>      </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;"> 7</span> bowtie2    <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;NULL&gt;</span>      <span style="color: #949494;">&lt;NULL&gt;</span>      </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;"> 8</span> bwidget    <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;NULL&gt;</span>      <span style="color: #949494;">&lt;NULL&gt;</span>      </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;"> 9</span> cairo      <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;NULL&gt;</span>      <span style="color: #949494;">&lt;NULL&gt;</span>      </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;">10</span> chrome     <span style="color: #949494;">&lt;chr [2]&gt;</span> <span style="color: #949494;">&lt;chr [1]&gt;</span> <span style="color: #949494;">&lt;chr [3]&gt;</span>   <span style="color: #949494;">&lt;NULL&gt;</span>      </span>
 <span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #949494;"># ℹ 112 more rows</span></span>
 </code></pre></div>
     </div>
@@ -112,7 +117,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/sysreqs_db_match.html b/dev/reference/sysreqs_db_match.html
index 9a55d1d00..b23604dba 100644
--- a/dev/reference/sysreqs_db_match.html
+++ b/dev/reference/sysreqs_db_match.html
@@ -57,9 +57,11 @@ <h2 id="arguments">Arguments<a class="anchor" aria-label="anchor" href="#argumen
 
 <dt id="arg-sysreqs-platform">sysreqs_platform<a class="anchor" aria-label="anchor" href="#arg-sysreqs-platform"></a></dt>
 <dd><p>System requirements platform. If <code>NULL</code>, then the
-<code>sysreqs_platform</code> man_config_link("configuration option")
+<code>sysreqs_platform</code> <a href="pak-config.html">configuration option</a>
+
 is used, which defaults to the current platform. Set this option if
-.packageName does not detect your platform correctly.</p></dd>
+pak
+ does not detect your platform correctly.</p></dd>
 
 </dl></div>
     <div class="section level2">
@@ -122,7 +124,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/sysreqs_db_update.html b/dev/reference/sysreqs_db_update.html
index e85ff9186..fa3faeb1a 100644
--- a/dev/reference/sysreqs_db_update.html
+++ b/dev/reference/sysreqs_db_update.html
@@ -47,7 +47,8 @@ <h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage">
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>If the the cached copy is recent, then no update is attempted. See the
-<code>metadata_update_after</code> man_config_link("configuration option").</p>
+<code>metadata_update_after</code> <a href="pak-config.html">configuration option</a>
+.</p>
     </div>
     <div class="section level2">
     <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"></a></h2>
@@ -72,7 +73,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/sysreqs_is_supported.html b/dev/reference/sysreqs_is_supported.html
index ca659785d..dcde25371 100644
--- a/dev/reference/sysreqs_is_supported.html
+++ b/dev/reference/sysreqs_is_supported.html
@@ -50,9 +50,11 @@ <h2 id="arguments">Arguments<a class="anchor" aria-label="anchor" href="#argumen
 
 <dl><dt id="arg-sysreqs-platform">sysreqs_platform<a class="anchor" aria-label="anchor" href="#arg-sysreqs-platform"></a></dt>
 <dd><p>System requirements platform. If <code>NULL</code>, then the
-<code>sysreqs_platform</code> man_config_link("configuration option")
+<code>sysreqs_platform</code> <a href="pak-config.html">configuration option</a>
+
 is used, which defaults to the current platform. Set this option if
-.packageName does not detect your platform correctly.</p></dd>
+pak
+ does not detect your platform correctly.</p></dd>
 
 </dl></div>
     <div class="section level2">
@@ -62,7 +64,8 @@ <h2 id="value">Value<a class="anchor" aria-label="anchor" href="#value"></a></h2
     <div class="section level2">
     <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"></a></h2>
     <div class="dont-index"><p>The <code>sysreqs_platform</code>
-man_config_link("configuration option").</p>
+<a href="pak-config.html">configuration option</a>
+.</p>
 <p>Other system requirements functions:
 <code><a href="pkg_sysreqs.html">pkg_sysreqs</a>()</code>,
 <code><a href="sysreqs_check_installed.html">sysreqs_check_installed</a>()</code>,
@@ -90,7 +93,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/sysreqs_list_system_packages.html b/dev/reference/sysreqs_list_system_packages.html
index 74478266b..a85dc68bb 100644
--- a/dev/reference/sysreqs_list_system_packages.html
+++ b/dev/reference/sysreqs_list_system_packages.html
@@ -57,7 +57,8 @@ <h2 id="value">Value<a class="anchor" aria-label="anchor" href="#value"></a></h2
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>This function uses the <code>sysreqs_platform</code> configuration option,
-see man_config_link("Configuration"). Set this if
+see <a href="pak-config.html">Configuration</a>
+. Set this if
 pak does not detect your platform correctly.</p>
     </div>
     <div class="section level2">
@@ -101,7 +102,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/sysreqs_platforms.html b/dev/reference/sysreqs_platforms.html
index 750058081..1852f81cf 100644
--- a/dev/reference/sysreqs_platforms.html
+++ b/dev/reference/sysreqs_platforms.html
@@ -99,7 +99,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/reference/system_r_platform.html b/dev/reference/system_r_platform.html
index 68b88b81a..da724da31 100644
--- a/dev/reference/system_r_platform.html
+++ b/dev/reference/system_r_platform.html
@@ -122,7 +122,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.1.9000.</p>
 </div>
 
   </div></footer></body></html>
diff --git a/dev/search.json b/dev/search.json
index de3f6dc6b..706751183 100644
--- a/dev/search.json
+++ b/dev/search.json
@@ -1 +1 @@
-[{"path":[]},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"our-pledge","dir":"","previous_headings":"","what":"Our Pledge","title":"Contributor Covenant Code of Conduct","text":"members, contributors, leaders pledge make participation community harassment-free experience everyone, regardless age, body size, visible invisible disability, ethnicity, sex characteristics, gender identity expression, level experience, education, socio-economic status, nationality, personal appearance, race, caste, color, religion, sexual identity orientation. pledge act interact ways contribute open, welcoming, diverse, inclusive, healthy community.","code":""},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"our-standards","dir":"","previous_headings":"","what":"Our Standards","title":"Contributor Covenant Code of Conduct","text":"Examples behavior contributes positive environment community include: Demonstrating empathy kindness toward people respectful differing opinions, viewpoints, experiences Giving gracefully accepting constructive feedback Accepting responsibility apologizing affected mistakes, learning experience Focusing best just us individuals, overall community Examples unacceptable behavior include: use sexualized language imagery, sexual attention advances kind Trolling, insulting derogatory comments, personal political attacks Public private harassment Publishing others’ private information, physical email address, without explicit permission conduct reasonably considered inappropriate professional setting","code":""},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"enforcement-responsibilities","dir":"","previous_headings":"","what":"Enforcement Responsibilities","title":"Contributor Covenant Code of Conduct","text":"Community leaders responsible clarifying enforcing standards acceptable behavior take appropriate fair corrective action response behavior deem inappropriate, threatening, offensive, harmful. Community leaders right responsibility remove, edit, reject comments, commits, code, wiki edits, issues, contributions aligned Code Conduct, communicate reasons moderation decisions appropriate.","code":""},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"scope","dir":"","previous_headings":"","what":"Scope","title":"Contributor Covenant Code of Conduct","text":"Code Conduct applies within community spaces, also applies individual officially representing community public spaces. Examples representing community include using official e-mail address, posting via official social media account, acting appointed representative online offline event.","code":""},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"enforcement","dir":"","previous_headings":"","what":"Enforcement","title":"Contributor Covenant Code of Conduct","text":"Instances abusive, harassing, otherwise unacceptable behavior may reported community leaders responsible enforcement codeofconduct@posit.co. complaints reviewed investigated promptly fairly. community leaders obligated respect privacy security reporter incident.","code":""},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"enforcement-guidelines","dir":"","previous_headings":"","what":"Enforcement Guidelines","title":"Contributor Covenant Code of Conduct","text":"Community leaders follow Community Impact Guidelines determining consequences action deem violation Code Conduct:","code":""},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"id_1-correction","dir":"","previous_headings":"Enforcement Guidelines","what":"1. Correction","title":"Contributor Covenant Code of Conduct","text":"Community Impact: Use inappropriate language behavior deemed unprofessional unwelcome community. Consequence: private, written warning community leaders, providing clarity around nature violation explanation behavior inappropriate. public apology may requested.","code":""},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"id_2-warning","dir":"","previous_headings":"Enforcement Guidelines","what":"2. Warning","title":"Contributor Covenant Code of Conduct","text":"Community Impact: violation single incident series actions. Consequence: warning consequences continued behavior. interaction people involved, including unsolicited interaction enforcing Code Conduct, specified period time. includes avoiding interactions community spaces well external channels like social media. Violating terms may lead temporary permanent ban.","code":""},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"id_3-temporary-ban","dir":"","previous_headings":"Enforcement Guidelines","what":"3. Temporary Ban","title":"Contributor Covenant Code of Conduct","text":"Community Impact: serious violation community standards, including sustained inappropriate behavior. Consequence: temporary ban sort interaction public communication community specified period time. public private interaction people involved, including unsolicited interaction enforcing Code Conduct, allowed period. Violating terms may lead permanent ban.","code":""},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"id_4-permanent-ban","dir":"","previous_headings":"Enforcement Guidelines","what":"4. Permanent Ban","title":"Contributor Covenant Code of Conduct","text":"Community Impact: Demonstrating pattern violation community standards, including sustained inappropriate behavior, harassment individual, aggression toward disparagement classes individuals. Consequence: permanent ban sort public interaction within community.","code":""},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"attribution","dir":"","previous_headings":"","what":"Attribution","title":"Contributor Covenant Code of Conduct","text":"Code Conduct adapted Contributor Covenant, version 2.1, available https://www.contributor-covenant.org/version/2/1/code_of_conduct.html. Community Impact Guidelines inspired [Mozilla’s code conduct enforcement ladder][https://github.com/mozilla/inclusion]. answers common questions code conduct, see FAQ https://www.contributor-covenant.org/faq. Translations available https://www.contributor-covenant.org/translations.","code":""},{"path":"https://pak.r-lib.org/dev/authors.html","id":null,"dir":"","previous_headings":"","what":"Authors","title":"Authors and Citation","text":"Gábor Csárdi. Author, maintainer. Jim Hester. Author. . Copyright holder, funder. Winston Chang. Contributor.           R6, callr, processx Ascent Digital Services. Copyright holder, funder.           callr, processx Hadley Wickham. Contributor, copyright holder.           cli, curl, pkgbuild Jeroen Ooms. Contributor.           curl, jsonlite Maëlle Salmon. Contributor.           desc, pkgsearch Duncan Temple Lang. Contributor.           jsonlite Lloyd Hilaiel. Copyright holder.           jsonlite Michel Berkelaar lpSolve authors. Contributor.           lpSolve R Consortium. Funder.           pkgsearch Jay Loden. Contributor.           ps Dave Daeschler. Contributor.           ps Giampaolo Rodola. Contributor.           ps Kuba Podgórski. Contributor.           zip Rich Geldreich. Contributor.           zip","code":""},{"path":"https://pak.r-lib.org/dev/authors.html","id":"citation","dir":"","previous_headings":"","what":"Citation","title":"Authors and Citation","text":"Csárdi G, Hester J (2024). pak: Another Approach Package Installation. R package version 0.8.0.9000, https://github.com/r-lib/pak, https://pak.r-lib.org/.","code":"@Manual{,   title = {pak: Another Approach to Package Installation},   author = {Gábor Csárdi and Jim Hester},   year = {2024},   note = {R package version 0.8.0.9000, https://github.com/r-lib/pak},   url = {https://pak.r-lib.org/}, }"},{"path":"https://pak.r-lib.org/dev/index.html","id":"pak","dir":"","previous_headings":"","what":"Another Approach to Package Installation","title":"Another Approach to Package Installation","text":"Fresh Approach R Package Installation pak installs R packages CRAN, Bioconductor, GitHub, URLs, git repositories, local files directories. alternative install.packages() devtools::install_github(). pak fast, safe convenient. 🚀 Short tour 🔗 Quick links (start doubt!) ✨ Features ⬇️ Installation 📘 License","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/index.html","id":"install-or-update-packages-from-cran-or-bioconductor","dir":"","previous_headings":"🚀 Short tour","what":"Install or update packages from CRAN or Bioconductor","title":"Another Approach to Package Installation","text":"","code":"pak::pkg_install(\"tibble\") #> ✔ Loading metadata database ... done #> #> → Will install 11 packages. #> → Will download 11 CRAN packages (4.55 MB). #> + cli         3.6.3 [bld][cmp][dl] (568.16 kB) #> + fansi       1.0.6 [bld][cmp][dl] (482.48 kB) #> + glue        1.8.0 [bld][cmp][dl] (126.68 kB) #> + lifecycle   1.0.4 [bld][dl] (107.66 kB) #> + magrittr    2.0.3 [bld][cmp][dl] (267.07 kB) #> + pillar      1.9.0 [bld][dl] (444.53 kB) #> + pkgconfig   2.0.3 [bld][dl] (6.08 kB) #> + rlang       1.1.4 [bld][cmp][dl] (767.04 kB) #> + tibble      3.2.1 [bld][cmp][dl] (565.98 kB) #> + utf8        1.2.4 [bld][cmp][dl] (241.08 kB) #> + vctrs       0.6.5 [bld][cmp][dl] (969.07 kB) #> #> ℹ Getting 11 pkgs (4.55 MB) #> ✔ Got pkgconfig 2.0.3 (source) (6.08 kB) #> ✔ Got glue 1.8.0 (source) (126.68 kB) #> ✔ Got magrittr 2.0.3 (source) (267.07 kB) #> ✔ Got cli 3.6.3 (source) (568.16 kB) #> ✔ Got fansi 1.0.6 (source) (482.48 kB) #> ✔ Got tibble 3.2.1 (source) (565.98 kB) #> ✔ Got lifecycle 1.0.4 (source) (107.66 kB) #> ✔ Got utf8 1.2.4 (source) (241.08 kB) #> ✔ Got rlang 1.1.4 (source) (767.04 kB) #> ✔ Got pillar 1.9.0 (source) (444.53 kB) #> ✔ Got vctrs 0.6.5 (source) (969.07 kB) #> ℹ Building cli 3.6.3 #> ℹ Building fansi 1.0.6 #> ℹ Building glue 1.8.0 #> ℹ Building magrittr 2.0.3 #> ✔ Built magrittr 2.0.3 (1.9s) #> ℹ Building pkgconfig 2.0.3 #> ✔ Built glue 1.8.0 (2.5s) #> ℹ Building rlang 1.1.4 #> ✔ Built pkgconfig 2.0.3 (1.3s) #> ℹ Building utf8 1.2.4 #> ✔ Built fansi 1.0.6 (6.3s) #> ✔ Installed fansi 1.0.6  (44ms) #> ✔ Installed glue 1.8.0  (39ms) #> ✔ Installed magrittr 2.0.3  (40ms) #> ✔ Installed pkgconfig 2.0.3  (29ms) #> ✔ Built utf8 1.2.4 (5s) #> ✔ Installed utf8 1.2.4  (1s) #> ✔ Built cli 3.6.3 (12.3s) #> ✔ Installed cli 3.6.3  (41ms) #> ✔ Built rlang 1.1.4 (12.6s) #> ✔ Installed rlang 1.1.4  (40ms) #> ℹ Building lifecycle 1.0.4 #> ✔ Built lifecycle 1.0.4 (1.4s) #> ✔ Installed lifecycle 1.0.4  (1s) #> ℹ Building vctrs 0.6.5 #> ✔ Built vctrs 0.6.5 (15.8s) #> ✔ Installed vctrs 0.6.5  (46ms) #> ℹ Building pillar 1.9.0 #> ✔ Built pillar 1.9.0 (3.3s) #> ✔ Installed pillar 1.9.0  (1s) #> ℹ Building tibble 3.2.1 #> ✔ Built tibble 3.2.1 (2.9s) #> ✔ Installed tibble 3.2.1  (1s) #> ✔ 1 pkg + 10 deps: added 11, dld 11 (4.55 MB) [49.9s]"},{"path":"https://pak.r-lib.org/dev/index.html","id":"install-packages-from-github","dir":"","previous_headings":"🚀 Short tour","what":"Install packages from GitHub","title":"Another Approach to Package Installation","text":"","code":"pak::pkg_install(\"tidyverse/tibble\") #> #> → Will update 1 package. #> → The package (0 B) is cached. #> + tibble 3.2.1 → 3.2.1.9040 [bld][cmp] (GitHub: 7a17e07) #> #> ℹ No downloads are needed, 1 pkg is cached #> ✔ Got tibble 3.2.1.9040 (source) (5.26 MB) #> ℹ Packaging tibble 3.2.1.9040 #> ✔ Packaged tibble 3.2.1.9040 (1.2s) #> ℹ Building tibble 3.2.1.9040 #> ✔ Built tibble 3.2.1.9040 (2.8s) #> ✔ Installed tibble 3.2.1.9040 (github::tidyverse/tibble@7a17e07) (1s) #> ✔ 1 pkg + 10 deps: kept 10, upd 1, dld 1 (NA B) [9.1s]"},{"path":"https://pak.r-lib.org/dev/index.html","id":"look-up-dependencies","dir":"","previous_headings":"🚀 Short tour","what":"Look up dependencies","title":"Another Approach to Package Installation","text":"","code":"pak::pkg_deps_tree(\"tibble\") #> tibble 3.2.1 [new][bld][cmp] #> ├─fansi 1.0.6 [new][bld][cmp] #> ├─lifecycle 1.0.4 [new][bld] #> │ ├─cli 3.6.3 [new][bld][cmp] #> │ ├─glue 1.8.0 [new][bld][cmp] #> │ └─rlang 1.1.4 [new][bld][cmp] #> ├─magrittr 2.0.3 [new][bld][cmp] #> ├─pillar 1.9.0 [new][bld] #> │ ├─cli #> │ ├─fansi #> │ ├─glue #> │ ├─lifecycle #> │ ├─rlang #> │ ├─utf8 1.2.4 [new][bld][cmp] #> │ └─vctrs 0.6.5 [new][bld][cmp] #> │   ├─cli #> │   ├─glue #> │   ├─lifecycle #> │   └─rlang #> ├─pkgconfig 2.0.3 [new][bld] #> ├─rlang #> └─vctrs #> #> Key:  [new] new | [bld] build | [cmp] compile"},{"path":"https://pak.r-lib.org/dev/index.html","id":"explain-dependencies","dir":"","previous_headings":"🚀 Short tour","what":"Explain dependencies","title":"Another Approach to Package Installation","text":"","code":"pak::pkg_deps_explain(\"tibble\", \"rlang\") #> tibble -> lifecycle -> rlang #> tibble -> pillar -> lifecycle -> rlang #> tibble -> pillar -> rlang #> tibble -> pillar -> vctrs -> lifecycle -> rlang #> tibble -> pillar -> vctrs -> rlang #> tibble -> rlang #> tibble -> vctrs -> lifecycle -> rlang #> tibble -> vctrs -> rlang"},{"path":"https://pak.r-lib.org/dev/index.html","id":"install-a-local-package-and-its-dependencies","dir":"","previous_headings":"🚀 Short tour","what":"Install a local package and its dependencies","title":"Another Approach to Package Installation","text":"","code":"pak::local_install(\"cli\") #> #> → Will update 1 package. #> → The package (0 B) is cached. #> + cli 3.6.3 → 3.6.3 [bld][cmp] #> #> ℹ No downloads are needed, 1 pkg is cached #> ✔ Got cli 3.6.3 (source) (568.16 kB) #> ℹ Packaging cli 3.6.3 #> ✔ Packaged cli 3.6.3 (959ms) #> ℹ Building cli 3.6.3 #> ✔ Built cli 3.6.3 (7.8s) #> ✔ Installed cli 3.6.3 (local) (34ms) #> ✔ 1 pkg: upd 1, dld 1 (568.16 kB) [9.6s]"},{"path":[]},{"path":"https://pak.r-lib.org/dev/index.html","id":"how-do-i--","dir":"","previous_headings":"🔗 Quick links (start here if in doubt!)","what":"How do I … ?","title":"Another Approach to Package Installation","text":"Start Get Started pak solve specific issues.","code":""},{"path":"https://pak.r-lib.org/dev/index.html","id":"faq","dir":"","previous_headings":"🔗 Quick links (start here if in doubt!)","what":"FAQ","title":"Another Approach to Package Installation","text":"Check list frequently asked questions.","code":""},{"path":"https://pak.r-lib.org/dev/index.html","id":"reference","dir":"","previous_headings":"🔗 Quick links (start here if in doubt!)","what":"Reference","title":"Another Approach to Package Installation","text":"complete reference pak functions complete source information pak.","code":""},{"path":"https://pak.r-lib.org/dev/index.html","id":"i-have-another-question","dir":"","previous_headings":"🔗 Quick links (start here if in doubt!)","what":"I have a(nother) question","title":"Another Approach to Package Installation","text":"Don’t hesitate ask RStudio Community forum. Use pak tag.","code":""},{"path":"https://pak.r-lib.org/dev/index.html","id":"i-would-like-to-report-a-bug","dir":"","previous_headings":"🔗 Quick links (start here if in doubt!)","what":"I would like to report a bug","title":"Another Approach to Package Installation","text":"Head pak issue tracker.","code":""},{"path":"https://pak.r-lib.org/dev/index.html","id":"sparkles-features","dir":"","previous_headings":"","what":"✨ Features","title":"Another Approach to Package Installation","text":"⚡ Fast - parallel downloads installation, caching, etc. 🦺 Safe - dependency solver, system dependency solver, etc. 🏪 Convenient - packages multiple sources, time travel, etc. See complete list awesome features.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/index.html","id":"pre-built-binaries","dir":"","previous_headings":"⬇️ Installation","what":"Pre-built binaries","title":"Another Approach to Package Installation","text":"Install binary build pak repository GitHub: supported following systems: macOS support official CRAN R build. builds, e.g. Homebrew R, supported.","code":"install.packages(\"pak\", repos = sprintf(\"https://r-lib.github.io/p/pak/stable/%s/%s/%s\", .Platform$pkgType, R.Version()$os, R.Version()$arch))"},{"path":"https://pak.r-lib.org/dev/index.html","id":"install-from-cran","dir":"","previous_headings":"⬇️ Installation","what":"Install from CRAN","title":"Another Approach to Package Installation","text":"Install released version package CRAN usual: potentially needs C compiler platforms CRAN binaries packages .","code":"install.packages(\"pak\")"},{"path":"https://pak.r-lib.org/dev/index.html","id":"other-platforms-and-nightly-builds","dir":"","previous_headings":"⬇️ Installation","what":"Other platforms and nightly builds","title":"Another Approach to Package Installation","text":"See installation page!","code":""},{"path":"https://pak.r-lib.org/dev/index.html","id":"blue_book-license","dir":"","previous_headings":"","what":"📘 License","title":"Another Approach to Package Installation","text":"GPL-3 © RStudio","code":""},{"path":"https://pak.r-lib.org/dev/reference/cache.html","id":null,"dir":"Reference","previous_headings":"","what":"Package cache utilities — cache_summary","title":"Package cache utilities — cache_summary","text":"Various utilities inspect clean package cache. See pkgcache package need control package cache.","code":""},{"path":"https://pak.r-lib.org/dev/reference/cache.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Package cache utilities — cache_summary","text":"","code":"cache_summary()  cache_list(...)  cache_delete(...)  cache_clean()"},{"path":"https://pak.r-lib.org/dev/reference/cache.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Package cache utilities — cache_summary","text":"... cache_list() cache_delete(), ... may contain filters, argument name column name. E.g. package, version, etc. Call cache_list() without arguments see available column names. call cache_delete() without arguments, delete cached files.","code":""},{"path":"https://pak.r-lib.org/dev/reference/cache.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Package cache utilities — cache_summary","text":"cache_summary() returns list elements: cachepath: absolute path package cache files: number files (packages) cache size: total size package cache bytes cache_list() returns data frame data cache. cache_delete() returns nothing. cache_clean() returns nothing.","code":""},{"path":"https://pak.r-lib.org/dev/reference/cache.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Package cache utilities — cache_summary","text":"cache_summary() returns summary package cache. cache_list() lists (default), subset packages package cache. cache_delete() deletes files cache. cache_clean() deletes files cache.","code":""},{"path":"https://pak.r-lib.org/dev/reference/cache.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Package cache utilities — cache_summary","text":"","code":"cache_summary() #> $cachepath #> [1] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/pkg\" #> #> $files #> [1] 483 #> #> $size #> [1] 654662486 #> cache_list() #> # A data frame: 483 × 11 #>    fullpath       path  package url   etag  sha256 version platf…¹ built #>    <chr>          <chr> <chr>   <chr> <chr> <chr>  <chr>   <chr>   <int> #>  1 /Users/gaborc… arch… NA      http… \"\\\"1… 0c8f0… NA      NA         NA #>  2 /Users/gaborc… bin/… evalua… http… \"\\\"1… 08a39… 0.17    aarch6…    NA #>  3 /Users/gaborc… bin/… crayon  http… \"\\\"2… 1e6d5… 1.5.2   aarch6…    NA #>  4 /Users/gaborc… bin/… common… http… \"\\\"4… 47b4a… 1.8.1   aarch6…    NA #>  5 /Users/gaborc… bin/… curl    http… \"\\\"b… 7b8ba… 4.3.3   aarch6…    NA #>  6 /Users/gaborc… bin/… tinytex http… \"\\\"2… 7e9ba… 0.42    aarch6…    NA #>  7 /Users/gaborc… bin/… jsonli… http… \"\\\"1… 68e59… 1.8.2   aarch6…    NA #>  8 /Users/gaborc… bin/… lifecy… http… \"\\\"1… 7ce27… 1.0.3   aarch6…    NA #>  9 /Users/gaborc… bin/… vctrs   http… \"\\\"1… c3a69… 0.4.2   aarch6…    NA #> 10 /Users/gaborc… src/… pkgcac… NA     NA   9b70a… NA      NA          0 #> # … with 473 more rows, 2 more variables: vignettes <int>, #> #   rversion <chr>, and abbreviated variable name ¹​platform cache_list(package = \"recipes\") #> # A data frame: 1 × 11 #>   fullp…¹ path  package url   etag  sha256 version platf…² built vigne…³ #>   <chr>   <chr> <chr>   <chr> <chr> <chr>  <chr>   <chr>   <int>   <int> #> 1 /Users… bin/… recipes http… \"\\\"1… e281e… 1.0.2   aarch6…    NA      NA #> # … with 1 more variable: rversion <chr>, and abbreviated variable #> #   names ¹​fullpath, ²​platform, ³​vignettes cache_list(platform = \"source\") #> # A data frame: 69 × 11 #>    fullpath       path  package url   etag  sha256 version platf…¹ built #>    <chr>          <chr> <chr>   <chr> <chr> <chr>  <chr>   <chr>   <int> #>  1 /Users/gaborc… src/… crayon  http… \"\\\"9… 70a9a… 1.5.2   source     NA #>  2 /Users/gaborc… src/… zip     http… \"\\\"1… 14873… 2.2.1   source     NA #>  3 /Users/gaborc… src/… curl    http… \"\\\"a… 3567b… 4.3.3   source     NA #>  4 /Users/gaborc… src/… rlang   http… \"\\\"b… e6973… 1.0.6   source     NA #>  5 /Users/gaborc… src/… openssl http… \"\\\"1… 7cde9… 2.0.3   source     NA #>  6 /Users/gaborc… src/… tinytex http… \"\\\"8… 205f7… 0.42    source     NA #>  7 /Users/gaborc… src/… evalua… http… \"\\\"6… 49c74… 0.17    source     NA #>  8 /Users/gaborc… src/… Rcpp    http… \"\\\"2… 807ce… 1.0.9   source     NA #>  9 /Users/gaborc… src/… knitr   http… \"\\\"d… 9b8f9… 1.40    source     NA #> 10 /Users/gaborc… src/… lpSolve http… \"\\\"7… f7258… 5.6.17  source     NA #> # … with 59 more rows, 2 more variables: vignettes <int>, #> #   rversion <chr>, and abbreviated variable name ¹​platform cache_delete(package = \"knitr\") cache_delete(platform = \"macos\") cache_clean()"},{"path":"https://pak.r-lib.org/dev/reference/faq.html","id":null,"dir":"Reference","previous_headings":"","what":"Frequently Asked Questions — FAQ","title":"Frequently Asked Questions — FAQ","text":"Please take look list asking questions.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/faq.html","id":"how-do-i-reinstall-a-package-","dir":"Reference","previous_headings":"","what":"How do I reinstall a package?","title":"Frequently Asked Questions — FAQ","text":"pak reinstall package, version already installed. Sometimes still want reinstall, e.g. fix broken installation. case can delete package install , use ?reinstall parameter:","code":"pak::pkg_install(\"tibble\") #> #> → Will install 13 packages. #> → All 13 packages (7.68 MB) are cached. #> + cli         3.3.0 #> + crayon      1.5.1 #> + ellipsis    0.3.2 #> + fansi       1.0.3 #> + glue        1.6.2 #> + lifecycle   1.0.1 #> + magrittr    2.0.3 #> + pillar      1.7.0 #> + pkgconfig   2.0.3 #> + rlang       1.0.2 #> + tibble      3.1.7 #> + utf8        1.2.2 #> + vctrs       0.4.1 #> ℹ No downloads are needed, 13 pkgs (7.68 MB) are cached #> ✔ Got utf8 1.2.2 (aarch64-apple-darwin20) (209.24 kB) #> ✔ Installed cli 3.3.0  (76ms) #> ✔ Installed crayon 1.5.1  (87ms) #> ✔ Installed ellipsis 0.3.2  (97ms) #> ✔ Installed fansi 1.0.3  (103ms) #> ✔ Installed glue 1.6.2  (111ms) #> ✔ Installed lifecycle 1.0.1  (153ms) #> ✔ Installed magrittr 2.0.3  (158ms) #> ✔ Installed pillar 1.7.0  (162ms) #> ✔ Installed pkgconfig 2.0.3  (87ms) #> ✔ Installed rlang 1.0.2  (39ms) #> ✔ Installed tibble 3.1.7  (41ms) #> ✔ Installed utf8 1.2.2  (39ms) #> ✔ Installed vctrs 0.4.1  (32ms) #> ✔ 1 pkg + 12 deps: added 13, dld 1 (209.24 kB) [1.8s] pak::pkg_install(\"tibble?reinstall\") #> #> → Will install 1 package. #> → The package (724.32 kB) is cached. #> + tibble   3.1.7 #> ℹ No downloads are needed, 1 pkg (724.32 kB) is cached #> ✔ Installed tibble 3.1.7  (42ms) #> ✔ 1 pkg + 12 deps: kept 11, added 1 [343ms]"},{"path":"https://pak.r-lib.org/dev/reference/faq.html","id":"how-do-i-install-a-dependency-from-a-binary-package","dir":"Reference","previous_headings":"","what":"How do I install a dependency from a binary package","title":"Frequently Asked Questions — FAQ","text":"Sometimes sufficient install binary package older version dependency, instead newer source package potentially needs compilers, system tools libraries. pkg_install() lockfile_create() default upgrade = FALSE, always chooses binaries source packages, use pkg_install() need anything extra. local_install_* functions default upgrade = TRUE, pak() pkg = NULL, need explicitly use upgrade = FALSE.","code":""},{"path":"https://pak.r-lib.org/dev/reference/faq.html","id":"how-do-i-install-a-package-from-source-","dir":"Reference","previous_headings":"","what":"How do I install a package from source?","title":"Frequently Asked Questions — FAQ","text":"force installation source package (instead binary package), use ?source parameter:","code":"pak::pkg_install(\"tibble?source\") #> #> → Will install 1 package. #> → The package (672.34 kB) is cached. #> + tibble   3.1.7 👷🏼‍♀️🔧 #> ℹ No downloads are needed, 1 pkg (672.34 kB) is cached #> ℹ Building tibble 3.1.7 #> ✔ Built tibble 3.1.7 (3.1s) #> ✔ Installed tibble 3.1.7  (35ms) #> ✔ 1 pkg + 12 deps: kept 11, added 1 [4.1s]"},{"path":"https://pak.r-lib.org/dev/reference/faq.html","id":"how-do-i-install-the-latest-version-of-a-dependency-","dir":"Reference","previous_headings":"","what":"How do I install the latest version of a dependency?","title":"Frequently Asked Questions — FAQ","text":"want always install dependency source, want latest version reason, can use source parameter <package>= form: <package>=?source. example install tibble, cli dependency installed source write:","code":"pak::pkg_install(c(\"tibble\", \"cli=?source\")) #> #> → Will install 1 package. #> → The package (540.04 kB) is cached. #> + cli   3.3.0 👷🏽🔧 #> ℹ No downloads are needed, 1 pkg (540.04 kB) is cached #> ℹ Building cli 3.3.0 #> ✔ Built cli 3.3.0 (4.5s) #> ✔ Installed cli 3.3.0  (68ms) #> ✔ 1 pkg + 12 deps: kept 11, added 1 [4.9s]"},{"path":"https://pak.r-lib.org/dev/reference/faq.html","id":"how-do-i-ignore-an-optional-dependency-","dir":"Reference","previous_headings":"","what":"How do I ignore an optional dependency?","title":"Frequently Asked Questions — FAQ","text":"syntax   Note can ignore optional dependencies, .e. packages Suggests Enhances.","code":"pak::pkg_install(   c(\"tibble\", \"DiagrammeR=?ignore\", \"formattable=?ignore\"),   dependencies = TRUE ) #> #> ℹ No downloads are needed #> ✔ 1 pkg + 12 deps: kept 12 [583ms] <packagename>=?ignore"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/faq.html","id":"how-can-i-use-pak-with-renv-","dir":"Reference","previous_headings":"","what":"How can I use pak with renv?","title":"Frequently Asked Questions — FAQ","text":"Since version 1.0.0 renv official support using pak. needs enabled renv.config.pak.enabled option RENV_CONFIG_PAK_ENABLED environment variable set TRUE. information see renv documentation.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":null,"dir":"Reference","previous_headings":"","what":"A list of the most important pak features — Great pak features","title":"A list of the most important pak features — Great pak features","text":"list important pak features.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"parallel-http","dir":"Reference","previous_headings":"","what":"Parallel HTTP","title":"A list of the most important pak features — Great pak features","text":"pak performs HTTP queries concurrently. true downloads package metadata package repositories, resolves packages CRAN, GitHub, URLs, etc, downloads actual package files, etc.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"parallel-installation","dir":"Reference","previous_headings":"","what":"Parallel installation","title":"A list of the most important pak features — Great pak features","text":"pak installs packages concurrently, much dependency graph allows .","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"caching","dir":"Reference","previous_headings":"","what":"Caching","title":"A list of the most important pak features — Great pak features","text":"pak caches metadata package files, need re-download files .","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"plan-installation-up-front","dir":"Reference","previous_headings":"","what":"Plan installation up front","title":"A list of the most important pak features — Great pak features","text":"pak creates installation plan downloading packages. plan unsuccessful, fails without downloading packages.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"auto-install-missing-dependencies","dir":"Reference","previous_headings":"","what":"Auto-install missing dependencies","title":"A list of the most important pak features — Great pak features","text":"requesting installation package, pak makes sure dependencies also installed.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"keeping-binary-packages-up-to-date","dir":"Reference","previous_headings":"","what":"Keeping binary packages up-to-date","title":"A list of the most important pak features — Great pak features","text":"pak automatically discards binary packages cache, new build version available CRAN.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"correct-cran-metadata-errors","dir":"Reference","previous_headings":"","what":"Correct CRAN metadata errors","title":"A list of the most important pak features — Great pak features","text":"pak can correct CRAN's metadata issues, e.g.: New version package released since obtained metadata. macOS binary package available https://mac.r-project.org/ synchronization issue.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"graceful-handling-of-locked-package-dlls-on-windows","dir":"Reference","previous_headings":"","what":"Graceful handling of locked package DLLs on Windows","title":"A list of the most important pak features — Great pak features","text":"pak handles situation locked package DLLs, well possible. detects process locked , offers choice terminating processes. also unloads packages current R session needed.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"pak-keeps-its-own-dependencies-isolated","dir":"Reference","previous_headings":"","what":"pak keeps its own dependencies isolated","title":"A list of the most important pak features — Great pak features","text":"pak keeps dependencies private package library never loads packages. (background processes).","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"pak-comes-as-a-self-contained-binary-package","dir":"Reference","previous_headings":"","what":"pak comes as a self-contained binary package","title":"A list of the most important pak features — Great pak features","text":"common platforms. dependencies, system dependencies, compiler needed. (See also installation manual.)","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"install-packages-from-multiple-sources","dir":"Reference","previous_headings":"","what":"Install packages from multiple sources","title":"A list of the most important pak features — Great pak features","text":"CRAN, Bioconductor GitHub URLs Local files directories.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"ignore-certain-optional-dependencies","dir":"Reference","previous_headings":"","what":"Ignore certain optional dependencies","title":"A list of the most important pak features — Great pak features","text":"pak can ignore certain optional dependencies requested.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"cran-package-file-sizes","dir":"Reference","previous_headings":"","what":"CRAN package file sizes","title":"A list of the most important pak features — Great pak features","text":"pak knows sizes CRAN package files, can estimate much data need download, installation.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"bioconductor-version-detection","dir":"Reference","previous_headings":"","what":"Bioconductor version detection","title":"A list of the most important pak features — Great pak features","text":"pak automatically selects Bioconductor version appropriate R version. need set repositories.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"time-travel-with-ppm","dir":"Reference","previous_headings":"","what":"Time travel with PPM","title":"A list of the most important pak features — Great pak features","text":"pak can use PPM (Posit Public Package Manager) install snapshots CRAN.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"pak-can-install-dependencies-of-local-packages","dir":"Reference","previous_headings":"","what":"pak can install dependencies of local packages","title":"A list of the most important pak features — Great pak features","text":"handy package development!","code":""},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":null,"dir":"Reference","previous_headings":"","what":"Simplified manual. Start here! — Get started with pak","title":"Simplified manual. Start here! — Get started with pak","text":"need read long manual pages simple task. manual page collects common pak use cases.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"install-a-package-from-cran-or-bioconductor","dir":"Reference","previous_headings":"","what":"Install a package from CRAN or Bioconductor","title":"Simplified manual. Start here! — Get started with pak","text":"pak automatically sets CRAN repository Bioconductor repositories correspons current R version.","code":"pak::pkg_install(\"tibble\")"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"install-a-package-from-github","dir":"Reference","previous_headings":"","what":"Install a package from GitHub","title":"Simplified manual. Start here! — Get started with pak","text":"Use user/repo form. can specify branch tag: user/repo@branch user/repo@tag.","code":"pak::pkg_install(\"tidyverse/tibble\") #> #> → Will update 2 packages. #> → All 2 packages (0 B) are cached. #> + tibble 3.1.8 → 3.1.8.9002 👷🏻🔧 (GitHub: 37ec86a) #> + vctrs  0.5.1 → 0.5.1.9000 👷🏾‍♀️🔧 (GitHub: 2d7de76) #> ℹ No downloads are needed, 2 pkgs are cached #> ℹ Packaging vctrs 0.5.1.9000 #> ✔ Packaged vctrs 0.5.1.9000 (1.4s) #> ℹ Building vctrs 0.5.1.9000 #> ✔ Built vctrs 0.5.1.9000 (11.2s) #> ✔ Installed vctrs 0.5.1.9000 (github::r-lib/vctrs@2d7de76) (34ms) #> ℹ Packaging tibble 3.1.8.9002 #> ✔ Packaged tibble 3.1.8.9002 (502ms) #> ℹ Building tibble 3.1.8.9002 #> ✔ Built tibble 3.1.8.9002 (2.7s) #> ✔ Installed tibble 3.1.8.9002 (github::tidyverse/tibble@37ec86a) (28ms) #> ✔ 1 pkg + 10 deps: kept 9, upd 2 [17.5s]"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"install-a-package-from-a-url","dir":"Reference","previous_headings":"","what":"Install a package from a URL","title":"Simplified manual. Start here! — Get started with pak","text":"URL may point R package file, made R CMD build, .tar.gz .zip archive package tree.","code":"pak::pkg_install(   \"url::https://cran.r-project.org/src/contrib/Archive/tibble/tibble_3.1.7.tar.gz\" ) #> #> → Will install 1 package. #> → Will update 1 package. #> → All 2 packages (38.65 kB) are cached. #> + ellipsis              0.3.2 #> + tibble   3.1.8.9002 → 3.1.7 👷🏻‍♀️🔧 #> ℹ No downloads are needed, 2 pkgs (38.65 kB) are cached #> ✔ Installed ellipsis 0.3.2  (18ms) #> ℹ Building tibble 3.1.7 #> ✔ Built tibble 3.1.7 (2.5s) #> ✔ Installed tibble 3.1.7  (31ms) #> ✔ 1 pkg + 11 deps: kept 10, upd 1, added 1 [3.3s]"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"update-a-package","dir":"Reference","previous_headings":"","what":"Update a package","title":"Simplified manual. Start here! — Get started with pak","text":"pak::pkg_install() automatically updates package.","code":"pak::pkg_install(\"tibble\") #> #> → Will update 1 package. #> → The package (724.32 kB) is cached. #> + tibble 3.1.7 → 3.1.8 #> ℹ No downloads are needed, 1 pkg (724.32 kB) is cached #> ✔ Installed tibble 3.1.8  (36ms) #> ✔ 1 pkg + 10 deps: kept 10, upd 1 [368ms]"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"update-all-dependencies-of-a-package","dir":"Reference","previous_headings":"","what":"Update all dependencies of a package","title":"Simplified manual. Start here! — Get started with pak","text":"upgrade = TRUE updates package dependencies, necessary.","code":"pak::pkg_install(\"tibble\", upgrade = TRUE) #> #> ℹ No downloads are needed #> ✔ 1 pkg + 10 deps: kept 11 [278ms]"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"reinstall-a-package","dir":"Reference","previous_headings":"","what":"Reinstall a package","title":"Simplified manual. Start here! — Get started with pak","text":"Add ?reinstall package name package reference general:","code":"pak::pkg_install(\"tibble?reinstall\") #> #> → Will install 1 package. #> → The package (724.32 kB) is cached. #> + tibble   3.1.8 #> ℹ No downloads are needed, 1 pkg (724.32 kB) is cached #> ✔ Installed tibble 3.1.8  (60ms) #> ✔ 1 pkg + 10 deps: kept 10, added 1 [340ms]"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"dependencies-of-a-cran-or-bioconductor-package","dir":"Reference","previous_headings":"","what":"Dependencies of a CRAN or Bioconductor package","title":"Simplified manual. Start here! — Get started with pak","text":"results returned data frame.","code":"pak::pkg_deps(\"tibble\") #> # A data frame: 11 × 32 #>    ref       type  direct direc…¹ status package version license needs…² #>    <chr>     <chr> <lgl>  <lgl>   <chr>  <chr>   <chr>   <chr>   <lgl> #>  1 cli       stan… FALSE  FALSE   OK     cli     3.4.1   MIT + … FALSE #>  2 fansi     stan… FALSE  FALSE   OK     fansi   1.0.3   GPL-2 … FALSE #>  3 glue      stan… FALSE  FALSE   OK     glue    1.6.2   MIT + … FALSE #>  4 lifecycle stan… FALSE  FALSE   OK     lifecy… 1.0.3   MIT + … FALSE #>  5 magrittr  stan… FALSE  FALSE   OK     magrit… 2.0.3   MIT + … FALSE #>  6 pillar    stan… FALSE  FALSE   OK     pillar  1.8.1   MIT + … FALSE #>  7 pkgconfig stan… FALSE  FALSE   OK     pkgcon… 2.0.3   MIT + … FALSE #>  8 rlang     stan… FALSE  FALSE   OK     rlang   1.0.6   MIT + … FALSE #>  9 tibble    stan… TRUE   TRUE    OK     tibble  3.1.8   MIT + … FALSE #> 10 utf8      stan… FALSE  FALSE   OK     utf8    1.2.2   Apache… FALSE #> 11 vctrs     stan… FALSE  FALSE   OK     vctrs   0.5.1   MIT + … FALSE #> # … with 23 more variables: priority <chr>, md5sum <chr>, sha256 <chr>, #> #   filesize <int>, built <chr>, platform <chr>, rversion <chr>, #> #   repotype <chr>, repodir <chr>, target <chr>, deps <list>, #> #   mirror <chr>, sources <list>, remote <list>, error <list>, #> #   metadata <list>, dep_types <list>, params <list>, sysreqs <chr>, #> #   cache_status <chr>, lib_status <chr>, old_version <chr>, #> #   new_version <chr>, and abbreviated variable names ¹​directpkg, …"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"dependency-tree-of-a-cran-bioconductor-package","dir":"Reference","previous_headings":"","what":"Dependency tree of a CRAN / Bioconductor package","title":"Simplified manual. Start here! — Get started with pak","text":"results also silently returned data frame.","code":"pak::pkg_deps_tree(\"tibble\") #> tibble 3.1.8 ✨ #> ├─fansi 1.0.3 ✨ #> ├─lifecycle 1.0.3 ✨ #> │ ├─cli 3.4.1 ✨ #> │ ├─glue 1.6.2 ✨ #> │ └─rlang 1.0.6 ✨ #> ├─magrittr 2.0.3 ✨ #> ├─pillar 1.8.1 ✨ #> │ ├─cli #> │ ├─fansi #> │ ├─glue #> │ ├─lifecycle #> │ ├─rlang #> │ ├─utf8 1.2.2 ✨ #> │ └─vctrs 0.5.1 ✨ #> │   ├─cli #> │   ├─glue #> │   ├─lifecycle #> │   └─rlang #> ├─pkgconfig 2.0.3 ✨ #> ├─rlang #> └─vctrs #> #> Key:  ✨ new"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"dependency-tree-of-a-package-on-github","dir":"Reference","previous_headings":"","what":"Dependency tree of a package on GitHub","title":"Simplified manual. Start here! — Get started with pak","text":"Use user/repo form. usual, can also select branch, tag, sha, user/repo@branch, user/repo@tag user/repo@sha forms.","code":"pak::pkg_deps_tree(\"tidyverse/tibble\") #> tidyverse/tibble 3.1.8.9002 ✨👷🏼🔧  #> ├─fansi 1.0.3 ✨ #> ├─lifecycle 1.0.3 ✨ #> │ ├─cli 3.4.1 ✨ #> │ ├─glue 1.6.2 ✨ #> │ └─rlang 1.0.6 ✨ #> ├─magrittr 2.0.3 ✨ #> ├─pillar 1.8.1 ✨ #> │ ├─cli #> │ ├─fansi #> │ ├─glue #> │ ├─lifecycle #> │ ├─rlang #> │ ├─utf8 1.2.2 ✨ #> │ └─r-lib/vctrs 0.5.1.9000 ✨👷🏼🔧  #> │   ├─cli #> │   ├─glue #> │   ├─lifecycle #> │   └─rlang #> ├─pkgconfig 2.0.3 ✨ #> ├─rlang #> └─r-lib/vctrs #> #> Key:  ✨ new | 👷🏼 build | 🔧 compile"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"dependency-tree-of-the-package-in-the-current-directory","dir":"Reference","previous_headings":"","what":"Dependency tree of the package in the current directory","title":"Simplified manual. Start here! — Get started with pak","text":"Assuming package directory tibble.","code":"pak::local_deps_tree(\"tibble\") #> local::tibble 3.1.8 ✨👷🏻‍♀️🔧     #> ├─fansi 1.0.3 ✨ #> ├─lifecycle 1.0.3 ✨ #> │ ├─cli 3.4.1 ✨ #> │ ├─glue 1.6.2 ✨ #> │ └─rlang 1.0.6 ✨ #> ├─magrittr 2.0.3 ✨ #> ├─pillar 1.8.1 ✨ #> │ ├─cli #> │ ├─fansi #> │ ├─glue #> │ ├─lifecycle #> │ ├─rlang #> │ ├─utf8 1.2.2 ✨ #> │ └─vctrs 0.5.1 ✨ #> │   ├─cli #> │   ├─glue #> │   ├─lifecycle #> │   └─rlang #> ├─pkgconfig 2.0.3 ✨ #> ├─rlang #> └─vctrs #> #> Key:  ✨ new | 👷🏻‍♀️ build | 🔧 compile"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"explain-a-recursive-dependency","dir":"Reference","previous_headings":"","what":"Explain a recursive dependency","title":"Simplified manual. Start here! — Get started with pak","text":"tibble depend rlang?   Use can also use user/repo form packages GitHub, url::... packages URLs, etc.","code":"pak::pkg_deps_explain(\"tibble\", \"rlang\") #> tibble -> lifecycle -> rlang #> tibble -> pillar -> lifecycle -> rlang #> tibble -> pillar -> rlang #> tibble -> pillar -> vctrs -> lifecycle -> rlang #> tibble -> pillar -> vctrs -> rlang #> tibble -> rlang #> tibble -> vctrs -> lifecycle -> rlang #> tibble -> vctrs -> rlang"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"install-dependencies-of-local-package","dir":"Reference","previous_headings":"","what":"Install dependencies of local package","title":"Simplified manual. Start here! — Get started with pak","text":"","code":"pak::local_install_deps() #> ✔ Loading metadata database ... done #> #> → The package (0 B) is cached. #> ℹ No downloads are needed #> ✔ 10 deps: kept 10 [3.2s]"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"install-local-package","dir":"Reference","previous_headings":"","what":"Install local package","title":"Simplified manual. Start here! — Get started with pak","text":"","code":"pak::local_install() #> #> → Will update 1 package. #> → The package (0 B) is cached. #> + tibble 3.1.8 → 3.1.8 👷🏻‍♂️🔧 #> ℹ No downloads are needed, 1 pkg is cached #> ✔ Got tibble 3.1.8 (source) (96 B) #> ℹ Packaging tibble 3.1.8 #> ✔ Packaged tibble 3.1.8 (864ms) #> ℹ Building tibble 3.1.8 #> ✔ Built tibble 3.1.8 (2.4s) #> ✔ Installed tibble 3.1.8 (local) (38ms) #> ✔ 1 pkg + 10 deps: kept 10, upd 1, dld 1 (NA B) [4.2s]"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"install-all-dependencies-of-local-package","dir":"Reference","previous_headings":"","what":"Install all dependencies of local package","title":"Simplified manual. Start here! — Get started with pak","text":"Installs development optional dependencies well.","code":"pak::local_install_dev_deps() #> #> → Will install 86 packages. #> → Will update 2 packages. #> → All 89 packages (100.53 MB) are cached. #> + askpass                1.1 #> + base64enc              0.1-3 #> + bench                  1.1.2 #> + bit                    4.0.5 #> + bit64                  4.0.5 #> + blob                   1.2.3 #> + brio                   1.1.3 #> + bslib                  0.4.1 #> + cachem                 1.0.6 #> + callr                  3.7.3 #> + clipr                  0.8.0 #> + colorspace             2.0-3 #> + covr                   3.6.1 #> + crayon                 1.5.2 #> + curl                   4.3.3 #> + desc                   1.4.2 #> + DiagrammeR             1.0.9 #> + diffobj                0.3.5 #> + digest                 0.6.31 #> + downloader             0.4 #> + dplyr                  1.0.10 #> + evaluate               0.19    👷🏿‍♂️ #> + farver                 2.1.1 #> + fastmap                1.1.0 #> + formattable            0.2.1 #> + fs                     1.5.2 #> + generics               0.1.3 #> + ggplot2                3.4.0 #> + gridExtra              2.3 #> + gtable                 0.3.1 #> + highr                  0.9 #> + hms                    1.1.2 #> + htmltools              0.5.4 #> + htmlwidgets            1.6.0   👷🏾‍♂️ #> + httr                   1.4.4 #> + igraph                 1.3.5 #> + influenceR             0.1.0.1 #> + isoband                0.2.6 #> + jquerylib              0.1.4 #> + jsonlite               1.8.4 #> + knitr                  1.41 #> + labeling               0.4.2 #> + lazyeval               0.2.2 #> + lubridate              1.9.0 #> + Matrix       1.5-1   → 1.5-3 #> + memoise                2.0.1 #> + mime                   0.12 #> + mockr                  0.2.0 #> + munsell                0.5.0 #> + nlme         3.1-160 → 3.1-161 👷‍♂️🔧 #> + nycflights13           1.0.2 #> + openssl                2.0.5 #> + pkgbuild               1.4.0 #> + pkgload                1.3.2 #> + praise                 1.0.0 #> + prettyunits            1.1.1 #> + processx               3.8.0 #> + profmem                0.6.0 #> + ps                     1.7.2 #> + purrr                  0.3.5 #> + R6                     2.5.1 #> + rappdirs               0.3.3 #> + RColorBrewer           1.1-3 #> + readr                  2.1.3 #> + rematch2               2.1.2 #> + rex                    1.2.1 #> + rmarkdown              2.19    👷‍♂️ #> + rprojroot              2.0.3 #> + rstudioapi             0.14 #> + sass                   0.4.4 #> + scales                 1.2.1 #> + stringi                1.7.8 #> + stringr                1.5.0 #> + sys                    3.4.1 #> + testthat               3.1.6 #> + tidyr                  1.2.1 #> + tidyselect             1.2.0 #> + timechange             0.1.1 #> + tinytex                0.43    👷🏻‍♂️ #> + tzdb                   0.3.0 #> + viridis                0.6.2 #> + viridisLite            0.4.1 #> + visNetwork             2.1.2 #> + vroom                  1.6.0 #> + waldo                  0.4.0 #> + withr                  2.5.0 #> + xfun                   0.35 #> + yaml                   2.3.6 #> ℹ No downloads are needed, 88 pkgs (100.53 MB) are cached #> ℹ Packaging tibble 3.1.8 #> ℹ Building evaluate 0.19 #> ℹ Building nlme 3.1-161 #> ✔ Installed R6 2.5.1  (31ms) #> ✔ Installed DiagrammeR 1.0.9  (76ms) #> ✔ Installed RColorBrewer 1.1-3  (72ms) #> ✔ Installed askpass 1.1  (79ms) #> ✔ Installed Matrix 1.5-3  (137ms) #> ✔ Installed base64enc 0.1-3  (125ms) #> ✔ Installed bench 1.1.2  (90ms) #> ✔ Installed bit64 4.0.5  (44ms) #> ✔ Installed bit 4.0.5  (43ms) #> ✔ Installed blob 1.2.3  (41ms) #> ✔ Installed brio 1.1.3  (40ms) #> ✔ Installed cachem 1.0.6  (31ms) #> ✔ Installed callr 3.7.3  (53ms) #> ✔ Installed clipr 0.8.0  (89ms) #> ✔ Installed colorspace 2.0-3  (99ms) #> ✔ Installed covr 3.6.1  (58ms) #> ✔ Installed crayon 1.5.2  (75ms) #> ✔ Installed curl 4.3.3  (83ms) #> ✔ Packaged tibble 3.1.8 (684ms) #> ✔ Installed bslib 0.4.1  (315ms) #> ✔ Installed desc 1.4.2  (77ms) #> ✔ Installed diffobj 0.3.5  (68ms) #> ✔ Installed digest 0.6.31  (60ms) #> ✔ Installed downloader 0.4  (39ms) #> ✔ Installed dplyr 1.0.10  (39ms) #> ✔ Installed farver 2.1.1  (41ms) #> ✔ Installed fastmap 1.1.0  (38ms) #> ✔ Installed formattable 0.2.1  (43ms) #> ✔ Built evaluate 0.19 (903ms) #> ✔ Installed fs 1.5.2  (49ms) #> ✔ Installed generics 0.1.3  (46ms) #> ✔ Installed ggplot2 3.4.0  (65ms) #> ✔ Installed gridExtra 2.3  (43ms) #> ✔ Installed gtable 0.3.1  (38ms) #> ✔ Installed highr 0.9  (37ms) #> ✔ Installed hms 1.1.2  (39ms) #> ✔ Installed htmltools 0.5.4  (40ms) #> ✔ Installed httr 1.4.4  (40ms) #> ✔ Installed influenceR 0.1.0.1  (17ms) #> ✔ Installed igraph 1.3.5  (96ms) #> ✔ Installed isoband 0.2.6  (68ms) #> ✔ Installed jquerylib 0.1.4  (38ms) #> ✔ Installed jsonlite 1.8.4  (37ms) #> ✔ Installed labeling 0.4.2  (14ms) #> ✔ Installed knitr 1.41  (73ms) #> ✔ Installed lazyeval 0.2.2  (43ms) #> ✔ Installed lubridate 1.9.0  (38ms) #> ✔ Installed memoise 2.0.1  (39ms) #> ✔ Installed mime 0.12  (58ms) #> ✔ Installed mockr 0.2.0  (38ms) #> ✔ Installed munsell 0.5.0  (36ms) #> ✔ Installed nycflights13 1.0.2  (37ms) #> ✔ Installed openssl 2.0.5  (41ms) #> ✔ Installed pkgbuild 1.4.0  (39ms) #> ✔ Installed pkgload 1.3.2  (37ms) #> ✔ Installed praise 1.0.0  (35ms) #> ✔ Installed prettyunits 1.1.1  (56ms) #> ✔ Installed processx 3.8.0  (37ms) #> ✔ Installed profmem 0.6.0  (37ms) #> ✔ Installed ps 1.7.2  (37ms) #> ✔ Installed purrr 0.3.5  (38ms) #> ✔ Installed rappdirs 0.3.3  (37ms) #> ✔ Installed readr 2.1.3  (42ms) #> ✔ Installed rematch2 2.1.2  (41ms) #> ✔ Installed rex 1.2.1  (58ms) #> ✔ Installed rprojroot 2.0.3  (58ms) #> ✔ Installed rstudioapi 0.14  (40ms) #> ✔ Installed sass 0.4.4  (42ms) #> ✔ Installed scales 1.2.1  (39ms) #> ✔ Installed stringr 1.5.0  (33ms) #> ✔ Installed sys 3.4.1  (49ms) #> ✔ Installed testthat 3.1.6  (88ms) #> ✔ Installed tidyr 1.2.1  (77ms) #> ✔ Installed stringi 1.7.8  (195ms) #> ✔ Installed tidyselect 1.2.0  (113ms) #> ✔ Installed timechange 0.1.1  (55ms) #> ✔ Installed tzdb 0.3.0  (40ms) #> ✔ Installed viridisLite 0.4.1  (39ms) #> ✔ Installed viridis 0.6.2  (39ms) #> ✔ Installed visNetwork 2.1.2  (77ms) #> ✔ Installed vroom 1.6.0  (77ms) #> ✔ Installed waldo 0.4.0  (62ms) #> ✔ Installed withr 2.5.0  (40ms) #> ✔ Installed xfun 0.35  (39ms) #> ℹ Building tinytex 0.43 #> ✔ Installed yaml 2.3.6  (43ms) #> ✔ Installed evaluate 0.19  (15ms) #> ✔ Built tinytex 0.43 (1.1s) #> ✔ Installed tinytex 0.43  (15ms) #> ℹ Building rmarkdown 2.19 #> ✔ Built rmarkdown 2.19 (3.9s) #> ✔ Installed rmarkdown 2.19  (85ms) #> ℹ Building htmlwidgets 1.6.0 #> ✔ Built nlme 3.1-161 (8s) #> ✔ Installed nlme 3.1-161  (33ms) #> ✔ Built htmlwidgets 1.6.0 (1.1s) #> ✔ Installed htmlwidgets 1.6.0  (22ms) #> ✔ 103 deps: kept 15, upd 2, added 86 [10.2s]"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"list-current-repositories","dir":"Reference","previous_headings":"","what":"List current repositories","title":"Simplified manual. Start here! — Get started with pak","text":"set CRAN Bioconductor repository, pak automatically.","code":"pak::repo_get() #> # A data frame: 5 × 5 #>   name          url                                type  r_ver…¹ bioc_…² #> * <chr>         <chr>                              <chr> <chr>   <chr> #> 1 CRAN          https://cloud.r-project.org        cran  *       NA #> 2 BioCsoft      https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 3 BioCann       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 4 BioCexp       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 5 BioCworkflows https://bioconductor.org/packages… bioc  4.2.2   3.16 #> # … with abbreviated variable names ¹​r_version, ²​bioc_version"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"add-custom-repository","dir":"Reference","previous_headings":"","what":"Add custom repository","title":"Simplified manual. Start here! — Get started with pak","text":"","code":"pak::repo_add(rhub = 'https://r-hub.r-universe.dev') pak::repo_get() #> # A data frame: 6 × 5 #>   name          url                                type  r_ver…¹ bioc_…² #> * <chr>         <chr>                              <chr> <chr>   <chr> #> 1 CRAN          https://cloud.r-project.org        cran  *       NA #> 2 rhub          https://r-hub.r-universe.dev       cran… *       NA #> 3 BioCsoft      https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 4 BioCann       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 5 BioCexp       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 6 BioCworkflows https://bioconductor.org/packages… bioc  4.2.2   3.16 #> # … with abbreviated variable names ¹​r_version, ²​bioc_version"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"remove-custom-repositories","dir":"Reference","previous_headings":"","what":"Remove custom repositories","title":"Simplified manual. Start here! — Get started with pak","text":"set repos option CRAN repo , unset completely, pak keeps CRAN (default) Bioconductor.","code":"options(repos = getOption(\"repos\")[\"CRAN\"]) pak::repo_get() #> # A data frame: 5 × 5 #>   name          url                                type  r_ver…¹ bioc_…² #> * <chr>         <chr>                              <chr> <chr>   <chr> #> 1 CRAN          https://cloud.r-project.org        cran  *       NA #> 2 BioCsoft      https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 3 BioCann       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 4 BioCexp       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 5 BioCworkflows https://bioconductor.org/packages… bioc  4.2.2   3.16 #> # … with abbreviated variable names ¹​r_version, ²​bioc_version"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"time-travel-using-rspm","dir":"Reference","previous_headings":"","what":"Time travel using RSPM","title":"Simplified manual. Start here! — Get started with pak","text":"Sets repository equivalent CRAN's state closest specified date. Name repository CRAN, otherwise pak also add default CRAN repository.","code":"pak::repo_add(CRAN = \"RSPM@2022-06-30\") pak::repo_get() #> # A data frame: 5 × 5 #>   name          url                                type  r_ver…¹ bioc_…² #> * <chr>         <chr>                              <chr> <chr>   <chr> #> 1 CRAN          https://packagemanager.posit.co/c… cran  *       NA #> 2 BioCsoft      https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 3 BioCann       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 4 BioCexp       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 5 BioCworkflows https://bioconductor.org/packages… bioc  4.2.2   3.16 #> # … with abbreviated variable names ¹​r_version, ²​bioc_version"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"time-travel-using-mran","dir":"Reference","previous_headings":"","what":"Time travel using MRAN","title":"Simplified manual. Start here! — Get started with pak","text":"Sets repository equivalent CRAN's state specified date. Name repository CRAN, otherwise pak also add default CRAN repository.","code":"pak::repo_add(CRAN = \"MRAN@2022-06-30\") pak::repo_get() #> # A data frame: 5 × 5 #>   name          url                                type  r_ver…¹ bioc_…² #> * <chr>         <chr>                              <chr> <chr>   <chr> #> 1 CRAN          https://cran.microsoft.com/snapsh… cran  *       NA #> 2 BioCsoft      https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 3 BioCann       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 4 BioCexp       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 5 BioCworkflows https://bioconductor.org/packages… bioc  4.2.2   3.16 #> # … with abbreviated variable names ¹​r_version, ²​bioc_version"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"caches","dir":"Reference","previous_headings":"","what":"Caches","title":"Simplified manual. Start here! — Get started with pak","text":"default pak caches metadata downloaded packages.","code":""},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"inspect-metadata-cache","dir":"Reference","previous_headings":"","what":"Inspect metadata cache","title":"Simplified manual. Start here! — Get started with pak","text":"","code":"pak::meta_list() #> ✔ Updated metadata database: 4.55 MB in 4 files. #> ✔ Updating metadata database ... done #> # A data frame: 43,718 × 32 #>    package version depends sugge…¹ license imports linki…² archs enhan…³ #>    <chr>   <chr>   <chr>   <chr>   <chr>   <chr>   <chr>   <chr> <chr> #>  1 A3      1.0.0   R (>= … random… GPL (>… NA      NA      NA    NA #>  2 AATtoo… 0.0.1   R (>= … NA      GPL-3   magrit… NA      NA    NA #>  3 ABACUS  1.0.0   R (>= … rmarkd… GPL-3   ggplot… NA      NA    NA #>  4 ABC.RAP 0.9.0   R (>= … knitr,… GPL-3   graphi… NA      NA    NA #>  5 ABCana… 1.2.1   R (>= … NA      GPL-3   plotrix NA      NA    NA #>  6 ABCopt… 0.15.0  NA      testth… MIT + … Rcpp, … Rcpp    ABCo… NA #>  7 ABCp2   1.2     MASS    NA      GPL-2   NA      NA      NA    NA #>  8 ABHgen… 1.0.1   NA      knitr,… GPL-3   ggplot… NA      NA    NA #>  9 ABPS    0.3     NA      testth… GPL (>… kernlab NA      NA    NA #> 10 ACA     1.1     R (>= … NA      GPL     graphi… NA      NA    NA #> # … with 43,708 more rows, 23 more variables: os_type <chr>, #> #   priority <chr>, license_is_foss <chr>, license_restricts_use <chr>, #> #   repodir <chr>, rversion <chr>, platform <chr>, #> #   needscompilation <chr>, ref <chr>, type <chr>, direct <lgl>, #> #   status <chr>, target <chr>, mirror <chr>, sources <list>, #> #   filesize <int>, sha256 <chr>, sysreqs <chr>, built <chr>, #> #   published <dttm>, deps <list>, md5sum <chr>, path <chr>, and …"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"update-metadata-cache","dir":"Reference","previous_headings":"","what":"Update metadata cache","title":"Simplified manual. Start here! — Get started with pak","text":"default pkg_install() similar functions automatically update metadata currently set repositories older 24 hours. can also force update manually:","code":"pak::meta_update() #> ✔ Updating metadata database ... done"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"clean-metadata-cache","dir":"Reference","previous_headings":"","what":"Clean metadata cache","title":"Simplified manual. Start here! — Get started with pak","text":"","code":"pak::meta_clean(force = TRUE) pak::meta_summary() #> [1] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metad #> ata\" #> #> $current_db #> [1] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metad #> ata/pkgs-d1c324e625.rds\" #> #> $raw_files #> character(0) #> #> $db_files #> character(0) #> #> $size #> [1] 0 #>"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"inspect-package-cache","dir":"Reference","previous_headings":"","what":"Inspect package cache","title":"Simplified manual. Start here! — Get started with pak","text":"Downloaded packages also cached.","code":"pak::cache_list() #> # A data frame: 480 × 11 #>    fullpath       path  package url   etag  sha256 version platf…¹ built #>    <chr>          <chr> <chr>   <chr> <chr> <chr>  <chr>   <chr>   <int> #>  1 /Users/gaborc… arch… NA      http… \"\\\"1… 0c8f0… NA      NA         NA #>  2 /Users/gaborc… bin/… evalua… http… \"\\\"1… 08a39… 0.17    aarch6…    NA #>  3 /Users/gaborc… bin/… crayon  http… \"\\\"2… 1e6d5… 1.5.2   aarch6…    NA #>  4 /Users/gaborc… bin/… common… http… \"\\\"4… 47b4a… 1.8.1   aarch6…    NA #>  5 /Users/gaborc… bin/… curl    http… \"\\\"b… 7b8ba… 4.3.3   aarch6…    NA #>  6 /Users/gaborc… bin/… tinytex http… \"\\\"2… 7e9ba… 0.42    aarch6…    NA #>  7 /Users/gaborc… bin/… jsonli… http… \"\\\"1… 68e59… 1.8.2   aarch6…    NA #>  8 /Users/gaborc… bin/… lifecy… http… \"\\\"1… 7ce27… 1.0.3   aarch6…    NA #>  9 /Users/gaborc… bin/… vctrs   http… \"\\\"1… c3a69… 0.4.2   aarch6…    NA #> 10 /Users/gaborc… src/… pkgcac… NA     NA   9b70a… NA      NA          0 #> # … with 470 more rows, 2 more variables: vignettes <int>, #> #   rversion <chr>, and abbreviated variable name ¹​platform"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"view-a-package-cache-summary","dir":"Reference","previous_headings":"","what":"View a package cache summary","title":"Simplified manual. Start here! — Get started with pak","text":"","code":"pak::cache_summary() #> $cachepath #> [1] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/pkg\" #> #> $files #> [1] 480 #> #> $size #> [1] 653325143 #>"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"clean-package-cache","dir":"Reference","previous_headings":"","what":"Clean package cache","title":"Simplified manual. Start here! — Get started with pak","text":"","code":"pak::cache_clean()"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"list-packages-in-a-library","dir":"Reference","previous_headings":"","what":"List packages in a library","title":"Simplified manual. Start here! — Get started with pak","text":"Pass directory library argument.","code":"pak::lib_status(Sys.getenv(\"R_LIBS_USER\")) #> # A data frame: 701 × 39 #>    library   package title version depends repos…¹ license needs…² built #>    <chr>     <chr>   <chr> <chr>   <chr>   <chr>   <chr>   <lgl>   <chr> #>  1 /Users/g… abc     \"Too… 2.2.1   R (>= … CRAN    GPL (>… FALSE   R 4.… #>  2 /Users/g… abc.da… \"Dat… 1.0     R (>= … CRAN    GPL (>… FALSE   R 4.… #>  3 /Users/g… abind   \"Com… 1.4-5   R (>= … CRAN    LGPL (… FALSE   R 4.… #>  4 /Users/g… ade4    \"Ana… 1.7-19  R (>= … CRAN    GPL (>… TRUE    R 4.… #>  5 /Users/g… ape     \"Ana… 5.6-2   R (>= … CRAN    GPL-2 … TRUE    R 4.… #>  6 /Users/g… aplot   \"Dec… 0.1.7   NA      CRAN    Artist… FALSE   R 4.… #>  7 /Users/g… archive \"Mul… 1.1.5   R (>= … CRAN    MIT + … TRUE    R 4.… #>  8 /Users/g… arrayh… \"Con… 1.1-0   NA      CRAN    GPL     FALSE   R 4.… #>  9 /Users/g… arrow   \"Int… 9.0.0   R (>= … CRAN    Apache… TRUE    R 4.… #> 10 /Users/g… arules  \"Min… 1.7-5   R (>= … CRAN    GPL-3   TRUE    R 4.… #> # … with 691 more rows, 30 more variables: remotetype <chr>, #> #   remotepkgref <chr>, remoteref <chr>, remoterepos <chr>, #> #   remotepkgplatform <chr>, remotesha <chr>, imports <chr>, #> #   suggests <chr>, linkingto <chr>, remotes <chr>, remotehost <chr>, #> #   remoterepo <chr>, remoteusername <chr>, enhances <chr>, #> #   biocviews <chr>, remoteurl <chr>, remotesubdir <chr>, #> #   priority <chr>, remoteetag <chr>, remotepackaged <chr>, …"},{"path":"https://pak.r-lib.org/dev/reference/handle_package_not_found.html","id":null,"dir":"Reference","previous_headings":"","what":"Install missing packages on the fly — handle_package_not_found","title":"Install missing packages on the fly — handle_package_not_found","text":"Use function set global error handler, called R fails load package. handler offer choice installing missing package (dependencies), cases can also remedy error restart code.","code":""},{"path":"https://pak.r-lib.org/dev/reference/handle_package_not_found.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Install missing packages on the fly — handle_package_not_found","text":"","code":"handle_package_not_found(err)"},{"path":"https://pak.r-lib.org/dev/reference/handle_package_not_found.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Install missing packages on the fly — handle_package_not_found","text":"err error object, class packageNotFoundError.","code":""},{"path":"https://pak.r-lib.org/dev/reference/handle_package_not_found.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Install missing packages on the fly — handle_package_not_found","text":"Nothing.","code":""},{"path":"https://pak.r-lib.org/dev/reference/handle_package_not_found.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Install missing packages on the fly — handle_package_not_found","text":"supposed call function directly. Instead, set global error handler, possibly .Rprofile file:   Global error handlers supported R 4.0.0 later. Currently handle_package_not_found() anything non-interactive mode (including knitr, testthat RStudio notebooks), might change future. cases possible remedy original computation tried load missing package, pak offer successful installation. Currently, R 4.0.4, possible continue failed library() call.","code":"if (interactive() && getRversion() >= \"4.0.0\") {   globalCallingHandlers(     packageNotFoundError = function(err) {       try(pak::handle_package_not_found(err))     }   ) }"},{"path":"https://pak.r-lib.org/dev/reference/install.html","id":null,"dir":"Reference","previous_headings":"","what":"All about installing pak. — Installing pak","title":"All about installing pak. — Installing pak","text":"Read default installation methods work want release candidate development version.","code":""},{"path":"https://pak.r-lib.org/dev/reference/install.html","id":"pre-built-binaries","dir":"Reference","previous_headings":"","what":"Pre-built binaries","title":"All about installing pak. — Installing pak","text":"pre-built binaries advantage completely self-containted dependency free. additional R packages, system libraries tools (e.g. compilers) needed . Install pre-built binary build pak repository GitHub:   supported following systems:","code":"install.packages(\"pak\", repos = sprintf(   \"https://r-lib.github.io/p/pak/stable/%s/%s/%s\",   .Platform$pkgType,   R.Version()$os,   R.Version()$arch ))"},{"path":"https://pak.r-lib.org/dev/reference/install.html","id":"notes","dir":"Reference","previous_headings":"","what":"Notes","title":"All about installing pak. — Installing pak","text":"macOS support official CRAN R build. builds, e.g. Homebrew R, supported. support R builds R shared library. CRAN's Windows macOS installers , R builds common Linux distributions. might issue build R without --enable-R-shlib option.","code":""},{"path":"https://pak.r-lib.org/dev/reference/install.html","id":"install-from-cran","dir":"Reference","previous_headings":"","what":"Install from CRAN","title":"All about installing pak. — Installing pak","text":"Install released version package CRAN usual:   potentially needs C compiler platforms CRAN binaries packages .","code":"install.packages(\"pak\")"},{"path":"https://pak.r-lib.org/dev/reference/install.html","id":"nightly-builds","dir":"Reference","previous_headings":"","what":"Nightly builds","title":"All about installing pak. — Installing pak","text":"nightly binary builds, systems table :","code":"install.packages(\"pak\", repos = sprintf(   \"https://r-lib.github.io/p/pak/devel/%s/%s/%s\",   .Platform$pkgType,   R.Version()$os,   R.Version()$arch ))"},{"path":"https://pak.r-lib.org/dev/reference/install.html","id":"stable-rc-and-devel-streams","dir":"Reference","previous_headings":"","what":"stable, rc and devel streams","title":"All about installing pak. — Installing pak","text":"three types binaries available: stable corresponds latest CRAN release CRAN. rc release candidate build, available 1-2 weeks release. Otherwise stable build. devel builds development tree. release might rc build. streams available different repository URLs:","code":"stream <- \"rc\" install.packages(\"pak\", repos = sprintf(   \"https://r-lib.github.io/p/pak/%s/%s/%s/%s\",   stream,   .Platform$pkgType,   R.Version()$os,   R.Version()$arch ))"},{"path":"https://pak.r-lib.org/dev/reference/lib_status.html","id":null,"dir":"Reference","previous_headings":"","what":"Status of packages in a library — lib_status","title":"Status of packages in a library — lib_status","text":"Status packages library","code":""},{"path":"https://pak.r-lib.org/dev/reference/lib_status.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Status of packages in a library — lib_status","text":"","code":"lib_status(lib = .libPaths()[1])  pkg_list(lib = .libPaths()[1])"},{"path":"https://pak.r-lib.org/dev/reference/lib_status.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Status of packages in a library — lib_status","text":"lib Path library.","code":""},{"path":"https://pak.r-lib.org/dev/reference/lib_status.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Status of packages in a library — lib_status","text":"Data frame contains data packages installed library. include_docs(\"pkgdepends\", \"docs/lib-status-return.rds\")","code":""},{"path":"https://pak.r-lib.org/dev/reference/lib_status.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Status of packages in a library — lib_status","text":"","code":"lib_status(.Library) #> # A data frame: 31 × 31 #>    library   package version prior…¹ title license sugge…² built depends #>    <chr>     <chr>   <chr>   <chr>   <chr> <chr>   <chr>   <chr> <chr> #>  1 /Library… base    4.2.2   base    \"The… Part o… methods R 4.… NA #>  2 /Library… boot    1.3-28  recomm… \"Boo… Unlimi… MASS, … R 4.… R (>= … #>  3 /Library… class   7.3-20  recomm… \"Fun… GPL-2 … NA      R 4.… R (>= … #>  4 /Library… cluster 2.1.4   recomm… \"\\\"F… GPL (>… MASS, … R 4.… R (>= … #>  5 /Library… codeto… 0.2-18  recomm… \"Cod… GPL     NA      R 4.… R (>= … #>  6 /Library… compil… 4.2.2   base    \"The… Part o… NA      R 4.… NA #>  7 /Library… datase… 4.2.2   base    \"The… Part o… NA      R 4.… NA #>  8 /Library… filelo… 1.0.2   NA      \"Por… MIT + … callr … R 4.… NA #>  9 /Library… foreign 0.8-83  recomm… \"Rea… GPL (>… NA      R 4.… R (>= … #> 10 /Library… graphi… 4.2.2   base    \"The… Part o… NA      R 4.… NA #> # … with 21 more rows, 22 more variables: needscompilation <lgl>, #> #   repository <chr>, imports <chr>, remotetype <chr>, #> #   remotepkgref <chr>, remoteref <chr>, remoterepos <chr>, #> #   remotepkgplatform <chr>, remotesha <chr>, enhances <chr>, #> #   linkingto <chr>, md5sum <chr>, platform <chr>, biocviews <chr>, #> #   sysreqs <chr>, ref <chr>, type <chr>, status <chr>, rversion <chr>, #> #   sources <list>, repotype <chr>, deps <list>, and abbreviated …"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/local_deps.html","id":null,"dir":"Reference","previous_headings":"","what":"Dependencies of a package tree — local_deps","title":"Dependencies of a package tree — local_deps","text":"Dependencies package tree","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_deps.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Dependencies of a package tree — local_deps","text":"","code":"local_deps(root = \".\", upgrade = TRUE, dependencies = NA)  local_deps_tree(root = \".\", upgrade = TRUE, dependencies = NA)  local_dev_deps(root = \".\", upgrade = TRUE, dependencies = TRUE)  local_dev_deps_tree(root = \".\", upgrade = TRUE, dependencies = TRUE)"},{"path":"https://pak.r-lib.org/dev/reference/local_deps.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Dependencies of a package tree — local_deps","text":"root Path package tree. upgrade Whether use recent available package versions. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies.","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_deps.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Dependencies of a package tree — local_deps","text":"functions return dependencies data frame. local_deps_tree() local_dev_deps_tree() also print dependency tree.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/local_deps_explain.html","id":null,"dir":"Reference","previous_headings":"","what":"Explain dependencies of a package tree — local_deps_explain","title":"Explain dependencies of a package tree — local_deps_explain","text":"functions similar pkg_deps_explain(), work local package tree. local_dev_deps_explain() also includes development dependencies.","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_deps_explain.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Explain dependencies of a package tree — local_deps_explain","text":"","code":"local_deps_explain(deps, root = \".\", upgrade = TRUE, dependencies = NA)  local_dev_deps_explain(deps, root = \".\", upgrade = TRUE, dependencies = TRUE)"},{"path":"https://pak.r-lib.org/dev/reference/local_deps_explain.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Explain dependencies of a package tree — local_deps_explain","text":"deps Package names dependencies explain. root Path package tree. upgrade Whether use recent available package versions. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/local_install.html","id":null,"dir":"Reference","previous_headings":"","what":"Install a package tree — local_install","title":"Install a package tree — local_install","text":"Installs package tree (source package file), together dependencies.","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_install.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Install a package tree — local_install","text":"","code":"local_install(   root = \".\",   lib = .libPaths()[1],   upgrade = TRUE,   ask = interactive(),   dependencies = NA )"},{"path":"https://pak.r-lib.org/dev/reference/local_install.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Install a package tree — local_install","text":"root Path package tree. lib Package library install packages . Note dependent packages installed , even already installed another library. exceptions base recommended packages installed .Library. duplicated lib, unless newer version recommemded package needed. upgrade FALSE, default, pak minimum amount work give latest version(s) pkg. upgrade dependent packages pkg, one dependencies explicitly require higher version currently . also prefer binary package source package, even binary package older. upgrade = TRUE, pak ensure latest version(s) pkg dependencies. ask Whether ask confirmation installing different version package already installed. Installations add new packages never require confirmation. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies.","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_install.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Install a package tree — local_install","text":"Data frame, information installed package(s).","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_install.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Install a package tree — local_install","text":"local_install() equivalent pkg_install(\"local::.\").","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/local_install_deps.html","id":null,"dir":"Reference","previous_headings":"","what":"Install the dependencies of a package tree — local_install_deps","title":"Install the dependencies of a package tree — local_install_deps","text":"Installs hard dependencies package tree (source package file), without installing package tree .","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_install_deps.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Install the dependencies of a package tree — local_install_deps","text":"","code":"local_install_deps(   root = \".\",   lib = .libPaths()[1],   upgrade = TRUE,   ask = interactive(),   dependencies = NA )"},{"path":"https://pak.r-lib.org/dev/reference/local_install_deps.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Install the dependencies of a package tree — local_install_deps","text":"root Path package tree. lib Package library install packages . Note dependent packages installed , even already installed another library. exceptions base recommended packages installed .Library. duplicated lib, unless newer version recommemded package needed. upgrade FALSE, default, pak minimum amount work give latest version(s) pkg. upgrade dependent packages pkg, one dependencies explicitly require higher version currently . also prefer binary package source package, even binary package older. upgrade = TRUE, pak ensure latest version(s) pkg dependencies. ask Whether ask confirmation installing different version package already installed. Installations add new packages never require confirmation. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies.","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_install_deps.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Install the dependencies of a package tree — local_install_deps","text":"Data frame, information installed package(s).","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_install_deps.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Install the dependencies of a package tree — local_install_deps","text":"Note development (optional) dependencies, Suggests DESCRIPTION, installed. want install well, use local_install_dev_deps().","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/local_install_dev_deps.html","id":null,"dir":"Reference","previous_headings":"","what":"Install all (development) dependencies of a package tree — local_install_dev_deps","title":"Install all (development) dependencies of a package tree — local_install_dev_deps","text":"Installs dependencies package tree (source package file), without installing package tree . installs development dependencies well, specified Suggests field DESCRIPTION.","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_install_dev_deps.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Install all (development) dependencies of a package tree — local_install_dev_deps","text":"","code":"local_install_dev_deps(   root = \".\",   lib = .libPaths()[1],   upgrade = TRUE,   ask = interactive(),   dependencies = TRUE )"},{"path":"https://pak.r-lib.org/dev/reference/local_install_dev_deps.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Install all (development) dependencies of a package tree — local_install_dev_deps","text":"root Path package tree. lib Package library install packages . Note dependent packages installed , even already installed another library. exceptions base recommended packages installed .Library. duplicated lib, unless newer version recommemded package needed. upgrade FALSE, default, pak minimum amount work give latest version(s) pkg. upgrade dependent packages pkg, one dependencies explicitly require higher version currently . also prefer binary package source package, even binary package older. upgrade = TRUE, pak ensure latest version(s) pkg dependencies. ask Whether ask confirmation installing different version package already installed. Installations add new packages never require confirmation. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/local_package_trees.html","id":null,"dir":"Reference","previous_headings":"","what":"About local package trees — local_package_trees","title":"About local package trees — local_package_trees","text":"pak can install packages local package trees. convenient package development. See following functions: local_install() installs package package tree dependencies. local_install_deps() installs hard dependencies package. local_install_dev_deps() installs hard soft dependencies package. function intended package development.","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_package_trees.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"About local package trees — local_package_trees","text":"Note last two functions install package specified package tree , dependencies. convenient package loaded via means, e.g. devtools::load_all(), development.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/local_system_requirements.html","id":null,"dir":"Reference","previous_headings":"","what":"Query system requirements — local_system_requirements","title":"Query system requirements — local_system_requirements","text":"Note functions now deprecated, favor pkg_sysreqs() sysreqs_*  functions, powerful, work package sources (packages Github, GitLab, URLs, etc.) detailed output. Instead   call   equivalent   ","code":"pak::pkg_system_requirement(\"curl\") pak::pkg_sysreqs(\"curl\")$install_scripts pak::local_system_requirements() pak::pkg_sysreqs(\"local::.\", dependencies = TRUE)$install_script"},{"path":"https://pak.r-lib.org/dev/reference/local_system_requirements.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Query system requirements — local_system_requirements","text":"","code":"local_system_requirements(   os = NULL,   os_release = NULL,   root = \".\",   execute = FALSE,   sudo = execute,   echo = FALSE )  pkg_system_requirements(   package,   os = NULL,   os_release = NULL,   execute = FALSE,   sudo = execute,   echo = FALSE )"},{"path":"https://pak.r-lib.org/dev/reference/local_system_requirements.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Query system requirements — local_system_requirements","text":"os, os_release operating system operating system release version, e.g. \"ubuntu\", \"debian\", \"centos\", \"redhat\". See https://github.com/rstudio/r-system-requirements#operating-systems full list supported operating systems. NULL, default, looked . root Path package tree. execute, sudo execute TRUE, pak execute system commands (). sudo TRUE, pak prepend commands sudo. echo echo TRUE execute TRUE, echo command output. package Package names lookup system requirements .","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_system_requirements.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Query system requirements — local_system_requirements","text":"character vector commands needed install system requirements package.","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_system_requirements.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Query system requirements — local_system_requirements","text":"Returns character vector commands run install system requirements queried operating system. local_system_requirements() queries system requirements dev package (dependencies) given root path. pkg_system_requirements() queries system requirements existing packages (dependencies).","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_system_requirements.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Query system requirements — local_system_requirements","text":"","code":"if (FALSE) { local_system_requirements(\"ubuntu\", \"20.04\") } if (FALSE) { pkg_system_requirements(\"pak\", \"ubuntu\", \"20.04\") pkg_system_requirements(\"pak\", \"redhat\", \"7\") pkg_system_requirements(\"config\", \"ubuntu\", \"20.04\") # no sys reqs pkg_system_requirements(\"curl\", \"ubuntu\", \"20.04\") pkg_system_requirements(\"git2r\", \"ubuntu\", \"20.04\") pkg_system_requirements(c(\"config\", \"git2r\", \"curl\"), \"ubuntu\", \"20.04\") # queried packages must exist pkg_system_requirements(\"iDontExist\", \"ubuntu\", \"20.04\") pkg_system_requirements(c(\"curl\", \"iDontExist\"), \"ubuntu\", \"20.04\") }"},{"path":"https://pak.r-lib.org/dev/reference/lockfile_create.html","id":null,"dir":"Reference","previous_headings":"","what":"Create a lock file — lockfile_create","title":"Create a lock file — lockfile_create","text":"lock file can used later, possibly new R session, carry installation dependencies, lockfile_install().","code":""},{"path":"https://pak.r-lib.org/dev/reference/lockfile_create.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Create a lock file — lockfile_create","text":"","code":"lockfile_create(   pkg = \"deps::.\",   lockfile = \"pkg.lock\",   lib = NULL,   upgrade = FALSE,   dependencies = NA )"},{"path":"https://pak.r-lib.org/dev/reference/lockfile_create.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Create a lock file — lockfile_create","text":"pkg Package names package references. E.g. ggplot2: package CRAN, Bioconductor CRAN-like repository general, tidyverse/ggplot2: package GitHub, tidyverse/ggplot2@v3.4.0: package GitHub tag branch, https://examples.com/.../ggplot2_3.3.6.tar.gz: package URL, .: package current working directory. See \"Package sources\" details. lockfile Path lock file. lib Package library install packages . Note dependent packages installed , even already installed another library. exceptions base recommended packages installed .Library. duplicated lib, unless newer version recommemded package needed. upgrade FALSE, default, pak minimum amount work give latest version(s) pkg. upgrade dependent packages pkg, one dependencies explicitly require higher version currently . also prefer binary package source package, even binary package older. upgrade = TRUE, pak ensure latest version(s) pkg dependencies. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies.","code":""},{"path":"https://pak.r-lib.org/dev/reference/lockfile_create.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Create a lock file — lockfile_create","text":"Note, since URLs CRAN CRAN-like repositories change time, practice use lock file much later. example, binary packages older package version might deleted repository, breaking URLs lock file. Currently intended use case lock files CI systems, facilitate caching. (hash ) lock file provides good key caching systems.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/lockfile_install.html","id":null,"dir":"Reference","previous_headings":"","what":"Install packages based on a lock file — lockfile_install","title":"Install packages based on a lock file — lockfile_install","text":"Install lock file created lockfile_create().","code":""},{"path":"https://pak.r-lib.org/dev/reference/lockfile_install.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Install packages based on a lock file — lockfile_install","text":"","code":"lockfile_install(lockfile = \"pkg.lock\", lib = .libPaths()[1], update = TRUE)"},{"path":"https://pak.r-lib.org/dev/reference/lockfile_install.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Install packages based on a lock file — lockfile_install","text":"lockfile Path lock file. lib Library carry installation . update Whether online install packages either installed lib, different version installed .","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/metadata.html","id":null,"dir":"Reference","previous_headings":"","what":"Metadata cache utilities — meta_summary","title":"Metadata cache utilities — meta_summary","text":"Various utilities inspect, update clean metadata cache. See pkgcache package need control metadata cache.","code":""},{"path":"https://pak.r-lib.org/dev/reference/metadata.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Metadata cache utilities — meta_summary","text":"","code":"meta_summary()  meta_list(pkg = NULL)  meta_update()  meta_clean(force = FALSE)"},{"path":"https://pak.r-lib.org/dev/reference/metadata.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Metadata cache utilities — meta_summary","text":"pkg Package names, specified entries pkg returned. force FALSE, pak ask confirmation.","code":""},{"path":"https://pak.r-lib.org/dev/reference/metadata.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Metadata cache utilities — meta_summary","text":"meta_summary() returns list entries: cachepath: absolute path metadata cache. current_db: file contains current metadata database. currently RDS file, might change future. raw_files: files downloaded PACKAGES* files. db_files: metadata database files. size: total size metadata cache. meta_list() returns data frame available packages configured repositories. meta_update() returns nothing. meta_clean() returns nothing","code":""},{"path":"https://pak.r-lib.org/dev/reference/metadata.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Metadata cache utilities — meta_summary","text":"meta_summary() returns summary metadata cache. meta_list() lists () packages metadata database. meta_update() updates metadata database. normally need call function manually, pak functions (e.g. pkg_install(), pkg_download(), etc.) call automatically, make sure use latest available metadata. meta_clean() deletes whole metadata DB.","code":""},{"path":"https://pak.r-lib.org/dev/reference/metadata.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Metadata cache utilities — meta_summary","text":"Metadata cache summary:   current metadata DB:   Selected packages :   Update metadata DB   Delete metadata DB","code":"meta_summary() #> $cachepath #> [1] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata\" #> #> $current_db #> [1] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/pkgs-34444e3072.rds\" #> #> $raw_files #>  [1] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCann-59693086a0/bin/macosx/big-sur-arm64/contrib/4.2/PACKAGES.gz\" #>  [2] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCann-59693086a0/src/contrib/PACKAGES.gz\" #>  [3] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCexp-90d4a3978b/bin/macosx/big-sur-arm64/contrib/4.2/PACKAGES.gz\" #>  [4] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCexp-90d4a3978b/src/contrib/PACKAGES.gz\" #>  [5] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCsoft-2a43920999/bin/macosx/big-sur-arm64/contrib/4.2/PACKAGES.gz\" #>  [6] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCsoft-2a43920999/src/contrib/PACKAGES.gz\" #>  [7] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCworkflows-26330ba3ca/bin/macosx/big-sur-arm64/contrib/4.2/PACKAGES.gz\" #>  [8] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCworkflows-26330ba3ca/src/contrib/PACKAGES.gz\" #>  [9] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/CRAN-075c426938/bin/macosx/big-sur-arm64/contrib/4.2/PACKAGES.gz\" #> [10] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/CRAN-075c426938/src/contrib/PACKAGES.gz\" #> #> $db_files #> [1] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/pkgs-34444e3072.rds\" #> [2] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/pkgs-ccacf1b389.rds\" #> #> $size #> [1] 174848200 meta_list() #> ✔ Loading metadata database ... done #> # A data frame: 45,279 × 32 #>    package version depends sugge…¹ license imports linki…² archs enhan…³ #>    <chr>   <chr>   <chr>   <chr>   <chr>   <chr>   <chr>   <chr> <chr> #>  1 A3      1.0.0   R (>= … random… GPL (>… NA      NA      NA    NA #>  2 AATtoo… 0.0.2   R (>= … NA      GPL-3   magrit… NA      NA    NA #>  3 ABACUS  1.0.0   R (>= … rmarkd… GPL-3   ggplot… NA      NA    NA #>  4 ABC.RAP 0.9.0   R (>= … knitr,… GPL-3   graphi… NA      NA    NA #>  5 ABCana… 1.2.1   R (>= … NA      GPL-3   plotrix NA      NA    NA #>  6 ABCopt… 0.15.0  NA      testth… MIT + … Rcpp, … Rcpp    ABCo… NA #>  7 ABCp2   1.2     MASS    NA      GPL-2   NA      NA      NA    NA #>  8 ABHgen… 1.0.1   NA      knitr,… GPL-3   ggplot… NA      NA    NA #>  9 ABPS    0.3     NA      testth… GPL (>… kernlab NA      NA    NA #> 10 ACA     1.1     R (>= … NA      GPL     graphi… NA      NA    NA #> # … with 45,269 more rows, 23 more variables: #> #   license_restricts_use <chr>, os_type <chr>, priority <chr>, #> #   license_is_foss <chr>, repodir <chr>, rversion <chr>, #> #   platform <chr>, needscompilation <chr>, ref <chr>, type <chr>, #> #   direct <lgl>, status <chr>, target <chr>, mirror <chr>, #> #   sources <list>, filesize <int>, sha256 <chr>, sysreqs <chr>, #> #   built <chr>, published <dttm>, deps <list>, md5sum <chr>, … meta_list(pkg = c(\"shiny\", \"htmlwidgets\")) #>   package  version depends sugge…¹ license imports linki…² archs enhan…³ #> * <chr>    <chr>   <chr>   <chr>   <chr>   <chr>   <chr>   <chr> <chr> #> 1 htmlwid… 1.5.4   NA      \"knitr… MIT + … \"grDev… NA      NA    shiny … #> 2 shiny    1.7.3   R (>= … \"datas… GPL-3 … \"utils… NA      NA    NA #> 3 htmlwid… 1.6.0   NA      \"testt… MIT + … \"grDev… NA      NA    shiny … #> 4 shiny    1.7.4   R (>= … \"datas… GPL-3 … \"utils… NA      NA    NA #> # … with 23 more variables: license_restricts_use <chr>, os_type <chr>, #> #   priority <chr>, license_is_foss <chr>, repodir <chr>, #> #   rversion <chr>, platform <chr>, needscompilation <chr>, ref <chr>, #> #   type <chr>, direct <lgl>, status <chr>, target <chr>, mirror <chr>, #> #   sources <list>, filesize <int>, sha256 <chr>, sysreqs <chr>, #> #   built <chr>, published <dttm>, deps <list>, md5sum <chr>, #> #   path <chr>, and abbreviated variable names ¹​suggests, ²​linkingto,  #> … meta_update() #> ✔ Updated metadata database: 1.23 MB in 1 file. #> ✔ Updating metadata database ... done meta_clean() #> ℹ Cleaning up cache directory /Users/gaborcsardi/Library/Caches/org.R-pr #> oject.R/R/pkgcache/_metadata."},{"path":"https://pak.r-lib.org/dev/reference/package-dependency-types.html","id":null,"dir":"Reference","previous_headings":"","what":"Various types of R package dependencies — Package dependency types","title":"Various types of R package dependencies — Package dependency types","text":"Various types R package dependencies","code":""},{"path":"https://pak.r-lib.org/dev/reference/package-dependency-types.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Various types of R package dependencies — Package dependency types","text":"include_docs(\"pkgdepends\", \"docs/deps.rds\")","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak-config.html","id":null,"dir":"Reference","previous_headings":"","what":"Environment variables and options that modify the default behavior — pak configuration","title":"Environment variables and options that modify the default behavior — pak configuration","text":"pak behavior can finetuned environment variables options (base::options()).","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pak-config.html","id":"ncpus","dir":"Reference","previous_headings":"","what":"Ncpus","title":"Environment variables and options that modify the default behavior — pak configuration","text":"Set desired number worker processes package installation. set, pak use number logical processors machine.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak-config.html","id":"repos","dir":"Reference","previous_headings":"","what":"repos","title":"Environment variables and options that modify the default behavior — pak configuration","text":"CRAN-like repositories use. See base::options() details.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak-config.html","id":"pak-configuration","dir":"Reference","previous_headings":"","what":"pak configuration","title":"Environment variables and options that modify the default behavior — pak configuration","text":"Configuration entries (unless noted otherwise manual page) corresponding environment variable, corresponding option. environment variable always uppercase uses underscores word separator. always PKG_ prefix. option typically lowercase, use uses underscores word separator, always pkg. prefix (notice dot!). examples:","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak-config.html","id":"pak-configuration-entries","dir":"Reference","previous_headings":"","what":"pak configuration entries","title":"Environment variables and options that modify the default behavior — pak configuration","text":"doc_config()","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak-config.html","id":"notes","dir":"Reference","previous_headings":"","what":"Notes","title":"Environment variables and options that modify the default behavior — pak configuration","text":"version 0.4.0 pak copies PKG_* environment variables pkg.* options pak subprocess, actually used, need restart R reaload pak configuration change.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak-package.html","id":null,"dir":"Reference","previous_headings":"","what":"pak: Another Approach to Package Installation — pak-package","title":"pak: Another Approach to Package Installation — pak-package","text":"goal 'pak' make package installation faster reliable. particular, performs HTTP operations parallel, metadata resolution package downloads fast. Metadata package files cached local disk well. 'pak' dependency solver, finds version conflicts performing installation. version 'pak' supports CRAN, 'Bioconductor' 'GitHub' packages well.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pak-package.html","id":"author","dir":"Reference","previous_headings":"","what":"Author","title":"pak: Another Approach to Package Installation — pak-package","text":"Maintainer: Gábor Csárdi csardi.gabor@gmail.com Authors: Jim Hester contributors: Posit Software, PBC [copyright holder, funder] Winston Chang (R6, callr, processx) [contributor] Ascent Digital Services (callr, processx) [copyright holder, funder] Hadley Wickham (cli, curl, pkgbuild) [contributor, copyright holder] Jeroen Ooms (curl, jsonlite) [contributor] Maëlle Salmon (desc, pkgsearch) [contributor] Duncan Temple Lang (jsonlite) [contributor] Lloyd Hilaiel (jsonlite) [copyright holder] Michel Berkelaar lpSolve authors (lpSolve) [contributor] R Consortium (pkgsearch) [funder] Jay Loden (ps) [contributor] Dave Daeschler (ps) [contributor] Giampaolo Rodola' (ps) [contributor] Kuba Podgórski (zip) [contributor] Rich Geldreich (zip) [contributor]","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak.html","id":null,"dir":"Reference","previous_headings":"","what":"Install specified required packages — pak","title":"Install specified required packages — pak","text":"Install specified packages, ones required package project current working directory.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Install specified required packages — pak","text":"","code":"pak(pkg = NULL, ...)"},{"path":"https://pak.r-lib.org/dev/reference/pak.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Install specified required packages — pak","text":"pkg Package names remote package specifications install. See pak package sources details. NULL, install development dependencies current package. ... Extra arguments passed pkg_install() local_install_dev_deps().","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Install specified required packages — pak","text":"convenience function: want install packages, easier type pkg_install(). want install packages needed development package project, easier type local_install_dev_deps(). need remember two functions install packages, just one.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pak_cleanup.html","id":null,"dir":"Reference","previous_headings":"","what":"Clean up pak caches — pak_cleanup","title":"Clean up pak caches — pak_cleanup","text":"Clean pak caches","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_cleanup.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Clean up pak caches — pak_cleanup","text":"","code":"pak_cleanup(   package_cache = TRUE,   metadata_cache = TRUE,   pak_lib = TRUE,   force = FALSE )"},{"path":"https://pak.r-lib.org/dev/reference/pak_cleanup.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Clean up pak caches — pak_cleanup","text":"package_cache Whether clean cache package files. metadata_cache Whether clean cache package meta data. pak_lib argument now deprecated nothing. force ask confirmation. Note use function non-interactive mode, specify force = TRUE.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pak_install_extra.html","id":null,"dir":"Reference","previous_headings":"","what":"Install all optional dependencies of pak — pak_install_extra","title":"Install all optional dependencies of pak — pak_install_extra","text":"packages required pak functionality. recommended functions return values best used packages. E.g. many functions return data frames, print nicer pillar package available.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_install_extra.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Install all optional dependencies of pak — pak_install_extra","text":"","code":"pak_install_extra(upgrade = FALSE)"},{"path":"https://pak.r-lib.org/dev/reference/pak_install_extra.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Install all optional dependencies of pak — pak_install_extra","text":"upgrade Whether install upgrade latest versions optional packages.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_install_extra.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Install all optional dependencies of pak — pak_install_extra","text":"Currently one package optional: pillar.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":null,"dir":"Reference","previous_headings":"","what":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"Install packages CRAN, Bioconductor, GitHub, URLs, etc. Learn tell pak packages install, packages can found. want quick overview package sources, see \"Get started pak\".","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"include_docs(\"pkgdepends\", \"docs/pkg-refs.rds\", top = FALSE)","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_setup.html","id":null,"dir":"Reference","previous_headings":"","what":"Set up private pak library (deprecated) — pak_setup","title":"Set up private pak library (deprecated) — pak_setup","text":"function deprecated nothing. Recent versions pak need pak_setup() call.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_setup.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Set up private pak library (deprecated) — pak_setup","text":"","code":"pak_setup(mode = c(\"auto\", \"download\", \"copy\"), quiet = FALSE)"},{"path":"https://pak.r-lib.org/dev/reference/pak_setup.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Set up private pak library (deprecated) — pak_setup","text":"mode get packages . \"download\" try download CRAN. \"copy\" try copy current \"regular\" package library. \"auto\" try copy first, fails, tries download. quiet Whether omit messages.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_setup.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Set up private pak library (deprecated) — pak_setup","text":"path private library, invisibly.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_sitrep.html","id":null,"dir":"Reference","previous_headings":"","what":"pak SITuation REPort — pak_sitrep","title":"pak SITuation REPort — pak_sitrep","text":"prints pak version, platform package built , current platform, current library path, versions dependencies, whether dependencies can loaded.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_sitrep.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"pak SITuation REPort — pak_sitrep","text":"","code":"pak_sitrep()"},{"path":"https://pak.r-lib.org/dev/reference/pak_sitrep.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"pak SITuation REPort — pak_sitrep","text":"","code":"pak_sitrep() #>  compatible) #> - pak repository: - (local install?) #> * Optional packages installed: #> - pillar #> * Library path: #> - /private/var/folders/ph/fpcmzfd16rgbbk8mxvy9m2_h0000gn/T/RtmpRxl7Vu/fi #> le1868066d6ae59 #> - /private/var/folders/ph/fpcmzfd16rgbbk8mxvy9m2_h0000gn/T/RtmpRxl7Vu/fi #> le186806281b34a #> - /Users/gaborcsardi/Library/R/arm64/4.3/library #> - /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library #> * Private library location: #> - /Users/gaborcsardi/Library/Caches/org.R-project.R/R/pak/lib/4.3/aarch6 #> 4 #> * Private library exists. #> * Private library is functional"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pak_solver.html","id":null,"dir":"Reference","previous_headings":"","what":"Find the ideal set of packages and versions to install — The dependency solver","title":"Find the ideal set of packages and versions to install — The dependency solver","text":"pak contains package dependency solver, makes sure package source version requirements packages satisfied, starting installation. CRAN BioC packages usually automatic, repositories generally consistent state. packages depend package sources, however, case.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_solver.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Find the ideal set of packages and versions to install — The dependency solver","text":"example conflict detected:   r-lib/pkgcache@conflict depends main branch r-lib/cli, whereas, explicitly requested message branch. Since install versions single library, pak quits. pak considers package installation, package given name , (e.g. dependency another package), package may package source. necessary, one R package library may contain one version package given name. pak's behavior best explained via example. Assume installing local package (see ), e.g. local::., local package depends pkgA user/pkgB, latter package GitHub (see ), pkgA also depends pkgB. Now pak must install pkgB user/pkgB. case pak interprets pkgB package package source, instead standard package, installing user/pkgB satisfies requirements. Note cran::pkgB user/pkgB requirements result conflict pak resolve. first one must CRAN package, second one must GitHub package, two different packages installed R package library.","code":"> pak::pkg_install(c(\"r-lib/pkgcache@conflict\", \"r-lib/cli@message\")) Error: Cannot install packages:   * Cannot install `r-lib/pkgcache@conflict`.     - Cannot install dependency r-lib/cli@main   * Cannot install `r-lib/cli@main`. - Conflicts r-lib/cli@message"},{"path":"https://pak.r-lib.org/dev/reference/pak_update.html","id":null,"dir":"Reference","previous_headings":"","what":"Update pak itself — pak_update","title":"Update pak itself — pak_update","text":"Use function update released development version pak.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_update.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Update pak itself — pak_update","text":"","code":"pak_update(force = FALSE, stream = c(\"auto\", \"stable\", \"rc\", \"devel\"))"},{"path":"https://pak.r-lib.org/dev/reference/pak_update.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Update pak itself — pak_update","text":"force Whether force update, even newer version available. stream Whether update \"stable\", \"rc\" (release candidate) \"devel\" (development) version. \"auto\" updates stream current one. Often release candidate version, \"rc\" also installs stable version.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_update.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Update pak itself — pak_update","text":"Nothing.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps.html","id":null,"dir":"Reference","previous_headings":"","what":"Look up the dependencies of a package — pkg_deps","title":"Look up the dependencies of a package — pkg_deps","text":"Look dependencies package","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Look up the dependencies of a package — pkg_deps","text":"","code":"pkg_deps(pkg, upgrade = TRUE, dependencies = NA)"},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Look up the dependencies of a package — pkg_deps","text":"pkg Package names package references. E.g. ggplot2: package CRAN, Bioconductor CRAN-like repository general, tidyverse/ggplot2: package GitHub, tidyverse/ggplot2@v3.4.0: package GitHub tag branch, https://examples.com/.../ggplot2_3.3.6.tar.gz: package URL, .: package current working directory. See \"Package sources\" details. upgrade Whether use recent available package versions. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Look up the dependencies of a package — pkg_deps","text":"data frame dependency data, includes pkg well. following columns. include_docs(\"pkgdepends\", \"docs/resolution-result.rds\")","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Look up the dependencies of a package — pkg_deps","text":"package GitHub:","code":"pkg_deps(\"dplyr\") #> # A data frame: 16 × 32 #>    ref       type  direct direc…¹ status package version license needs…² #>    <chr>     <chr> <lgl>  <lgl>   <chr>  <chr>   <chr>   <chr>   <lgl> #>  1 R6        stan… FALSE  FALSE   OK     R6      2.5.1   MIT + … FALSE #>  2 cli       stan… FALSE  FALSE   OK     cli     3.4.1   MIT + … FALSE #>  3 dplyr     stan… TRUE   TRUE    OK     dplyr   1.0.10  MIT + … FALSE #>  4 fansi     stan… FALSE  FALSE   OK     fansi   1.0.3   GPL-2 … FALSE #>  5 generics  stan… FALSE  FALSE   OK     generi… 0.1.3   MIT + … FALSE #>  6 glue      stan… FALSE  FALSE   OK     glue    1.6.2   MIT + … FALSE #>  7 lifecycle stan… FALSE  FALSE   OK     lifecy… 1.0.3   MIT + … FALSE #>  8 magrittr  stan… FALSE  FALSE   OK     magrit… 2.0.3   MIT + … FALSE #>  9 pillar    stan… FALSE  FALSE   OK     pillar  1.8.1   MIT + … FALSE #> 10 pkgconfig stan… FALSE  FALSE   OK     pkgcon… 2.0.3   MIT + … FALSE #> 11 rlang     stan… FALSE  FALSE   OK     rlang   1.0.6   MIT + … FALSE #> 12 tibble    stan… FALSE  FALSE   OK     tibble  3.1.8   MIT + … FALSE #> 13 tidysele… stan… FALSE  FALSE   OK     tidyse… 1.2.0   MIT + … FALSE #> 14 utf8      stan… FALSE  FALSE   OK     utf8    1.2.2   Apache… FALSE #> 15 vctrs     stan… FALSE  FALSE   OK     vctrs   0.5.1   MIT + … FALSE #> 16 withr     stan… FALSE  FALSE   OK     withr   2.5.0   MIT + … FALSE #> # … with 23 more variables: priority <chr>, md5sum <chr>, sha256 <chr>, #> #   filesize <int>, built <chr>, platform <chr>, rversion <chr>, #> #   repotype <chr>, repodir <chr>, target <chr>, deps <list>, #> #   mirror <chr>, sources <list>, remote <list>, error <list>, #> #   metadata <list>, dep_types <list>, params <list>, sysreqs <chr>, #> #   cache_status <chr>, lib_status <chr>, old_version <chr>, #> #   new_version <chr>, and abbreviated variable names ¹​directpkg, … pkg_deps(\"r-lib/callr\") #> # A data frame: 4 × 32 #>   ref        type  direct direc…¹ status package version license needs…² #>   <chr>      <chr> <lgl>  <lgl>   <chr>  <chr>   <chr>   <chr>   <lgl> #> 1 r-lib/cal… gith… TRUE   TRUE    OK     callr   3.7.3.… MIT + … TRUE #> 2 R6         stan… FALSE  FALSE   OK     R6      2.5.1   MIT + … FALSE #> 3 processx   stan… FALSE  FALSE   OK     proces… 3.8.0   MIT + … FALSE #> 4 ps         stan… FALSE  FALSE   OK     ps      1.7.2   MIT + … FALSE #> # … with 23 more variables: priority <chr>, md5sum <chr>, sha256 <chr>, #> #   filesize <int>, built <chr>, platform <chr>, rversion <chr>, #> #   repotype <chr>, repodir <chr>, target <chr>, deps <list>, #> #   mirror <chr>, sources <list>, remote <list>, error <list>, #> #   metadata <list>, dep_types <list>, params <list>, sysreqs <chr>, #> #   cache_status <chr>, lib_status <chr>, old_version <chr>, #> #   new_version <chr>, and abbreviated variable names ¹​directpkg, …"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_explain.html","id":null,"dir":"Reference","previous_headings":"","what":"Explain how a package depends on other packages — pkg_deps_explain","title":"Explain how a package depends on other packages — pkg_deps_explain","text":"Extract dependency chains pkg deps.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_explain.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Explain how a package depends on other packages — pkg_deps_explain","text":"","code":"pkg_deps_explain(pkg, deps, upgrade = TRUE, dependencies = NA)"},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_explain.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Explain how a package depends on other packages — pkg_deps_explain","text":"pkg Package names package references. E.g. ggplot2: package CRAN, Bioconductor CRAN-like repository general, tidyverse/ggplot2: package GitHub, tidyverse/ggplot2@v3.4.0: package GitHub tag branch, https://examples.com/.../ggplot2_3.3.6.tar.gz: package URL, .: package current working directory. See \"Package sources\" details. deps Package names dependencies explain. upgrade Whether use recent available package versions. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_explain.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Explain how a package depends on other packages — pkg_deps_explain","text":"named list print method. First entries function arguments: pkg, deps, dependencies, last one paths contains results named list, names package names deps.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_explain.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Explain how a package depends on other packages — pkg_deps_explain","text":"function similar pkg_deps_tree(), output easier read interested certain packages (deps).","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_explain.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Explain how a package depends on other packages — pkg_deps_explain","text":"dplyr depend rlang?   GH version usethis depend cli ps?","code":"pkg_deps_explain(\"dplyr\", \"rlang\") #> ✔ Updated metadata database: 5.09 MB in 12 files. #> ✔ Updating metadata database ... done #> dplyr -> lifecycle -> rlang #> dplyr -> rlang #> dplyr -> tibble -> lifecycle -> rlang #> dplyr -> tibble -> pillar -> lifecycle -> rlang #> dplyr -> tibble -> pillar -> rlang #> dplyr -> tibble -> pillar -> vctrs -> lifecycle -> rlang #> dplyr -> tibble -> pillar -> vctrs -> rlang #> dplyr -> tibble -> rlang #> dplyr -> tibble -> vctrs -> lifecycle -> rlang #> dplyr -> tibble -> vctrs -> rlang #> dplyr -> tidyselect -> lifecycle -> rlang #> dplyr -> tidyselect -> rlang #> dplyr -> tidyselect -> vctrs -> lifecycle -> rlang #> dplyr -> tidyselect -> vctrs -> rlang #> dplyr -> vctrs -> lifecycle -> rlang #> dplyr -> vctrs -> rlang #> dplyr -> pillar -> lifecycle -> rlang #> dplyr -> pillar -> rlang #> dplyr -> pillar -> vctrs -> lifecycle -> rlang #> dplyr -> pillar -> vctrs -> rlang pkg_deps_explain(\"r-lib/usethis\", c(\"cli\", \"ps\")) #> usethis -> cli #> usethis -> desc -> cli #> usethis -> gh -> cli #> usethis -> lifecycle -> cli #> #> x ps"},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_tree.html","id":null,"dir":"Reference","previous_headings":"","what":"Draw the dependency tree of a package — pkg_deps_tree","title":"Draw the dependency tree of a package — pkg_deps_tree","text":"Draw dependency tree package","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_tree.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Draw the dependency tree of a package — pkg_deps_tree","text":"","code":"pkg_deps_tree(pkg, upgrade = TRUE, dependencies = NA)"},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_tree.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Draw the dependency tree of a package — pkg_deps_tree","text":"pkg Package names package references. E.g. ggplot2: package CRAN, Bioconductor CRAN-like repository general, tidyverse/ggplot2: package GitHub, tidyverse/ggplot2@v3.4.0: package GitHub tag branch, https://examples.com/.../ggplot2_3.3.6.tar.gz: package URL, .: package current working directory. See \"Package sources\" details. upgrade Whether use recent available package versions. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_tree.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Draw the dependency tree of a package — pkg_deps_tree","text":"data frame pkg_deps(), invisibly.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_tree.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Draw the dependency tree of a package — pkg_deps_tree","text":"","code":"pkg_deps_tree(\"dplyr\") #> dplyr 1.0.10 ✨ #> ├─generics 0.1.3 ✨ #> ├─glue 1.6.2 ✨ #> ├─lifecycle 1.0.3 ✨ #> │ ├─cli 3.4.1 ✨ #> │ ├─glue #> │ └─rlang 1.0.6 ✨ #> ├─magrittr 2.0.3 ✨ #> ├─R6 2.5.1 ✨ #> ├─rlang #> ├─tibble 3.1.8 ✨ #> │ ├─fansi 1.0.3 ✨ #> │ ├─lifecycle #> │ ├─magrittr #> │ ├─pillar 1.8.1 ✨ #> │ │ ├─cli #> │ │ ├─fansi #> │ │ ├─glue #> │ │ ├─lifecycle #> │ │ ├─rlang #> │ │ ├─utf8 1.2.2 ✨ #> │ │ └─vctrs 0.5.1 ✨ #> │ │   ├─cli #> │ │   ├─glue #> │ │   ├─lifecycle #> │ │   └─rlang #> │ ├─pkgconfig 2.0.3 ✨ #> │ ├─rlang #> │ └─vctrs #> ├─tidyselect 1.2.0 ✨ #> │ ├─cli #> │ ├─glue #> │ ├─lifecycle #> │ ├─rlang #> │ ├─vctrs #> │ └─withr 2.5.0 ✨ #> ├─vctrs #> └─pillar #> #> Key:  ✨ new pkg_deps_tree(\"r-lib/usethis\") #> r-lib/usethis 2.1.6.9000 ✨👷🏼🔧  #> ├─cli 3.4.1 ✨ #> ├─clipr 0.8.0 ✨ #> ├─crayon 1.5.2 ✨ #> ├─curl 4.3.3 ✨ #> ├─desc 1.4.2 ✨ #> │ ├─cli #> │ ├─R6 2.5.1 ✨ #> │ └─rprojroot 2.0.3 ✨ #> ├─fs 1.5.2 ✨ #> ├─gert 1.9.2 ✨ ⬇ (1.91 MB) #> │ ├─askpass 1.1 ✨ #> │ │ └─sys 3.4.1 ✨ #> │ ├─credentials 1.3.2 ✨ ⬇ (170.15 kB) #> │ │ ├─openssl 2.0.5 ✨ #> │ │ │ └─askpass #> │ │ ├─sys #> │ │ ├─curl #> │ │ ├─jsonlite 1.8.4 ✨ #> │ │ └─askpass #> │ ├─openssl #> │ ├─rstudioapi 0.14 ✨ #> │ ├─sys #> │ └─zip 2.2.2 ✨ #> ├─gh 1.3.1 ✨ ⬇ (95.20 kB) #> │ ├─cli #> │ ├─gitcreds 0.1.2 ✨ ⬇ (95.59 kB) #> │ ├─httr 1.4.4 ✨ #> │ │ ├─curl #> │ │ ├─jsonlite #> │ │ ├─mime 0.12 ✨ #> │ │ ├─openssl #> │ │ └─R6 #> │ ├─ini 0.3.1 ✨ ⬇ (13.13 kB) #> │ └─jsonlite #> ├─glue 1.6.2 ✨ #> ├─jsonlite #> ├─lifecycle 1.0.3 ✨ #> │ ├─cli #> │ ├─glue #> │ └─rlang 1.0.6 ✨ #> ├─purrr 0.3.5 ✨ #> │ ├─magrittr 2.0.3 ✨ #> │ └─rlang #> ├─rappdirs 0.3.3 ✨ #> ├─rlang #> ├─rprojroot #> ├─rstudioapi #> ├─whisker 0.4.1 ✨ ⬇ (65.36 kB) #> ├─withr 2.5.0 ✨ #> └─yaml 2.3.6 ✨ #> #> Key:  ✨ new |  ⬇ download | 👷🏼 build | 🔧 compile"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pkg_download.html","id":null,"dir":"Reference","previous_headings":"","what":"Download a package and its dependencies — pkg_download","title":"Download a package and its dependencies — pkg_download","text":"TODO: explain result","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_download.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Download a package and its dependencies — pkg_download","text":"","code":"pkg_download(   pkg,   dest_dir = \".\",   dependencies = FALSE,   platforms = NULL,   r_versions = NULL )"},{"path":"https://pak.r-lib.org/dev/reference/pkg_download.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Download a package and its dependencies — pkg_download","text":"pkg Package names package references. E.g. ggplot2: package CRAN, Bioconductor CRAN-like repository general, tidyverse/ggplot2: package GitHub, tidyverse/ggplot2@v3.4.0: package GitHub tag branch, https://examples.com/.../ggplot2_3.3.6.tar.gz: package URL, .: package current working directory. See \"Package sources\" details. dest_dir Destination directory packages. exist, created. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies. platforms Types binary source packages download. default value pkgdepends::default_platforms(). r_versions R version(s) download packages . (matter source packages, binaries.) defaults current R version.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_download.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Download a package and its dependencies — pkg_download","text":"Data frame information downloaded packages, invisibly. Columns: include_docs(\"pkgdepends\", \"docs/download-result.rds\")","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_download.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Download a package and its dependencies — pkg_download","text":"","code":"dl <- pkg_download(\"forcats\") #> ℹ No downloads are needed, 2 pkgs (641.53 kB) are cached dl #> # A data frame: 2 × 35 #>   ref     type     direct direc…¹ status package version license needs…² #>   <chr>   <chr>    <lgl>  <lgl>   <chr>  <chr>   <chr>   <chr>   <lgl> #> 1 forcats standard TRUE   TRUE    OK     forcats 0.5.2   MIT + … FALSE #> 2 forcats standard TRUE   TRUE    OK     forcats 0.5.2   MIT + … FALSE #> # … with 26 more variables: priority <chr>, md5sum <chr>, sha256 <chr>, #> #   filesize <int>, built <chr>, platform <chr>, rversion <chr>, #> #   repotype <chr>, repodir <chr>, target <chr>, deps <list>, #> #   mirror <chr>, sources <list>, remote <list>, error <list>, #> #   metadata <list>, extra <list>, dep_types <list>, params <list>, #> #   sysreqs <chr>, cache_status <chr>, fulltarget <chr>, #> #   fulltarget_tree <chr>, download_status <chr>, … dl$fulltarget #> [1] \"./bin/macosx/big-sur-arm64/contrib/4.2/forcats_0.5.2.tgz\" #> [2] \"./src/contrib/forcats_0.5.2.tar.gz\" pkg_download(\"r-lib/pak\", platforms = \"source\") #> ℹ No downloads are needed, 1 pkg is cached"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pkg_history.html","id":null,"dir":"Reference","previous_headings":"","what":"Query the history of a CRAN package — pkg_history","title":"Query the history of a CRAN package — pkg_history","text":"Query history CRAN package","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_history.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Query the history of a CRAN package — pkg_history","text":"","code":"pkg_history(pkg)"},{"path":"https://pak.r-lib.org/dev/reference/pkg_history.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Query the history of a CRAN package — pkg_history","text":"pkg Package name.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_history.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Query the history of a CRAN package — pkg_history","text":"data frame, one row per package version. columns entries DESCRIPTION files released package versions.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_history.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Query the history of a CRAN package — pkg_history","text":"","code":"pkg_history(\"ggplot2\") #> # A data frame: 44 × 30 #>    Package Type    Title    Version Date  Author Maint…¹ Descr…² License #>  * <chr>   <chr>   <chr>    <chr>   <chr> <chr>  <chr>   <chr>   <chr> #>  1 ggplot2 Package An impl… 0.5     2007… Hadle… Hadley… \"An im… GPL #>  2 ggplot2 Package An impl… 0.5.1   2007… Hadle… Hadley… \"An im… GPL #>  3 ggplot2 Package An impl… 0.5.2   2007… Hadle… Hadley… \"An im… GPL #>  4 ggplot2 Package An impl… 0.5.4   2007… Hadle… Hadley… \"An im… GPL #>  5 ggplot2 Package An impl… 0.5.5   2007… Hadle… Hadley… \"An im… GPL #>  6 ggplot2 Package An impl… 0.5.6   2007… Hadle… Hadley… \"An im… GPL #>  7 ggplot2 Package An impl… 0.5.7   2007… Hadle… Hadley… \"An im… GPL #>  8 ggplot2 Package An impl… 0.6     2008… Hadle… Hadley… \"An im… GPL #>  9 ggplot2 Package An impl… 0.7     2008… Hadle… Hadley… \"An im… GPL #> 10 ggplot2 Package An impl… 0.8     2008… Hadle… Hadley… \"An im… GPL #> # … with 34 more rows, 21 more variables: SaveImage <chr>, #> #   LazyData <chr>, Packaged <chr>, crandb_file_date <chr>, date <chr>, #> #   dependencies <list>, URL <chr>, LazyLoad <chr>, Extends <chr>, #> #   Collate <chr>, Repository <chr>, `Date/Publication` <chr>, #> #   NeedsCompilation <chr>, VignetteBuilder <chr>, BugReports <chr>, #> #   `Authors@R` <chr>, RoxygenNote <chr>, Encoding <chr>, MD5sum <chr>, #> #   `Config/Needs/website` <chr>, `Config/testthat/edition` <chr>, …"},{"path":"https://pak.r-lib.org/dev/reference/pkg_install.html","id":null,"dir":"Reference","previous_headings":"","what":"Install packages — pkg_install","title":"Install packages — pkg_install","text":"Install one packages dependencies single package library.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_install.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Install packages — pkg_install","text":"","code":"pkg_install(   pkg,   lib = .libPaths()[[1L]],   upgrade = FALSE,   ask = interactive(),   dependencies = NA )"},{"path":"https://pak.r-lib.org/dev/reference/pkg_install.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Install packages — pkg_install","text":"pkg Package names package references. E.g. ggplot2: package CRAN, Bioconductor CRAN-like repository general, tidyverse/ggplot2: package GitHub, tidyverse/ggplot2@v3.4.0: package GitHub tag branch, https://examples.com/.../ggplot2_3.3.6.tar.gz: package URL, .: package current working directory. See \"Package sources\" details. lib Package library install packages . Note dependent packages installed , even already installed another library. exceptions base recommended packages installed .Library. duplicated lib, unless newer version recommemded package needed. upgrade FALSE, default, pak minimum amount work give latest version(s) pkg. upgrade dependent packages pkg, one dependencies explicitly require higher version currently . also prefer binary package source package, even binary package older. upgrade = TRUE, pak ensure latest version(s) pkg dependencies. ask Whether ask confirmation installing different version package already installed. Installations add new packages never require confirmation. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_install.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Install packages — pkg_install","text":"(Invisibly) data frame information installed package(s).","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_install.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Install packages — pkg_install","text":"Upgrade dplyr dependencies:   Install development version dplyr:   Switch back CRAN version. fast pak cached prior install.","code":"pkg_install(\"dplyr\") #> #> → Will install 5 packages. #> → All 5 packages (2.14 MB) are cached. #> + dplyr        1.0.9 #> + generics     0.1.2 #> + purrr        0.3.4 #> + R6           2.5.1 #> + tidyselect   1.1.2 #> ℹ No downloads are needed, 5 pkgs (2.14 MB) are cached #> ✔ Got R6 2.5.1 (aarch64-apple-darwin20) (82.52 kB) #> ✔ Installed R6 2.5.1  (43ms) #> ✔ Installed generics 0.1.2  (62ms) #> ✔ Installed dplyr 1.0.9  (88ms) #> ✔ Installed purrr 0.3.4  (88ms) #> ✔ Installed tidyselect 1.1.2  (94ms) #> ✔ 1 pkg + 17 deps: kept 12, added 5, dld 1 (82.52 kB) [1.2s] pkg_install(\"dplyr\", upgrade = TRUE) #> #> → Will update 1 package. #> → The package (742.51 kB) is cached. #> + rlang 1.0.2 → 1.0.3 👷🏿‍♀️🔧 #> ℹ No downloads are needed, 1 pkg (742.51 kB) is cached #> ℹ Building rlang 1.0.3 #> ✔ Built rlang 1.0.3 (5.8s) #> ✔ Installed rlang 1.0.3  (32ms) #> ✔ 1 pkg + 17 deps: kept 17, upd 1 [6.3s] pkg_install(\"tidyverse/dplyr\") #> ✔ Loading metadata database ... done #> #> → Will install 16 packages. #> → All 16 packages (8.09 MB) are cached. #> + cli          3.4.1 #> + dplyr        1.0.99.9000 👷🏾‍♂️🔧 (GitHub: e6252f8) #> + fansi        1.0.3 #> + generics     0.1.3 #> + glue         1.6.2 #> + lifecycle    1.0.3 #> + magrittr     2.0.3 #> + pillar       1.8.1 #> + pkgconfig    2.0.3 #> + R6           2.5.1 #> + rlang        1.0.6 #> + tibble       3.1.8 #> + tidyselect   1.2.0 #> + utf8         1.2.2 #> + vctrs        0.5.1 #> + withr        2.5.0 #> ℹ No downloads are needed, 16 pkgs (8.09 MB) are cached #> ✔ Installed R6 2.5.1  (58ms) #> ✔ Installed cli 3.4.1  (69ms) #> ✔ Installed fansi 1.0.3  (92ms) #> ✔ Installed generics 0.1.3  (99ms) #> ✔ Installed glue 1.6.2  (108ms) #> ✔ Installed lifecycle 1.0.3  (144ms) #> ✔ Installed magrittr 2.0.3  (152ms) #> ✔ Installed pillar 1.8.1  (160ms) #> ✔ Installed pkgconfig 2.0.3  (63ms) #> ✔ Installed rlang 1.0.6  (37ms) #> ✔ Installed tibble 3.1.8  (41ms) #> ✔ Installed tidyselect 1.2.0  (38ms) #> ✔ Installed utf8 1.2.2  (36ms) #> ✔ Installed vctrs 0.5.1  (39ms) #> ✔ Installed withr 2.5.0  (30ms) #> ℹ Packaging dplyr 1.0.99.9000 #> ✔ Packaged dplyr 1.0.99.9000 (8.3s) #> ℹ Building dplyr 1.0.99.9000 #> ✔ Built dplyr 1.0.99.9000 (5.2s) #> ✔ Installed dplyr 1.0.99.9000 (github::tidyverse/dplyr@e6252f8) (24ms) #> ✔ 1 pkg + 15 deps: added 16 [18.9s] pkg_install(\"dplyr\") #> ✔ Updated metadata database: 2.43 MB in 6 files. #> ✔ Updating metadata database ... done #> #> → Will install 16 packages. #> → All 16 packages (9.42 MB) are cached. #> + cli          3.4.1 #> + dplyr        1.0.10 #> + fansi        1.0.3 #> + generics     0.1.3 #> + glue         1.6.2 #> + lifecycle    1.0.3 #> + magrittr     2.0.3 #> + pillar       1.8.1 #> + pkgconfig    2.0.3 #> + R6           2.5.1 #> + rlang        1.0.6 #> + tibble       3.1.8 #> + tidyselect   1.2.0 #> + utf8         1.2.2 #> + vctrs        0.5.1 #> + withr        2.5.0 #> ℹ No downloads are needed, 16 pkgs (9.42 MB) are cached #> ✔ Installed R6 2.5.1  (66ms) #> ✔ Installed cli 3.4.1  (76ms) #> ✔ Installed dplyr 1.0.10  (111ms) #> ✔ Installed fansi 1.0.3  (119ms) #> ✔ Installed generics 0.1.3  (125ms) #> ✔ Installed glue 1.6.2  (132ms) #> ✔ Installed lifecycle 1.0.3  (149ms) #> ✔ Installed magrittr 2.0.3  (162ms) #> ✔ Installed pillar 1.8.1  (56ms) #> ✔ Installed pkgconfig 2.0.3  (35ms) #> ✔ Installed rlang 1.0.6  (57ms) #> ✔ Installed tibble 3.1.8  (41ms) #> ✔ Installed tidyselect 1.2.0  (40ms) #> ✔ Installed utf8 1.2.2  (37ms) #> ✔ Installed vctrs 0.5.1  (39ms) #> ✔ Installed withr 2.5.0  (31ms) #> ✔ 1 pkg + 15 deps: added 16 [7.2s]"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pkg_name_check.html","id":null,"dir":"Reference","previous_headings":"","what":"Check if an R package name is available — pkg_name_check","title":"Check if an R package name is available — pkg_name_check","text":"Additionally, look candidate name number dictionaries, make sure negative meaning.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_name_check.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Check if an R package name is available — pkg_name_check","text":"","code":"pkg_name_check(name, dictionaries = NULL)"},{"path":"https://pak.r-lib.org/dev/reference/pkg_name_check.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Check if an R package name is available — pkg_name_check","text":"name Package name candidate. dictionaries Character vector, dictionaries query. Available dictionaries: * wikipedia * wiktionary, * sentiment (https://github.com/fnielsen/afinn), * urban (Urban Dictionary). NULL (default), Urban Dictionary omitted, often offensive.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_name_check.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Check if an R package name is available — pkg_name_check","text":"pkg_name_check object custom print method.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pkg_name_check.html","id":"valid-package-name-check","dir":"Reference","previous_headings":"","what":"Valid package name check","title":"Check if an R package name is available — pkg_name_check","text":"Check validity name package name. See 'Writing R Extensions' allowed package names. Also checked list names known cause problems.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_name_check.html","id":"cran-checks","dir":"Reference","previous_headings":"","what":"CRAN checks","title":"Check if an R package name is available — pkg_name_check","text":"Check name names past current packages CRAN, including base recommended packages.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_name_check.html","id":"bioconductor-checks","dir":"Reference","previous_headings":"","what":"Bioconductor checks","title":"Check if an R package name is available — pkg_name_check","text":"Check name past current Bioconductor packages.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_name_check.html","id":"profanity-check","dir":"Reference","previous_headings":"","what":"Profanity check","title":"Check if an R package name is available — pkg_name_check","text":"Check name https://www.purgomalum.com/service/containsprofanity make sure profanity.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_name_check.html","id":"dictionaries","dir":"Reference","previous_headings":"","what":"Dictionaries","title":"Check if an R package name is available — pkg_name_check","text":"See dictionaries argument.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_name_check.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Check if an R package name is available — pkg_name_check","text":"","code":"pkg_name_check(\"sicily\") #> ╔══════════════════════════════════════════════════════════════════════╗ #> ║                            –*– sicily –*–                            ║ #> ╚══════════════════════════════════════════════════════════════════════╝ #> ┌──────────────────────────────────────────────────────────────────────┐ #> │ ✔  valid name          ✔  CRAN               ✔  Bioconductor         │ #> │ ✔  not a profanity                                                   │ #> └──────────────────────────────────────────────────────────────────────┘ #> ┌ Wikipedia ───────────────────────────────────────────────────────────┐ #> │ Sicily Sicily (Italian: Sicilia [siˈtʃiːlja], Sicilian               │ #> │ pronunciation: [sɪˈʃiːlja]) is the largest island in the             │ #> │ Mediterranean Sea and one of the 20 regions of Italy. The Strait of  │ #> │ Messina divides it from the region of Calabria in Southern Italy.    │ #> │ It is one of the five Italian autonomous regions and is officially   │ #> │ referred to as Regione Siciliana. The region has 5 million           │ #> │ …                                                                    │ #> └──────────────────────────────── https://en.wikipedia.org/wiki/Sicily ┘ #> ┌ Wiktionary ──────────────────────────────────────────────────────────┐ #> │ sicily No English definition found                                   │ #> └────────────────────────────────────────────────────────────────────  ┘ #> ┌──────────────────────────────────────────────────────────────────────┐ #> │ Sentiment: 😐 (0)                                                    │ #> └──────────────────────────────────────────────────────────────────────┘"},{"path":"https://pak.r-lib.org/dev/reference/pkg_remove.html","id":null,"dir":"Reference","previous_headings":"","what":"Remove installed packages — pkg_remove","title":"Remove installed packages — pkg_remove","text":"Remove installed packages","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_remove.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Remove installed packages — pkg_remove","text":"","code":"pkg_remove(pkg, lib = .libPaths()[[1L]])"},{"path":"https://pak.r-lib.org/dev/reference/pkg_remove.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Remove installed packages — pkg_remove","text":"pkg character vector packages remove. lib library remove packages .","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_remove.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Remove installed packages — pkg_remove","text":"Nothing.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pkg_search.html","id":null,"dir":"Reference","previous_headings":"","what":"Search CRAN packages — pkg_search","title":"Search CRAN packages — pkg_search","text":"Search indexed database current CRAN packages. uses pkgsearch package. See package details also pkgsearch::pkg_search() pagination, advanced searching, etc.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_search.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Search CRAN packages — pkg_search","text":"","code":"pkg_search(query, ...)"},{"path":"https://pak.r-lib.org/dev/reference/pkg_search.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Search CRAN packages — pkg_search","text":"query Search query string. ... Arguments passed pkgsearch::pkg_search start listing results, pagination. size number results list.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_search.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Search CRAN packages — pkg_search","text":"data frame, also pak_search_result object custom print method. see underlying table, can use [] drop extra classes. See examples .","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_search.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Search CRAN packages — pkg_search","text":"Simple search   See underlying data frame","code":"pkg_search(\"survival\") #> #> 1 survival 3.4.0 -- by Terry M Therneau, 4 months ago #>   Survival Analysis #> #> 2 survminer 0.4.9 -- by Alboukadel Kassambara, 2 years ago #>   Drawing Survival Curves using 'ggplot2' #> #> 3 flexsurv 2.2 -- by Christopher Jackson, 6 months ago #>   Flexible Parametric Survival and Multi-State Models #> #> 4 muhaz 1.2.6.4 -- by David Winsemius, 2 years ago #>   Hazard Function Estimation in Survival Analysis #> #> 5 pec 2022.5.4 -- by Thomas A. Gerds, 8 months ago #>   Prediction Error Curves for Risk Prediction Models in Survival Analysi #> s #> #> 6 randomForestSRC 3.1.1 -- by Udaya B. Kogalur, 5 months ago #>   Fast Unified Random Forests for Survival, Regression, and Classificati #> on (RF-SRC) #> #> 7 relsurv 2.2.8 -- by Damjan Manevski, 4 months ago #>   Relative Survival #> #> 8 survRM2 1.0.4 -- by Hajime Uno, 6 months ago #>   Comparing Restricted Mean Survival Time #> #> 9 titanic 0.1.0 -- by Paul Hendricks, 7 years ago #>   Titanic Passenger Survival Data Set #> #> 10 KMsurv 0.1.5 -- by Jun Yan, 10 years ago #>   Data sets from Klein and Moeschberger (1997), Survival Analysis psro <- pkg_search(\"ropensci\") psro[] #> # A data frame: 10 × 15 #>    score package    version    title descr…¹ date                maint…² #>    <dbl> <chr>      <pckg_vrs> <chr> <chr>   <dttm>              <chr> #>  1  538. webmockr   0.8.2      Stub… \"Stubb… 2022-08-28 19:20:02 Scott … #>  2  520. RSelenium  1.7.9      R Bi… \"Provi… 2022-09-02 07:10:11 Ju Yeo… #>  3  416. tracerer   2.2.2      Trac… \"'BEAS… 2021-05-30 08:40:03 Richèl… #>  4  376. rfisheries 0.2        'Pro… \"A pro… 2016-02-19 08:50:03 Karthi… #>  5  367. mcbette    1.15       Mode… \"'BEAS… 2022-08-27 12:30:02 Richèl… #>  6  359. taxize     0.9.100    Taxo… \"Inter… 2022-04-22 07:30:02 Zachar… #>  7  350. beastier   2.4.11     Call… \"'BEAS… 2022-08-11 13:40:04 Richèl… #>  8  347. spocc      1.2.0      Inte… \"A pro… 2021-01-05 19:50:03 Scott … #>  9  316. chromer    0.3        Inte… \"A pro… 2022-10-27 22:45:36 Karl W… #> 10  315. visdat     0.5.3      Prel… \"Creat… 2019-02-15 14:30:03 Nichol… #> # … with 8 more variables: maintainer_email <chr>, revdeps <int>, #> #   downloads_last_month <int>, license <chr>, url <chr>, #> #   bugreports <chr>, package_data <I<list>>, ago <chr>, and #> #   abbreviated variable names ¹​description, ²​maintainer_name"},{"path":"https://pak.r-lib.org/dev/reference/pkg_status.html","id":null,"dir":"Reference","previous_headings":"","what":"Display installed locations of a package — pkg_status","title":"Display installed locations of a package — pkg_status","text":"Display installed locations package","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_status.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Display installed locations of a package — pkg_status","text":"","code":"pkg_status(pkg, lib = .libPaths())"},{"path":"https://pak.r-lib.org/dev/reference/pkg_status.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Display installed locations of a package — pkg_status","text":"pkg Name one installed packages display status . lib One library paths lookup packages status . default libraries used.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_status.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Display installed locations of a package — pkg_status","text":"Data frame data installations pkg. include_docs(\"pkgdepends\", \"docs/lib-status-return.rds\")","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_status.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Display installed locations of a package — pkg_status","text":"","code":"pkg_status(\"MASS\") #> # A data frame: 2 × 39 #>   library    package title version depends repos…¹ license needs…² built #> * <chr>      <chr>   <chr> <chr>   <chr>   <chr>   <chr>   <lgl>   <chr> #> 1 /Users/ga… MASS    Supp… 7.3-58… R (>= … CRAN    GPL-2 … TRUE    R 4.… #> 2 /Library/… MASS    Supp… 7.3-58… R (>= … CRAN    GPL-2 … TRUE    R 4.… #> # … with 30 more variables: remotetype <chr>, remotepkgref <chr>, #> #   remoteref <chr>, remoterepos <chr>, remotepkgplatform <chr>, #> #   remotesha <chr>, imports <chr>, suggests <chr>, linkingto <chr>, #> #   remotes <chr>, remotehost <chr>, remoterepo <chr>, #> #   remoteusername <chr>, enhances <chr>, biocviews <chr>, #> #   remoteurl <chr>, remotesubdir <chr>, priority <chr>, #> #   remoteetag <chr>, remotepackaged <chr>, md5sum <chr>, …"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pkg_sysreqs.html","id":null,"dir":"Reference","previous_headings":"","what":"Calculate system requirements of one of more packages — pkg_sysreqs","title":"Calculate system requirements of one of more packages — pkg_sysreqs","text":"Calculate system requirements one packages","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_sysreqs.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Calculate system requirements of one of more packages — pkg_sysreqs","text":"","code":"pkg_sysreqs(pkg, upgrade = TRUE, dependencies = NA, sysreqs_platform = NULL)"},{"path":"https://pak.r-lib.org/dev/reference/pkg_sysreqs.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Calculate system requirements of one of more packages — pkg_sysreqs","text":"pkg Package names package references. E.g. ggplot2: package CRAN, Bioconductor CRAN-like repository general, tidyverse/ggplot2: package GitHub, tidyverse/ggplot2@v3.4.0: package GitHub tag branch, https://examples.com/.../ggplot2_3.3.6.tar.gz: package URL, .: package current working directory. See \"Package sources\" details. upgrade FALSE, default, pak minimum amount work give latest version(s) pkg. upgrade dependent packages pkg, one dependencies explicitly require higher version currently . also prefer binary package source package, even binary package older. upgrade = TRUE, pak ensure latest version(s) pkg dependencies. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies. sysreqs_platform System requirements platform. NULL, sysreqs_platform man_config_link(\"configuration option\") used, defaults current platform. Set option one platforms() .packageName fails correctly detect platform want see system requirements different platform.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_sysreqs.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Calculate system requirements of one of more packages — pkg_sysreqs","text":"List entries: os: character string. Operating system. distribution: character string. Linux distribution, NA OS Linux. version: character string. Distribution version, NA OS Linux. pre_install: character vector. Commands run installation system packages. install_scripts: character vector. Commands run install system packages. post_install: character vector. Commands run installation system packages. packages: data frame. Information system packages needed. columns: sysreq: string, cross-platform name system requirement. packages: list column character vectors. names R packages system requirement. pre_install: list column character vectors. Commands run package installation system requirement. system_packages: list column character vectors. Names system packages install. post_install: list column character vectors. Commands run package installation system requirement.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/ppm_has_binaries.html","id":null,"dir":"Reference","previous_headings":"","what":"Does PPM build binary packages for the current platform? — ppm_has_binaries","title":"Does PPM build binary packages for the current platform? — ppm_has_binaries","text":"PPM build binary packages current platform?","code":""},{"path":"https://pak.r-lib.org/dev/reference/ppm_has_binaries.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Does PPM build binary packages for the current platform? — ppm_has_binaries","text":"","code":"ppm_has_binaries()"},{"path":"https://pak.r-lib.org/dev/reference/ppm_has_binaries.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Does PPM build binary packages for the current platform? — ppm_has_binaries","text":"TRUE FALSE.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/ppm_has_binaries.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Does PPM build binary packages for the current platform? — ppm_has_binaries","text":"","code":"if (FALSE) { system_r_platform() ppm_has_binaries() }"},{"path":"https://pak.r-lib.org/dev/reference/ppm_platforms.html","id":null,"dir":"Reference","previous_headings":"","what":"List all platforms supported by Posit Package Manager (PPM) — ppm_platforms","title":"List all platforms supported by Posit Package Manager (PPM) — ppm_platforms","text":"List platforms supported Posit Package Manager (PPM)","code":""},{"path":"https://pak.r-lib.org/dev/reference/ppm_platforms.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"List all platforms supported by Posit Package Manager (PPM) — ppm_platforms","text":"","code":"ppm_platforms()"},{"path":"https://pak.r-lib.org/dev/reference/ppm_platforms.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"List all platforms supported by Posit Package Manager (PPM) — ppm_platforms","text":"Data frame columns: name: platform name, essentially identifier, os: operating system, linux, windows macOS currently, binary_url: URL segment binary repository URL platform, see ppm_snapshots(). distribution: Linux platforms name distribution, release: Linux platforms, name release, binaries: whether PPM builds binaries platform.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/ppm_platforms.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"List all platforms supported by Posit Package Manager (PPM) — ppm_platforms","text":"","code":"if (FALSE) { ppm_platforms() }"},{"path":"https://pak.r-lib.org/dev/reference/ppm_r_versions.html","id":null,"dir":"Reference","previous_headings":"","what":"List all R versions supported by Posit Package Manager (PPM) — ppm_r_versions","title":"List all R versions supported by Posit Package Manager (PPM) — ppm_r_versions","text":"List R versions supported Posit Package Manager (PPM)","code":""},{"path":"https://pak.r-lib.org/dev/reference/ppm_r_versions.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"List all R versions supported by Posit Package Manager (PPM) — ppm_r_versions","text":"","code":"ppm_r_versions()"},{"path":"https://pak.r-lib.org/dev/reference/ppm_r_versions.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"List all R versions supported by Posit Package Manager (PPM) — ppm_r_versions","text":"Data frame columns: r_version: minor R versions, .e. version numbers containing first two components R versions supported PPM instance.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/ppm_r_versions.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"List all R versions supported by Posit Package Manager (PPM) — ppm_r_versions","text":"","code":"if (FALSE) { ppm_r_versions() }"},{"path":"https://pak.r-lib.org/dev/reference/ppm_repo_url.html","id":null,"dir":"Reference","previous_headings":"","what":"Returns the current Posit Package Manager (PPM) repository URL — ppm_repo_url","title":"Returns the current Posit Package Manager (PPM) repository URL — ppm_repo_url","text":"Returns current Posit Package Manager (PPM) repository URL","code":""},{"path":"https://pak.r-lib.org/dev/reference/ppm_repo_url.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Returns the current Posit Package Manager (PPM) repository URL — ppm_repo_url","text":"","code":"ppm_repo_url()"},{"path":"https://pak.r-lib.org/dev/reference/ppm_repo_url.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Returns the current Posit Package Manager (PPM) repository URL — ppm_repo_url","text":"String scalar, repository URL configured PPM instance. PPM instance configured, URL Posit Public Package Manager instance. includes repository name, e.g. https://packagemanager.posit.co/.","code":""},{"path":"https://pak.r-lib.org/dev/reference/ppm_repo_url.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Returns the current Posit Package Manager (PPM) repository URL — ppm_repo_url","text":"URL form {base}/{repo}, e.g. https://packagemanager.posit.co/. configure hosted PPM instance, set PKGCACHE_PPM_URL environment variable base URL (e.g. https://packagemanager.posit.co). use repo_add() PPM snapshots, may also set PKGCACHE_PPM_REPO environment variable name default repository. Linux, instead setting environment variables, can also add PPM repository repos option, see base::options(). environment variables set, ppm_repo_url() try extract PPM base URL repository name option. PKGCACHE_PPM_URL environment variable set, repos option contain PPM URL (Linux), pak uses public PPM instance https://packagemanager.posit.co, cran repository.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/ppm_repo_url.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Returns the current Posit Package Manager (PPM) repository URL — ppm_repo_url","text":"","code":"if (FALSE) { ppm_repo_url() }"},{"path":"https://pak.r-lib.org/dev/reference/ppm_snapshots.html","id":null,"dir":"Reference","previous_headings":"","what":"List all available Posit Package Manager (PPM) snapshots — ppm_snapshots","title":"List all available Posit Package Manager (PPM) snapshots — ppm_snapshots","text":"List available Posit Package Manager (PPM) snapshots","code":""},{"path":"https://pak.r-lib.org/dev/reference/ppm_snapshots.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"List all available Posit Package Manager (PPM) snapshots — ppm_snapshots","text":"","code":"ppm_snapshots()"},{"path":"https://pak.r-lib.org/dev/reference/ppm_snapshots.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"List all available Posit Package Manager (PPM) snapshots — ppm_snapshots","text":"Data frame two columns: date: time snapshot taken, POSIXct vector, id:  integer id snapshot, can used repository URL.","code":""},{"path":"https://pak.r-lib.org/dev/reference/ppm_snapshots.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"List all available Posit Package Manager (PPM) snapshots — ppm_snapshots","text":"repository URL snapshot following form Windows:   {base} base URL PPM (see ppm_repo_url()) {id} either date id snapshot, latest latest snapshot. E.g. equivalent:   Linux distribution PPM support, repository URL contains binary packages looks like :   {id} , {binary_url} code name release supported Linux distribution. See binary_url column result ppm_platforms() code names.","code":"{base}/{repo}/{id} https://packagemanager.posit.co/cran/5 https://packagemanager.posit.co/cran/2017-10-10 {base}/{repo}/__linux__/{binary_url}/{id}"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/ppm_snapshots.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"List all available Posit Package Manager (PPM) snapshots — ppm_snapshots","text":"","code":"if (FALSE) { ppm_snapshots() }"},{"path":"https://pak.r-lib.org/dev/reference/repo_add.html","id":null,"dir":"Reference","previous_headings":"","what":"Add a new CRAN-like repository — repo_add","title":"Add a new CRAN-like repository — repo_add","text":"Add new repository list repositories pak uses look packages.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_add.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Add a new CRAN-like repository — repo_add","text":"","code":"repo_add(..., .list = NULL)  repo_resolve(spec)"},{"path":"https://pak.r-lib.org/dev/reference/repo_add.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Add a new CRAN-like repository — repo_add","text":"... Repository specifications, possibly named character vectors. See details . .list List character vector repository specifications. argument easier use programmatically .... See details . spec Repository specification, possibly named character scalar.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_add.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Add a new CRAN-like repository — repo_add","text":"repo_resolve() returns named character scalar, URL repository.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_add.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Add a new CRAN-like repository — repo_add","text":"repo_add() adds new repositories. resolves specified repositories using repo_resolve() modifies repos global option. repo_add() effect current R session. want keep configuration R sessions, set repos option desired value user project .Rprofile file.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_add.html","id":"repository-specifications","dir":"Reference","previous_headings":"","what":"Repository specifications","title":"Add a new CRAN-like repository — repo_add","text":"format repository specification named unnamed character scalar. name missing, pak adds name automatically. repository named CRAN main CRAN repository, otherwise names informational. Currently supported repository specifications: URL pointing root CRAN-like repository. Example:   PPM@latest, PPM (Posit Package Manager, formerly RStudio Package Manager), latest snapshot. PPM@<date>, PPM (Posit Package Manager, formerly RStudio Package Manager) snapshot, specified date. PPM@<package>-<version> PPM snapshot, day release <version> <package>. PPM@R-<version> PPM snapshot, day R <version> released. Still works dates starting 2017-10-10, now deprecated, MRAN discontinued: MRAN@<date>, MRAN (Microsoft R Application Network) snapshot, specified date. MRAN@<package>-<version> MRAN snapshot, day release <version> <package>. MRAN@R-<version> MRAN snapshot, day R <version> released. Notes: See PPM https://packagemanager.posit.co/client/#/. RSPM@ prefix still supported treated way PPM@. MRAN service now retired, see https://techcommunity.microsoft.com/t5/azure-sql-blog/microsoft-r-application-network-retirement/ba-p/3707161 details. MRAN@... repository specifications now resolve PPM, note PPM snapshots available 2017-10-10. See https://posit.co/blog/migrating--mran--posit-package-manager/. dates (times) can specified ISO 8601 format. PPM snapshot available date, next available date used. Dates first, last PPM snapshot trigger error. Unknown R package versions trigger error.","code":"https://cloud.r-project.org"},{"path":"https://pak.r-lib.org/dev/reference/repo_add.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Add a new CRAN-like repository — repo_add","text":"","code":"repo_add(PPMdplyr100 = \"PPM@dplyr-1.0.0\") repo_get() #> # A data frame: 7 × 5 #>   name          url                         type  r_version bioc_version #> * <chr>         <chr>                       <chr> <chr>     <chr> #> 1 CRAN          https://cloud.r-project.org cran  *         NA #> 2 PPMdplyr100   https://packagemanager.pos… cran… *         NA #> 3 BioCsoft      https://bioconductor.org/p… bioc  4.3.1     3.17 #> 4 BioCann       https://bioconductor.org/p… bioc  4.3.1     3.17 #> 5 BioCexp       https://bioconductor.org/p… bioc  4.3.1     3.17 #> 6 BioCworkflows https://bioconductor.org/p… bioc  4.3.1     3.17 #> 7 BioCbooks     https://bioconductor.org/p… bioc  4.3.1     3.17 repo_resolve(\"PPM@2020-01-21\") #>                                       CRAN #> \"https://packagemanager.posit.co/cran/245\" repo_resolve(\"PPM@dplyr-1.0.0\") #>                                       CRAN #> \"https://packagemanager.posit.co/cran/289\" repo_resolve(\"PPM@R-4.0.0\") #>                                       CRAN #> \"https://packagemanager.posit.co/cran/276\""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/repo_get.html","id":null,"dir":"Reference","previous_headings":"","what":"Query the currently configured CRAN-like repositories — repo_get","title":"Query the currently configured CRAN-like repositories — repo_get","text":"pak uses repos option, see options(). also automatically adds CRAN mirror none set , correct version Bioconductor repositories. See cran_mirror bioc arguments.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_get.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Query the currently configured CRAN-like repositories — repo_get","text":"","code":"repo_get(r_version = getRversion(), bioc = TRUE, cran_mirror = NULL)"},{"path":"https://pak.r-lib.org/dev/reference/repo_get.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Query the currently configured CRAN-like repositories — repo_get","text":"r_version R version use determine correct Bioconductor version, bioc = TRUE. bioc Whether automatically add Bioconductor repositories result. cran_mirror CRAN mirror use. Leave NULL use mirror getOption(\"repos\") automatically selected one.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_get.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Query the currently configured CRAN-like repositories — repo_get","text":"repo_get() returns table currently configured repositories.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_get.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Query the currently configured CRAN-like repositories — repo_get","text":"","code":"repo_get() #> # A data frame: 5 × 5 #>   name          url                                type  r_ver…¹ bioc_…² #> * <chr>         <chr>                              <chr> <chr>   <chr> #> 1 CRAN          https://cloud.r-project.org        cran  *       NA #> 2 BioCsoft      https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 3 BioCann       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 4 BioCexp       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 5 BioCworkflows https://bioconductor.org/packages… bioc  4.2.2   3.16 #> # … with abbreviated variable names ¹​r_version, ²​bioc_version"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/repo_status.html","id":null,"dir":"Reference","previous_headings":"","what":"Show the status of CRAN-like repositories — repo_status","title":"Show the status of CRAN-like repositories — repo_status","text":"checks status configured supplied repositories.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_status.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Show the status of CRAN-like repositories — repo_status","text":"","code":"repo_status(   platforms = NULL,   r_version = getRversion(),   bioc = TRUE,   cran_mirror = NULL )  repo_ping(   platforms = NULL,   r_version = getRversion(),   bioc = TRUE,   cran_mirror = NULL )"},{"path":"https://pak.r-lib.org/dev/reference/repo_status.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Show the status of CRAN-like repositories — repo_status","text":"platforms Platforms use, default current platform, plus source packages. r_version R version(s) use, default current R version, via getRversion(). bioc Whether add Bioconductor repositories. already configured via options(repos), can set FALSE. cran_mirror CRAN mirror use.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_status.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Show the status of CRAN-like repositories — repo_status","text":"data frame row every repository, every queried platform R version. columns: name: name repository. comes names configured repositories options(\"repos\"), added pak. typically CRAN CRAN, current Bioconductor repositories BioCsoft, BioCann, BioCexp, BioCworkflows. url: base URL repository. bioc_version: Bioconductor version, NA non-Bioconductor repositories. platform: platform, possible values source, macos windows currently. path: path packages within base URL, given platform R version. r_version: R version, one specified R versions. ok: Logical flag, whether repository contains metadata file given platform R version. ping: HTTP response time repository seconds. ok column FALSE, columns NA. error: error object HTTP query failed repository, platform R version.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_status.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Show the status of CRAN-like repositories — repo_status","text":"repo_ping() similar repo_status() also prints short summary data, returns result invisibly.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_status.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Show the status of CRAN-like repositories — repo_status","text":"","code":"repo_status() #> # A data frame: 10 × 10 #>    name     url   type  bioc_…¹ platf…² path  r_ver…³ ok     ping error #>    <chr>    <chr> <chr> <chr>   <chr>   <chr> <chr>   <lgl> <dbl> <list> #>  1 CRAN     http… cran  NA      source  src/… 4.2     TRUE  0.269 <NULL> #>  2 CRAN     http… cran  NA      aarch6… bin/… 4.2     TRUE  0.265 <NULL> #>  3 BioCsoft http… bioc  3.16    source  src/… 4.2     TRUE  0.264 <NULL> #>  4 BioCsoft http… bioc  3.16    aarch6… bin/… 4.2     TRUE  0.271 <NULL> #>  5 BioCann  http… bioc  3.16    source  src/… 4.2     TRUE  0.383 <NULL> #>  6 BioCann  http… bioc  3.16    aarch6… bin/… 4.2     TRUE  0.392 <NULL> #>  7 BioCexp  http… bioc  3.16    source  src/… 4.2     TRUE  0.507 <NULL> #>  8 BioCexp  http… bioc  3.16    aarch6… bin/… 4.2     TRUE  0.739 <NULL> #>  9 BioCwor… http… bioc  3.16    source  src/… 4.2     TRUE  0.505 <NULL> #> 10 BioCwor… http… bioc  3.16    aarch6… bin/… 4.2     TRUE  0.766 <NULL> #> # … with abbreviated variable names ¹​bioc_version, ²​platform, #> #   ³​r_version repo_status(   platforms = c(\"windows\", \"macos\"),   r_version = c(\"4.0\", \"4.1\") ) #> # A data frame: 15 × 10 #>    name          url    type  bioc_…¹ platf…² r_ver…³ path  ok      ping #>    <chr>         <chr>  <chr> <chr>   <chr>   <chr>   <chr> <lgl>  <dbl> #>  1 CRAN          https… cran  NA      i386+x… 4.0     bin/… TRUE   0.198 #>  2 CRAN          https… cran  NA      i386+x… 4.1     bin/… TRUE   0.197 #>  3 CRAN          https… cran  NA      aarch6… 4.1     bin/… TRUE   0.197 #>  4 BioCsoft      https… bioc  3.12    i386+x… 4.0     bin/… TRUE   0.988 #>  5 BioCann       https… bioc  3.12    i386+x… 4.0     bin/… TRUE   1.03 #>  6 BioCexp       https… bioc  3.12    i386+x… 4.0     bin/… TRUE   1.25 #>  7 BioCworkflows https… bioc  3.12    i386+x… 4.0     bin/… TRUE   1.47 #>  8 BioCsoft      https… bioc  3.14    i386+x… 4.1     bin/… TRUE   1.48 #>  9 BioCsoft      https… bioc  3.14    aarch6… 4.1     bin/… FALSE NA #> 10 BioCann       https… bioc  3.14    i386+x… 4.1     bin/… TRUE   1.45 #> 11 BioCann       https… bioc  3.14    aarch6… 4.1     bin/… FALSE NA #> 12 BioCexp       https… bioc  3.14    i386+x… 4.1     bin/… TRUE   1.72 #> 13 BioCexp       https… bioc  3.14    aarch6… 4.1     bin/… FALSE NA #> 14 BioCworkflows https… bioc  3.14    i386+x… 4.1     bin/… TRUE   1.71 #> 15 BioCworkflows https… bioc  3.14    aarch6… 4.1     bin/… FALSE NA #> # … with 1 more variable: error <list>, and abbreviated variable names #> #   ¹​bioc_version, ²​platform, ³​r_version repo_ping() #> Repository summary:                   source aarch64-apple-darwin20           #> CRAN          @ cloud.r-project.org     ✔              ✔              (194ms) #> BioCsoft      @ bioconductor.org        ✔              ✔              (352ms) #> BioCann       @ bioconductor.org        ✔              ✔              (511ms) #> BioCexp       @ bioconductor.org        ✔              ✔              (675ms) #> BioCworkflows @ bioconductor.org        ✔              ✔              (698ms)"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":null,"dir":"Reference","previous_headings":"","what":"System requirements — System requirements","title":"System requirements — System requirements","text":"pak takes care system requirements.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"introduction","dir":"Reference","previous_headings":"","what":"Introduction","title":"System requirements — System requirements","text":"Many R packages need external software present machine, otherwise work, even load. example RPostgres R package uses PostgreSQL client library, default dynamically links Linux systems. means (administrators system) need install library, typically form system package: libpq-dev Ubuntu Debian systems, postgresql-server-devel postgresql-devel RedHat, Fedora, etc. systems. good news pak helps : - looks required system packages installing R packages, - checks required system packages installed, - installs automatically, superuser, can use password-less sudo start superuser shell. addition, pak also functions query system requirements system packages.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"requirements-supported-platforms","dir":"Reference","previous_headings":"","what":"Requirements, supported platforms","title":"System requirements — System requirements","text":"Call pak::sysreqs_platforms() list platforms support system requirements:   Call pak::sysreqs_is_supported() see system supported:   vignette built Ubuntu 22.04.2 LTS, platform pak support. following see output code.","code":"pak::sysreqs_platforms() ## # A data frame: 10 × 7 ##    name        os    distribution version update_command install_command ##    <chr>       <chr> <chr>        <chr>   <chr>          <chr> ##  1 Ubuntu Lin… linux ubuntu       *       apt-get -y up… apt-get -y ins… ##  2 Debian Lin… linux debian       *       apt-get -y up… apt-get -y ins… ##  3 CentOS Lin… linux centos       *       NA             yum install -y ##  4 Rocky Linux linux rockylinux   *       NA             dnf install -y ##  5 Red Hat En… linux redhat       6       NA             yum install -y ##  6 Red Hat En… linux redhat       7       NA             yum install -y ##  7 Red Hat En… linux redhat       *       NA             dnf install -y ##  8 Fedora Lin… linux fedora       *       NA             dnf install -y ##  9 openSUSE L… linux opensuse     *       NA             zypper --non-i… ## 10 SUSE Linux… linux sle          *       NA             zypper --non-i… ## # ℹ 1 more variable: query_command <chr> pak::sysreqs_is_supported() ## [1] TRUE"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"r-package-installation","dir":"Reference","previous_headings":"","what":"R package installation","title":"System requirements — System requirements","text":"using pak superuser, supported platform, pak look system requirements, install missing ones. example:","code":"pak::pkg_install(\"RPostgres\") ## ✔ Loading metadata database ... done ## ## → Will install 17 packages. ## → All 17 packages (0 B) are cached. ## + DBI          1.1.3 ## + RPostgres    1.4.5   + ✖ libpq-dev ## + Rcpp         1.0.10 ## + bit          4.0.5 ## + bit64        4.0.5 ## + blob         1.2.4 ## + cli          3.6.1 ## + generics     0.1.3 ## + glue         1.6.2 ## + hms          1.1.3 ## + lifecycle    1.0.3 ## + lubridate    1.9.2 ## + pkgconfig    2.0.3 ## + rlang        1.1.1 ## + timechange   0.2.0 ## + vctrs        0.6.2 ## + withr        2.5.0 ## → Will install 1 system package: ## + libpq-dev  - RPostgres ## ℹ No downloads are needed, 17 pkgs are cached ## ℹ Installing system requirements ## ℹ Executing `sh -c apt-get -y update` ## ℹ Executing `sh -c apt-get -y install libpq-dev` ## ✔ Installed DBI 1.1.3  (1.1s) ## ✔ Installed RPostgres 1.4.5  (1.2s) ## ✔ Installed Rcpp 1.0.10  (1.2s) ## ✔ Installed bit 4.0.5  (1.2s) ## ✔ Installed bit64 4.0.5  (148ms) ## ✔ Installed blob 1.2.4  (63ms) ## ✔ Installed cli 3.6.1  (88ms) ## ✔ Installed generics 0.1.3  (61ms) ## ✔ Installed glue 1.6.2  (63ms) ## ✔ Installed hms 1.1.3  (62ms) ## ✔ Installed lifecycle 1.0.3  (61ms) ## ✔ Installed lubridate 1.9.2  (87ms) ## ✔ Installed pkgconfig 2.0.3  (62ms) ## ✔ Installed rlang 1.1.1  (1.1s) ## ✔ Installed timechange 0.2.0  (1.1s) ## ✔ Installed vctrs 0.6.2  (1.1s) ## ✔ Installed withr 2.5.0  (1.1s) ## ✔ 1 pkg + 16 deps: added 17 [17.5s]"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"running-r-as-a-regular-user","dir":"Reference","previous_headings":"","what":"Running R as a regular user","title":"System requirements — System requirements","text":"don’t want use R superuser, can set sudo without password, works well. pak automatically detect password-less sudo capability, use install system packages, needed. run R regular (root) user, password-less sudo available, pak print system requirements, try install update . installing source packages need link system libraries, installation probably fail, install system packages. installing binary R packages, installation typically succeeds, won’t able load packages R, install required system packages. example, system required system package installed RPostgres. installing source R package, installation already fails:   hand, installing binary packages, e.g. Posit Package Manager, installation typically succeeds, loading package fails:","code":"pak::pkg_install(\"RPostgres?source\") ## + plogr       0.2.0 ## ✖ Missing 1 system package. You'll probably need to install it ## manually: ## + libpq-dev  - RPostgres ## ℹ No downloads are needed, 2 pkgs (1.47 MB) are cached ## ✔ Installed plogr 0.2.0  (1.1s) ## ℹ Building RPostgres 1.4.5 ## ✖ Failed to build RPostgres 1.4.5 ## Registered S3 methods overwritten by 'callr': ##   method                    from ##   format.callr_status_error ##   print.callr_status_error ## Error: ## ! error in pak subprocess ## Caused by error in `stop_task_build(state, worker)`: ## ! Failed to build source package 'RPostgres' ## Full installation output: ## * installing *source* package ‘RPostgres’ ... ## ** package ‘RPostgres’ successfully unpacked and MD5 sums checked ## staged installation is only possible with locking ## ** using non-staged installation ## Using PKG_CFLAGS= ## Using PKG_LIBS=-lpq ## Using PKG_PLOGR= ## ------------------------- ANTICONF ERROR --------------------------- ## Configuration failed because libpq was not found. Try installing: ##  * deb: libpq-dev libssl-dev (Debian, Ubuntu, etc) ##  * rpm: postgresql-devel (Fedora, EPEL) ##  * rpm: postgreql8-devel, psstgresql92-devel, postgresql93-devel, or pos ## tgresql94-devel (Amazon Linux) ##  * csw: postgresql_dev (Solaris) ##  * brew: libpq (OSX) ## If libpq is already installed, check that either: ## (i)  'pkg-config' is in your PATH AND PKG_CONFIG_PATH contains ##      a libpq.pc file; or ## (ii) 'pg_config' is in your PATH. ## If neither can detect , you can set INCLUDE_DIR ## and LIB_DIR manually via: ## R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...' ## --------------------------[ ERROR MESSAGE ]---------------------------- ## <stdin>:1:10: fatal error: libpq-fe.h: No such file or directory ## compilation terminated. ## ----------------------------------------------------------------------- ## ERROR: configuration failed for package ‘RPostgres’ ## * removing ‘/tmp/RtmpsOXbPZ/pkg-lib4a492949a49e/RPostgres’ ## --- ## Backtrace: ## 1. pak::pkg_install(\"RPostgres?source\") ## 2. pak:::remote(function(...) get(\"pkg_install_do_plan\", asNamespace(\"pa ## k\")… at package.R:84:3 ## 3. err$throw(res$error) at subprocess.R:115:5 ## --- ## Subprocess backtrace: ##  1. base::withCallingHandlers(cli_message = function(msg) { … ##  2. get(\"pkg_install_do_plan\", asNamespace(\"pak\"))(...) ##  3. proposal$install() ##  4. pkgdepends::install_package_plan(plan, lib = private$library, num_wo ## rkers = nw… ##  5. base::withCallingHandlers({ … ##  6. pkgdepends:::handle_events(state, events) ##  7. pkgdepends:::handle_event(state, i) ##  8. pkgdepends:::stop_task(state, worker) ##  9. pkgdepends:::stop_task_build(state, worker) ## 10. base::throw(new_pkg_build_error(\"Failed to build source package {pkg ## }\", …                                                                    ## 11. | base::signalCondition(cond)                                        ## 12. global (function (e) …                                               ## Execution halted pak::pkg_install(\"RPostgres\") library(RPostgres) ## → Will install 17 packages. ## → All 17 packages (0 B) are cached. ## + DBI          1.1.3 ## + RPostgres    1.4.5   + ✖ libpq-dev ## + Rcpp         1.0.10 ## + bit          4.0.5 ## + bit64        4.0.5 ## + blob         1.2.4 ## + cli          3.6.1 ## + generics     0.1.3 ## + glue         1.6.2 ## + hms          1.1.3 ## + lifecycle    1.0.3 ## + lubridate    1.9.2 ## + pkgconfig    2.0.3 ## + rlang        1.1.1 ## + timechange   0.2.0 ## + vctrs        0.6.2 ## + withr        2.5.0 ## ✖ Missing 1 system package. You'll probably need to install it ## manually: ## + libpq-dev  - RPostgres ## ℹ No downloads are needed, 17 pkgs are cached ## ✔ Installed DBI 1.1.3  (1.1s) ## ✔ Installed RPostgres 1.4.5  (1.1s) ## ✔ Installed Rcpp 1.0.10  (1.2s) ## ✔ Installed bit 4.0.5  (1.2s) ## ✔ Installed bit64 4.0.5  (144ms) ## ✔ Installed blob 1.2.4  (1.1s) ## ✔ Installed cli 3.6.1  (1.1s) ## ✔ Installed generics 0.1.3  (90ms) ## ✔ Installed glue 1.6.2  (87ms) ## ✔ Installed hms 1.1.3  (1.1s) ## ✔ Installed lifecycle 1.0.3  (1.1s) ## ✔ Installed lubridate 1.9.2  (1.1s) ## ✔ Installed pkgconfig 2.0.3  (1.1s) ## ✔ Installed rlang 1.1.1  (1.1s) ## ✔ Installed timechange 0.2.0  (1.1s) ## ✔ Installed vctrs 0.6.2  (1.1s) ## ✔ Installed withr 2.5.0  (1.1s) ## ✔ 1 pkg + 16 deps: added 17 [11.6s] ## Error: package or namespace load failed for ‘RPostgres’ in dyn.load(file ## , DLLpath = DLLpath, ...): ##  unable to load shared object '/tmp/RtmpWqZycA/lib/RPostgres/libs/RPostg ## res.so': ##   libpq.so.5: cannot open shared object file: No such file or directory ## Execution halted"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"query-system-requirements-without-installation","dir":"Reference","previous_headings":"","what":"Query system requirements without installation","title":"System requirements — System requirements","text":"want query system requirements, without installing packages, use pkg_sysreqs() function. similar pkg_deps() addition looking package dependencies, also looks system dependencies, reports latter:   See manual pkg_sysreqs() see programmatically extract information return value.","code":"pak::pkg_sysreqs(c(\"curl\", \"xml2\", \"devtools\", \"CHRONOS\")) ## ✔ Loading metadata database ... done ## ── Install scripts ───────────────────────────────────── Ubuntu 22.04 ── ## apt-get -y update ## apt-get -y install libcurl4-openssl-dev libssl-dev libxml2-dev git make ##   libgit2-dev zlib1g-dev pandoc libfreetype6-dev libjpeg-dev libpng-dev ##   libtiff-dev libicu-dev libfontconfig1-dev libfribidi-dev ##   libharfbuzz-dev libglpk-dev libgmp3-dev default-jdk ## R CMD javareconf ## R CMD javareconf ## ## ── Packages and their system dependencies ────────────────────────────── ## CHRONOS     – default-jdk, pandoc ## credentials – git ## curl        – libcurl4-openssl-dev, libssl-dev ## fs          – make ## gert        – libgit2-dev ## gitcreds    – git ## httpuv      – make, zlib1g-dev ## igraph      – libglpk-dev, libgmp3-dev, libxml2-dev ## knitr       – pandoc ## openssl     – libssl-dev ## pkgdown     – pandoc ## png         – libpng-dev ## ragg        – libfreetype6-dev, libjpeg-dev, libpng-dev, libtiff-dev ## RCurl       – libcurl4-openssl-dev, make ## remotes     – git ## rJava       – default-jdk, make ## rmarkdown   – pandoc ## sass        – make ## stringi     – libicu-dev ## systemfonts – libfontconfig1-dev, libfreetype6-dev ## textshaping – libfreetype6-dev, libfribidi-dev, libharfbuzz-dev ## XML         – libxml2-dev ## xml2        – libxml2-dev"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"other-queries","dir":"Reference","previous_headings":"","what":"Other queries","title":"System requirements — System requirements","text":"addition automatic system package lookup installation, pak also functions help system dependencies. sysreqs_db_list() function lists system requirements pak knows .   sysreqs_db_match() manually matches SystemREquirements fields againts system requirements:     can also use query system requirements platfosm:     sysreqs_list_system_packages() cross-platform way listing installed system packages capabilities:   sysreqs_check_installed() handy function checks system requirements installed R packages installed library:   sysreqs_fix_installed() goes one step also tries install missing system requirements.","code":"pak::sysreqs_db_list() ## # A data frame: 106 × 5 ##    name       patterns  packages  pre_install post_install ##    <chr>      <list>    <list>    <list>      <list> ##  1 QuantLib   <chr [1]> <chr [1]> <NULL>      <NULL> ##  2 apparmor   <chr [2]> <chr [1]> <NULL>      <NULL> ##  3 atk        <chr [1]> <chr [1]> <NULL>      <NULL> ##  4 automake   <chr [1]> <chr [1]> <NULL>      <NULL> ##  5 berkeleydb <chr [2]> <chr [1]> <NULL>      <NULL> ##  6 blender    <chr [1]> <chr [1]> <NULL>      <NULL> ##  7 bowtie2    <chr [1]> <chr [1]> <NULL>      <NULL> ##  8 bwidget    <chr [1]> <chr [1]> <NULL>      <NULL> ##  9 cairo      <chr [1]> <chr [1]> <NULL>      <NULL> ## 10 chrome     <chr [1]> <NULL>    <chr [3]>   <chr [1]> ## # ℹ 96 more rows sq <- pak::sysreqs_db_match(\"Needs libcurl and also Java.\") sq ## [[1]] ## # A data frame: 2 × 5 ##   spec                         sysreq  packages pre_install post_install ##   <chr>                        <chr>   <list>   <list>      <list> ## 1 Needs libcurl and also Java. java    <chr>    <NULL>      <chr [1]> ## 2 Needs libcurl and also Java. libcurl <chr>    <NULL>      <NULL> ## sq[[1]]$packages ## [[1]] ## [1] \"default-jdk\" ## ## [[2]] ## [1] \"libcurl4-openssl-dev\" ## sqrhel9 <- pak::sysreqs_db_match(\"Needs libcurl and also Java.\", \"redhat-9\") sqrhel9 ## [[1]] ## # A data frame: 2 × 5 ##   spec                         sysreq  packages pre_install post_install ##   <chr>                        <chr>   <list>   <list>      <list> ## 1 Needs libcurl and also Java. java    <chr>    <NULL>      <chr [1]> ## 2 Needs libcurl and also Java. libcurl <chr>    <NULL>      <NULL> ## sqrhel9[[1]]$packages ## [[1]] ## [1] \"java-11-openjdk-devel\" ## ## [[2]] ## [1] \"libcurl-devel\" ## pak::sysreqs_list_system_packages() ## # A data frame: 433 × 4 ##    status package         version         provides ##    <chr>  <chr>           <chr>           <list> ##  1 ii     adduser         3.118ubuntu5    <chr [0]> ##  2 ii     apt             2.4.8           <chr [1]> ##  3 ii     autoconf        2.71-2          <chr [0]> ##  4 ii     automake        1:1.16.5-1.3    <chr [2]> ##  5 ii     autotools-dev   20220109.1      <chr [0]> ##  6 ii     base-files      12ubuntu4.3     <chr [1]> ##  7 ii     base-passwd     3.5.52build1    <chr [0]> ##  8 ii     bash            5.1-6ubuntu1    <chr [0]> ##  9 ii     binutils        2.38-4ubuntu2.1 <chr [2]> ## 10 ii     binutils-common 2.38-4ubuntu2.1 <chr [0]> ## # ℹ 423 more rows pak::sysreqs_check_installed() ## system package       installed required by ## --------------       --        ----------- ## git                  ✔         gitcreds ## gsfonts              ✔         magick ## imagemagick          ✔         magick ## libarchive-dev       ✔         archive ## libcurl4-openssl-dev ✔         curl ## libfontconfig1-dev   ✔         systemfonts ## libfreetype6-dev     ✔         ragg, systemfonts, textshaping ## libfribidi-dev       ✔         textshaping ## libharfbuzz-dev      ✔         textshaping ## libicu-dev           ✔         stringi ## libjpeg-dev          ✔         ragg ## libmagick++-dev      ✔         magick ## libnode-dev          ✔         V8 ## libpng-dev           ✔         ragg ## libpq-dev            ✖         RPostgres ## libssl-dev           ✔         curl, openssl ## libtiff-dev          ✔         ragg ## libxml2-dev          ✔         xml2 ## make                 ✔         fs, sass ## pandoc               ✔         knitr, rmarkdown ## zlib1g-dev           ✔         data.table"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"build-time-and-run-time-dependencies","dir":"Reference","previous_headings":"","what":"Build-time and run-time dependencies","title":"System requirements — System requirements","text":"system requirements database pak uses currently differentiate build-time run-time dependencies. build-time dependency system package need installing R package source. run-time dependency system package need using R package. Linux distribution create (least) two packages software library: runtime package development package. R package uses software library, runtime package run-time dependency development package build-time dependency. However, pak currently know difference build-time run-time dependencies, install types dependencies, always. means pak usually installs system packages strictly necessary. typically development packages libraries, .e. header files, typically cause issues. short disk space, can try removing .","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"how-it-works","dir":"Reference","previous_headings":"","what":"How it works","title":"System requirements — System requirements","text":"pak uses database system requirements https://github.com/rstudio/r-system-requirements. copy database embedded package, also tries download updated versions database GitHub, current copy older one day. can explicitly update database GitHub using sysreqs_db_update() function. CRAN packages, downloads SystemRequirements fields https://cran.r-pkg.org/metadata, database updated daily. Bioconductor packages, downloads GitHub. (planning moving CRAN database GitHub well.) packages sources require pak obtain package DESCRIPTION file (e.g. github::, git::, etc.), pak obtains SystemRequirements directly DESCRIPTION file. SystemRequirements fields, pak matches database, obtain cacnonized list system requirements. pak queries local platform, see exact system packages needed. also queries installed system packages, avoid trying install system packages already installed.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"configuration","dir":"Reference","previous_headings":"","what":"Configuration","title":"System requirements — System requirements","text":"several pak configuration options can use adjust system requirements handled. list , please see options sysreqs prefix ?pak-config manual page complete current list. sysreqs: whether install system requirements. default TRUE platform supported user can install system packages, either superuser, via sudo. FALSE (user install system packages), platform supported, system requirements printed, installed. sysreqs_db_update: whether try update system requirements database GitHub. sysreqs_db_update_timeout: timeout system requirements update GitHub. sysreqs_dry_run: TRUE pak prints install commands, actually run . sysreqs_platform: platform name use determining system requirements. Defaults current platform. using Linux distribution compatible distribution pak supports, can set option manually. E.g. Ubuntu-based distros can set ubuntu-22.04, appropriate Ubuntu version. sysreqs_sudo: whether use sudo install system packages. set, pak tries auto-detect sudo needed . sysreqs_update: whether try update system packages already installed. pak know version system package required, try update system packages default. think need newer system packages, can set option TRUE. sysreqs_verbose: whether print output system package installation commands. Useful debugging, TRUE default CI environment.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"windows","dir":"Reference","previous_headings":"","what":"Windows","title":"System requirements — System requirements","text":"system requirements database information system dependencies Windows, pak use information try install system software Windows. CRAN, PPM Bioconductor Windows binary packages available majority R packages serve, packages practically always link system libraries statically, don’t need external software. wish compile Windows packages source, need install appropriate version Rtools, possibly extra packages using pacman tool Rtools4x. Rtools42 newer Rtools versions bundle lots libraries, likely extra pacman packages needed. Rtools40 leaner default installation, ’ll probably need install packages manually: https://github.com/r-windows/docs/blob/master/rtools40.md#readme planning adding better Windows system software support pak future.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"macos","dir":"Reference","previous_headings":"","what":"macOS","title":"System requirements — System requirements","text":"pak currently system requirement information macOS. macOS similar Windows, repositories serve statically linked macOS binary packages need system software. need compile packages source, possibly need install sytem libraries, either via Homebrew, downloading CRAN’s static library builds https://mac.r-project.org/bin/ planning adding better macOS system software support pak future.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_check_installed.html","id":null,"dir":"Reference","previous_headings":"","what":"Check if installed packages have all their system requirements — sysreqs_check_installed","title":"Check if installed packages have all their system requirements — sysreqs_check_installed","text":"sysreqs_check_installed() checks system requirements packages (subset packages) installed. sysreqs_fix_installed() installs missing system packages.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_check_installed.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Check if installed packages have all their system requirements — sysreqs_check_installed","text":"","code":"sysreqs_check_installed(packages = NULL, library = .libPaths()[1]) sysreqs_fix_installed(packages = NULL, library = .libPaths()[1])"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_check_installed.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Check if installed packages have all their system requirements — sysreqs_check_installed","text":"packages NULL, packages checked. package packages installed, pak throws warning. library Library libraries check.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_check_installed.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Check if installed packages have all their system requirements — sysreqs_check_installed","text":"Data frame custom print format method, pkg_sysreqs_check_result class. columns : system_package: string, name required system package. installed: logical, whether system package correctly installed. packages: list column character vectors. names installed R packages need system package. pre_install: list column character vectors. Commands run installation system package. post_install: list column character vectors. Commands run installation system package. data frame also two attributes additional data: sysreqs_records: raw system requirements records, system_packages: list installed system packages. sysreqs_fix_packages() returns value, invisibly.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_check_installed.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Check if installed packages have all their system requirements — sysreqs_check_installed","text":"functions use sysreqs_platform configuration option, see man_config_link(\"Configuration\"). Set pak detect platform correctly.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_check_installed.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Check if installed packages have all their system requirements — sysreqs_check_installed","text":"","code":"# This only works on supported platforms sysreqs_check_installed() #> system package       installed required by                    #> --------------       --        -----------                    #> git                  ✔         gitcreds                       #> gsfonts              ✔         magick                         #> libcurl4-openssl-dev ✔         curl                           #> libfontconfig1-dev   ✔         systemfonts                    #> libfreetype6-dev     ✔         ragg, systemfonts, textshaping #> libfribidi-dev       ✔         textshaping                    #> libharfbuzz-dev      ✔         textshaping                    #> libicu-dev           ✔         stringi                        #> libjpeg-dev          ✔         ragg                           #> libmagick++-dev      ✔         magick                         #> libnode-dev          ✔         V8                             #> libpng-dev           ✔         ragg                           #> libssl-dev           ✔         curl, openssl                  #> libtiff-dev          ✔         ragg                           #> libxml2-dev          ✔         xml2                           #> make                 ✔         fs, sass                       #> pandoc               ✔         knitr, pkgdown, rmarkdown"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_list.html","id":null,"dir":"Reference","previous_headings":"","what":"List contents of the system requirements DB, for a platform — sysreqs_db_list","title":"List contents of the system requirements DB, for a platform — sysreqs_db_list","text":"also tries update system dependency database, outdated. (.e. older allowed metadata_update_after man_config_link(\"configuration option\").","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_list.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"List contents of the system requirements DB, for a platform — sysreqs_db_list","text":"","code":"sysreqs_db_list(sysreqs_platform = NULL)"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_list.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"List contents of the system requirements DB, for a platform — sysreqs_db_list","text":"sysreqs_platform System requirements platform. NULL, sysreqs_platform man_config_link(\"configuration option\") used, defaults current platform. Set option .packageName detect platform correctly.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_list.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"List contents of the system requirements DB, for a platform — sysreqs_db_list","text":"Data frame columns: name: cross platform system dependency name database. patterns: one regular expressions match SystemRequirements fields. packages: one system package names install. pre_install: command(s) run installing packages. post_install:: command(s) run installing packages.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_list.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"List contents of the system requirements DB, for a platform — sysreqs_db_list","text":"","code":"sysreqs_db_list(sysreqs_platform = \"ubuntu-22.04\") #> # A data frame: 122 × 5 #>    name       patterns  packages  pre_install post_install #>    <chr>      <list>    <list>    <list>      <list>       #>  1 QuantLib   <chr [1]> <chr [1]> <NULL>      <NULL>       #>  2 apparmor   <chr [2]> <chr [1]> <NULL>      <NULL>       #>  3 atk        <chr [1]> <chr [1]> <NULL>      <NULL>       #>  4 automake   <chr [1]> <chr [1]> <NULL>      <NULL>       #>  5 berkeleydb <chr [2]> <chr [1]> <NULL>      <NULL>       #>  6 blender    <chr [1]> <chr [1]> <NULL>      <NULL>       #>  7 boost      <chr [1]> <chr [1]> <NULL>      <NULL>       #>  8 bowtie2    <chr [1]> <chr [1]> <NULL>      <NULL>       #>  9 bwidget    <chr [1]> <chr [1]> <NULL>      <NULL>       #> 10 cairo      <chr [1]> <chr [1]> <NULL>      <NULL>       #> # ℹ 112 more rows"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_match.html","id":null,"dir":"Reference","previous_headings":"","what":"Match system requirement descriptions to the database — sysreqs_db_match","title":"Match system requirement descriptions to the database — sysreqs_db_match","text":"usual workflow pak matches SystemRequirements fields DESCRIPTION files database.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_match.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Match system requirement descriptions to the database — sysreqs_db_match","text":"","code":"sysreqs_db_match(specs, sysreqs_platform = NULL)"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_match.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Match system requirement descriptions to the database — sysreqs_db_match","text":"specs Character vector system requirements descriptions. sysreqs_platform System requirements platform. NULL, sysreqs_platform man_config_link(\"configuration option\") used, defaults current platform. Set option .packageName detect platform correctly.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_match.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Match system requirement descriptions to the database — sysreqs_db_match","text":"Data frame columns: spec: input specs. sysreq:  name system library tool. packages: system packages, list column character vectors. Rarely can empty string, e.g. pre_install script performs installation. pre_install: list column character vectors. Shell script(s) run installation. post_install: list column character vectors. Shell script(s) run installation.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_match.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Match system requirement descriptions to the database — sysreqs_db_match","text":"sysreqs_db_match() function lets match string, mainly useful debugging.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_match.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Match system requirement descriptions to the database — sysreqs_db_match","text":"","code":"sysreqs_db_match(   c(\"Needs libcurl\", \"Java, libssl\"),   sysreqs_platform = \"ubuntu-22.04\" ) #> [[1]] #> # A data frame: 1 × 5 #>   spec          sysreq  packages  pre_install post_install #>   <chr>         <chr>   <list>    <list>      <list>       #> 1 Needs libcurl libcurl <chr [1]> <NULL>      <NULL>       #>  #> [[2]] #> # A data frame: 1 × 5 #>   spec         sysreq packages  pre_install post_install #>   <chr>        <chr>  <list>    <list>      <list>       #> 1 Java, libssl java   <chr [1]> <NULL>      <chr [1]>    #>"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_update.html","id":null,"dir":"Reference","previous_headings":"","what":"Update the cached copy of the system requirements database — sysreqs_db_update","title":"Update the cached copy of the system requirements database — sysreqs_db_update","text":"Update cached copy system requirements database","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_update.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Update the cached copy of the system requirements database — sysreqs_db_update","text":"","code":"sysreqs_db_update()"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_update.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Update the cached copy of the system requirements database — sysreqs_db_update","text":"cached copy recent, update attempted. See metadata_update_after man_config_link(\"configuration option\").","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_is_supported.html","id":null,"dir":"Reference","previous_headings":"","what":"Check if a platform has system requirements support — sysreqs_is_supported","title":"Check if a platform has system requirements support — sysreqs_is_supported","text":"Check platform system requirements support","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_is_supported.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Check if a platform has system requirements support — sysreqs_is_supported","text":"","code":"sysreqs_is_supported(sysreqs_platform = NULL)"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_is_supported.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Check if a platform has system requirements support — sysreqs_is_supported","text":"sysreqs_platform System requirements platform. NULL, sysreqs_platform man_config_link(\"configuration option\") used, defaults current platform. Set option .packageName detect platform correctly.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_is_supported.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Check if a platform has system requirements support — sysreqs_is_supported","text":"Logical scalar.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_is_supported.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Check if a platform has system requirements support — sysreqs_is_supported","text":"","code":"sysreqs_is_supported() #> [1] TRUE"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_list_system_packages.html","id":null,"dir":"Reference","previous_headings":"","what":"List installed system packages — sysreqs_list_system_packages","title":"List installed system packages — sysreqs_list_system_packages","text":"List installed system packages","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_list_system_packages.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"List installed system packages — sysreqs_list_system_packages","text":"","code":"sysreqs_list_system_packages()"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_list_system_packages.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"List installed system packages — sysreqs_list_system_packages","text":"Data frame columns: status. two three characters, notation dpkg Debian based systems. \"ii\" means package correctly installed. RPM based systems always \"ii\" currently. package: name system package. version: installed version system package. capabilities: list column character vectors, capabilities provided package.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_list_system_packages.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"List installed system packages — sysreqs_list_system_packages","text":"function uses sysreqs_platform configuration option, see man_config_link(\"Configuration\"). Set pak detect platform correctly.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_list_system_packages.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"List installed system packages — sysreqs_list_system_packages","text":"","code":"sysreqs_list_system_packages()[1:10,] #> # A data frame: 10 × 4 #>    status package                  version             provides  #>  * <chr>  <chr>                    <chr>               <list>    #>  1 ii     acl                      2.3.1-1             <chr [0]> #>  2 ii     adduser                  3.118ubuntu5        <chr [0]> #>  3 ii     adoptium-ca-certificates 1.0.3-1             <chr [0]> #>  4 ii     adwaita-icon-theme       41.0-1ubuntu1       <chr [0]> #>  5 ii     alsa-topology-conf       1.2.5.1-2           <chr [0]> #>  6 ii     alsa-ucm-conf            1.2.6.3-1ubuntu1.12 <chr [0]> #>  7 ii     ant                      1.10.12-1           <chr [0]> #>  8 ii     ant-optional             1.10.12-1           <chr [0]> #>  9 ii     apache2                  2.4.52-1ubuntu4.12  <chr [2]> #> 10 ii     apache2-bin              2.4.52-1ubuntu4.12  <chr [2]>"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_platforms.html","id":null,"dir":"Reference","previous_headings":"","what":"List platforms with system requirements support — sysreqs_platforms","title":"List platforms with system requirements support — sysreqs_platforms","text":"List platforms system requirements support","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_platforms.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"List platforms with system requirements support — sysreqs_platforms","text":"","code":"sysreqs_platforms()"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_platforms.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"List platforms with system requirements support — sysreqs_platforms","text":"Data frame columns: name: human readable OS name. os: OS name, e.g. linux. distribution: OS id, e.g. ubuntu redhat. version: distribution version. star means versions supported, also supported vendor. update_command: command run update system package metadata. install_command: command run install packages. query_command: name tool use query system package information.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_platforms.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"List platforms with system requirements support — sysreqs_platforms","text":"","code":"sysreqs_platforms() #> # A data frame: 22 × 7 #>    name          os    distribution version update_command install_command #>    <chr>         <chr> <chr>        <chr>   <chr>          <chr>           #>  1 Ubuntu Linux  linux ubuntu       *       apt-get -y up… apt-get -y ins… #>  2 Debian Linux  linux debian       *       apt-get -y up… apt-get -y ins… #>  3 CentOS Linux  linux centos       *       NA             yum install -y  #>  4 Rocky Linux   linux rockylinux   *       NA             dnf install -y  #>  5 Red Hat Ente… linux redhat       6       NA             yum install -y  #>  6 Red Hat Ente… linux redhat       7       NA             yum install -y  #>  7 Red Hat Ente… linux redhat       *       NA             dnf install -y  #>  8 Red Hat Ente… linux rhel         7.0     NA             yum install -y  #>  9 Red Hat Ente… linux rhel         7.1     NA             yum install -y  #> 10 Red Hat Ente… linux rhel         7.2     NA             yum install -y  #> # ℹ 12 more rows #> # ℹ 1 more variable: query_command <chr>"},{"path":"https://pak.r-lib.org/dev/reference/system_r_platform.html","id":null,"dir":"Reference","previous_headings":"","what":"R platforms — system_r_platform","title":"R platforms — system_r_platform","text":"R platforms","code":""},{"path":"https://pak.r-lib.org/dev/reference/system_r_platform.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"R platforms — system_r_platform","text":"","code":"system_r_platform()  system_r_platform_data()"},{"path":"https://pak.r-lib.org/dev/reference/system_r_platform.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"R platforms — system_r_platform","text":"system_r_platform() returns character scalar. system_r_platform_data() returns data frame character scalar columns: cpu, vendor, os, distribution (Linux), release (Linux), platform: concatenation columns, separated dash.","code":""},{"path":"https://pak.r-lib.org/dev/reference/system_r_platform.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"R platforms — system_r_platform","text":"system_r_platform() detects platform current R version. system_r_platform_data() similar, returns raw data instead character scalar. default pak works source packages binary packages current platform. can change , providing different platform names pkg.platforms option PKG_PLATFORMS environment variable. option may contain following platform names: \"source\" source packages, \"macos\" macOS binaries appropriate R versions pak working . Packages incompatible CPU architectures dropped (defaulting CPU current macOS machine x86_64 non-macOS systems). macOS Darwin version selected based CRAN macOS binaries. E.g. R 3.5.0 macOS binaries built macOS El Capitan. \"windows\" Windows binaries default CRAN architecture. currently Windows Vista supported R versions, might change future. actual binary packages repository might support 32 bit 64 builds, one . practice 32-bit packages rare. CRAN builds including R 4.1 architectures, R 4.2 64 bit . \"windows\" alias i386+x86_64-w64-mingw32 currently. platform string like R.version$platform, Linux name version distribution also included. Examples: x86_64-apple-darwin17.0: macOS High Sierra. aarch64-apple-darwin20: macOS Big Sur arm64. x86_64-w64-mingw32: 64 bit Windows. i386-w64-mingw32: 32 bit Windows. i386+x86_64-w64-mingw32: 64 bit + 32 bit Windows. i386-pc-solaris2.10: 32 bit Solaris. (broken 64 Solaris builds might platform string, unfortunately.) x86_64-pc-linux-gnu-debian-10: Debian Linux 10 x86_64. x86_64-pc-linux-musl-alpine-3.14.1: Alpine Linux. x86_64-pc-linux-gnu-unknown: Unknown Linux Distribution x86_64. s390x-ibm-linux-gnu-ubuntu-20.04: Ubuntu Linux 20.04 S390x. amd64-portbld-freebsd12.1: FreeBSD 12.1 x86_64.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/system_r_platform.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"R platforms — system_r_platform","text":"","code":"if (FALSE) { system_r_platform() system_r_platform_data() }"},{"path":[]},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-080","dir":"Changelog","previous_headings":"","what":"pak 0.8.0","title":"pak 0.8.0","text":"CRAN release: 2024-08-26 pkg_deps() now accepts vector package names. metadata cache now use source URLs packages Archive Posit Package Manager repositories. URLs may serve different package, even source package main URL package serves binary package. alternative URLs needed PPM, anyway, PPM consistent state w.r.t. metadata package files (#623). pak now supports gitlab:: package sources better, adding explicit syntax specify subdirectories (https://github.com/r-lib/pkgdepends/issues/353, @dgkf). gitlab:: git:: package sources now support git submodules git-submodules configuration option set TRUE. See ?\"pak-config\" (https://github.com/r-lib/pkgdepends/issues/354). new ?ignore-unavailable parameter makes easy ignore soft dependencies unavailable (#606). pak now automatically ignores soft dependencies incompatible OS type (OS_type entry DESCRIPTION) installing packages. repo_add() ppm_*() functions, e.g. ppm_snapshots(), now work PPM API changes (https://github.com/r-lib/pkgcache/issues/110, https://github.com/r-lib/pkgcache/issues/115).","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-072","dir":"Changelog","previous_headings":"","what":"pak 0.7.2","title":"pak 0.7.2","text":"CRAN release: 2024-03-17 pak now supports using parameters packages *=?<param> form. E.g. *=?source installs packages source. pak now supports R 4.4.0 , also Rtools44.","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-071","dir":"Changelog","previous_headings":"","what":"pak 0.7.1","title":"pak 0.7.1","text":"CRAN release: 2023-12-10 pak can now handle case Config/Needs/* dependencies requested package repository. pak uses safer *printf() format strings now.","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-070","dir":"Changelog","previous_headings":"","what":"pak 0.7.0","title":"pak 0.7.0","text":"CRAN release: 2023-11-17 pak now correctly handles latest GitHub release @*release notation (@pawelru, https://github.com/r-lib/pkgdepends/pull/321) pak now correctly handles multiple instances package metadata, different R version requirements (#534, #538, https://github.com/r-lib/pkgdepends/pull/331). git:: package references work better now Azure DevOps (@jameslairdsmith, https://github.com/r-lib/pkgdepends/pull/333, https://github.com/r-lib/pkgdepends/pull/342). pak now better job accepting installed packages, avoids reinstalling packages needed using lock file (https://github.com/r-lib/actions/issues/759, https://github.com/r-lib/pkgdepends/pull/338).","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-060","dir":"Changelog","previous_headings":"","what":"pak 0.6.0","title":"pak 0.6.0","text":"CRAN release: 2023-08-29 pak now requires R >= 3.5.0. Many improvements system requirements support: pkg_sysreqs(): calculate system requirements packages. sysreqs_db_list(), sysreqs_db_match(), sysreqs_db_update(): query system requirements database. sysreqs_list_system_packages(), sysreqs_check_installed(), sysreqs_fix_installed(): query install missing system packages. sysreqs_platforms(): list supported platforms. installation proposal, printed installation, now includes required missing system packages, supported platforms. New sysreqs_platform configuration option override auto-detected platform. Faster, asynchronous system requirements lookup. pak now reinstall system requirements default, already installed. (can force reinstall/upgrade sysreqs_update configuration option.) New gitlab:: package source install packages GitLab (https://github.com/r-lib/pkgdepends/pull/315). pak now correctly parses multiple git:: packages (https://github.com/r-lib/pkgdepends/issues/318). git:: package sources now support version 1 git protocol. E.g. Bioconductor git repositories now work: git::https://git.bioconductor.org/packages/limma (https://github.com/r-lib/pkgdepends/issues/314). platforms config parameter now works correctly deps:: package sources (#522). New include_linkingto config parameter always include LinkingTo packages solution, even binaries (https://github.com/r-lib/pkgdepends/issues/485). pkg_name_check() now include Acromine results, web site unstable. repo_add() repo_resolve() MRAN@ prefix now deprecated resolves PPM, MRAN retired soon. See https://posit.co/blog/migrating--mran--posit-package-manager/. metadata cache now SystemRequirements information Bioconductor packages.","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-051","dir":"Changelog","previous_headings":"","what":"pak 0.5.1","title":"pak 0.5.1","text":"CRAN release: 2023-04-27 user visible changes.","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-050","dir":"Changelog","previous_headings":"","what":"pak 0.5.0","title":"pak 0.5.0","text":"CRAN release: 2023-04-20 meta_*() functions now consider platforms, cran_mirror r_versions config entries, see ?\"pak-config\". Better Posit Package Manager (PPM) support. New +ppm_has_binaries(), ppm_r_versions(), ppm_repo_url(), ppm_snapshots() ppm_platforms() functions help interacting PPM. See new ‘pkgcache Posit Package Manager Linux’ article https://r-lib.github.io/pkgcache. (r-lib/pkgcache#47 r-lib/pkgdepends#186). New system_r_platform() system_r_platform_data() functions query current platform. pak now support git repositories package references. E.g. git::https://github.com/r-lib/pak.git. pak now supports versioned CRAN packages, e.g. dplyr@1.1.1 always install dplyr 1.1.1. Note CRAN packages supported, Bioconductor packages (yet). pak now alternative system requirements lookup implementation. supports Fedora Debian systems well, addition Debian, Ubuntu, SUSE RedHat derivatives. can switch implementation setting R_PKG_SYSREQS2 environment variable true. pak now better job looking dependencies hand-selected dependency types. E.g. dependencies = \"LinkingTo\". pak now removes ?ignore-d packages dependencies, uses correct version comparison ?ignore-.r (https://github.com/r-lib/actions/issues/708). pak now fail circular soft dependencies (#306). pak now reports dependency solver failures better cases (#305, https://github.com/r-lib/pak/issues/474). pak now uses locally built CRAN binaries cache. Use ?nocache parameter opt , cache_delete(package = ...) remove package cache.","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-040","dir":"Changelog","previous_headings":"","what":"pak 0.4.0","title":"pak 0.4.0","text":"CRAN release: 2023-01-15 pak much improved informative error messages now. work yet finished, find unclear error message, please open issue. Thank ! solver now robust non-canonical input (e.g. DESCRIPTION files) (https://github.com/r-lib/pak/issues/423). Better installation output. Standard output error now collected together (https://github.com/r-lib/pkgdepends/commit/0669f0f8c). solver now better job multiple versions package present repository (https://github.com/r-lib/actions/issues/559). pkg_name_check() now works , needed fix changes https://crandb.r-pkg.org. Explicit package names local URL package sources, package=local::... package=url::... now parsed correctly dependencies. pak now robust Archs fields missing CRAN metadata packages compiled code (https://github.com/r-lib/pak/issues/448). url:: packages now always work correctly, even digest package installed (https://github.com/r-lib/pak/issues/433). pak now robust installing packages subdirectories GitHub repositories (https://github.com/r-lib/pak/issues/431, @paleolimbot). Parameters ?reinstall, ?source ?ignore now work correctly specified package=?parameter format (#294). ?ignore parameter works correctly now. Dependency resolution now fail package found. pak can now install url:: remotes GitHub. pak now fail package .tar.gz GitHub snapshot subdirectory, subdirectory subdirectory. pak now errors early deduce name package Remotes Config/Needs/* entry. Solver failures now include details cases previously . pak can now update packages Docker containers old version installed different Docker later (https://github.com/r-lib/pak/issues/251) Update R version -> Bioconductor version mapping. R 4.2.x now maps Bioconductor 3.16.","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-031","dir":"Changelog","previous_headings":"","what":"pak 0.3.1","title":"pak 0.3.1","text":"CRAN release: 2022-09-08 ?ignore parameter works correctly now. Dependency resolution now fail package found. pak can now install url:: remotes GitHub. pak now fail package .tar.gz GitHub snapshot subdirectory, subdirectory subdirectory. pak now errors early deduce name package Remotes Config/Needs/* entry. Solver failures now include details cases previously . pak can now update packages Docker containers old version installed different Docker later (#251) pak errors now user friendlier better formatted. pak now load tibble dependencies pak subprocess, dlls locked pak subprocess Windows. pak now fail installing package uses non-UTF-8 encoding R 4.3.x later (#404).","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-030","dir":"Changelog","previous_headings":"","what":"pak 0.3.0","title":"pak 0.3.0","text":"CRAN release: 2022-04-11 pak functions used return tibbles return data frames now. data frames tibbles similar, completely compatible. convert outputs pak functions tibbles call tibble::as_tibble() function . pillar package loaded, improves printing returned data frames. Relatedly, pak::pak_install_extra() installs pillar now, instead tibble. pak now supports file:// repositories. pak now uses HTTP 1.1 download packages Linux, addition macOS. fixes HTTP issues servers (#358). New ?ignore--r parameter ignore optional dependencies need newer R version (https://github.com/r-lib/pkgdepends/issues/243). New ?ignore parameter ignore optional dependency. Allow specifying downstream package parameters package=?param syntax. lockfile_install() now works better :: refs, pak always install version planned . System requirement installation now robust works Unix shell expressions (#347). CRAN-like resolution robust now repository missing usual metadata. lock file pretty JSON now. pak now handles version requirement types properly: ‘<’, ‘<=’, ==, >=, >. dependency solver now uses better heuristics (effectively) freeze multiple repositories multiple versions packages (e.g. RSPM CRAN) (https://github.com/r-lib/pkgdepends/pull/277)","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-021","dir":"Changelog","previous_headings":"","what":"pak 0.2.1","title":"pak 0.2.1","text":"CRAN release: 2021-12-20 user visible changes.","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-020","dir":"Changelog","previous_headings":"","what":"pak 0.2.0","title":"pak 0.2.0","text":"CRAN release: 2021-12-01 Lots news, much list. completely new package now.","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-012","dir":"Changelog","previous_headings":"","what":"pak 0.1.2","title":"pak 0.1.2","text":"CRAN release: 2019-02-19 First version CRAN.","code":""}]
+[{"path":[]},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"our-pledge","dir":"","previous_headings":"","what":"Our Pledge","title":"Contributor Covenant Code of Conduct","text":"members, contributors, leaders pledge make participation community harassment-free experience everyone, regardless age, body size, visible invisible disability, ethnicity, sex characteristics, gender identity expression, level experience, education, socio-economic status, nationality, personal appearance, race, caste, color, religion, sexual identity orientation. pledge act interact ways contribute open, welcoming, diverse, inclusive, healthy community.","code":""},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"our-standards","dir":"","previous_headings":"","what":"Our Standards","title":"Contributor Covenant Code of Conduct","text":"Examples behavior contributes positive environment community include: Demonstrating empathy kindness toward people respectful differing opinions, viewpoints, experiences Giving gracefully accepting constructive feedback Accepting responsibility apologizing affected mistakes, learning experience Focusing best just us individuals, overall community Examples unacceptable behavior include: use sexualized language imagery, sexual attention advances kind Trolling, insulting derogatory comments, personal political attacks Public private harassment Publishing others’ private information, physical email address, without explicit permission conduct reasonably considered inappropriate professional setting","code":""},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"enforcement-responsibilities","dir":"","previous_headings":"","what":"Enforcement Responsibilities","title":"Contributor Covenant Code of Conduct","text":"Community leaders responsible clarifying enforcing standards acceptable behavior take appropriate fair corrective action response behavior deem inappropriate, threatening, offensive, harmful. Community leaders right responsibility remove, edit, reject comments, commits, code, wiki edits, issues, contributions aligned Code Conduct, communicate reasons moderation decisions appropriate.","code":""},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"scope","dir":"","previous_headings":"","what":"Scope","title":"Contributor Covenant Code of Conduct","text":"Code Conduct applies within community spaces, also applies individual officially representing community public spaces. Examples representing community include using official e-mail address, posting via official social media account, acting appointed representative online offline event.","code":""},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"enforcement","dir":"","previous_headings":"","what":"Enforcement","title":"Contributor Covenant Code of Conduct","text":"Instances abusive, harassing, otherwise unacceptable behavior may reported community leaders responsible enforcement codeofconduct@posit.co. complaints reviewed investigated promptly fairly. community leaders obligated respect privacy security reporter incident.","code":""},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"enforcement-guidelines","dir":"","previous_headings":"","what":"Enforcement Guidelines","title":"Contributor Covenant Code of Conduct","text":"Community leaders follow Community Impact Guidelines determining consequences action deem violation Code Conduct:","code":""},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"id_1-correction","dir":"","previous_headings":"Enforcement Guidelines","what":"1. Correction","title":"Contributor Covenant Code of Conduct","text":"Community Impact: Use inappropriate language behavior deemed unprofessional unwelcome community. Consequence: private, written warning community leaders, providing clarity around nature violation explanation behavior inappropriate. public apology may requested.","code":""},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"id_2-warning","dir":"","previous_headings":"Enforcement Guidelines","what":"2. Warning","title":"Contributor Covenant Code of Conduct","text":"Community Impact: violation single incident series actions. Consequence: warning consequences continued behavior. interaction people involved, including unsolicited interaction enforcing Code Conduct, specified period time. includes avoiding interactions community spaces well external channels like social media. Violating terms may lead temporary permanent ban.","code":""},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"id_3-temporary-ban","dir":"","previous_headings":"Enforcement Guidelines","what":"3. Temporary Ban","title":"Contributor Covenant Code of Conduct","text":"Community Impact: serious violation community standards, including sustained inappropriate behavior. Consequence: temporary ban sort interaction public communication community specified period time. public private interaction people involved, including unsolicited interaction enforcing Code Conduct, allowed period. Violating terms may lead permanent ban.","code":""},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"id_4-permanent-ban","dir":"","previous_headings":"Enforcement Guidelines","what":"4. Permanent Ban","title":"Contributor Covenant Code of Conduct","text":"Community Impact: Demonstrating pattern violation community standards, including sustained inappropriate behavior, harassment individual, aggression toward disparagement classes individuals. Consequence: permanent ban sort public interaction within community.","code":""},{"path":"https://pak.r-lib.org/dev/CODE_OF_CONDUCT.html","id":"attribution","dir":"","previous_headings":"","what":"Attribution","title":"Contributor Covenant Code of Conduct","text":"Code Conduct adapted Contributor Covenant, version 2.1, available https://www.contributor-covenant.org/version/2/1/code_of_conduct.html. Community Impact Guidelines inspired [Mozilla’s code conduct enforcement ladder][https://github.com/mozilla/inclusion]. answers common questions code conduct, see FAQ https://www.contributor-covenant.org/faq. Translations available https://www.contributor-covenant.org/translations.","code":""},{"path":"https://pak.r-lib.org/dev/authors.html","id":null,"dir":"","previous_headings":"","what":"Authors","title":"Authors and Citation","text":"Gábor Csárdi. Author, maintainer. Jim Hester. Author. . Copyright holder, funder. Winston Chang. Contributor.           R6, callr, processx Ascent Digital Services. Copyright holder, funder.           callr, processx Hadley Wickham. Contributor, copyright holder.           cli, curl, pkgbuild Jeroen Ooms. Contributor.           curl, jsonlite Maëlle Salmon. Contributor.           desc, pkgsearch Duncan Temple Lang. Contributor.           jsonlite Lloyd Hilaiel. Copyright holder.           jsonlite Michel Berkelaar lpSolve authors. Contributor.           lpSolve R Consortium. Funder.           pkgsearch Jay Loden. Contributor.           ps Dave Daeschler. Contributor.           ps Giampaolo Rodola. Contributor.           ps Kuba Podgórski. Contributor.           zip Rich Geldreich. Contributor.           zip","code":""},{"path":"https://pak.r-lib.org/dev/authors.html","id":"citation","dir":"","previous_headings":"","what":"Citation","title":"Authors and Citation","text":"Csárdi G, Hester J (2024). pak: Another Approach Package Installation. R package version 0.8.0.9000, https://github.com/r-lib/pak, https://pak.r-lib.org/.","code":"@Manual{,   title = {pak: Another Approach to Package Installation},   author = {Gábor Csárdi and Jim Hester},   year = {2024},   note = {R package version 0.8.0.9000, https://github.com/r-lib/pak},   url = {https://pak.r-lib.org/}, }"},{"path":"https://pak.r-lib.org/dev/index.html","id":"pak","dir":"","previous_headings":"","what":"Another Approach to Package Installation","title":"Another Approach to Package Installation","text":"Fresh Approach R Package Installation pak installs R packages CRAN, Bioconductor, GitHub, URLs, git repositories, local files directories. alternative install.packages() devtools::install_github(). pak fast, safe convenient. 🚀 Short tour 🔗 Quick links (start doubt!) ✨ Features ⬇️ Installation 📘 License","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/index.html","id":"install-or-update-packages-from-cran-or-bioconductor","dir":"","previous_headings":"🚀 Short tour","what":"Install or update packages from CRAN or Bioconductor","title":"Another Approach to Package Installation","text":"","code":"pak::pkg_install(\"tibble\") #> ✔ Loading metadata database ... done #> #> → Will install 11 packages. #> → Will download 11 CRAN packages (4.55 MB). #> + cli         3.6.3 [bld][cmp][dl] (568.16 kB) #> + fansi       1.0.6 [bld][cmp][dl] (482.48 kB) #> + glue        1.8.0 [bld][cmp][dl] (126.68 kB) #> + lifecycle   1.0.4 [bld][dl] (107.66 kB) #> + magrittr    2.0.3 [bld][cmp][dl] (267.07 kB) #> + pillar      1.9.0 [bld][dl] (444.53 kB) #> + pkgconfig   2.0.3 [bld][dl] (6.08 kB) #> + rlang       1.1.4 [bld][cmp][dl] (767.04 kB) #> + tibble      3.2.1 [bld][cmp][dl] (565.98 kB) #> + utf8        1.2.4 [bld][cmp][dl] (241.08 kB) #> + vctrs       0.6.5 [bld][cmp][dl] (969.07 kB) #> #> ℹ Getting 11 pkgs (4.55 MB) #> ✔ Got pkgconfig 2.0.3 (source) (6.08 kB) #> ✔ Got glue 1.8.0 (source) (126.68 kB) #> ✔ Got lifecycle 1.0.4 (source) (107.66 kB) #> ✔ Got fansi 1.0.6 (source) (482.48 kB) #> ✔ Got utf8 1.2.4 (source) (241.08 kB) #> ✔ Got cli 3.6.3 (source) (568.16 kB) #> ✔ Got magrittr 2.0.3 (source) (267.07 kB) #> ✔ Got rlang 1.1.4 (source) (767.04 kB) #> ✔ Got pillar 1.9.0 (source) (444.53 kB) #> ✔ Got tibble 3.2.1 (source) (565.98 kB) #> ✔ Got vctrs 0.6.5 (source) (969.07 kB) #> ℹ Building cli 3.6.3 #> ℹ Building fansi 1.0.6 #> ℹ Building glue 1.8.0 #> ℹ Building magrittr 2.0.3 #> ✔ Built magrittr 2.0.3 (2s) #> ℹ Building pkgconfig 2.0.3 #> ✔ Built glue 1.8.0 (2.6s) #> ℹ Building rlang 1.1.4 #> ✔ Built pkgconfig 2.0.3 (1.4s) #> ℹ Building utf8 1.2.4 #> ✔ Built fansi 1.0.6 (6.4s) #> ✔ Installed fansi 1.0.6  (65ms) #> ✔ Installed glue 1.8.0  (39ms) #> ✔ Installed magrittr 2.0.3  (40ms) #> ✔ Installed pkgconfig 2.0.3  (28ms) #> ✔ Built utf8 1.2.4 (4.8s) #> ✔ Installed utf8 1.2.4  (1s) #> ✔ Built cli 3.6.3 (12.5s) #> ✔ Installed cli 3.6.3  (1s) #> ✔ Built rlang 1.1.4 (12.7s) #> ✔ Installed rlang 1.1.4  (38ms) #> ℹ Building lifecycle 1.0.4 #> ✔ Built lifecycle 1.0.4 (1.4s) #> ✔ Installed lifecycle 1.0.4  (1s) #> ℹ Building vctrs 0.6.5 #> ✔ Built vctrs 0.6.5 (15.6s) #> ✔ Installed vctrs 0.6.5  (1s) #> ℹ Building pillar 1.9.0 #> ✔ Built pillar 1.9.0 (3.1s) #> ✔ Installed pillar 1.9.0  (1s) #> ℹ Building tibble 3.2.1 #> ✔ Built tibble 3.2.1 (2.9s) #> ✔ Installed tibble 3.2.1  (30ms) #> ✔ 1 pkg + 10 deps: added 11, dld 11 (4.55 MB) [49.2s]"},{"path":"https://pak.r-lib.org/dev/index.html","id":"install-packages-from-github","dir":"","previous_headings":"🚀 Short tour","what":"Install packages from GitHub","title":"Another Approach to Package Installation","text":"","code":"pak::pkg_install(\"tidyverse/tibble\") #> #> → Will update 1 package. #> → The package (0 B) is cached. #> + tibble 3.2.1 → 3.2.1.9040 [bld][cmp] (GitHub: 7a17e07) #> #> ℹ No downloads are needed, 1 pkg is cached #> ✔ Got tibble 3.2.1.9040 (source) (5.26 MB) #> ℹ Packaging tibble 3.2.1.9040 #> ✔ Packaged tibble 3.2.1.9040 (1.2s) #> ℹ Building tibble 3.2.1.9040 #> ✔ Built tibble 3.2.1.9040 (2.7s) #> ✔ Installed tibble 3.2.1.9040 (github::tidyverse/tibble@7a17e07) (1s) #> ✔ 1 pkg + 10 deps: kept 10, upd 1, dld 1 (NA B) [8.5s]"},{"path":"https://pak.r-lib.org/dev/index.html","id":"look-up-dependencies","dir":"","previous_headings":"🚀 Short tour","what":"Look up dependencies","title":"Another Approach to Package Installation","text":"","code":"pak::pkg_deps_tree(\"tibble\") #> tibble 3.2.1 [new][bld][cmp] #> ├─fansi 1.0.6 [new][bld][cmp] #> ├─lifecycle 1.0.4 [new][bld] #> │ ├─cli 3.6.3 [new][bld][cmp] #> │ ├─glue 1.8.0 [new][bld][cmp] #> │ └─rlang 1.1.4 [new][bld][cmp] #> ├─magrittr 2.0.3 [new][bld][cmp] #> ├─pillar 1.9.0 [new][bld] #> │ ├─cli #> │ ├─fansi #> │ ├─glue #> │ ├─lifecycle #> │ ├─rlang #> │ ├─utf8 1.2.4 [new][bld][cmp] #> │ └─vctrs 0.6.5 [new][bld][cmp] #> │   ├─cli #> │   ├─glue #> │   ├─lifecycle #> │   └─rlang #> ├─pkgconfig 2.0.3 [new][bld] #> ├─rlang #> └─vctrs #> #> Key:  [new] new | [bld] build | [cmp] compile"},{"path":"https://pak.r-lib.org/dev/index.html","id":"explain-dependencies","dir":"","previous_headings":"🚀 Short tour","what":"Explain dependencies","title":"Another Approach to Package Installation","text":"","code":"pak::pkg_deps_explain(\"tibble\", \"rlang\") #> tibble -> lifecycle -> rlang #> tibble -> pillar -> lifecycle -> rlang #> tibble -> pillar -> rlang #> tibble -> pillar -> vctrs -> lifecycle -> rlang #> tibble -> pillar -> vctrs -> rlang #> tibble -> rlang #> tibble -> vctrs -> lifecycle -> rlang #> tibble -> vctrs -> rlang"},{"path":"https://pak.r-lib.org/dev/index.html","id":"install-a-local-package-and-its-dependencies","dir":"","previous_headings":"🚀 Short tour","what":"Install a local package and its dependencies","title":"Another Approach to Package Installation","text":"","code":"pak::local_install(\"cli\") #> #> → Will update 1 package. #> → The package (0 B) is cached. #> + cli 3.6.3 → 3.6.3 [bld][cmp] #> #> ℹ No downloads are needed, 1 pkg is cached #> ✔ Got cli 3.6.3 (source) (568.16 kB) #> ℹ Packaging cli 3.6.3 #> ✔ Packaged cli 3.6.3 (938ms) #> ℹ Building cli 3.6.3 #> ✔ Built cli 3.6.3 (7.6s) #> ✔ Installed cli 3.6.3 (local) (36ms) #> ✔ 1 pkg: upd 1, dld 1 (568.16 kB) [9.3s]"},{"path":[]},{"path":"https://pak.r-lib.org/dev/index.html","id":"how-do-i--","dir":"","previous_headings":"🔗 Quick links (start here if in doubt!)","what":"How do I … ?","title":"Another Approach to Package Installation","text":"Start Get Started pak solve specific issues.","code":""},{"path":"https://pak.r-lib.org/dev/index.html","id":"faq","dir":"","previous_headings":"🔗 Quick links (start here if in doubt!)","what":"FAQ","title":"Another Approach to Package Installation","text":"Check list frequently asked questions.","code":""},{"path":"https://pak.r-lib.org/dev/index.html","id":"reference","dir":"","previous_headings":"🔗 Quick links (start here if in doubt!)","what":"Reference","title":"Another Approach to Package Installation","text":"complete reference pak functions complete source information pak.","code":""},{"path":"https://pak.r-lib.org/dev/index.html","id":"i-have-another-question","dir":"","previous_headings":"🔗 Quick links (start here if in doubt!)","what":"I have a(nother) question","title":"Another Approach to Package Installation","text":"Don’t hesitate ask RStudio Community forum. Use pak tag.","code":""},{"path":"https://pak.r-lib.org/dev/index.html","id":"i-would-like-to-report-a-bug","dir":"","previous_headings":"🔗 Quick links (start here if in doubt!)","what":"I would like to report a bug","title":"Another Approach to Package Installation","text":"Head pak issue tracker.","code":""},{"path":"https://pak.r-lib.org/dev/index.html","id":"sparkles-features","dir":"","previous_headings":"","what":"✨ Features","title":"Another Approach to Package Installation","text":"⚡ Fast - parallel downloads installation, caching, etc. 🦺 Safe - dependency solver, system dependency solver, etc. 🏪 Convenient - packages multiple sources, time travel, etc. See complete list awesome features.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/index.html","id":"pre-built-binaries","dir":"","previous_headings":"⬇️ Installation","what":"Pre-built binaries","title":"Another Approach to Package Installation","text":"Install binary build pak repository GitHub: supported following systems: macOS support official CRAN R build. builds, e.g. Homebrew R, supported.","code":"install.packages(\"pak\", repos = sprintf(\"https://r-lib.github.io/p/pak/stable/%s/%s/%s\", .Platform$pkgType, R.Version()$os, R.Version()$arch))"},{"path":"https://pak.r-lib.org/dev/index.html","id":"install-from-cran","dir":"","previous_headings":"⬇️ Installation","what":"Install from CRAN","title":"Another Approach to Package Installation","text":"Install released version package CRAN usual: potentially needs C compiler platforms CRAN binaries packages .","code":"install.packages(\"pak\")"},{"path":"https://pak.r-lib.org/dev/index.html","id":"other-platforms-and-nightly-builds","dir":"","previous_headings":"⬇️ Installation","what":"Other platforms and nightly builds","title":"Another Approach to Package Installation","text":"See installation page!","code":""},{"path":"https://pak.r-lib.org/dev/index.html","id":"blue_book-license","dir":"","previous_headings":"","what":"📘 License","title":"Another Approach to Package Installation","text":"GPL-3 © RStudio","code":""},{"path":"https://pak.r-lib.org/dev/reference/cache.html","id":null,"dir":"Reference","previous_headings":"","what":"Package cache utilities — cache_summary","title":"Package cache utilities — cache_summary","text":"Various utilities inspect clean package cache. See pkgcache package need control package cache.","code":""},{"path":"https://pak.r-lib.org/dev/reference/cache.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Package cache utilities — cache_summary","text":"","code":"cache_summary()  cache_list(...)  cache_delete(...)  cache_clean()"},{"path":"https://pak.r-lib.org/dev/reference/cache.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Package cache utilities — cache_summary","text":"... cache_list() cache_delete(), ... may contain filters, argument name column name. E.g. package, version, etc. Call cache_list() without arguments see available column names. call cache_delete() without arguments, delete cached files.","code":""},{"path":"https://pak.r-lib.org/dev/reference/cache.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Package cache utilities — cache_summary","text":"cache_summary() returns list elements: cachepath: absolute path package cache files: number files (packages) cache size: total size package cache bytes cache_list() returns data frame data cache. cache_delete() returns nothing. cache_clean() returns nothing.","code":""},{"path":"https://pak.r-lib.org/dev/reference/cache.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Package cache utilities — cache_summary","text":"cache_summary() returns summary package cache. cache_list() lists (default), subset packages package cache. cache_delete() deletes files cache. cache_clean() deletes files cache.","code":""},{"path":"https://pak.r-lib.org/dev/reference/cache.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Package cache utilities — cache_summary","text":"","code":"cache_summary() #> $cachepath #> [1] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/pkg\" #> #> $files #> [1] 483 #> #> $size #> [1] 654662486 #> cache_list() #> # A data frame: 483 × 11 #>    fullpath       path  package url   etag  sha256 version platf…¹ built #>    <chr>          <chr> <chr>   <chr> <chr> <chr>  <chr>   <chr>   <int> #>  1 /Users/gaborc… arch… NA      http… \"\\\"1… 0c8f0… NA      NA         NA #>  2 /Users/gaborc… bin/… evalua… http… \"\\\"1… 08a39… 0.17    aarch6…    NA #>  3 /Users/gaborc… bin/… crayon  http… \"\\\"2… 1e6d5… 1.5.2   aarch6…    NA #>  4 /Users/gaborc… bin/… common… http… \"\\\"4… 47b4a… 1.8.1   aarch6…    NA #>  5 /Users/gaborc… bin/… curl    http… \"\\\"b… 7b8ba… 4.3.3   aarch6…    NA #>  6 /Users/gaborc… bin/… tinytex http… \"\\\"2… 7e9ba… 0.42    aarch6…    NA #>  7 /Users/gaborc… bin/… jsonli… http… \"\\\"1… 68e59… 1.8.2   aarch6…    NA #>  8 /Users/gaborc… bin/… lifecy… http… \"\\\"1… 7ce27… 1.0.3   aarch6…    NA #>  9 /Users/gaborc… bin/… vctrs   http… \"\\\"1… c3a69… 0.4.2   aarch6…    NA #> 10 /Users/gaborc… src/… pkgcac… NA     NA   9b70a… NA      NA          0 #> # … with 473 more rows, 2 more variables: vignettes <int>, #> #   rversion <chr>, and abbreviated variable name ¹​platform cache_list(package = \"recipes\") #> # A data frame: 1 × 11 #>   fullp…¹ path  package url   etag  sha256 version platf…² built vigne…³ #>   <chr>   <chr> <chr>   <chr> <chr> <chr>  <chr>   <chr>   <int>   <int> #> 1 /Users… bin/… recipes http… \"\\\"1… e281e… 1.0.2   aarch6…    NA      NA #> # … with 1 more variable: rversion <chr>, and abbreviated variable #> #   names ¹​fullpath, ²​platform, ³​vignettes cache_list(platform = \"source\") #> # A data frame: 69 × 11 #>    fullpath       path  package url   etag  sha256 version platf…¹ built #>    <chr>          <chr> <chr>   <chr> <chr> <chr>  <chr>   <chr>   <int> #>  1 /Users/gaborc… src/… crayon  http… \"\\\"9… 70a9a… 1.5.2   source     NA #>  2 /Users/gaborc… src/… zip     http… \"\\\"1… 14873… 2.2.1   source     NA #>  3 /Users/gaborc… src/… curl    http… \"\\\"a… 3567b… 4.3.3   source     NA #>  4 /Users/gaborc… src/… rlang   http… \"\\\"b… e6973… 1.0.6   source     NA #>  5 /Users/gaborc… src/… openssl http… \"\\\"1… 7cde9… 2.0.3   source     NA #>  6 /Users/gaborc… src/… tinytex http… \"\\\"8… 205f7… 0.42    source     NA #>  7 /Users/gaborc… src/… evalua… http… \"\\\"6… 49c74… 0.17    source     NA #>  8 /Users/gaborc… src/… Rcpp    http… \"\\\"2… 807ce… 1.0.9   source     NA #>  9 /Users/gaborc… src/… knitr   http… \"\\\"d… 9b8f9… 1.40    source     NA #> 10 /Users/gaborc… src/… lpSolve http… \"\\\"7… f7258… 5.6.17  source     NA #> # … with 59 more rows, 2 more variables: vignettes <int>, #> #   rversion <chr>, and abbreviated variable name ¹​platform cache_delete(package = \"knitr\") cache_delete(platform = \"macos\") cache_clean()"},{"path":"https://pak.r-lib.org/dev/reference/faq.html","id":null,"dir":"Reference","previous_headings":"","what":"Frequently Asked Questions — FAQ","title":"Frequently Asked Questions — FAQ","text":"Please take look list asking questions.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/faq.html","id":"how-do-i-reinstall-a-package-","dir":"Reference","previous_headings":"","what":"How do I reinstall a package?","title":"Frequently Asked Questions — FAQ","text":"pak reinstall package, version already installed. Sometimes still want reinstall, e.g. fix broken installation. case can delete package install , use ?reinstall parameter:","code":"pak::pkg_install(\"tibble\") #> #> → Will install 13 packages. #> → All 13 packages (7.68 MB) are cached. #> + cli         3.3.0 #> + crayon      1.5.1 #> + ellipsis    0.3.2 #> + fansi       1.0.3 #> + glue        1.6.2 #> + lifecycle   1.0.1 #> + magrittr    2.0.3 #> + pillar      1.7.0 #> + pkgconfig   2.0.3 #> + rlang       1.0.2 #> + tibble      3.1.7 #> + utf8        1.2.2 #> + vctrs       0.4.1 #> ℹ No downloads are needed, 13 pkgs (7.68 MB) are cached #> ✔ Got utf8 1.2.2 (aarch64-apple-darwin20) (209.24 kB) #> ✔ Installed cli 3.3.0  (76ms) #> ✔ Installed crayon 1.5.1  (87ms) #> ✔ Installed ellipsis 0.3.2  (97ms) #> ✔ Installed fansi 1.0.3  (103ms) #> ✔ Installed glue 1.6.2  (111ms) #> ✔ Installed lifecycle 1.0.1  (153ms) #> ✔ Installed magrittr 2.0.3  (158ms) #> ✔ Installed pillar 1.7.0  (162ms) #> ✔ Installed pkgconfig 2.0.3  (87ms) #> ✔ Installed rlang 1.0.2  (39ms) #> ✔ Installed tibble 3.1.7  (41ms) #> ✔ Installed utf8 1.2.2  (39ms) #> ✔ Installed vctrs 0.4.1  (32ms) #> ✔ 1 pkg + 12 deps: added 13, dld 1 (209.24 kB) [1.8s] pak::pkg_install(\"tibble?reinstall\") #> #> → Will install 1 package. #> → The package (724.32 kB) is cached. #> + tibble   3.1.7 #> ℹ No downloads are needed, 1 pkg (724.32 kB) is cached #> ✔ Installed tibble 3.1.7  (42ms) #> ✔ 1 pkg + 12 deps: kept 11, added 1 [343ms]"},{"path":"https://pak.r-lib.org/dev/reference/faq.html","id":"how-do-i-install-a-dependency-from-a-binary-package","dir":"Reference","previous_headings":"","what":"How do I install a dependency from a binary package","title":"Frequently Asked Questions — FAQ","text":"Sometimes sufficient install binary package older version dependency, instead newer source package potentially needs compilers, system tools libraries. pkg_install() lockfile_create() default upgrade = FALSE, always chooses binaries source packages, use pkg_install() need anything extra. local_install_* functions default upgrade = TRUE, pak() pkg = NULL, need explicitly use upgrade = FALSE.","code":""},{"path":"https://pak.r-lib.org/dev/reference/faq.html","id":"how-do-i-install-a-package-from-source-","dir":"Reference","previous_headings":"","what":"How do I install a package from source?","title":"Frequently Asked Questions — FAQ","text":"force installation source package (instead binary package), use ?source parameter:","code":"pak::pkg_install(\"tibble?source\") #> #> → Will install 1 package. #> → The package (672.34 kB) is cached. #> + tibble   3.1.7 👷🏼‍♀️🔧 #> ℹ No downloads are needed, 1 pkg (672.34 kB) is cached #> ℹ Building tibble 3.1.7 #> ✔ Built tibble 3.1.7 (3.1s) #> ✔ Installed tibble 3.1.7  (35ms) #> ✔ 1 pkg + 12 deps: kept 11, added 1 [4.1s]"},{"path":"https://pak.r-lib.org/dev/reference/faq.html","id":"how-do-i-install-the-latest-version-of-a-dependency-","dir":"Reference","previous_headings":"","what":"How do I install the latest version of a dependency?","title":"Frequently Asked Questions — FAQ","text":"want always install dependency source, want latest version reason, can use source parameter <package>= form: <package>=?source. example install tibble, cli dependency installed source write:","code":"pak::pkg_install(c(\"tibble\", \"cli=?source\")) #> #> → Will install 1 package. #> → The package (540.04 kB) is cached. #> + cli   3.3.0 👷🏽🔧 #> ℹ No downloads are needed, 1 pkg (540.04 kB) is cached #> ℹ Building cli 3.3.0 #> ✔ Built cli 3.3.0 (4.5s) #> ✔ Installed cli 3.3.0  (68ms) #> ✔ 1 pkg + 12 deps: kept 11, added 1 [4.9s]"},{"path":"https://pak.r-lib.org/dev/reference/faq.html","id":"how-do-i-ignore-an-optional-dependency-","dir":"Reference","previous_headings":"","what":"How do I ignore an optional dependency?","title":"Frequently Asked Questions — FAQ","text":"syntax   Note can ignore optional dependencies, .e. packages Suggests Enhances.","code":"pak::pkg_install(   c(\"tibble\", \"DiagrammeR=?ignore\", \"formattable=?ignore\"),   dependencies = TRUE ) #> #> ℹ No downloads are needed #> ✔ 1 pkg + 12 deps: kept 12 [583ms] <packagename>=?ignore"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/faq.html","id":"how-can-i-use-pak-with-renv-","dir":"Reference","previous_headings":"","what":"How can I use pak with renv?","title":"Frequently Asked Questions — FAQ","text":"Since version 1.0.0 renv official support using pak. needs enabled renv.config.pak.enabled option RENV_CONFIG_PAK_ENABLED environment variable set TRUE. information see renv documentation.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":null,"dir":"Reference","previous_headings":"","what":"A list of the most important pak features — Great pak features","title":"A list of the most important pak features — Great pak features","text":"list important pak features.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"parallel-http","dir":"Reference","previous_headings":"","what":"Parallel HTTP","title":"A list of the most important pak features — Great pak features","text":"pak performs HTTP queries concurrently. true downloads package metadata package repositories, resolves packages CRAN, GitHub, URLs, etc, downloads actual package files, etc.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"parallel-installation","dir":"Reference","previous_headings":"","what":"Parallel installation","title":"A list of the most important pak features — Great pak features","text":"pak installs packages concurrently, much dependency graph allows .","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"caching","dir":"Reference","previous_headings":"","what":"Caching","title":"A list of the most important pak features — Great pak features","text":"pak caches metadata package files, need re-download files .","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"plan-installation-up-front","dir":"Reference","previous_headings":"","what":"Plan installation up front","title":"A list of the most important pak features — Great pak features","text":"pak creates installation plan downloading packages. plan unsuccessful, fails without downloading packages.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"auto-install-missing-dependencies","dir":"Reference","previous_headings":"","what":"Auto-install missing dependencies","title":"A list of the most important pak features — Great pak features","text":"requesting installation package, pak makes sure dependencies also installed.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"keeping-binary-packages-up-to-date","dir":"Reference","previous_headings":"","what":"Keeping binary packages up-to-date","title":"A list of the most important pak features — Great pak features","text":"pak automatically discards binary packages cache, new build version available CRAN.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"correct-cran-metadata-errors","dir":"Reference","previous_headings":"","what":"Correct CRAN metadata errors","title":"A list of the most important pak features — Great pak features","text":"pak can correct CRAN's metadata issues, e.g.: New version package released since obtained metadata. macOS binary package available https://mac.r-project.org/ synchronization issue.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"graceful-handling-of-locked-package-dlls-on-windows","dir":"Reference","previous_headings":"","what":"Graceful handling of locked package DLLs on Windows","title":"A list of the most important pak features — Great pak features","text":"pak handles situation locked package DLLs, well possible. detects process locked , offers choice terminating processes. also unloads packages current R session needed.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"pak-keeps-its-own-dependencies-isolated","dir":"Reference","previous_headings":"","what":"pak keeps its own dependencies isolated","title":"A list of the most important pak features — Great pak features","text":"pak keeps dependencies private package library never loads packages. (background processes).","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"pak-comes-as-a-self-contained-binary-package","dir":"Reference","previous_headings":"","what":"pak comes as a self-contained binary package","title":"A list of the most important pak features — Great pak features","text":"common platforms. dependencies, system dependencies, compiler needed. (See also installation manual.)","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"install-packages-from-multiple-sources","dir":"Reference","previous_headings":"","what":"Install packages from multiple sources","title":"A list of the most important pak features — Great pak features","text":"CRAN, Bioconductor GitHub URLs Local files directories.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"ignore-certain-optional-dependencies","dir":"Reference","previous_headings":"","what":"Ignore certain optional dependencies","title":"A list of the most important pak features — Great pak features","text":"pak can ignore certain optional dependencies requested.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"cran-package-file-sizes","dir":"Reference","previous_headings":"","what":"CRAN package file sizes","title":"A list of the most important pak features — Great pak features","text":"pak knows sizes CRAN package files, can estimate much data need download, installation.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"bioconductor-version-detection","dir":"Reference","previous_headings":"","what":"Bioconductor version detection","title":"A list of the most important pak features — Great pak features","text":"pak automatically selects Bioconductor version appropriate R version. need set repositories.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"time-travel-with-ppm","dir":"Reference","previous_headings":"","what":"Time travel with PPM","title":"A list of the most important pak features — Great pak features","text":"pak can use PPM (Posit Public Package Manager) install snapshots CRAN.","code":""},{"path":"https://pak.r-lib.org/dev/reference/features.html","id":"pak-can-install-dependencies-of-local-packages","dir":"Reference","previous_headings":"","what":"pak can install dependencies of local packages","title":"A list of the most important pak features — Great pak features","text":"handy package development!","code":""},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":null,"dir":"Reference","previous_headings":"","what":"Simplified manual. Start here! — Get started with pak","title":"Simplified manual. Start here! — Get started with pak","text":"need read long manual pages simple task. manual page collects common pak use cases.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"install-a-package-from-cran-or-bioconductor","dir":"Reference","previous_headings":"","what":"Install a package from CRAN or Bioconductor","title":"Simplified manual. Start here! — Get started with pak","text":"pak automatically sets CRAN repository Bioconductor repositories correspons current R version.","code":"pak::pkg_install(\"tibble\")"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"install-a-package-from-github","dir":"Reference","previous_headings":"","what":"Install a package from GitHub","title":"Simplified manual. Start here! — Get started with pak","text":"Use user/repo form. can specify branch tag: user/repo@branch user/repo@tag.","code":"pak::pkg_install(\"tidyverse/tibble\") #> #> → Will update 2 packages. #> → All 2 packages (0 B) are cached. #> + tibble 3.1.8 → 3.1.8.9002 👷🏻🔧 (GitHub: 37ec86a) #> + vctrs  0.5.1 → 0.5.1.9000 👷🏾‍♀️🔧 (GitHub: 2d7de76) #> ℹ No downloads are needed, 2 pkgs are cached #> ℹ Packaging vctrs 0.5.1.9000 #> ✔ Packaged vctrs 0.5.1.9000 (1.4s) #> ℹ Building vctrs 0.5.1.9000 #> ✔ Built vctrs 0.5.1.9000 (11.2s) #> ✔ Installed vctrs 0.5.1.9000 (github::r-lib/vctrs@2d7de76) (34ms) #> ℹ Packaging tibble 3.1.8.9002 #> ✔ Packaged tibble 3.1.8.9002 (502ms) #> ℹ Building tibble 3.1.8.9002 #> ✔ Built tibble 3.1.8.9002 (2.7s) #> ✔ Installed tibble 3.1.8.9002 (github::tidyverse/tibble@37ec86a) (28ms) #> ✔ 1 pkg + 10 deps: kept 9, upd 2 [17.5s]"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"install-a-package-from-a-url","dir":"Reference","previous_headings":"","what":"Install a package from a URL","title":"Simplified manual. Start here! — Get started with pak","text":"URL may point R package file, made R CMD build, .tar.gz .zip archive package tree.","code":"pak::pkg_install(   \"url::https://cran.r-project.org/src/contrib/Archive/tibble/tibble_3.1.7.tar.gz\" ) #> #> → Will install 1 package. #> → Will update 1 package. #> → All 2 packages (38.65 kB) are cached. #> + ellipsis              0.3.2 #> + tibble   3.1.8.9002 → 3.1.7 👷🏻‍♀️🔧 #> ℹ No downloads are needed, 2 pkgs (38.65 kB) are cached #> ✔ Installed ellipsis 0.3.2  (18ms) #> ℹ Building tibble 3.1.7 #> ✔ Built tibble 3.1.7 (2.5s) #> ✔ Installed tibble 3.1.7  (31ms) #> ✔ 1 pkg + 11 deps: kept 10, upd 1, added 1 [3.3s]"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"update-a-package","dir":"Reference","previous_headings":"","what":"Update a package","title":"Simplified manual. Start here! — Get started with pak","text":"pak::pkg_install() automatically updates package.","code":"pak::pkg_install(\"tibble\") #> #> → Will update 1 package. #> → The package (724.32 kB) is cached. #> + tibble 3.1.7 → 3.1.8 #> ℹ No downloads are needed, 1 pkg (724.32 kB) is cached #> ✔ Installed tibble 3.1.8  (36ms) #> ✔ 1 pkg + 10 deps: kept 10, upd 1 [368ms]"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"update-all-dependencies-of-a-package","dir":"Reference","previous_headings":"","what":"Update all dependencies of a package","title":"Simplified manual. Start here! — Get started with pak","text":"upgrade = TRUE updates package dependencies, necessary.","code":"pak::pkg_install(\"tibble\", upgrade = TRUE) #> #> ℹ No downloads are needed #> ✔ 1 pkg + 10 deps: kept 11 [278ms]"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"reinstall-a-package","dir":"Reference","previous_headings":"","what":"Reinstall a package","title":"Simplified manual. Start here! — Get started with pak","text":"Add ?reinstall package name package reference general:","code":"pak::pkg_install(\"tibble?reinstall\") #> #> → Will install 1 package. #> → The package (724.32 kB) is cached. #> + tibble   3.1.8 #> ℹ No downloads are needed, 1 pkg (724.32 kB) is cached #> ✔ Installed tibble 3.1.8  (60ms) #> ✔ 1 pkg + 10 deps: kept 10, added 1 [340ms]"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"dependencies-of-a-cran-or-bioconductor-package","dir":"Reference","previous_headings":"","what":"Dependencies of a CRAN or Bioconductor package","title":"Simplified manual. Start here! — Get started with pak","text":"results returned data frame.","code":"pak::pkg_deps(\"tibble\") #> # A data frame: 11 × 32 #>    ref       type  direct direc…¹ status package version license needs…² #>    <chr>     <chr> <lgl>  <lgl>   <chr>  <chr>   <chr>   <chr>   <lgl> #>  1 cli       stan… FALSE  FALSE   OK     cli     3.4.1   MIT + … FALSE #>  2 fansi     stan… FALSE  FALSE   OK     fansi   1.0.3   GPL-2 … FALSE #>  3 glue      stan… FALSE  FALSE   OK     glue    1.6.2   MIT + … FALSE #>  4 lifecycle stan… FALSE  FALSE   OK     lifecy… 1.0.3   MIT + … FALSE #>  5 magrittr  stan… FALSE  FALSE   OK     magrit… 2.0.3   MIT + … FALSE #>  6 pillar    stan… FALSE  FALSE   OK     pillar  1.8.1   MIT + … FALSE #>  7 pkgconfig stan… FALSE  FALSE   OK     pkgcon… 2.0.3   MIT + … FALSE #>  8 rlang     stan… FALSE  FALSE   OK     rlang   1.0.6   MIT + … FALSE #>  9 tibble    stan… TRUE   TRUE    OK     tibble  3.1.8   MIT + … FALSE #> 10 utf8      stan… FALSE  FALSE   OK     utf8    1.2.2   Apache… FALSE #> 11 vctrs     stan… FALSE  FALSE   OK     vctrs   0.5.1   MIT + … FALSE #> # … with 23 more variables: priority <chr>, md5sum <chr>, sha256 <chr>, #> #   filesize <int>, built <chr>, platform <chr>, rversion <chr>, #> #   repotype <chr>, repodir <chr>, target <chr>, deps <list>, #> #   mirror <chr>, sources <list>, remote <list>, error <list>, #> #   metadata <list>, dep_types <list>, params <list>, sysreqs <chr>, #> #   cache_status <chr>, lib_status <chr>, old_version <chr>, #> #   new_version <chr>, and abbreviated variable names ¹​directpkg, …"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"dependency-tree-of-a-cran-bioconductor-package","dir":"Reference","previous_headings":"","what":"Dependency tree of a CRAN / Bioconductor package","title":"Simplified manual. Start here! — Get started with pak","text":"results also silently returned data frame.","code":"pak::pkg_deps_tree(\"tibble\") #> tibble 3.1.8 ✨ #> ├─fansi 1.0.3 ✨ #> ├─lifecycle 1.0.3 ✨ #> │ ├─cli 3.4.1 ✨ #> │ ├─glue 1.6.2 ✨ #> │ └─rlang 1.0.6 ✨ #> ├─magrittr 2.0.3 ✨ #> ├─pillar 1.8.1 ✨ #> │ ├─cli #> │ ├─fansi #> │ ├─glue #> │ ├─lifecycle #> │ ├─rlang #> │ ├─utf8 1.2.2 ✨ #> │ └─vctrs 0.5.1 ✨ #> │   ├─cli #> │   ├─glue #> │   ├─lifecycle #> │   └─rlang #> ├─pkgconfig 2.0.3 ✨ #> ├─rlang #> └─vctrs #> #> Key:  ✨ new"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"dependency-tree-of-a-package-on-github","dir":"Reference","previous_headings":"","what":"Dependency tree of a package on GitHub","title":"Simplified manual. Start here! — Get started with pak","text":"Use user/repo form. usual, can also select branch, tag, sha, user/repo@branch, user/repo@tag user/repo@sha forms.","code":"pak::pkg_deps_tree(\"tidyverse/tibble\") #> tidyverse/tibble 3.1.8.9002 ✨👷🏼🔧  #> ├─fansi 1.0.3 ✨ #> ├─lifecycle 1.0.3 ✨ #> │ ├─cli 3.4.1 ✨ #> │ ├─glue 1.6.2 ✨ #> │ └─rlang 1.0.6 ✨ #> ├─magrittr 2.0.3 ✨ #> ├─pillar 1.8.1 ✨ #> │ ├─cli #> │ ├─fansi #> │ ├─glue #> │ ├─lifecycle #> │ ├─rlang #> │ ├─utf8 1.2.2 ✨ #> │ └─r-lib/vctrs 0.5.1.9000 ✨👷🏼🔧  #> │   ├─cli #> │   ├─glue #> │   ├─lifecycle #> │   └─rlang #> ├─pkgconfig 2.0.3 ✨ #> ├─rlang #> └─r-lib/vctrs #> #> Key:  ✨ new | 👷🏼 build | 🔧 compile"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"dependency-tree-of-the-package-in-the-current-directory","dir":"Reference","previous_headings":"","what":"Dependency tree of the package in the current directory","title":"Simplified manual. Start here! — Get started with pak","text":"Assuming package directory tibble.","code":"pak::local_deps_tree(\"tibble\") #> local::tibble 3.1.8 ✨👷🏻‍♀️🔧     #> ├─fansi 1.0.3 ✨ #> ├─lifecycle 1.0.3 ✨ #> │ ├─cli 3.4.1 ✨ #> │ ├─glue 1.6.2 ✨ #> │ └─rlang 1.0.6 ✨ #> ├─magrittr 2.0.3 ✨ #> ├─pillar 1.8.1 ✨ #> │ ├─cli #> │ ├─fansi #> │ ├─glue #> │ ├─lifecycle #> │ ├─rlang #> │ ├─utf8 1.2.2 ✨ #> │ └─vctrs 0.5.1 ✨ #> │   ├─cli #> │   ├─glue #> │   ├─lifecycle #> │   └─rlang #> ├─pkgconfig 2.0.3 ✨ #> ├─rlang #> └─vctrs #> #> Key:  ✨ new | 👷🏻‍♀️ build | 🔧 compile"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"explain-a-recursive-dependency","dir":"Reference","previous_headings":"","what":"Explain a recursive dependency","title":"Simplified manual. Start here! — Get started with pak","text":"tibble depend rlang?   Use can also use user/repo form packages GitHub, url::... packages URLs, etc.","code":"pak::pkg_deps_explain(\"tibble\", \"rlang\") #> tibble -> lifecycle -> rlang #> tibble -> pillar -> lifecycle -> rlang #> tibble -> pillar -> rlang #> tibble -> pillar -> vctrs -> lifecycle -> rlang #> tibble -> pillar -> vctrs -> rlang #> tibble -> rlang #> tibble -> vctrs -> lifecycle -> rlang #> tibble -> vctrs -> rlang"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"install-dependencies-of-local-package","dir":"Reference","previous_headings":"","what":"Install dependencies of local package","title":"Simplified manual. Start here! — Get started with pak","text":"","code":"pak::local_install_deps() #> ✔ Loading metadata database ... done #> #> → The package (0 B) is cached. #> ℹ No downloads are needed #> ✔ 10 deps: kept 10 [3.2s]"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"install-local-package","dir":"Reference","previous_headings":"","what":"Install local package","title":"Simplified manual. Start here! — Get started with pak","text":"","code":"pak::local_install() #> #> → Will update 1 package. #> → The package (0 B) is cached. #> + tibble 3.1.8 → 3.1.8 👷🏻‍♂️🔧 #> ℹ No downloads are needed, 1 pkg is cached #> ✔ Got tibble 3.1.8 (source) (96 B) #> ℹ Packaging tibble 3.1.8 #> ✔ Packaged tibble 3.1.8 (864ms) #> ℹ Building tibble 3.1.8 #> ✔ Built tibble 3.1.8 (2.4s) #> ✔ Installed tibble 3.1.8 (local) (38ms) #> ✔ 1 pkg + 10 deps: kept 10, upd 1, dld 1 (NA B) [4.2s]"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"install-all-dependencies-of-local-package","dir":"Reference","previous_headings":"","what":"Install all dependencies of local package","title":"Simplified manual. Start here! — Get started with pak","text":"Installs development optional dependencies well.","code":"pak::local_install_dev_deps() #> #> → Will install 86 packages. #> → Will update 2 packages. #> → All 89 packages (100.53 MB) are cached. #> + askpass                1.1 #> + base64enc              0.1-3 #> + bench                  1.1.2 #> + bit                    4.0.5 #> + bit64                  4.0.5 #> + blob                   1.2.3 #> + brio                   1.1.3 #> + bslib                  0.4.1 #> + cachem                 1.0.6 #> + callr                  3.7.3 #> + clipr                  0.8.0 #> + colorspace             2.0-3 #> + covr                   3.6.1 #> + crayon                 1.5.2 #> + curl                   4.3.3 #> + desc                   1.4.2 #> + DiagrammeR             1.0.9 #> + diffobj                0.3.5 #> + digest                 0.6.31 #> + downloader             0.4 #> + dplyr                  1.0.10 #> + evaluate               0.19    👷🏿‍♂️ #> + farver                 2.1.1 #> + fastmap                1.1.0 #> + formattable            0.2.1 #> + fs                     1.5.2 #> + generics               0.1.3 #> + ggplot2                3.4.0 #> + gridExtra              2.3 #> + gtable                 0.3.1 #> + highr                  0.9 #> + hms                    1.1.2 #> + htmltools              0.5.4 #> + htmlwidgets            1.6.0   👷🏾‍♂️ #> + httr                   1.4.4 #> + igraph                 1.3.5 #> + influenceR             0.1.0.1 #> + isoband                0.2.6 #> + jquerylib              0.1.4 #> + jsonlite               1.8.4 #> + knitr                  1.41 #> + labeling               0.4.2 #> + lazyeval               0.2.2 #> + lubridate              1.9.0 #> + Matrix       1.5-1   → 1.5-3 #> + memoise                2.0.1 #> + mime                   0.12 #> + mockr                  0.2.0 #> + munsell                0.5.0 #> + nlme         3.1-160 → 3.1-161 👷‍♂️🔧 #> + nycflights13           1.0.2 #> + openssl                2.0.5 #> + pkgbuild               1.4.0 #> + pkgload                1.3.2 #> + praise                 1.0.0 #> + prettyunits            1.1.1 #> + processx               3.8.0 #> + profmem                0.6.0 #> + ps                     1.7.2 #> + purrr                  0.3.5 #> + R6                     2.5.1 #> + rappdirs               0.3.3 #> + RColorBrewer           1.1-3 #> + readr                  2.1.3 #> + rematch2               2.1.2 #> + rex                    1.2.1 #> + rmarkdown              2.19    👷‍♂️ #> + rprojroot              2.0.3 #> + rstudioapi             0.14 #> + sass                   0.4.4 #> + scales                 1.2.1 #> + stringi                1.7.8 #> + stringr                1.5.0 #> + sys                    3.4.1 #> + testthat               3.1.6 #> + tidyr                  1.2.1 #> + tidyselect             1.2.0 #> + timechange             0.1.1 #> + tinytex                0.43    👷🏻‍♂️ #> + tzdb                   0.3.0 #> + viridis                0.6.2 #> + viridisLite            0.4.1 #> + visNetwork             2.1.2 #> + vroom                  1.6.0 #> + waldo                  0.4.0 #> + withr                  2.5.0 #> + xfun                   0.35 #> + yaml                   2.3.6 #> ℹ No downloads are needed, 88 pkgs (100.53 MB) are cached #> ℹ Packaging tibble 3.1.8 #> ℹ Building evaluate 0.19 #> ℹ Building nlme 3.1-161 #> ✔ Installed R6 2.5.1  (31ms) #> ✔ Installed DiagrammeR 1.0.9  (76ms) #> ✔ Installed RColorBrewer 1.1-3  (72ms) #> ✔ Installed askpass 1.1  (79ms) #> ✔ Installed Matrix 1.5-3  (137ms) #> ✔ Installed base64enc 0.1-3  (125ms) #> ✔ Installed bench 1.1.2  (90ms) #> ✔ Installed bit64 4.0.5  (44ms) #> ✔ Installed bit 4.0.5  (43ms) #> ✔ Installed blob 1.2.3  (41ms) #> ✔ Installed brio 1.1.3  (40ms) #> ✔ Installed cachem 1.0.6  (31ms) #> ✔ Installed callr 3.7.3  (53ms) #> ✔ Installed clipr 0.8.0  (89ms) #> ✔ Installed colorspace 2.0-3  (99ms) #> ✔ Installed covr 3.6.1  (58ms) #> ✔ Installed crayon 1.5.2  (75ms) #> ✔ Installed curl 4.3.3  (83ms) #> ✔ Packaged tibble 3.1.8 (684ms) #> ✔ Installed bslib 0.4.1  (315ms) #> ✔ Installed desc 1.4.2  (77ms) #> ✔ Installed diffobj 0.3.5  (68ms) #> ✔ Installed digest 0.6.31  (60ms) #> ✔ Installed downloader 0.4  (39ms) #> ✔ Installed dplyr 1.0.10  (39ms) #> ✔ Installed farver 2.1.1  (41ms) #> ✔ Installed fastmap 1.1.0  (38ms) #> ✔ Installed formattable 0.2.1  (43ms) #> ✔ Built evaluate 0.19 (903ms) #> ✔ Installed fs 1.5.2  (49ms) #> ✔ Installed generics 0.1.3  (46ms) #> ✔ Installed ggplot2 3.4.0  (65ms) #> ✔ Installed gridExtra 2.3  (43ms) #> ✔ Installed gtable 0.3.1  (38ms) #> ✔ Installed highr 0.9  (37ms) #> ✔ Installed hms 1.1.2  (39ms) #> ✔ Installed htmltools 0.5.4  (40ms) #> ✔ Installed httr 1.4.4  (40ms) #> ✔ Installed influenceR 0.1.0.1  (17ms) #> ✔ Installed igraph 1.3.5  (96ms) #> ✔ Installed isoband 0.2.6  (68ms) #> ✔ Installed jquerylib 0.1.4  (38ms) #> ✔ Installed jsonlite 1.8.4  (37ms) #> ✔ Installed labeling 0.4.2  (14ms) #> ✔ Installed knitr 1.41  (73ms) #> ✔ Installed lazyeval 0.2.2  (43ms) #> ✔ Installed lubridate 1.9.0  (38ms) #> ✔ Installed memoise 2.0.1  (39ms) #> ✔ Installed mime 0.12  (58ms) #> ✔ Installed mockr 0.2.0  (38ms) #> ✔ Installed munsell 0.5.0  (36ms) #> ✔ Installed nycflights13 1.0.2  (37ms) #> ✔ Installed openssl 2.0.5  (41ms) #> ✔ Installed pkgbuild 1.4.0  (39ms) #> ✔ Installed pkgload 1.3.2  (37ms) #> ✔ Installed praise 1.0.0  (35ms) #> ✔ Installed prettyunits 1.1.1  (56ms) #> ✔ Installed processx 3.8.0  (37ms) #> ✔ Installed profmem 0.6.0  (37ms) #> ✔ Installed ps 1.7.2  (37ms) #> ✔ Installed purrr 0.3.5  (38ms) #> ✔ Installed rappdirs 0.3.3  (37ms) #> ✔ Installed readr 2.1.3  (42ms) #> ✔ Installed rematch2 2.1.2  (41ms) #> ✔ Installed rex 1.2.1  (58ms) #> ✔ Installed rprojroot 2.0.3  (58ms) #> ✔ Installed rstudioapi 0.14  (40ms) #> ✔ Installed sass 0.4.4  (42ms) #> ✔ Installed scales 1.2.1  (39ms) #> ✔ Installed stringr 1.5.0  (33ms) #> ✔ Installed sys 3.4.1  (49ms) #> ✔ Installed testthat 3.1.6  (88ms) #> ✔ Installed tidyr 1.2.1  (77ms) #> ✔ Installed stringi 1.7.8  (195ms) #> ✔ Installed tidyselect 1.2.0  (113ms) #> ✔ Installed timechange 0.1.1  (55ms) #> ✔ Installed tzdb 0.3.0  (40ms) #> ✔ Installed viridisLite 0.4.1  (39ms) #> ✔ Installed viridis 0.6.2  (39ms) #> ✔ Installed visNetwork 2.1.2  (77ms) #> ✔ Installed vroom 1.6.0  (77ms) #> ✔ Installed waldo 0.4.0  (62ms) #> ✔ Installed withr 2.5.0  (40ms) #> ✔ Installed xfun 0.35  (39ms) #> ℹ Building tinytex 0.43 #> ✔ Installed yaml 2.3.6  (43ms) #> ✔ Installed evaluate 0.19  (15ms) #> ✔ Built tinytex 0.43 (1.1s) #> ✔ Installed tinytex 0.43  (15ms) #> ℹ Building rmarkdown 2.19 #> ✔ Built rmarkdown 2.19 (3.9s) #> ✔ Installed rmarkdown 2.19  (85ms) #> ℹ Building htmlwidgets 1.6.0 #> ✔ Built nlme 3.1-161 (8s) #> ✔ Installed nlme 3.1-161  (33ms) #> ✔ Built htmlwidgets 1.6.0 (1.1s) #> ✔ Installed htmlwidgets 1.6.0  (22ms) #> ✔ 103 deps: kept 15, upd 2, added 86 [10.2s]"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"list-current-repositories","dir":"Reference","previous_headings":"","what":"List current repositories","title":"Simplified manual. Start here! — Get started with pak","text":"set CRAN Bioconductor repository, pak automatically.","code":"pak::repo_get() #> # A data frame: 5 × 5 #>   name          url                                type  r_ver…¹ bioc_…² #> * <chr>         <chr>                              <chr> <chr>   <chr> #> 1 CRAN          https://cloud.r-project.org        cran  *       NA #> 2 BioCsoft      https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 3 BioCann       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 4 BioCexp       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 5 BioCworkflows https://bioconductor.org/packages… bioc  4.2.2   3.16 #> # … with abbreviated variable names ¹​r_version, ²​bioc_version"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"add-custom-repository","dir":"Reference","previous_headings":"","what":"Add custom repository","title":"Simplified manual. Start here! — Get started with pak","text":"","code":"pak::repo_add(rhub = 'https://r-hub.r-universe.dev') pak::repo_get() #> # A data frame: 6 × 5 #>   name          url                                type  r_ver…¹ bioc_…² #> * <chr>         <chr>                              <chr> <chr>   <chr> #> 1 CRAN          https://cloud.r-project.org        cran  *       NA #> 2 rhub          https://r-hub.r-universe.dev       cran… *       NA #> 3 BioCsoft      https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 4 BioCann       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 5 BioCexp       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 6 BioCworkflows https://bioconductor.org/packages… bioc  4.2.2   3.16 #> # … with abbreviated variable names ¹​r_version, ²​bioc_version"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"remove-custom-repositories","dir":"Reference","previous_headings":"","what":"Remove custom repositories","title":"Simplified manual. Start here! — Get started with pak","text":"set repos option CRAN repo , unset completely, pak keeps CRAN (default) Bioconductor.","code":"options(repos = getOption(\"repos\")[\"CRAN\"]) pak::repo_get() #> # A data frame: 5 × 5 #>   name          url                                type  r_ver…¹ bioc_…² #> * <chr>         <chr>                              <chr> <chr>   <chr> #> 1 CRAN          https://cloud.r-project.org        cran  *       NA #> 2 BioCsoft      https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 3 BioCann       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 4 BioCexp       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 5 BioCworkflows https://bioconductor.org/packages… bioc  4.2.2   3.16 #> # … with abbreviated variable names ¹​r_version, ²​bioc_version"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"time-travel-using-rspm","dir":"Reference","previous_headings":"","what":"Time travel using RSPM","title":"Simplified manual. Start here! — Get started with pak","text":"Sets repository equivalent CRAN's state closest specified date. Name repository CRAN, otherwise pak also add default CRAN repository.","code":"pak::repo_add(CRAN = \"RSPM@2022-06-30\") pak::repo_get() #> # A data frame: 5 × 5 #>   name          url                                type  r_ver…¹ bioc_…² #> * <chr>         <chr>                              <chr> <chr>   <chr> #> 1 CRAN          https://packagemanager.posit.co/c… cran  *       NA #> 2 BioCsoft      https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 3 BioCann       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 4 BioCexp       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 5 BioCworkflows https://bioconductor.org/packages… bioc  4.2.2   3.16 #> # … with abbreviated variable names ¹​r_version, ²​bioc_version"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"time-travel-using-mran","dir":"Reference","previous_headings":"","what":"Time travel using MRAN","title":"Simplified manual. Start here! — Get started with pak","text":"Sets repository equivalent CRAN's state specified date. Name repository CRAN, otherwise pak also add default CRAN repository.","code":"pak::repo_add(CRAN = \"MRAN@2022-06-30\") pak::repo_get() #> # A data frame: 5 × 5 #>   name          url                                type  r_ver…¹ bioc_…² #> * <chr>         <chr>                              <chr> <chr>   <chr> #> 1 CRAN          https://cran.microsoft.com/snapsh… cran  *       NA #> 2 BioCsoft      https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 3 BioCann       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 4 BioCexp       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 5 BioCworkflows https://bioconductor.org/packages… bioc  4.2.2   3.16 #> # … with abbreviated variable names ¹​r_version, ²​bioc_version"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"caches","dir":"Reference","previous_headings":"","what":"Caches","title":"Simplified manual. Start here! — Get started with pak","text":"default pak caches metadata downloaded packages.","code":""},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"inspect-metadata-cache","dir":"Reference","previous_headings":"","what":"Inspect metadata cache","title":"Simplified manual. Start here! — Get started with pak","text":"","code":"pak::meta_list() #> ✔ Updated metadata database: 4.55 MB in 4 files. #> ✔ Updating metadata database ... done #> # A data frame: 43,718 × 32 #>    package version depends sugge…¹ license imports linki…² archs enhan…³ #>    <chr>   <chr>   <chr>   <chr>   <chr>   <chr>   <chr>   <chr> <chr> #>  1 A3      1.0.0   R (>= … random… GPL (>… NA      NA      NA    NA #>  2 AATtoo… 0.0.1   R (>= … NA      GPL-3   magrit… NA      NA    NA #>  3 ABACUS  1.0.0   R (>= … rmarkd… GPL-3   ggplot… NA      NA    NA #>  4 ABC.RAP 0.9.0   R (>= … knitr,… GPL-3   graphi… NA      NA    NA #>  5 ABCana… 1.2.1   R (>= … NA      GPL-3   plotrix NA      NA    NA #>  6 ABCopt… 0.15.0  NA      testth… MIT + … Rcpp, … Rcpp    ABCo… NA #>  7 ABCp2   1.2     MASS    NA      GPL-2   NA      NA      NA    NA #>  8 ABHgen… 1.0.1   NA      knitr,… GPL-3   ggplot… NA      NA    NA #>  9 ABPS    0.3     NA      testth… GPL (>… kernlab NA      NA    NA #> 10 ACA     1.1     R (>= … NA      GPL     graphi… NA      NA    NA #> # … with 43,708 more rows, 23 more variables: os_type <chr>, #> #   priority <chr>, license_is_foss <chr>, license_restricts_use <chr>, #> #   repodir <chr>, rversion <chr>, platform <chr>, #> #   needscompilation <chr>, ref <chr>, type <chr>, direct <lgl>, #> #   status <chr>, target <chr>, mirror <chr>, sources <list>, #> #   filesize <int>, sha256 <chr>, sysreqs <chr>, built <chr>, #> #   published <dttm>, deps <list>, md5sum <chr>, path <chr>, and …"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"update-metadata-cache","dir":"Reference","previous_headings":"","what":"Update metadata cache","title":"Simplified manual. Start here! — Get started with pak","text":"default pkg_install() similar functions automatically update metadata currently set repositories older 24 hours. can also force update manually:","code":"pak::meta_update() #> ✔ Updating metadata database ... done"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"clean-metadata-cache","dir":"Reference","previous_headings":"","what":"Clean metadata cache","title":"Simplified manual. Start here! — Get started with pak","text":"","code":"pak::meta_clean(force = TRUE) pak::meta_summary() #> [1] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metad #> ata\" #> #> $current_db #> [1] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metad #> ata/pkgs-d1c324e625.rds\" #> #> $raw_files #> character(0) #> #> $db_files #> character(0) #> #> $size #> [1] 0 #>"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"inspect-package-cache","dir":"Reference","previous_headings":"","what":"Inspect package cache","title":"Simplified manual. Start here! — Get started with pak","text":"Downloaded packages also cached.","code":"pak::cache_list() #> # A data frame: 480 × 11 #>    fullpath       path  package url   etag  sha256 version platf…¹ built #>    <chr>          <chr> <chr>   <chr> <chr> <chr>  <chr>   <chr>   <int> #>  1 /Users/gaborc… arch… NA      http… \"\\\"1… 0c8f0… NA      NA         NA #>  2 /Users/gaborc… bin/… evalua… http… \"\\\"1… 08a39… 0.17    aarch6…    NA #>  3 /Users/gaborc… bin/… crayon  http… \"\\\"2… 1e6d5… 1.5.2   aarch6…    NA #>  4 /Users/gaborc… bin/… common… http… \"\\\"4… 47b4a… 1.8.1   aarch6…    NA #>  5 /Users/gaborc… bin/… curl    http… \"\\\"b… 7b8ba… 4.3.3   aarch6…    NA #>  6 /Users/gaborc… bin/… tinytex http… \"\\\"2… 7e9ba… 0.42    aarch6…    NA #>  7 /Users/gaborc… bin/… jsonli… http… \"\\\"1… 68e59… 1.8.2   aarch6…    NA #>  8 /Users/gaborc… bin/… lifecy… http… \"\\\"1… 7ce27… 1.0.3   aarch6…    NA #>  9 /Users/gaborc… bin/… vctrs   http… \"\\\"1… c3a69… 0.4.2   aarch6…    NA #> 10 /Users/gaborc… src/… pkgcac… NA     NA   9b70a… NA      NA          0 #> # … with 470 more rows, 2 more variables: vignettes <int>, #> #   rversion <chr>, and abbreviated variable name ¹​platform"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"view-a-package-cache-summary","dir":"Reference","previous_headings":"","what":"View a package cache summary","title":"Simplified manual. Start here! — Get started with pak","text":"","code":"pak::cache_summary() #> $cachepath #> [1] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/pkg\" #> #> $files #> [1] 480 #> #> $size #> [1] 653325143 #>"},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"clean-package-cache","dir":"Reference","previous_headings":"","what":"Clean package cache","title":"Simplified manual. Start here! — Get started with pak","text":"","code":"pak::cache_clean()"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/get-started.html","id":"list-packages-in-a-library","dir":"Reference","previous_headings":"","what":"List packages in a library","title":"Simplified manual. Start here! — Get started with pak","text":"Pass directory library argument.","code":"pak::lib_status(Sys.getenv(\"R_LIBS_USER\")) #> # A data frame: 701 × 39 #>    library   package title version depends repos…¹ license needs…² built #>    <chr>     <chr>   <chr> <chr>   <chr>   <chr>   <chr>   <lgl>   <chr> #>  1 /Users/g… abc     \"Too… 2.2.1   R (>= … CRAN    GPL (>… FALSE   R 4.… #>  2 /Users/g… abc.da… \"Dat… 1.0     R (>= … CRAN    GPL (>… FALSE   R 4.… #>  3 /Users/g… abind   \"Com… 1.4-5   R (>= … CRAN    LGPL (… FALSE   R 4.… #>  4 /Users/g… ade4    \"Ana… 1.7-19  R (>= … CRAN    GPL (>… TRUE    R 4.… #>  5 /Users/g… ape     \"Ana… 5.6-2   R (>= … CRAN    GPL-2 … TRUE    R 4.… #>  6 /Users/g… aplot   \"Dec… 0.1.7   NA      CRAN    Artist… FALSE   R 4.… #>  7 /Users/g… archive \"Mul… 1.1.5   R (>= … CRAN    MIT + … TRUE    R 4.… #>  8 /Users/g… arrayh… \"Con… 1.1-0   NA      CRAN    GPL     FALSE   R 4.… #>  9 /Users/g… arrow   \"Int… 9.0.0   R (>= … CRAN    Apache… TRUE    R 4.… #> 10 /Users/g… arules  \"Min… 1.7-5   R (>= … CRAN    GPL-3   TRUE    R 4.… #> # … with 691 more rows, 30 more variables: remotetype <chr>, #> #   remotepkgref <chr>, remoteref <chr>, remoterepos <chr>, #> #   remotepkgplatform <chr>, remotesha <chr>, imports <chr>, #> #   suggests <chr>, linkingto <chr>, remotes <chr>, remotehost <chr>, #> #   remoterepo <chr>, remoteusername <chr>, enhances <chr>, #> #   biocviews <chr>, remoteurl <chr>, remotesubdir <chr>, #> #   priority <chr>, remoteetag <chr>, remotepackaged <chr>, …"},{"path":"https://pak.r-lib.org/dev/reference/handle_package_not_found.html","id":null,"dir":"Reference","previous_headings":"","what":"Install missing packages on the fly — handle_package_not_found","title":"Install missing packages on the fly — handle_package_not_found","text":"Use function set global error handler, called R fails load package. handler offer choice installing missing package (dependencies), cases can also remedy error restart code.","code":""},{"path":"https://pak.r-lib.org/dev/reference/handle_package_not_found.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Install missing packages on the fly — handle_package_not_found","text":"","code":"handle_package_not_found(err)"},{"path":"https://pak.r-lib.org/dev/reference/handle_package_not_found.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Install missing packages on the fly — handle_package_not_found","text":"err error object, class packageNotFoundError.","code":""},{"path":"https://pak.r-lib.org/dev/reference/handle_package_not_found.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Install missing packages on the fly — handle_package_not_found","text":"Nothing.","code":""},{"path":"https://pak.r-lib.org/dev/reference/handle_package_not_found.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Install missing packages on the fly — handle_package_not_found","text":"supposed call function directly. Instead, set global error handler, possibly .Rprofile file:   Global error handlers supported R 4.0.0 later. Currently handle_package_not_found() anything non-interactive mode (including knitr, testthat RStudio notebooks), might change future. cases possible remedy original computation tried load missing package, pak offer successful installation. Currently, R 4.0.4, possible continue failed library() call.","code":"if (interactive() && getRversion() >= \"4.0.0\") {   globalCallingHandlers(     packageNotFoundError = function(err) {       try(pak::handle_package_not_found(err))     }   ) }"},{"path":"https://pak.r-lib.org/dev/reference/install.html","id":null,"dir":"Reference","previous_headings":"","what":"All about installing pak. — Installing pak","title":"All about installing pak. — Installing pak","text":"Read default installation methods work want release candidate development version.","code":""},{"path":"https://pak.r-lib.org/dev/reference/install.html","id":"pre-built-binaries","dir":"Reference","previous_headings":"","what":"Pre-built binaries","title":"All about installing pak. — Installing pak","text":"pre-built binaries advantage completely self-containted dependency free. additional R packages, system libraries tools (e.g. compilers) needed . Install pre-built binary build pak repository GitHub:   supported following systems:","code":"install.packages(\"pak\", repos = sprintf(   \"https://r-lib.github.io/p/pak/stable/%s/%s/%s\",   .Platform$pkgType,   R.Version()$os,   R.Version()$arch ))"},{"path":"https://pak.r-lib.org/dev/reference/install.html","id":"notes","dir":"Reference","previous_headings":"","what":"Notes","title":"All about installing pak. — Installing pak","text":"macOS support official CRAN R build. builds, e.g. Homebrew R, supported. support R builds R shared library. CRAN's Windows macOS installers , R builds common Linux distributions. might issue build R without --enable-R-shlib option.","code":""},{"path":"https://pak.r-lib.org/dev/reference/install.html","id":"install-from-cran","dir":"Reference","previous_headings":"","what":"Install from CRAN","title":"All about installing pak. — Installing pak","text":"Install released version package CRAN usual:   potentially needs C compiler platforms CRAN binaries packages .","code":"install.packages(\"pak\")"},{"path":"https://pak.r-lib.org/dev/reference/install.html","id":"nightly-builds","dir":"Reference","previous_headings":"","what":"Nightly builds","title":"All about installing pak. — Installing pak","text":"nightly binary builds, systems table :","code":"install.packages(\"pak\", repos = sprintf(   \"https://r-lib.github.io/p/pak/devel/%s/%s/%s\",   .Platform$pkgType,   R.Version()$os,   R.Version()$arch ))"},{"path":"https://pak.r-lib.org/dev/reference/install.html","id":"stable-rc-and-devel-streams","dir":"Reference","previous_headings":"","what":"stable, rc and devel streams","title":"All about installing pak. — Installing pak","text":"three types binaries available: stable corresponds latest CRAN release CRAN. rc release candidate build, available 1-2 weeks release. Otherwise stable build. devel builds development tree. release might rc build. streams available different repository URLs:","code":"stream <- \"rc\" install.packages(\"pak\", repos = sprintf(   \"https://r-lib.github.io/p/pak/%s/%s/%s/%s\",   stream,   .Platform$pkgType,   R.Version()$os,   R.Version()$arch ))"},{"path":"https://pak.r-lib.org/dev/reference/lib_status.html","id":null,"dir":"Reference","previous_headings":"","what":"Status of packages in a library — lib_status","title":"Status of packages in a library — lib_status","text":"Status packages library","code":""},{"path":"https://pak.r-lib.org/dev/reference/lib_status.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Status of packages in a library — lib_status","text":"","code":"lib_status(lib = .libPaths()[1])  pkg_list(lib = .libPaths()[1])"},{"path":"https://pak.r-lib.org/dev/reference/lib_status.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Status of packages in a library — lib_status","text":"lib Path library.","code":""},{"path":"https://pak.r-lib.org/dev/reference/lib_status.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Status of packages in a library — lib_status","text":"Data frame contains data packages installed library. always columns: biocviews: corresponding field DESCRIPTION, must present Bioconductor packages, packages typically . built: Built field DESCRIPTION. depends, suggests, Imports, linkingto, enhances: corresponding fields DESCRIPTION files. deps: list data frames, dependencies package. columns: ref, type (dependency type lowercase), package (dependent package, R), op version, last two version requirement. op can >=, >, == <=, although first one common practice. library: path package library containing package. license: DESCRIPTION. md5sum: DESCTIPTION, typically NA, except Windows. needscompilation: DESCRIPTION, column logical. package: package name. platform: Built field DESCRIPTION, current platform missing DESCRIPTION. priority: DESCRIPTION, usually base, recommended, missing. ref: corresponding installed::* package reference. repository: DESCRIPTION. packages CRAN repository CRAN, repositories, e.g. R-universe adds repository URL . repotype: cran, bioc missing. rversion: Built field. field, current R version. sysreqs: SystemRequirements field DESCRIPTION. title: package title. type: always installed. version: package version (string).","code":""},{"path":"https://pak.r-lib.org/dev/reference/lib_status.html","id":"notes-","dir":"Reference","previous_headings":"","what":"Notes:","title":"Status of packages in a library — lib_status","text":"addition, also remote* config/needs/* entries DESCRIPTION files. (Case insensitive.) columns type character, except needscompilation, logical deps, list columns. entry missing package, set NA. Note column names lowercase, even corresponding entries DESCRIPTION. order columns deterministic, assume order. Additional columns might present, internal pak used user code.","code":""},{"path":"https://pak.r-lib.org/dev/reference/lib_status.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Status of packages in a library — lib_status","text":"","code":"lib_status(.Library) #> # A data frame: 31 × 31 #>    library   package version prior…¹ title license sugge…² built depends #>    <chr>     <chr>   <chr>   <chr>   <chr> <chr>   <chr>   <chr> <chr> #>  1 /Library… base    4.2.2   base    \"The… Part o… methods R 4.… NA #>  2 /Library… boot    1.3-28  recomm… \"Boo… Unlimi… MASS, … R 4.… R (>= … #>  3 /Library… class   7.3-20  recomm… \"Fun… GPL-2 … NA      R 4.… R (>= … #>  4 /Library… cluster 2.1.4   recomm… \"\\\"F… GPL (>… MASS, … R 4.… R (>= … #>  5 /Library… codeto… 0.2-18  recomm… \"Cod… GPL     NA      R 4.… R (>= … #>  6 /Library… compil… 4.2.2   base    \"The… Part o… NA      R 4.… NA #>  7 /Library… datase… 4.2.2   base    \"The… Part o… NA      R 4.… NA #>  8 /Library… filelo… 1.0.2   NA      \"Por… MIT + … callr … R 4.… NA #>  9 /Library… foreign 0.8-83  recomm… \"Rea… GPL (>… NA      R 4.… R (>= … #> 10 /Library… graphi… 4.2.2   base    \"The… Part o… NA      R 4.… NA #> # … with 21 more rows, 22 more variables: needscompilation <lgl>, #> #   repository <chr>, imports <chr>, remotetype <chr>, #> #   remotepkgref <chr>, remoteref <chr>, remoterepos <chr>, #> #   remotepkgplatform <chr>, remotesha <chr>, enhances <chr>, #> #   linkingto <chr>, md5sum <chr>, platform <chr>, biocviews <chr>, #> #   sysreqs <chr>, ref <chr>, type <chr>, status <chr>, rversion <chr>, #> #   sources <list>, repotype <chr>, deps <list>, and abbreviated …"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/local_deps.html","id":null,"dir":"Reference","previous_headings":"","what":"Dependencies of a package tree — local_deps","title":"Dependencies of a package tree — local_deps","text":"Dependencies package tree","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_deps.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Dependencies of a package tree — local_deps","text":"","code":"local_deps(root = \".\", upgrade = TRUE, dependencies = NA)  local_deps_tree(root = \".\", upgrade = TRUE, dependencies = NA)  local_dev_deps(root = \".\", upgrade = TRUE, dependencies = TRUE)  local_dev_deps_tree(root = \".\", upgrade = TRUE, dependencies = TRUE)"},{"path":"https://pak.r-lib.org/dev/reference/local_deps.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Dependencies of a package tree — local_deps","text":"root Path package tree. upgrade Whether use recent available package versions. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies.","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_deps.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Dependencies of a package tree — local_deps","text":"functions return dependencies data frame. local_deps_tree() local_dev_deps_tree() also print dependency tree.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/local_deps_explain.html","id":null,"dir":"Reference","previous_headings":"","what":"Explain dependencies of a package tree — local_deps_explain","title":"Explain dependencies of a package tree — local_deps_explain","text":"functions similar pkg_deps_explain(), work local package tree. local_dev_deps_explain() also includes development dependencies.","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_deps_explain.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Explain dependencies of a package tree — local_deps_explain","text":"","code":"local_deps_explain(deps, root = \".\", upgrade = TRUE, dependencies = NA)  local_dev_deps_explain(deps, root = \".\", upgrade = TRUE, dependencies = TRUE)"},{"path":"https://pak.r-lib.org/dev/reference/local_deps_explain.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Explain dependencies of a package tree — local_deps_explain","text":"deps Package names dependencies explain. root Path package tree. upgrade Whether use recent available package versions. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/local_install.html","id":null,"dir":"Reference","previous_headings":"","what":"Install a package tree — local_install","title":"Install a package tree — local_install","text":"Installs package tree (source package file), together dependencies.","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_install.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Install a package tree — local_install","text":"","code":"local_install(   root = \".\",   lib = .libPaths()[1],   upgrade = TRUE,   ask = interactive(),   dependencies = NA )"},{"path":"https://pak.r-lib.org/dev/reference/local_install.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Install a package tree — local_install","text":"root Path package tree. lib Package library install packages . Note dependent packages installed , even already installed another library. exceptions base recommended packages installed .Library. duplicated lib, unless newer version recommemded package needed. upgrade FALSE, default, pak minimum amount work give latest version(s) pkg. upgrade dependent packages pkg, one dependencies explicitly require higher version currently . also prefer binary package source package, even binary package older. upgrade = TRUE, pak ensure latest version(s) pkg dependencies. ask Whether ask confirmation installing different version package already installed. Installations add new packages never require confirmation. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies.","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_install.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Install a package tree — local_install","text":"Data frame, information installed package(s).","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_install.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Install a package tree — local_install","text":"local_install() equivalent pkg_install(\"local::.\").","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/local_install_deps.html","id":null,"dir":"Reference","previous_headings":"","what":"Install the dependencies of a package tree — local_install_deps","title":"Install the dependencies of a package tree — local_install_deps","text":"Installs hard dependencies package tree (source package file), without installing package tree .","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_install_deps.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Install the dependencies of a package tree — local_install_deps","text":"","code":"local_install_deps(   root = \".\",   lib = .libPaths()[1],   upgrade = TRUE,   ask = interactive(),   dependencies = NA )"},{"path":"https://pak.r-lib.org/dev/reference/local_install_deps.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Install the dependencies of a package tree — local_install_deps","text":"root Path package tree. lib Package library install packages . Note dependent packages installed , even already installed another library. exceptions base recommended packages installed .Library. duplicated lib, unless newer version recommemded package needed. upgrade FALSE, default, pak minimum amount work give latest version(s) pkg. upgrade dependent packages pkg, one dependencies explicitly require higher version currently . also prefer binary package source package, even binary package older. upgrade = TRUE, pak ensure latest version(s) pkg dependencies. ask Whether ask confirmation installing different version package already installed. Installations add new packages never require confirmation. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies.","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_install_deps.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Install the dependencies of a package tree — local_install_deps","text":"Data frame, information installed package(s).","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_install_deps.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Install the dependencies of a package tree — local_install_deps","text":"Note development (optional) dependencies, Suggests DESCRIPTION, installed. want install well, use local_install_dev_deps().","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/local_install_dev_deps.html","id":null,"dir":"Reference","previous_headings":"","what":"Install all (development) dependencies of a package tree — local_install_dev_deps","title":"Install all (development) dependencies of a package tree — local_install_dev_deps","text":"Installs dependencies package tree (source package file), without installing package tree . installs development dependencies well, specified Suggests field DESCRIPTION.","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_install_dev_deps.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Install all (development) dependencies of a package tree — local_install_dev_deps","text":"","code":"local_install_dev_deps(   root = \".\",   lib = .libPaths()[1],   upgrade = TRUE,   ask = interactive(),   dependencies = TRUE )"},{"path":"https://pak.r-lib.org/dev/reference/local_install_dev_deps.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Install all (development) dependencies of a package tree — local_install_dev_deps","text":"root Path package tree. lib Package library install packages . Note dependent packages installed , even already installed another library. exceptions base recommended packages installed .Library. duplicated lib, unless newer version recommemded package needed. upgrade FALSE, default, pak minimum amount work give latest version(s) pkg. upgrade dependent packages pkg, one dependencies explicitly require higher version currently . also prefer binary package source package, even binary package older. upgrade = TRUE, pak ensure latest version(s) pkg dependencies. ask Whether ask confirmation installing different version package already installed. Installations add new packages never require confirmation. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/local_package_trees.html","id":null,"dir":"Reference","previous_headings":"","what":"About local package trees — local_package_trees","title":"About local package trees — local_package_trees","text":"pak can install packages local package trees. convenient package development. See following functions: local_install() installs package package tree dependencies. local_install_deps() installs hard dependencies package. local_install_dev_deps() installs hard soft dependencies package. function intended package development.","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_package_trees.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"About local package trees — local_package_trees","text":"Note last two functions install package specified package tree , dependencies. convenient package loaded via means, e.g. devtools::load_all(), development.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/local_system_requirements.html","id":null,"dir":"Reference","previous_headings":"","what":"Query system requirements — local_system_requirements","title":"Query system requirements — local_system_requirements","text":"Note functions now deprecated, favor pkg_sysreqs() sysreqs_*  functions, powerful, work package sources (packages Github, GitLab, URLs, etc.) detailed output. Instead   call   equivalent   ","code":"pak::pkg_system_requirement(\"curl\") pak::pkg_sysreqs(\"curl\")$install_scripts pak::local_system_requirements() pak::pkg_sysreqs(\"local::.\", dependencies = TRUE)$install_script"},{"path":"https://pak.r-lib.org/dev/reference/local_system_requirements.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Query system requirements — local_system_requirements","text":"","code":"local_system_requirements(   os = NULL,   os_release = NULL,   root = \".\",   execute = FALSE,   sudo = execute,   echo = FALSE )  pkg_system_requirements(   package,   os = NULL,   os_release = NULL,   execute = FALSE,   sudo = execute,   echo = FALSE )"},{"path":"https://pak.r-lib.org/dev/reference/local_system_requirements.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Query system requirements — local_system_requirements","text":"os, os_release operating system operating system release version, e.g. \"ubuntu\", \"debian\", \"centos\", \"redhat\". See https://github.com/rstudio/r-system-requirements#operating-systems full list supported operating systems. NULL, default, looked . root Path package tree. execute, sudo execute TRUE, pak execute system commands (). sudo TRUE, pak prepend commands sudo. echo echo TRUE execute TRUE, echo command output. package Package names lookup system requirements .","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_system_requirements.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Query system requirements — local_system_requirements","text":"character vector commands needed install system requirements package.","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_system_requirements.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Query system requirements — local_system_requirements","text":"Returns character vector commands run install system requirements queried operating system. local_system_requirements() queries system requirements dev package (dependencies) given root path. pkg_system_requirements() queries system requirements existing packages (dependencies).","code":""},{"path":"https://pak.r-lib.org/dev/reference/local_system_requirements.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Query system requirements — local_system_requirements","text":"","code":"if (FALSE) { local_system_requirements(\"ubuntu\", \"20.04\") } if (FALSE) { pkg_system_requirements(\"pak\", \"ubuntu\", \"20.04\") pkg_system_requirements(\"pak\", \"redhat\", \"7\") pkg_system_requirements(\"config\", \"ubuntu\", \"20.04\") # no sys reqs pkg_system_requirements(\"curl\", \"ubuntu\", \"20.04\") pkg_system_requirements(\"git2r\", \"ubuntu\", \"20.04\") pkg_system_requirements(c(\"config\", \"git2r\", \"curl\"), \"ubuntu\", \"20.04\") # queried packages must exist pkg_system_requirements(\"iDontExist\", \"ubuntu\", \"20.04\") pkg_system_requirements(c(\"curl\", \"iDontExist\"), \"ubuntu\", \"20.04\") }"},{"path":"https://pak.r-lib.org/dev/reference/lockfile_create.html","id":null,"dir":"Reference","previous_headings":"","what":"Create a lock file — lockfile_create","title":"Create a lock file — lockfile_create","text":"lock file can used later, possibly new R session, carry installation dependencies, lockfile_install().","code":""},{"path":"https://pak.r-lib.org/dev/reference/lockfile_create.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Create a lock file — lockfile_create","text":"","code":"lockfile_create(   pkg = \"deps::.\",   lockfile = \"pkg.lock\",   lib = NULL,   upgrade = FALSE,   dependencies = NA )"},{"path":"https://pak.r-lib.org/dev/reference/lockfile_create.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Create a lock file — lockfile_create","text":"pkg Package names package references. E.g. ggplot2: package CRAN, Bioconductor CRAN-like repository general, tidyverse/ggplot2: package GitHub, tidyverse/ggplot2@v3.4.0: package GitHub tag branch, https://examples.com/.../ggplot2_3.3.6.tar.gz: package URL, .: package current working directory. See \"Package sources\" details. lockfile Path lock file. lib Package library install packages . Note dependent packages installed , even already installed another library. exceptions base recommended packages installed .Library. duplicated lib, unless newer version recommemded package needed. upgrade FALSE, default, pak minimum amount work give latest version(s) pkg. upgrade dependent packages pkg, one dependencies explicitly require higher version currently . also prefer binary package source package, even binary package older. upgrade = TRUE, pak ensure latest version(s) pkg dependencies. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies.","code":""},{"path":"https://pak.r-lib.org/dev/reference/lockfile_create.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Create a lock file — lockfile_create","text":"Note, since URLs CRAN CRAN-like repositories change time, practice use lock file much later. example, binary packages older package version might deleted repository, breaking URLs lock file. Currently intended use case lock files CI systems, facilitate caching. (hash ) lock file provides good key caching systems.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/lockfile_install.html","id":null,"dir":"Reference","previous_headings":"","what":"Install packages based on a lock file — lockfile_install","title":"Install packages based on a lock file — lockfile_install","text":"Install lock file created lockfile_create().","code":""},{"path":"https://pak.r-lib.org/dev/reference/lockfile_install.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Install packages based on a lock file — lockfile_install","text":"","code":"lockfile_install(lockfile = \"pkg.lock\", lib = .libPaths()[1], update = TRUE)"},{"path":"https://pak.r-lib.org/dev/reference/lockfile_install.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Install packages based on a lock file — lockfile_install","text":"lockfile Path lock file. lib Library carry installation . update Whether online install packages either installed lib, different version installed .","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/metadata.html","id":null,"dir":"Reference","previous_headings":"","what":"Metadata cache utilities — meta_summary","title":"Metadata cache utilities — meta_summary","text":"Various utilities inspect, update clean metadata cache. See pkgcache package need control metadata cache.","code":""},{"path":"https://pak.r-lib.org/dev/reference/metadata.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Metadata cache utilities — meta_summary","text":"","code":"meta_summary()  meta_list(pkg = NULL)  meta_update()  meta_clean(force = FALSE)"},{"path":"https://pak.r-lib.org/dev/reference/metadata.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Metadata cache utilities — meta_summary","text":"pkg Package names, specified entries pkg returned. force FALSE, pak ask confirmation.","code":""},{"path":"https://pak.r-lib.org/dev/reference/metadata.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Metadata cache utilities — meta_summary","text":"meta_summary() returns list entries: cachepath: absolute path metadata cache. current_db: file contains current metadata database. currently RDS file, might change future. raw_files: files downloaded PACKAGES* files. db_files: metadata database files. size: total size metadata cache. meta_list() returns data frame available packages configured repositories. meta_update() returns nothing. meta_clean() returns nothing","code":""},{"path":"https://pak.r-lib.org/dev/reference/metadata.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Metadata cache utilities — meta_summary","text":"meta_summary() returns summary metadata cache. meta_list() lists () packages metadata database. meta_update() updates metadata database. normally need call function manually, pak functions (e.g. pkg_install(), pkg_download(), etc.) call automatically, make sure use latest available metadata. meta_clean() deletes whole metadata DB.","code":""},{"path":"https://pak.r-lib.org/dev/reference/metadata.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Metadata cache utilities — meta_summary","text":"Metadata cache summary:   current metadata DB:   Selected packages :   Update metadata DB   Delete metadata DB","code":"meta_summary() #> $cachepath #> [1] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata\" #> #> $current_db #> [1] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/pkgs-34444e3072.rds\" #> #> $raw_files #>  [1] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCann-59693086a0/bin/macosx/big-sur-arm64/contrib/4.2/PACKAGES.gz\" #>  [2] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCann-59693086a0/src/contrib/PACKAGES.gz\" #>  [3] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCexp-90d4a3978b/bin/macosx/big-sur-arm64/contrib/4.2/PACKAGES.gz\" #>  [4] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCexp-90d4a3978b/src/contrib/PACKAGES.gz\" #>  [5] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCsoft-2a43920999/bin/macosx/big-sur-arm64/contrib/4.2/PACKAGES.gz\" #>  [6] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCsoft-2a43920999/src/contrib/PACKAGES.gz\" #>  [7] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCworkflows-26330ba3ca/bin/macosx/big-sur-arm64/contrib/4.2/PACKAGES.gz\" #>  [8] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCworkflows-26330ba3ca/src/contrib/PACKAGES.gz\" #>  [9] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/CRAN-075c426938/bin/macosx/big-sur-arm64/contrib/4.2/PACKAGES.gz\" #> [10] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/CRAN-075c426938/src/contrib/PACKAGES.gz\" #> #> $db_files #> [1] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/pkgs-34444e3072.rds\" #> [2] \"/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/pkgs-ccacf1b389.rds\" #> #> $size #> [1] 174848200 meta_list() #> ✔ Loading metadata database ... done #> # A data frame: 45,279 × 32 #>    package version depends sugge…¹ license imports linki…² archs enhan…³ #>    <chr>   <chr>   <chr>   <chr>   <chr>   <chr>   <chr>   <chr> <chr> #>  1 A3      1.0.0   R (>= … random… GPL (>… NA      NA      NA    NA #>  2 AATtoo… 0.0.2   R (>= … NA      GPL-3   magrit… NA      NA    NA #>  3 ABACUS  1.0.0   R (>= … rmarkd… GPL-3   ggplot… NA      NA    NA #>  4 ABC.RAP 0.9.0   R (>= … knitr,… GPL-3   graphi… NA      NA    NA #>  5 ABCana… 1.2.1   R (>= … NA      GPL-3   plotrix NA      NA    NA #>  6 ABCopt… 0.15.0  NA      testth… MIT + … Rcpp, … Rcpp    ABCo… NA #>  7 ABCp2   1.2     MASS    NA      GPL-2   NA      NA      NA    NA #>  8 ABHgen… 1.0.1   NA      knitr,… GPL-3   ggplot… NA      NA    NA #>  9 ABPS    0.3     NA      testth… GPL (>… kernlab NA      NA    NA #> 10 ACA     1.1     R (>= … NA      GPL     graphi… NA      NA    NA #> # … with 45,269 more rows, 23 more variables: #> #   license_restricts_use <chr>, os_type <chr>, priority <chr>, #> #   license_is_foss <chr>, repodir <chr>, rversion <chr>, #> #   platform <chr>, needscompilation <chr>, ref <chr>, type <chr>, #> #   direct <lgl>, status <chr>, target <chr>, mirror <chr>, #> #   sources <list>, filesize <int>, sha256 <chr>, sysreqs <chr>, #> #   built <chr>, published <dttm>, deps <list>, md5sum <chr>, … meta_list(pkg = c(\"shiny\", \"htmlwidgets\")) #>   package  version depends sugge…¹ license imports linki…² archs enhan…³ #> * <chr>    <chr>   <chr>   <chr>   <chr>   <chr>   <chr>   <chr> <chr> #> 1 htmlwid… 1.5.4   NA      \"knitr… MIT + … \"grDev… NA      NA    shiny … #> 2 shiny    1.7.3   R (>= … \"datas… GPL-3 … \"utils… NA      NA    NA #> 3 htmlwid… 1.6.0   NA      \"testt… MIT + … \"grDev… NA      NA    shiny … #> 4 shiny    1.7.4   R (>= … \"datas… GPL-3 … \"utils… NA      NA    NA #> # … with 23 more variables: license_restricts_use <chr>, os_type <chr>, #> #   priority <chr>, license_is_foss <chr>, repodir <chr>, #> #   rversion <chr>, platform <chr>, needscompilation <chr>, ref <chr>, #> #   type <chr>, direct <lgl>, status <chr>, target <chr>, mirror <chr>, #> #   sources <list>, filesize <int>, sha256 <chr>, sysreqs <chr>, #> #   built <chr>, published <dttm>, deps <list>, md5sum <chr>, #> #   path <chr>, and abbreviated variable names ¹​suggests, ²​linkingto,  #> … meta_update() #> ✔ Updated metadata database: 1.23 MB in 1 file. #> ✔ Updating metadata database ... done meta_clean() #> ℹ Cleaning up cache directory /Users/gaborcsardi/Library/Caches/org.R-pr #> oject.R/R/pkgcache/_metadata."},{"path":"https://pak.r-lib.org/dev/reference/package-dependency-types.html","id":null,"dir":"Reference","previous_headings":"","what":"Various types of R package dependencies — Package dependency types","title":"Various types of R package dependencies — Package dependency types","text":"Various types R package dependencies","code":""},{"path":"https://pak.r-lib.org/dev/reference/package-dependency-types.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Various types of R package dependencies — Package dependency types","text":"R packages may various types dependencies, see Writing R Extensions.pak groups dependencies three groups: hard dependencies: \"Depends\", \"Imports\", \"LinkingTo\", soft dependencies: \"Suggests\" \"Enhances\", extra dependencies, see . NA \"hard\" install package required dependencies, TRUE install required dependencies, plus optional development dependencies. TRUE: means hard dependencies plus Suggests direct installations, hard dependencies dependent packages. FALSE: dependencies installed . NA (atomic type, NA_character_, etc. well): hard dependencies installed. list two entries named direct indirect, taken requested dependency types, direct installations dependent packages. character vector, taken dependency types direct installations, hard dependencies used dependent packages.","code":""},{"path":"https://pak.r-lib.org/dev/reference/package-dependency-types.html","id":"extra-dependencies","dir":"Reference","previous_headings":"","what":"Extra dependencies","title":"Various types of R package dependencies — Package dependency types","text":"pak supports extra dependency types direct installations CRAN-like repositories. specified Config/Needs/ prefix DESCRIPTION can contain package references, separated commas. example can specify packages needed pkgdown website package:     use dependency types, need specify dependencies argument pak functions. Note Config/Needs/* fields currently used CRAN packages, packages CRAN-like repositories general. Usually specify Config/Needs/* dependency type installed together \"hard\" \"\", install hard soft dependencies well.","code":"Config/Needs/website: r-lib/pkgdown"},{"path":"https://pak.r-lib.org/dev/reference/pak-config.html","id":null,"dir":"Reference","previous_headings":"","what":"Environment variables and options that modify the default behavior — pak configuration","title":"Environment variables and options that modify the default behavior — pak configuration","text":"pak behavior can finetuned environment variables options (base::options()).","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pak-config.html","id":"ncpus","dir":"Reference","previous_headings":"","what":"Ncpus","title":"Environment variables and options that modify the default behavior — pak configuration","text":"Set desired number worker processes package installation. set, pak use number logical processors machine.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak-config.html","id":"repos","dir":"Reference","previous_headings":"","what":"repos","title":"Environment variables and options that modify the default behavior — pak configuration","text":"CRAN-like repositories use. See base::options() details.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak-config.html","id":"pak-configuration","dir":"Reference","previous_headings":"","what":"pak configuration","title":"Environment variables and options that modify the default behavior — pak configuration","text":"Configuration entries (unless noted otherwise manual page) corresponding environment variable, corresponding option. environment variable always uppercase uses underscores word separator. always PKG_ prefix. option typically lowercase, use uses underscores word separator, always pkg. prefix (notice dot!). examples:","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak-config.html","id":"pak-configuration-entries","dir":"Reference","previous_headings":"","what":"pak configuration entries","title":"Environment variables and options that modify the default behavior — pak configuration","text":"‘cache_dir’: (Env var: PKG_CACHE_DIR, option: pkg.cache_dir.) Directory download packages . Defaults temporary directory within R session temporary directory, see base::tempdir(). ‘cran_mirror’: (Env var: PKG_CRAN_MIRROR, option: pkg.cran_mirror.) CRAN mirror use. Defaults repos option (see base::options()), set https://cran.rstudio.com. See also pak::repo_add() pak::repo_get() ‘git_submodules’: (Env var: PKG_GIT_SUBMODULES, option: pkg.git_submodules.) Whether update submodules git repositories. affects git:: gitlab:: package sources . R package subdirectory submodules within directory updated. submodule appears .Rbuildignore, skipped. ‘include_linkingto’: (Env var: PKG_INCLUDE_LINKINGTO, option: pkg.include_linkingto.) Whether always include LinkingTo dependencies solution installation, even needed packages installed binaries. sometimes useful, see e.g. https://github.com/r-lib/pak/issues/485 example use case. ‘library’: (Env var: PKG_LIBRARY, option: pkg.library.) Package library install packages . also used already installed packages considering dependencies. ‘metadata_cache_dir’: (Env var: PKG_METADATA_CACHE_DIR, option: pkg.metadata_cache_dir.) Location metadata replica pkgcache::cranlike_metadata_cache. Defaults temporary directory within R session temporary directory, see base::tempdir(). ‘metadata_update_after’: (Env var: PKG_METADATA_UPDATE_AFTER, option: pkg.metadata_update_after.) time interval difftime object. pak update metadata cache older . default one day. PKG_METADATA_UPDATE_AFTER environment variable may set seconds (s suffix), minutes (m suffix), hours (h suffix), days (d suffix). E.g: 1d means one day. ‘package_cache_dir’: (Env var: PKG_PACKAGE_CACHE_DIR, option: pkg.package_cache_dir.) Location package cache disk. See pak::cache_summary(). Default selected pkgcache. ‘platforms’: (Env var: PKG_PLATFORMS, option: pkg.platforms.) Character vector platforms download install packages . See pkgdepends::default_platforms() possible platform names. Defaults platform current R session, plus \"source\". ‘r_versions’: (Env var: PKG_R_VERSIONS, option: pkg.r_versions.) Character vector, R versions download install packages . defaults current R version. ‘sysreqs’: (Env var: PKG_SYSREQS, option: pkg.sysreqs.) Whether automatically look install system requirements. TRUE, pkgdepends try install required system packages. FALSE, system requirements still printed (including OS packages supported platforms), installed. default TRUE supported platforms, current user root user password-less sudo configured current user. ‘sysreqs_db_update’: (Env var: PKG_SYSREQS_DB_UPDATE, option: pkg.sysreqs_db_update.) Whether try update system requirements database GitHub. update fails, cached build-database used. Defaults TRUE. ‘sysreqs_db_update_timeout’: (Env var: PKG_SYSREQS_DB_UPDATE_TIMEOUT, option: pkg.sysreqs_db_update_timeout.) Timeout system requirements database update. Defaults five seconds. ‘sysreqs_dry_run’: (Env var: PKG_SYSREQS_DRY_RUN, option: pkg.sysreqs_dry_run.) TRUE, pak prints system commands install system requirements, execute . ‘sysreqs_platform’: (Env var: PKG_SYSREQS_PLATFORM, option: pkg.sysreqs_platform.) platform use system requirements lookup. Linux, system requirements currently supported, must string containing distribution name release, separated dash. E.g.: \"ubuntu-22.04\", \"rhel-9\". ‘sysreqs_rspm_repo_id’: (Env var: PKG_SYSREQS_RSPM_REPO_ID, option: pkg.sysreqs_rspm_repo_id.) Posit Package Manager (formerly RStudio Package Manager) repository id use CRAN system requirements lookup. Defaults RSPM_REPO_ID environment variable, set. set, defaults 1. ‘sysreqs_rspm_url’: (Env var: PKG_SYSREQS_RSPM_URL, option: pkg.sysreqs_rspm_url.) Root URL Posit Package Manager (formerly RStudio Package Manager) system requirements lookup. default RSPM_ROOT environment variable used, set. set, defaults https://packagemanager.posit.co. ‘sysreqs_sudo’: (Env var: PKG_SYSREQS_SUDO, option: pkg.sysreqs_sudo.) Whether use sudo install system requirements, Unix. default TRUE Linux effective user id current process root user. ‘sysreqs_update’: (Env var: PKG_SYSREQS_UPDATE, option: pkg.sysreqs_update.) Whether try update system packages already installed. defaults TRUE CI systems: CI environment variable set true. ‘sysreqs_verbose’: (Env var: PKG_SYSREQS_VERBOSE, option: pkg.sysreqs_verbose.) Whether echo output system requirements installation. Defaults TRUE CI environment variable set. ‘use_bioconductor’: (Env var: PKG_USE_BIOCONDUCTOR, option: pkg.use_bioconductor.) Whether automatically use Bioconductor repositories. Defaults TRUE. ‘windows_archs’: (Env var: PKG_WINDOWS_ARCHS, option: pkg.windows_archs.) Character scalar specifying architectures download/install Windows. possible values : \"prefer-x64\": Generally prefer x64 binaries. current R session x64, download/install x64 packages. (packages might still multi-architecture binaries!) current R session i386, download/install packages architectures. might mean compiling packages source binary packages x64 , like CRAN Windows binaries R 4.2.x currently. \"prefer-x64\" default R 4.2.0 later. \"\": Always download/install packages i386 x64 architectures. might need compilation source available binaries x64 , like CRAN Windows binaries R 4.2.x currently. \"\" default R 4.2.0 earlier.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak-config.html","id":"notes","dir":"Reference","previous_headings":"","what":"Notes","title":"Environment variables and options that modify the default behavior — pak configuration","text":"version 0.4.0 pak copies PKG_* environment variables pkg.* options pak subprocess, actually used, need restart R reaload pak configuration change.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak-package.html","id":null,"dir":"Reference","previous_headings":"","what":"pak: Another Approach to Package Installation — pak-package","title":"pak: Another Approach to Package Installation — pak-package","text":"goal 'pak' make package installation faster reliable. particular, performs HTTP operations parallel, metadata resolution package downloads fast. Metadata package files cached local disk well. 'pak' dependency solver, finds version conflicts performing installation. version 'pak' supports CRAN, 'Bioconductor' 'GitHub' packages well.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pak-package.html","id":"author","dir":"Reference","previous_headings":"","what":"Author","title":"pak: Another Approach to Package Installation — pak-package","text":"Maintainer: Gábor Csárdi csardi.gabor@gmail.com Authors: Jim Hester contributors: Posit Software, PBC [copyright holder, funder] Winston Chang (R6, callr, processx) [contributor] Ascent Digital Services (callr, processx) [copyright holder, funder] Hadley Wickham (cli, curl, pkgbuild) [contributor, copyright holder] Jeroen Ooms (curl, jsonlite) [contributor] Maëlle Salmon (desc, pkgsearch) [contributor] Duncan Temple Lang (jsonlite) [contributor] Lloyd Hilaiel (jsonlite) [copyright holder] Michel Berkelaar lpSolve authors (lpSolve) [contributor] R Consortium (pkgsearch) [funder] Jay Loden (ps) [contributor] Dave Daeschler (ps) [contributor] Giampaolo Rodola' (ps) [contributor] Kuba Podgórski (zip) [contributor] Rich Geldreich (zip) [contributor]","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak.html","id":null,"dir":"Reference","previous_headings":"","what":"Install specified required packages — pak","title":"Install specified required packages — pak","text":"Install specified packages, ones required package project current working directory.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Install specified required packages — pak","text":"","code":"pak(pkg = NULL, ...)"},{"path":"https://pak.r-lib.org/dev/reference/pak.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Install specified required packages — pak","text":"pkg Package names remote package specifications install. See pak package sources details. NULL, install development dependencies current package. ... Extra arguments passed pkg_install() local_install_dev_deps().","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Install specified required packages — pak","text":"convenience function: want install packages, easier type pkg_install(). want install packages needed development package project, easier type local_install_dev_deps(). need remember two functions install packages, just one.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pak_cleanup.html","id":null,"dir":"Reference","previous_headings":"","what":"Clean up pak caches — pak_cleanup","title":"Clean up pak caches — pak_cleanup","text":"Clean pak caches","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_cleanup.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Clean up pak caches — pak_cleanup","text":"","code":"pak_cleanup(   package_cache = TRUE,   metadata_cache = TRUE,   pak_lib = TRUE,   force = FALSE )"},{"path":"https://pak.r-lib.org/dev/reference/pak_cleanup.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Clean up pak caches — pak_cleanup","text":"package_cache Whether clean cache package files. metadata_cache Whether clean cache package meta data. pak_lib argument now deprecated nothing. force ask confirmation. Note use function non-interactive mode, specify force = TRUE.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pak_install_extra.html","id":null,"dir":"Reference","previous_headings":"","what":"Install all optional dependencies of pak — pak_install_extra","title":"Install all optional dependencies of pak — pak_install_extra","text":"packages required pak functionality. recommended functions return values best used packages. E.g. many functions return data frames, print nicer pillar package available.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_install_extra.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Install all optional dependencies of pak — pak_install_extra","text":"","code":"pak_install_extra(upgrade = FALSE)"},{"path":"https://pak.r-lib.org/dev/reference/pak_install_extra.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Install all optional dependencies of pak — pak_install_extra","text":"upgrade Whether install upgrade latest versions optional packages.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_install_extra.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Install all optional dependencies of pak — pak_install_extra","text":"Currently one package optional: pillar.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":null,"dir":"Reference","previous_headings":"","what":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"Install packages CRAN, Bioconductor, GitHub, URLs, etc. Learn tell pak packages install, packages can found. want quick overview package sources, see \"Get started pak\".","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":"package-references","dir":"Reference","previous_headings":"","what":"Package references","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"Many pkgdepends pak functions take package names arguments. E.g. pak::pkg_install() takes names packages install pak::pkg_deps_tree() takes names packages draw dependency trees . functions can also take generic package references instead package names. package reference also tells pak find package source. specify package source, use name prefix, :: separator. E.g. cran::mypkg means mypkg package CRAN. package name special package reference implicitly specifies configured CRAN(-like) repositories package source (call standard package source). mypkg equivalent standard::mypkg pak looks mypkg configured CRAN-like repositories. explicitly specify CRAN-like repositories (e.g. options(\"repos\")), pak uses CRAN Bioconductor repositories default. list currently supported package sources. discuss detail . cran: CRAN package. bioc: Bioconductor package. standard: package configured CRAN-like repository. github: package GitHub. gitlab: package GitLab. git: package Git repository. local: local package file directory. url: URL points package archive. installed: installed package. deps: dependencies local package file directory. : special reference type accepts package source. See . param: special reference change references downloaded installed. See \"Parameters\" .","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":"shorthands","dir":"Reference","previous_headings":"","what":"Shorthands","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"save typing, always need fully specify package source package reference. seen package name implicitly standard package source. complete rules shorthands, order applied: package reference valid package name, package name @ version specification, standard package source used. E.g. pkg equivalent standard::pkg pkg@1.0 equivalent standard::pkg@1.0. valid github ref type without github:: prefix, github used. E.g. user/repo equivalent github::user/repo user/repo@tag equivalent github::user/repo@tag, etc. GitHub URL (see ) without github:: prefix, github used. path starts . / \\ ~, local used. (pak check path exists.) form <package-name>=?<parameters>, special param type. See \"Parameters\" . package reference explicit package source, package source determined rules, pak throws error.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":"package-names","dir":"Reference","previous_headings":"","what":"Package names","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"pak looking dependencies package, needs able determine name dependency package reference. sometimes easy dependencies Remotes (similar) fields. github:: gitlab:: dependencies pak assumes package name name repository. hold, need specify package name explicitly, using <package>= prefix. E.g. pins=rstudio/pins-r. specify package source type package name time, write like : pins=github::rstudio/pins-r. git:: dependencies, pak assumes package name last component repository. hold, need specify package name explicitly, using <package>= prefix. E.g. pins=git::https://github.com/rstudio/pins-r. local:: dependencies, always need specify package name explicitly. E.g. pins=local::~/works/pins. url:: dependencies, always need specify package name explicitly. E.g. ggplot2=url::https://cloud.r-project.org/src/contrib/....","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":"parameters","dir":"Reference","previous_headings":"","what":"Parameters","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"Package references may optional parameters, added question mark. Different parameters separated ampersand (&) character. (similar HTTP URLs take query parameters.) Parameters may flags turn behavior, can string value, assigned equal sign (=). value assigned, true value assumed. example, two package references equivalent:   ","code":"cran::testthat?source&nocache cran::testthat?source=true&nocache=true"},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":"parameters-for-downstream-packages","dir":"Reference","previous_headings":"","what":"Parameters for downstream packages","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"pak allows specifying parameters downstream packages, using <package>=?<params> special package reference, package name package, <params> parameters, . useful want add parameter downstream dependency. example, install ggplot2, always reinstall cli package dependency, use ggplot2 cli=?reinstall package references. latter tells pak always reinstall cli, even already installed.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":"currently-supported-parameters","dir":"Reference","previous_headings":"","what":"Currently supported parameters","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"ignore flag parameter. specified, package ignored. usually makes sense packagename=?ignore form, ignore downstream soft dependency. versions hard dependency ignored lead solution error. ignore--r version number parameter. package ignored R versions older specified one. E.g. Matrix=?ignore--r=4.1.2 ignore Matrix package R versions older 4.1.2. parameter really makes sense packgename=?ignore--r form. ignore-unavailable flag. can specified soft dependencies. specified package available, ignored. parameter really makes sense packagename=?ignore-unavailable form. source flag parameter. specified, source R package requested CRAN-like repository. package installations, source always triggers re-install. words, source implies reinstall parameter. parameter supported bioc::, cran:: standard:: remote types, ignored others. reinstall requests re-install package installations. supported bioc::, cran::, git::, github::, gitlab::, local::, standard::, url:: remote types. nocache ignore package cache. always download package file, add downloaded (built) package(s) package cache. supported bioc::, cran::, git::, github::, gitlab::, standard:: url:: remote types.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":"cran-packages-cran-","dir":"Reference","previous_headings":"","what":"CRAN packages (cran::)","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"package CRAN. Full syntax:     <package> valid package name. <version> version version requirement. Examples:     Note: pak currently parses version specification part (everything @), use .","code":"[cran::]<package>[@[>=]<version> | @current | @last] forecast forecast@8.8 forecast@>=8.8 cran::forecast forecast@last forecast@current"},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":"bioconductor-packages-bioc-","dir":"Reference","previous_headings":"","what":"Bioconductor packages (bioc::)","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"package Bioconductor. syntax CRAN packages, except prefix.   ","code":"[bioc::]<package>[@[>=]<version> | @current | @last]"},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":"standard-packages-standard-","dir":"Reference","previous_headings":"","what":"Standard packages (standard::)","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"packages either CRAN Bioconductor, full syntax CRAN packages, except prefix:   ","code":"[standard::]<package>[@[>=]<version> | current | last]"},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":"github-packages-github-","dir":"Reference","previous_headings":"","what":"GitHub packages (github::)","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"Packages GitHub repository. Full syntax:     <package> name package. missing, name repository used. <username> GitHub username organization name. <repository> name repository. <subdir> specifies optional subdirectory, package within subdirectory repository. <detail> specifies certain version package, see . <detail> may specify: Git branch, tag (prefix ) commit hash: @<commitish>; pull request: #<pull-request>; latest release: @*release. <detail> missing, latest commit default branch used. Examples:     convenience, GitHub HTTP URLs can also used specify package GitHub. Examples:     GitHub remote string can also used instead URL, example: git@github.com:r-lib/pak.git","code":"[<package>=][github::]<username>/<repository>[/<subdir>][<detail>] r-lib/crayon github::r-lib/crayon r-lib/crayon@84be6207 r-lib/crayon@branch r-lib/crayon#41 r-lib/crayon@release https://github.com/r-lib/withr # A branch: https://github.com/r-lib/withr/tree/ghactions # A tag: https://github.com/r-lib/withr/tree/v2.1.1 # A commit: https://github.com/r-lib/withr/commit/8fbcb548e316 # A pull request: https://github.com/r-lib/withr/pull/76 # A release: https://github.com/r-lib/withr/releases/tag/v2.1.0"},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":"gitlab-packages-gitlab-","dir":"Reference","previous_headings":"","what":"GitLab packages (gitlab::)","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"Packages GitLab repository. Full syntax:     <package> name package. missing, name repository used. <project-path> typically GitLab user group name, may contain subgroups. <repository> name repository, project GitLab terminology. GitLab subgroups fully supported. <subdir> specifies optional subdirectory, package within subdirectory repository. Note GitLab, must come /- prefix, able distinguish subgroups. <detail> may specify Git branch, tag (prefix ) commit hash. <detail> missing, latest commit default branch used. gitlab:: supports Git submodules, see git-submodules configuration entry. Examples:   ","code":"[<package>=][gitlab::]<project-path>/<repository>[/-/<subdir>][<detail>] gitlab::gaborcsardi/cli gitlab::r-hub/filelock@main gitlab::group/subgroup/subsubgroup/project/-/subdir@ref"},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":"packages-in-git-repositories-git-","dir":"Reference","previous_headings":"","what":"Packages in Git repositories (git::)","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"Full syntax:     <package> name package. missing, last component <host> used. <host> host name path Git repository. Git repositories need .git suffix , others forgiving. <detail> specifies certain version package: Git branch, tag (prefix ) commit hash: @<commitish>. <detail> missing, latest commit default branch used. git:: supports Git submodules, see git-submodules configuration entry. Examples:     Note pak built-Git client, require system Git installation. system Git installed, pak use credentials stored configured Git credential store, automatically, via gitcreds package.","code":"[<package>=]git::https?://<host>[<detail>] git::https://github.com/r-lib/crayon git::https://github.com/r-lib/crayon.git git::https://github.com/r-lib/crayon.git@84be6207 git::https://github.com/r-lib/crayon.git@branch git::https://gitlab.com/gaborcsardi/cli.git"},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":"local-packages-local-","dir":"Reference","previous_headings":"","what":"Local packages (local::)","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"path refers package file built R CMD build, directory contains package. Full syntax:     brevity, can omit local:: prefix, specify absolute path, path user's home directory, starting ~, relative path starting ./ .\\\\. single dot (\".\") considered local package current working directory. Examples:     specify local package dependency (.e. DESCRIPTION), also need specify name package, see \"Package names\" .","code":"local::<path> local::/foo/bar/package_1.0.0.tar.gz local::/foo/bar/pkg local::. /absolute/path/package_1.0.0.tar.gz ~/path/from/home ./relative/path ."},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":"urls-url-","dir":"Reference","previous_headings":"","what":"URLs (url::)","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"can use url:: refer URLs hold R package archives (.e. properly built R CMD build), compressed directories package trees (.e. built R CMD build). pak figure needs run R CMD build package first. remote type supports .tar.gz .zip files. Note URLs ideal remote types, pak needs download package file resolve dependencies. happens, puts package file cache, downloads needed installing package later. Examples:     specify package URL dependency (.e. DESCRIPTION), also need specify name package, see \"Package names\" .","code":"url::https://cloud.r-project.org/src/contrib/Archive/cli/cli_1.0.0.tar.gz url::https://github.com/tidyverse/stringr/archive/HEAD.zip"},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":"installed-packages-installed-","dir":"Reference","previous_headings":"","what":"Installed packages (installed::)","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"usually used internally, can also used directly. Full syntax:     <path> library package installed . <package> package name. Example:   ","code":"installed::<path>/<package> installed::~/R/3.6/crayon"},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":"package-dependencies-deps-","dir":"Reference","previous_headings":"","what":"Package dependencies (deps::)","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"Usually used internally, specifies dependencies local package. can used download install dependencies package, without downloading installing package . Full syntax:     Examples:   ","code":"deps::<path> deps::/foo/bar/package_1.0.0.tar.gz deps::/foo/bar/pkg deps::."},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":"any-packages","dir":"Reference","previous_headings":"","what":"any:: packages","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"Sometimes need install additional packages, mind installed . example. want install cli GitHub, r-lib/cli. also want install glue, mind version glue installed, long compatible requested cli version. cli specifies development version glue, fine. cli fine CRAN version glue, OK, . future version cli depend glue, still want glue installed, CRAN. :: reference type exactly . example might write     first, fail rlib/cli requests (say) tidyverse/glue, pkg_install() \"glue\" interpreted \"standard::glue\", creating conflict tidyverse/glue. hand     works, independently glue version requested cli.","code":"pak::pkg_install(c(\"glue\", \"r-lib/cli\")) pak::pkg_install(c(\"any::glue\", \"r-lib/cli\"))"},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":"parameter-refs-param-","dir":"Reference","previous_headings":"","what":"Parameter refs (param::)","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"See \"Parameters\" .","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_package_sources.html","id":"the-remotes-field","dir":"Reference","previous_headings":"","what":"The Remotes field","title":"Install packages from CRAN, Bioconductor, GitHub, URLs, etc. — Package sources","text":"DESCRIPTION file R package can mark regular dependency defined Depends, Imports, Suggests Enhances fields installed non-standard package source adding package reference Remotes entry. pak download install package specified location, instead CRAN-like repository. remote dependencies specified Remotes comma separated list package sources:     Note still need add package one regular dependency fields, .e. Imports, Suggests, etc. concrete example specifies r-lib/glue package:     CRAN Bioconductor repositories support Remotes field, need remove field, submitting package either .","code":"Remotes: <pkg-source-1>, <pkg-source-2>, [ ... ] Imports: glue Remotes: r-lib/glue,   r-lib/httr@v0.4,   klutometis/roxygen#142,   r-lib/testthat@c67018fa4970"},{"path":"https://pak.r-lib.org/dev/reference/pak_setup.html","id":null,"dir":"Reference","previous_headings":"","what":"Set up private pak library (deprecated) — pak_setup","title":"Set up private pak library (deprecated) — pak_setup","text":"function deprecated nothing. Recent versions pak need pak_setup() call.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_setup.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Set up private pak library (deprecated) — pak_setup","text":"","code":"pak_setup(mode = c(\"auto\", \"download\", \"copy\"), quiet = FALSE)"},{"path":"https://pak.r-lib.org/dev/reference/pak_setup.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Set up private pak library (deprecated) — pak_setup","text":"mode get packages . \"download\" try download CRAN. \"copy\" try copy current \"regular\" package library. \"auto\" try copy first, fails, tries download. quiet Whether omit messages.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_setup.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Set up private pak library (deprecated) — pak_setup","text":"path private library, invisibly.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_sitrep.html","id":null,"dir":"Reference","previous_headings":"","what":"pak SITuation REPort — pak_sitrep","title":"pak SITuation REPort — pak_sitrep","text":"prints pak version, platform package built , current platform, current library path, versions dependencies, whether dependencies can loaded.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_sitrep.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"pak SITuation REPort — pak_sitrep","text":"","code":"pak_sitrep()"},{"path":"https://pak.r-lib.org/dev/reference/pak_sitrep.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"pak SITuation REPort — pak_sitrep","text":"","code":"pak_sitrep() #>  compatible) #> - pak repository: - (local install?) #> * Optional packages installed: #> - pillar #> * Library path: #> - /private/var/folders/ph/fpcmzfd16rgbbk8mxvy9m2_h0000gn/T/RtmpRxl7Vu/fi #> le1868066d6ae59 #> - /private/var/folders/ph/fpcmzfd16rgbbk8mxvy9m2_h0000gn/T/RtmpRxl7Vu/fi #> le186806281b34a #> - /Users/gaborcsardi/Library/R/arm64/4.3/library #> - /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library #> * Private library location: #> - /Users/gaborcsardi/Library/Caches/org.R-project.R/R/pak/lib/4.3/aarch6 #> 4 #> * Private library exists. #> * Private library is functional"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pak_solver.html","id":null,"dir":"Reference","previous_headings":"","what":"Find the ideal set of packages and versions to install — The dependency solver","title":"Find the ideal set of packages and versions to install — The dependency solver","text":"pak contains package dependency solver, makes sure package source version requirements packages satisfied, starting installation. CRAN BioC packages usually automatic, repositories generally consistent state. packages depend package sources, however, case.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_solver.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Find the ideal set of packages and versions to install — The dependency solver","text":"example conflict detected:   r-lib/pkgcache@conflict depends main branch r-lib/cli, whereas, explicitly requested message branch. Since install versions single library, pak quits. pak considers package installation, package given name , (e.g. dependency another package), package may package source. necessary, one R package library may contain one version package given name. pak's behavior best explained via example. Assume installing local package (see ), e.g. local::., local package depends pkgA user/pkgB, latter package GitHub (see ), pkgA also depends pkgB. Now pak must install pkgB user/pkgB. case pak interprets pkgB package package source, instead standard package, installing user/pkgB satisfies requirements. Note cran::pkgB user/pkgB requirements result conflict pak resolve. first one must CRAN package, second one must GitHub package, two different packages installed R package library.","code":"> pak::pkg_install(c(\"r-lib/pkgcache@conflict\", \"r-lib/cli@message\")) Error: Cannot install packages:   * Cannot install `r-lib/pkgcache@conflict`.     - Cannot install dependency r-lib/cli@main   * Cannot install `r-lib/cli@main`. - Conflicts r-lib/cli@message"},{"path":"https://pak.r-lib.org/dev/reference/pak_update.html","id":null,"dir":"Reference","previous_headings":"","what":"Update pak itself — pak_update","title":"Update pak itself — pak_update","text":"Use function update released development version pak.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_update.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Update pak itself — pak_update","text":"","code":"pak_update(force = FALSE, stream = c(\"auto\", \"stable\", \"rc\", \"devel\"))"},{"path":"https://pak.r-lib.org/dev/reference/pak_update.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Update pak itself — pak_update","text":"force Whether force update, even newer version available. stream Whether update \"stable\", \"rc\" (release candidate) \"devel\" (development) version. \"auto\" updates stream current one. Often release candidate version, \"rc\" also installs stable version.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pak_update.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Update pak itself — pak_update","text":"Nothing.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps.html","id":null,"dir":"Reference","previous_headings":"","what":"Look up the dependencies of a package — pkg_deps","title":"Look up the dependencies of a package — pkg_deps","text":"Look dependencies package","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Look up the dependencies of a package — pkg_deps","text":"","code":"pkg_deps(pkg, upgrade = TRUE, dependencies = NA)"},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Look up the dependencies of a package — pkg_deps","text":"pkg Package names package references. E.g. ggplot2: package CRAN, Bioconductor CRAN-like repository general, tidyverse/ggplot2: package GitHub, tidyverse/ggplot2@v3.4.0: package GitHub tag branch, https://examples.com/.../ggplot2_3.3.6.tar.gz: package URL, .: package current working directory. See \"Package sources\" details. upgrade Whether use recent available package versions. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Look up the dependencies of a package — pkg_deps","text":"data frame dependency data, includes pkg well. following columns. built: Built field DESCRIPTION file binary packages, information available. cache_status: whether package file package cache. NA installed:: package refs. dep_types: character vector dependency types considered package. (list column.) deps: dependencies package, data frame. See \"Package dependency tables\" . direct: whether package (ref, really) directly specified, added dependency. error: list column contains error objects refs pkgdepends failed resolve. filesize: file size bytes, NA information available. license: license package, NA available. md5sum: MD5 checksum package file, available, NA . metadata: named character vector. fields () added installed DESCRIPTION file package. mirror: URL CRAN(-like) mirror site metadata obtained . NA non-CRAN-like sources, e.g. local files, installed packages, GitHub, etc. needscompilation: whether package needs compilation. package: package name. priority: \"base\" base packages, \"recommended\" recommended packages, NA otherwise. ref: package reference. remote: parsed remote_ref objects, see parse_pkg_refs(). list column. repodir: directory package CRAN-like repository. sha256: SHA256 hash package file, available, otherwise NA. sources: URLs package can downloaded . necessarily URL can download HTTP client. E.g. local:: refs path, git:: refs URL git. zero length vector installed:: refs. status: status dependency resolution, \"OK\" \"FAILED\". target: path package saved CRAN-repository. type: ref type. version: package version.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps.html","id":"package-dependency-tables","dir":"Reference","previous_headings":"","what":"Package dependency tables","title":"Look up the dependencies of a package — pkg_deps","text":"package dependency tables deps list column five columns currently: ref: package ref dependency. type: dependency type, lowercase. .e. imports, suggests, etc. package: package name dependency. op: operator version requirements, e.g. >=. version: version number, version requirements.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Look up the dependencies of a package — pkg_deps","text":"package GitHub:","code":"pkg_deps(\"dplyr\") #> # A data frame: 16 × 32 #>    ref       type  direct direc…¹ status package version license needs…² #>    <chr>     <chr> <lgl>  <lgl>   <chr>  <chr>   <chr>   <chr>   <lgl> #>  1 R6        stan… FALSE  FALSE   OK     R6      2.5.1   MIT + … FALSE #>  2 cli       stan… FALSE  FALSE   OK     cli     3.4.1   MIT + … FALSE #>  3 dplyr     stan… TRUE   TRUE    OK     dplyr   1.0.10  MIT + … FALSE #>  4 fansi     stan… FALSE  FALSE   OK     fansi   1.0.3   GPL-2 … FALSE #>  5 generics  stan… FALSE  FALSE   OK     generi… 0.1.3   MIT + … FALSE #>  6 glue      stan… FALSE  FALSE   OK     glue    1.6.2   MIT + … FALSE #>  7 lifecycle stan… FALSE  FALSE   OK     lifecy… 1.0.3   MIT + … FALSE #>  8 magrittr  stan… FALSE  FALSE   OK     magrit… 2.0.3   MIT + … FALSE #>  9 pillar    stan… FALSE  FALSE   OK     pillar  1.8.1   MIT + … FALSE #> 10 pkgconfig stan… FALSE  FALSE   OK     pkgcon… 2.0.3   MIT + … FALSE #> 11 rlang     stan… FALSE  FALSE   OK     rlang   1.0.6   MIT + … FALSE #> 12 tibble    stan… FALSE  FALSE   OK     tibble  3.1.8   MIT + … FALSE #> 13 tidysele… stan… FALSE  FALSE   OK     tidyse… 1.2.0   MIT + … FALSE #> 14 utf8      stan… FALSE  FALSE   OK     utf8    1.2.2   Apache… FALSE #> 15 vctrs     stan… FALSE  FALSE   OK     vctrs   0.5.1   MIT + … FALSE #> 16 withr     stan… FALSE  FALSE   OK     withr   2.5.0   MIT + … FALSE #> # … with 23 more variables: priority <chr>, md5sum <chr>, sha256 <chr>, #> #   filesize <int>, built <chr>, platform <chr>, rversion <chr>, #> #   repotype <chr>, repodir <chr>, target <chr>, deps <list>, #> #   mirror <chr>, sources <list>, remote <list>, error <list>, #> #   metadata <list>, dep_types <list>, params <list>, sysreqs <chr>, #> #   cache_status <chr>, lib_status <chr>, old_version <chr>, #> #   new_version <chr>, and abbreviated variable names ¹​directpkg, … pkg_deps(\"r-lib/callr\") #> # A data frame: 4 × 32 #>   ref        type  direct direc…¹ status package version license needs…² #>   <chr>      <chr> <lgl>  <lgl>   <chr>  <chr>   <chr>   <chr>   <lgl> #> 1 r-lib/cal… gith… TRUE   TRUE    OK     callr   3.7.3.… MIT + … TRUE #> 2 R6         stan… FALSE  FALSE   OK     R6      2.5.1   MIT + … FALSE #> 3 processx   stan… FALSE  FALSE   OK     proces… 3.8.0   MIT + … FALSE #> 4 ps         stan… FALSE  FALSE   OK     ps      1.7.2   MIT + … FALSE #> # … with 23 more variables: priority <chr>, md5sum <chr>, sha256 <chr>, #> #   filesize <int>, built <chr>, platform <chr>, rversion <chr>, #> #   repotype <chr>, repodir <chr>, target <chr>, deps <list>, #> #   mirror <chr>, sources <list>, remote <list>, error <list>, #> #   metadata <list>, dep_types <list>, params <list>, sysreqs <chr>, #> #   cache_status <chr>, lib_status <chr>, old_version <chr>, #> #   new_version <chr>, and abbreviated variable names ¹​directpkg, …"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_explain.html","id":null,"dir":"Reference","previous_headings":"","what":"Explain how a package depends on other packages — pkg_deps_explain","title":"Explain how a package depends on other packages — pkg_deps_explain","text":"Extract dependency chains pkg deps.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_explain.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Explain how a package depends on other packages — pkg_deps_explain","text":"","code":"pkg_deps_explain(pkg, deps, upgrade = TRUE, dependencies = NA)"},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_explain.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Explain how a package depends on other packages — pkg_deps_explain","text":"pkg Package names package references. E.g. ggplot2: package CRAN, Bioconductor CRAN-like repository general, tidyverse/ggplot2: package GitHub, tidyverse/ggplot2@v3.4.0: package GitHub tag branch, https://examples.com/.../ggplot2_3.3.6.tar.gz: package URL, .: package current working directory. See \"Package sources\" details. deps Package names dependencies explain. upgrade Whether use recent available package versions. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_explain.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Explain how a package depends on other packages — pkg_deps_explain","text":"named list print method. First entries function arguments: pkg, deps, dependencies, last one paths contains results named list, names package names deps.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_explain.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Explain how a package depends on other packages — pkg_deps_explain","text":"function similar pkg_deps_tree(), output easier read interested certain packages (deps).","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_explain.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Explain how a package depends on other packages — pkg_deps_explain","text":"dplyr depend rlang?   GH version usethis depend cli ps?","code":"pkg_deps_explain(\"dplyr\", \"rlang\") #> ✔ Updated metadata database: 5.09 MB in 12 files. #> ✔ Updating metadata database ... done #> dplyr -> lifecycle -> rlang #> dplyr -> rlang #> dplyr -> tibble -> lifecycle -> rlang #> dplyr -> tibble -> pillar -> lifecycle -> rlang #> dplyr -> tibble -> pillar -> rlang #> dplyr -> tibble -> pillar -> vctrs -> lifecycle -> rlang #> dplyr -> tibble -> pillar -> vctrs -> rlang #> dplyr -> tibble -> rlang #> dplyr -> tibble -> vctrs -> lifecycle -> rlang #> dplyr -> tibble -> vctrs -> rlang #> dplyr -> tidyselect -> lifecycle -> rlang #> dplyr -> tidyselect -> rlang #> dplyr -> tidyselect -> vctrs -> lifecycle -> rlang #> dplyr -> tidyselect -> vctrs -> rlang #> dplyr -> vctrs -> lifecycle -> rlang #> dplyr -> vctrs -> rlang #> dplyr -> pillar -> lifecycle -> rlang #> dplyr -> pillar -> rlang #> dplyr -> pillar -> vctrs -> lifecycle -> rlang #> dplyr -> pillar -> vctrs -> rlang pkg_deps_explain(\"r-lib/usethis\", c(\"cli\", \"ps\")) #> usethis -> cli #> usethis -> desc -> cli #> usethis -> gh -> cli #> usethis -> lifecycle -> cli #> #> x ps"},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_tree.html","id":null,"dir":"Reference","previous_headings":"","what":"Draw the dependency tree of a package — pkg_deps_tree","title":"Draw the dependency tree of a package — pkg_deps_tree","text":"Draw dependency tree package","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_tree.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Draw the dependency tree of a package — pkg_deps_tree","text":"","code":"pkg_deps_tree(pkg, upgrade = TRUE, dependencies = NA)"},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_tree.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Draw the dependency tree of a package — pkg_deps_tree","text":"pkg Package names package references. E.g. ggplot2: package CRAN, Bioconductor CRAN-like repository general, tidyverse/ggplot2: package GitHub, tidyverse/ggplot2@v3.4.0: package GitHub tag branch, https://examples.com/.../ggplot2_3.3.6.tar.gz: package URL, .: package current working directory. See \"Package sources\" details. upgrade Whether use recent available package versions. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_tree.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Draw the dependency tree of a package — pkg_deps_tree","text":"data frame pkg_deps(), invisibly.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_deps_tree.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Draw the dependency tree of a package — pkg_deps_tree","text":"","code":"pkg_deps_tree(\"dplyr\") #> dplyr 1.0.10 ✨ #> ├─generics 0.1.3 ✨ #> ├─glue 1.6.2 ✨ #> ├─lifecycle 1.0.3 ✨ #> │ ├─cli 3.4.1 ✨ #> │ ├─glue #> │ └─rlang 1.0.6 ✨ #> ├─magrittr 2.0.3 ✨ #> ├─R6 2.5.1 ✨ #> ├─rlang #> ├─tibble 3.1.8 ✨ #> │ ├─fansi 1.0.3 ✨ #> │ ├─lifecycle #> │ ├─magrittr #> │ ├─pillar 1.8.1 ✨ #> │ │ ├─cli #> │ │ ├─fansi #> │ │ ├─glue #> │ │ ├─lifecycle #> │ │ ├─rlang #> │ │ ├─utf8 1.2.2 ✨ #> │ │ └─vctrs 0.5.1 ✨ #> │ │   ├─cli #> │ │   ├─glue #> │ │   ├─lifecycle #> │ │   └─rlang #> │ ├─pkgconfig 2.0.3 ✨ #> │ ├─rlang #> │ └─vctrs #> ├─tidyselect 1.2.0 ✨ #> │ ├─cli #> │ ├─glue #> │ ├─lifecycle #> │ ├─rlang #> │ ├─vctrs #> │ └─withr 2.5.0 ✨ #> ├─vctrs #> └─pillar #> #> Key:  ✨ new pkg_deps_tree(\"r-lib/usethis\") #> r-lib/usethis 2.1.6.9000 ✨👷🏼🔧  #> ├─cli 3.4.1 ✨ #> ├─clipr 0.8.0 ✨ #> ├─crayon 1.5.2 ✨ #> ├─curl 4.3.3 ✨ #> ├─desc 1.4.2 ✨ #> │ ├─cli #> │ ├─R6 2.5.1 ✨ #> │ └─rprojroot 2.0.3 ✨ #> ├─fs 1.5.2 ✨ #> ├─gert 1.9.2 ✨ ⬇ (1.91 MB) #> │ ├─askpass 1.1 ✨ #> │ │ └─sys 3.4.1 ✨ #> │ ├─credentials 1.3.2 ✨ ⬇ (170.15 kB) #> │ │ ├─openssl 2.0.5 ✨ #> │ │ │ └─askpass #> │ │ ├─sys #> │ │ ├─curl #> │ │ ├─jsonlite 1.8.4 ✨ #> │ │ └─askpass #> │ ├─openssl #> │ ├─rstudioapi 0.14 ✨ #> │ ├─sys #> │ └─zip 2.2.2 ✨ #> ├─gh 1.3.1 ✨ ⬇ (95.20 kB) #> │ ├─cli #> │ ├─gitcreds 0.1.2 ✨ ⬇ (95.59 kB) #> │ ├─httr 1.4.4 ✨ #> │ │ ├─curl #> │ │ ├─jsonlite #> │ │ ├─mime 0.12 ✨ #> │ │ ├─openssl #> │ │ └─R6 #> │ ├─ini 0.3.1 ✨ ⬇ (13.13 kB) #> │ └─jsonlite #> ├─glue 1.6.2 ✨ #> ├─jsonlite #> ├─lifecycle 1.0.3 ✨ #> │ ├─cli #> │ ├─glue #> │ └─rlang 1.0.6 ✨ #> ├─purrr 0.3.5 ✨ #> │ ├─magrittr 2.0.3 ✨ #> │ └─rlang #> ├─rappdirs 0.3.3 ✨ #> ├─rlang #> ├─rprojroot #> ├─rstudioapi #> ├─whisker 0.4.1 ✨ ⬇ (65.36 kB) #> ├─withr 2.5.0 ✨ #> └─yaml 2.3.6 ✨ #> #> Key:  ✨ new |  ⬇ download | 👷🏼 build | 🔧 compile"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pkg_download.html","id":null,"dir":"Reference","previous_headings":"","what":"Download a package and its dependencies — pkg_download","title":"Download a package and its dependencies — pkg_download","text":"TODO: explain result","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_download.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Download a package and its dependencies — pkg_download","text":"","code":"pkg_download(   pkg,   dest_dir = \".\",   dependencies = FALSE,   platforms = NULL,   r_versions = NULL )"},{"path":"https://pak.r-lib.org/dev/reference/pkg_download.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Download a package and its dependencies — pkg_download","text":"pkg Package names package references. E.g. ggplot2: package CRAN, Bioconductor CRAN-like repository general, tidyverse/ggplot2: package GitHub, tidyverse/ggplot2@v3.4.0: package GitHub tag branch, https://examples.com/.../ggplot2_3.3.6.tar.gz: package URL, .: package current working directory. See \"Package sources\" details. dest_dir Destination directory packages. exist, created. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies. platforms Types binary source packages download. default value pkgdepends::default_platforms(). r_versions R version(s) download packages . (matter source packages, binaries.) defaults current R version.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_download.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Download a package and its dependencies — pkg_download","text":"Data frame information downloaded packages, invisibly. Columns: built: Built field DESCRIPTION file binary packages, information available. cache_status: whether package file package cache. NA installed:: package refs. dep_types: character vector dependency types considered package. (list column.) deps: dependencies package, data frame. See \"Package dependency tables\" . direct: whether package (ref, really) directly specified, added dependency. error: list column contains error objects refs pkgdepends failed resolve. filesize: file size bytes, NA information available. license: license package, NA available. md5sum: MD5 checksum package file, available, NA . metadata: named character vector. fields () added installed DESCRIPTION file package. mirror: URL CRAN(-like) mirror site metadata obtained . NA non-CRAN-like sources, e.g. local files, installed packages, GitHub, etc. needscompilation: whether package needs compilation. package: package name. priority: \"base\" base packages, \"recommended\" recommended packages, NA otherwise. ref: package reference. remote: parsed remote_ref objects, see parse_pkg_refs(). list column. repodir: directory package CRAN-like repository. sha256: SHA256 hash package file, available, otherwise NA. sources: URLs package can downloaded . necessarily URL can download HTTP client. E.g. local:: refs path, git:: refs URL git. zero length vector installed:: refs. status: status dependency resolution, \"OK\" \"FAILED\". target: path package saved CRAN-repository. type: ref type. version: package version. fulltarget: absolute path downloaded file. one fulltarget fulltarget_tree must exist disk. fulltarget_tree: absolute path package tree directory. one fulltarget fulltarget_tree must exist disk. download_status: \"\" \"Got\", depending whether file obtained cache. download_error: error object failed downloads. file_size: Size file, NA. installed:: refs, NA, also NA refs created fulltarget_tree instead fulltarget.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_download.html","id":"package-dependency-tables","dir":"Reference","previous_headings":"","what":"Package dependency tables","title":"Download a package and its dependencies — pkg_download","text":"package dependency tables deps list column five columns currently: ref: package ref dependency. type: dependency type, lowercase. .e. imports, suggests, etc. package: package name dependency. op: operator version requirements, e.g. >=. version: version number, version requirements.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_download.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Download a package and its dependencies — pkg_download","text":"","code":"dl <- pkg_download(\"forcats\") #> ℹ No downloads are needed, 2 pkgs (641.53 kB) are cached dl #> # A data frame: 2 × 35 #>   ref     type     direct direc…¹ status package version license needs…² #>   <chr>   <chr>    <lgl>  <lgl>   <chr>  <chr>   <chr>   <chr>   <lgl> #> 1 forcats standard TRUE   TRUE    OK     forcats 0.5.2   MIT + … FALSE #> 2 forcats standard TRUE   TRUE    OK     forcats 0.5.2   MIT + … FALSE #> # … with 26 more variables: priority <chr>, md5sum <chr>, sha256 <chr>, #> #   filesize <int>, built <chr>, platform <chr>, rversion <chr>, #> #   repotype <chr>, repodir <chr>, target <chr>, deps <list>, #> #   mirror <chr>, sources <list>, remote <list>, error <list>, #> #   metadata <list>, extra <list>, dep_types <list>, params <list>, #> #   sysreqs <chr>, cache_status <chr>, fulltarget <chr>, #> #   fulltarget_tree <chr>, download_status <chr>, … dl$fulltarget #> [1] \"./bin/macosx/big-sur-arm64/contrib/4.2/forcats_0.5.2.tgz\" #> [2] \"./src/contrib/forcats_0.5.2.tar.gz\" pkg_download(\"r-lib/pak\", platforms = \"source\") #> ℹ No downloads are needed, 1 pkg is cached"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pkg_history.html","id":null,"dir":"Reference","previous_headings":"","what":"Query the history of a CRAN package — pkg_history","title":"Query the history of a CRAN package — pkg_history","text":"Query history CRAN package","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_history.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Query the history of a CRAN package — pkg_history","text":"","code":"pkg_history(pkg)"},{"path":"https://pak.r-lib.org/dev/reference/pkg_history.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Query the history of a CRAN package — pkg_history","text":"pkg Package name.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_history.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Query the history of a CRAN package — pkg_history","text":"data frame, one row per package version. columns entries DESCRIPTION files released package versions.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_history.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Query the history of a CRAN package — pkg_history","text":"","code":"pkg_history(\"ggplot2\") #> # A data frame: 44 × 30 #>    Package Type    Title    Version Date  Author Maint…¹ Descr…² License #>  * <chr>   <chr>   <chr>    <chr>   <chr> <chr>  <chr>   <chr>   <chr> #>  1 ggplot2 Package An impl… 0.5     2007… Hadle… Hadley… \"An im… GPL #>  2 ggplot2 Package An impl… 0.5.1   2007… Hadle… Hadley… \"An im… GPL #>  3 ggplot2 Package An impl… 0.5.2   2007… Hadle… Hadley… \"An im… GPL #>  4 ggplot2 Package An impl… 0.5.4   2007… Hadle… Hadley… \"An im… GPL #>  5 ggplot2 Package An impl… 0.5.5   2007… Hadle… Hadley… \"An im… GPL #>  6 ggplot2 Package An impl… 0.5.6   2007… Hadle… Hadley… \"An im… GPL #>  7 ggplot2 Package An impl… 0.5.7   2007… Hadle… Hadley… \"An im… GPL #>  8 ggplot2 Package An impl… 0.6     2008… Hadle… Hadley… \"An im… GPL #>  9 ggplot2 Package An impl… 0.7     2008… Hadle… Hadley… \"An im… GPL #> 10 ggplot2 Package An impl… 0.8     2008… Hadle… Hadley… \"An im… GPL #> # … with 34 more rows, 21 more variables: SaveImage <chr>, #> #   LazyData <chr>, Packaged <chr>, crandb_file_date <chr>, date <chr>, #> #   dependencies <list>, URL <chr>, LazyLoad <chr>, Extends <chr>, #> #   Collate <chr>, Repository <chr>, `Date/Publication` <chr>, #> #   NeedsCompilation <chr>, VignetteBuilder <chr>, BugReports <chr>, #> #   `Authors@R` <chr>, RoxygenNote <chr>, Encoding <chr>, MD5sum <chr>, #> #   `Config/Needs/website` <chr>, `Config/testthat/edition` <chr>, …"},{"path":"https://pak.r-lib.org/dev/reference/pkg_install.html","id":null,"dir":"Reference","previous_headings":"","what":"Install packages — pkg_install","title":"Install packages — pkg_install","text":"Install one packages dependencies single package library.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_install.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Install packages — pkg_install","text":"","code":"pkg_install(   pkg,   lib = .libPaths()[[1L]],   upgrade = FALSE,   ask = interactive(),   dependencies = NA )"},{"path":"https://pak.r-lib.org/dev/reference/pkg_install.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Install packages — pkg_install","text":"pkg Package names package references. E.g. ggplot2: package CRAN, Bioconductor CRAN-like repository general, tidyverse/ggplot2: package GitHub, tidyverse/ggplot2@v3.4.0: package GitHub tag branch, https://examples.com/.../ggplot2_3.3.6.tar.gz: package URL, .: package current working directory. See \"Package sources\" details. lib Package library install packages . Note dependent packages installed , even already installed another library. exceptions base recommended packages installed .Library. duplicated lib, unless newer version recommemded package needed. upgrade FALSE, default, pak minimum amount work give latest version(s) pkg. upgrade dependent packages pkg, one dependencies explicitly require higher version currently . also prefer binary package source package, even binary package older. upgrade = TRUE, pak ensure latest version(s) pkg dependencies. ask Whether ask confirmation installing different version package already installed. Installations add new packages never require confirmation. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_install.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Install packages — pkg_install","text":"(Invisibly) data frame information installed package(s).","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_install.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Install packages — pkg_install","text":"Upgrade dplyr dependencies:   Install development version dplyr:   Switch back CRAN version. fast pak cached prior install.","code":"pkg_install(\"dplyr\") #> #> → Will install 5 packages. #> → All 5 packages (2.14 MB) are cached. #> + dplyr        1.0.9 #> + generics     0.1.2 #> + purrr        0.3.4 #> + R6           2.5.1 #> + tidyselect   1.1.2 #> ℹ No downloads are needed, 5 pkgs (2.14 MB) are cached #> ✔ Got R6 2.5.1 (aarch64-apple-darwin20) (82.52 kB) #> ✔ Installed R6 2.5.1  (43ms) #> ✔ Installed generics 0.1.2  (62ms) #> ✔ Installed dplyr 1.0.9  (88ms) #> ✔ Installed purrr 0.3.4  (88ms) #> ✔ Installed tidyselect 1.1.2  (94ms) #> ✔ 1 pkg + 17 deps: kept 12, added 5, dld 1 (82.52 kB) [1.2s] pkg_install(\"dplyr\", upgrade = TRUE) #> #> → Will update 1 package. #> → The package (742.51 kB) is cached. #> + rlang 1.0.2 → 1.0.3 👷🏿‍♀️🔧 #> ℹ No downloads are needed, 1 pkg (742.51 kB) is cached #> ℹ Building rlang 1.0.3 #> ✔ Built rlang 1.0.3 (5.8s) #> ✔ Installed rlang 1.0.3  (32ms) #> ✔ 1 pkg + 17 deps: kept 17, upd 1 [6.3s] pkg_install(\"tidyverse/dplyr\") #> ✔ Loading metadata database ... done #> #> → Will install 16 packages. #> → All 16 packages (8.09 MB) are cached. #> + cli          3.4.1 #> + dplyr        1.0.99.9000 👷🏾‍♂️🔧 (GitHub: e6252f8) #> + fansi        1.0.3 #> + generics     0.1.3 #> + glue         1.6.2 #> + lifecycle    1.0.3 #> + magrittr     2.0.3 #> + pillar       1.8.1 #> + pkgconfig    2.0.3 #> + R6           2.5.1 #> + rlang        1.0.6 #> + tibble       3.1.8 #> + tidyselect   1.2.0 #> + utf8         1.2.2 #> + vctrs        0.5.1 #> + withr        2.5.0 #> ℹ No downloads are needed, 16 pkgs (8.09 MB) are cached #> ✔ Installed R6 2.5.1  (58ms) #> ✔ Installed cli 3.4.1  (69ms) #> ✔ Installed fansi 1.0.3  (92ms) #> ✔ Installed generics 0.1.3  (99ms) #> ✔ Installed glue 1.6.2  (108ms) #> ✔ Installed lifecycle 1.0.3  (144ms) #> ✔ Installed magrittr 2.0.3  (152ms) #> ✔ Installed pillar 1.8.1  (160ms) #> ✔ Installed pkgconfig 2.0.3  (63ms) #> ✔ Installed rlang 1.0.6  (37ms) #> ✔ Installed tibble 3.1.8  (41ms) #> ✔ Installed tidyselect 1.2.0  (38ms) #> ✔ Installed utf8 1.2.2  (36ms) #> ✔ Installed vctrs 0.5.1  (39ms) #> ✔ Installed withr 2.5.0  (30ms) #> ℹ Packaging dplyr 1.0.99.9000 #> ✔ Packaged dplyr 1.0.99.9000 (8.3s) #> ℹ Building dplyr 1.0.99.9000 #> ✔ Built dplyr 1.0.99.9000 (5.2s) #> ✔ Installed dplyr 1.0.99.9000 (github::tidyverse/dplyr@e6252f8) (24ms) #> ✔ 1 pkg + 15 deps: added 16 [18.9s] pkg_install(\"dplyr\") #> ✔ Updated metadata database: 2.43 MB in 6 files. #> ✔ Updating metadata database ... done #> #> → Will install 16 packages. #> → All 16 packages (9.42 MB) are cached. #> + cli          3.4.1 #> + dplyr        1.0.10 #> + fansi        1.0.3 #> + generics     0.1.3 #> + glue         1.6.2 #> + lifecycle    1.0.3 #> + magrittr     2.0.3 #> + pillar       1.8.1 #> + pkgconfig    2.0.3 #> + R6           2.5.1 #> + rlang        1.0.6 #> + tibble       3.1.8 #> + tidyselect   1.2.0 #> + utf8         1.2.2 #> + vctrs        0.5.1 #> + withr        2.5.0 #> ℹ No downloads are needed, 16 pkgs (9.42 MB) are cached #> ✔ Installed R6 2.5.1  (66ms) #> ✔ Installed cli 3.4.1  (76ms) #> ✔ Installed dplyr 1.0.10  (111ms) #> ✔ Installed fansi 1.0.3  (119ms) #> ✔ Installed generics 0.1.3  (125ms) #> ✔ Installed glue 1.6.2  (132ms) #> ✔ Installed lifecycle 1.0.3  (149ms) #> ✔ Installed magrittr 2.0.3  (162ms) #> ✔ Installed pillar 1.8.1  (56ms) #> ✔ Installed pkgconfig 2.0.3  (35ms) #> ✔ Installed rlang 1.0.6  (57ms) #> ✔ Installed tibble 3.1.8  (41ms) #> ✔ Installed tidyselect 1.2.0  (40ms) #> ✔ Installed utf8 1.2.2  (37ms) #> ✔ Installed vctrs 0.5.1  (39ms) #> ✔ Installed withr 2.5.0  (31ms) #> ✔ 1 pkg + 15 deps: added 16 [7.2s]"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pkg_name_check.html","id":null,"dir":"Reference","previous_headings":"","what":"Check if an R package name is available — pkg_name_check","title":"Check if an R package name is available — pkg_name_check","text":"Additionally, look candidate name number dictionaries, make sure negative meaning.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_name_check.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Check if an R package name is available — pkg_name_check","text":"","code":"pkg_name_check(name, dictionaries = NULL)"},{"path":"https://pak.r-lib.org/dev/reference/pkg_name_check.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Check if an R package name is available — pkg_name_check","text":"name Package name candidate. dictionaries Character vector, dictionaries query. Available dictionaries: * wikipedia * wiktionary, * sentiment (https://github.com/fnielsen/afinn), * urban (Urban Dictionary). NULL (default), Urban Dictionary omitted, often offensive.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_name_check.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Check if an R package name is available — pkg_name_check","text":"pkg_name_check object custom print method.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pkg_name_check.html","id":"valid-package-name-check","dir":"Reference","previous_headings":"","what":"Valid package name check","title":"Check if an R package name is available — pkg_name_check","text":"Check validity name package name. See 'Writing R Extensions' allowed package names. Also checked list names known cause problems.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_name_check.html","id":"cran-checks","dir":"Reference","previous_headings":"","what":"CRAN checks","title":"Check if an R package name is available — pkg_name_check","text":"Check name names past current packages CRAN, including base recommended packages.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_name_check.html","id":"bioconductor-checks","dir":"Reference","previous_headings":"","what":"Bioconductor checks","title":"Check if an R package name is available — pkg_name_check","text":"Check name past current Bioconductor packages.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_name_check.html","id":"profanity-check","dir":"Reference","previous_headings":"","what":"Profanity check","title":"Check if an R package name is available — pkg_name_check","text":"Check name https://www.purgomalum.com/service/containsprofanity make sure profanity.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_name_check.html","id":"dictionaries","dir":"Reference","previous_headings":"","what":"Dictionaries","title":"Check if an R package name is available — pkg_name_check","text":"See dictionaries argument.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_name_check.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Check if an R package name is available — pkg_name_check","text":"","code":"pkg_name_check(\"sicily\") #> ╔══════════════════════════════════════════════════════════════════════╗ #> ║                            –*– sicily –*–                            ║ #> ╚══════════════════════════════════════════════════════════════════════╝ #> ┌──────────────────────────────────────────────────────────────────────┐ #> │ ✔  valid name          ✔  CRAN               ✔  Bioconductor         │ #> │ ✔  not a profanity                                                   │ #> └──────────────────────────────────────────────────────────────────────┘ #> ┌ Wikipedia ───────────────────────────────────────────────────────────┐ #> │ Sicily Sicily (Italian: Sicilia [siˈtʃiːlja], Sicilian               │ #> │ pronunciation: [sɪˈʃiːlja]) is the largest island in the             │ #> │ Mediterranean Sea and one of the 20 regions of Italy. The Strait of  │ #> │ Messina divides it from the region of Calabria in Southern Italy.    │ #> │ It is one of the five Italian autonomous regions and is officially   │ #> │ referred to as Regione Siciliana. The region has 5 million           │ #> │ …                                                                    │ #> └──────────────────────────────── https://en.wikipedia.org/wiki/Sicily ┘ #> ┌ Wiktionary ──────────────────────────────────────────────────────────┐ #> │ sicily No English definition found                                   │ #> └────────────────────────────────────────────────────────────────────  ┘ #> ┌──────────────────────────────────────────────────────────────────────┐ #> │ Sentiment: 😐 (0)                                                    │ #> └──────────────────────────────────────────────────────────────────────┘"},{"path":"https://pak.r-lib.org/dev/reference/pkg_remove.html","id":null,"dir":"Reference","previous_headings":"","what":"Remove installed packages — pkg_remove","title":"Remove installed packages — pkg_remove","text":"Remove installed packages","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_remove.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Remove installed packages — pkg_remove","text":"","code":"pkg_remove(pkg, lib = .libPaths()[[1L]])"},{"path":"https://pak.r-lib.org/dev/reference/pkg_remove.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Remove installed packages — pkg_remove","text":"pkg character vector packages remove. lib library remove packages .","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_remove.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Remove installed packages — pkg_remove","text":"Nothing.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pkg_search.html","id":null,"dir":"Reference","previous_headings":"","what":"Search CRAN packages — pkg_search","title":"Search CRAN packages — pkg_search","text":"Search indexed database current CRAN packages. uses pkgsearch package. See package details also pkgsearch::pkg_search() pagination, advanced searching, etc.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_search.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Search CRAN packages — pkg_search","text":"","code":"pkg_search(query, ...)"},{"path":"https://pak.r-lib.org/dev/reference/pkg_search.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Search CRAN packages — pkg_search","text":"query Search query string. ... Arguments passed pkgsearch::pkg_search start listing results, pagination. size number results list.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_search.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Search CRAN packages — pkg_search","text":"data frame, also pak_search_result object custom print method. see underlying table, can use [] drop extra classes. See examples .","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_search.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Search CRAN packages — pkg_search","text":"Simple search   See underlying data frame","code":"pkg_search(\"survival\") #> #> 1 survival 3.4.0 -- by Terry M Therneau, 4 months ago #>   Survival Analysis #> #> 2 survminer 0.4.9 -- by Alboukadel Kassambara, 2 years ago #>   Drawing Survival Curves using 'ggplot2' #> #> 3 flexsurv 2.2 -- by Christopher Jackson, 6 months ago #>   Flexible Parametric Survival and Multi-State Models #> #> 4 muhaz 1.2.6.4 -- by David Winsemius, 2 years ago #>   Hazard Function Estimation in Survival Analysis #> #> 5 pec 2022.5.4 -- by Thomas A. Gerds, 8 months ago #>   Prediction Error Curves for Risk Prediction Models in Survival Analysi #> s #> #> 6 randomForestSRC 3.1.1 -- by Udaya B. Kogalur, 5 months ago #>   Fast Unified Random Forests for Survival, Regression, and Classificati #> on (RF-SRC) #> #> 7 relsurv 2.2.8 -- by Damjan Manevski, 4 months ago #>   Relative Survival #> #> 8 survRM2 1.0.4 -- by Hajime Uno, 6 months ago #>   Comparing Restricted Mean Survival Time #> #> 9 titanic 0.1.0 -- by Paul Hendricks, 7 years ago #>   Titanic Passenger Survival Data Set #> #> 10 KMsurv 0.1.5 -- by Jun Yan, 10 years ago #>   Data sets from Klein and Moeschberger (1997), Survival Analysis psro <- pkg_search(\"ropensci\") psro[] #> # A data frame: 10 × 15 #>    score package    version    title descr…¹ date                maint…² #>    <dbl> <chr>      <pckg_vrs> <chr> <chr>   <dttm>              <chr> #>  1  538. webmockr   0.8.2      Stub… \"Stubb… 2022-08-28 19:20:02 Scott … #>  2  520. RSelenium  1.7.9      R Bi… \"Provi… 2022-09-02 07:10:11 Ju Yeo… #>  3  416. tracerer   2.2.2      Trac… \"'BEAS… 2021-05-30 08:40:03 Richèl… #>  4  376. rfisheries 0.2        'Pro… \"A pro… 2016-02-19 08:50:03 Karthi… #>  5  367. mcbette    1.15       Mode… \"'BEAS… 2022-08-27 12:30:02 Richèl… #>  6  359. taxize     0.9.100    Taxo… \"Inter… 2022-04-22 07:30:02 Zachar… #>  7  350. beastier   2.4.11     Call… \"'BEAS… 2022-08-11 13:40:04 Richèl… #>  8  347. spocc      1.2.0      Inte… \"A pro… 2021-01-05 19:50:03 Scott … #>  9  316. chromer    0.3        Inte… \"A pro… 2022-10-27 22:45:36 Karl W… #> 10  315. visdat     0.5.3      Prel… \"Creat… 2019-02-15 14:30:03 Nichol… #> # … with 8 more variables: maintainer_email <chr>, revdeps <int>, #> #   downloads_last_month <int>, license <chr>, url <chr>, #> #   bugreports <chr>, package_data <I<list>>, ago <chr>, and #> #   abbreviated variable names ¹​description, ²​maintainer_name"},{"path":"https://pak.r-lib.org/dev/reference/pkg_status.html","id":null,"dir":"Reference","previous_headings":"","what":"Display installed locations of a package — pkg_status","title":"Display installed locations of a package — pkg_status","text":"Display installed locations package","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_status.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Display installed locations of a package — pkg_status","text":"","code":"pkg_status(pkg, lib = .libPaths())"},{"path":"https://pak.r-lib.org/dev/reference/pkg_status.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Display installed locations of a package — pkg_status","text":"pkg Name one installed packages display status . lib One library paths lookup packages status . default libraries used.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_status.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Display installed locations of a package — pkg_status","text":"Data frame data installations pkg. always columns: biocviews: corresponding field DESCRIPTION, must present Bioconductor packages, packages typically . built: Built field DESCRIPTION. depends, suggests, Imports, linkingto, enhances: corresponding fields DESCRIPTION files. deps: list data frames, dependencies package. columns: ref, type (dependency type lowercase), package (dependent package, R), op version, last two version requirement. op can >=, >, == <=, although first one common practice. library: path package library containing package. license: DESCRIPTION. md5sum: DESCTIPTION, typically NA, except Windows. needscompilation: DESCRIPTION, column logical. package: package name. platform: Built field DESCRIPTION, current platform missing DESCRIPTION. priority: DESCRIPTION, usually base, recommended, missing. ref: corresponding installed::* package reference. repository: DESCRIPTION. packages CRAN repository CRAN, repositories, e.g. R-universe adds repository URL . repotype: cran, bioc missing. rversion: Built field. field, current R version. sysreqs: SystemRequirements field DESCRIPTION. title: package title. type: always installed. version: package version (string).","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_status.html","id":"notes-","dir":"Reference","previous_headings":"","what":"Notes:","title":"Display installed locations of a package — pkg_status","text":"addition, also remote* config/needs/* entries DESCRIPTION files. (Case insensitive.) columns type character, except needscompilation, logical deps, list columns. entry missing package, set NA. Note column names lowercase, even corresponding entries DESCRIPTION. order columns deterministic, assume order. Additional columns might present, internal pak used user code.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_status.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Display installed locations of a package — pkg_status","text":"","code":"pkg_status(\"MASS\") #> # A data frame: 2 × 39 #>   library    package title version depends repos…¹ license needs…² built #> * <chr>      <chr>   <chr> <chr>   <chr>   <chr>   <chr>   <lgl>   <chr> #> 1 /Users/ga… MASS    Supp… 7.3-58… R (>= … CRAN    GPL-2 … TRUE    R 4.… #> 2 /Library/… MASS    Supp… 7.3-58… R (>= … CRAN    GPL-2 … TRUE    R 4.… #> # … with 30 more variables: remotetype <chr>, remotepkgref <chr>, #> #   remoteref <chr>, remoterepos <chr>, remotepkgplatform <chr>, #> #   remotesha <chr>, imports <chr>, suggests <chr>, linkingto <chr>, #> #   remotes <chr>, remotehost <chr>, remoterepo <chr>, #> #   remoteusername <chr>, enhances <chr>, biocviews <chr>, #> #   remoteurl <chr>, remotesubdir <chr>, priority <chr>, #> #   remoteetag <chr>, remotepackaged <chr>, md5sum <chr>, …"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/pkg_sysreqs.html","id":null,"dir":"Reference","previous_headings":"","what":"Calculate system requirements of one of more packages — pkg_sysreqs","title":"Calculate system requirements of one of more packages — pkg_sysreqs","text":"Calculate system requirements one packages","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_sysreqs.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Calculate system requirements of one of more packages — pkg_sysreqs","text":"","code":"pkg_sysreqs(pkg, upgrade = TRUE, dependencies = NA, sysreqs_platform = NULL)"},{"path":"https://pak.r-lib.org/dev/reference/pkg_sysreqs.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Calculate system requirements of one of more packages — pkg_sysreqs","text":"pkg Package names package references. E.g. ggplot2: package CRAN, Bioconductor CRAN-like repository general, tidyverse/ggplot2: package GitHub, tidyverse/ggplot2@v3.4.0: package GitHub tag branch, https://examples.com/.../ggplot2_3.3.6.tar.gz: package URL, .: package current working directory. See \"Package sources\" details. upgrade FALSE, default, pak minimum amount work give latest version(s) pkg. upgrade dependent packages pkg, one dependencies explicitly require higher version currently . also prefer binary package source package, even binary package older. upgrade = TRUE, pak ensure latest version(s) pkg dependencies. dependencies kinds dependencies install. commonly one following values: NA: required (hard) dependencies, TRUE: required dependencies plus optional development dependencies, FALSE: install dependencies. (might end non-working package, /installation might fail.) See Package dependency types possible values information package dependencies. sysreqs_platform System requirements platform. NULL, sysreqs_platform configuration option  used, defaults current platform. Set option one \"alpine\", \"centos\", \"debian\", \"fedora\", \"opensuse\", \"redhat\", \"redhat\", \"redhat\", \"rhel\", \"rhel\", \"rhel\", \"rhel\", \"rhel\", \"rhel\", \"rhel\", \"rhel\", \"rhel\", \"rhel\", \"rhel\", \"rockylinux\", \"sle\", \"ubuntu\"  pak  fails correctly detect platform want see system requirements different platform.","code":""},{"path":"https://pak.r-lib.org/dev/reference/pkg_sysreqs.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Calculate system requirements of one of more packages — pkg_sysreqs","text":"List entries: os: character string. Operating system. distribution: character string. Linux distribution, NA OS Linux. version: character string. Distribution version, NA OS Linux. pre_install: character vector. Commands run installation system packages. install_scripts: character vector. Commands run install system packages. post_install: character vector. Commands run installation system packages. packages: data frame. Information system packages needed. columns: sysreq: string, cross-platform name system requirement. packages: list column character vectors. names R packages system requirement. pre_install: list column character vectors. Commands run package installation system requirement. system_packages: list column character vectors. Names system packages install. post_install: list column character vectors. Commands run package installation system requirement.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/ppm_has_binaries.html","id":null,"dir":"Reference","previous_headings":"","what":"Does PPM build binary packages for the current platform? — ppm_has_binaries","title":"Does PPM build binary packages for the current platform? — ppm_has_binaries","text":"PPM build binary packages current platform?","code":""},{"path":"https://pak.r-lib.org/dev/reference/ppm_has_binaries.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Does PPM build binary packages for the current platform? — ppm_has_binaries","text":"","code":"ppm_has_binaries()"},{"path":"https://pak.r-lib.org/dev/reference/ppm_has_binaries.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Does PPM build binary packages for the current platform? — ppm_has_binaries","text":"TRUE FALSE.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/ppm_has_binaries.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Does PPM build binary packages for the current platform? — ppm_has_binaries","text":"","code":"if (FALSE) { system_r_platform() ppm_has_binaries() }"},{"path":"https://pak.r-lib.org/dev/reference/ppm_platforms.html","id":null,"dir":"Reference","previous_headings":"","what":"List all platforms supported by Posit Package Manager (PPM) — ppm_platforms","title":"List all platforms supported by Posit Package Manager (PPM) — ppm_platforms","text":"List platforms supported Posit Package Manager (PPM)","code":""},{"path":"https://pak.r-lib.org/dev/reference/ppm_platforms.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"List all platforms supported by Posit Package Manager (PPM) — ppm_platforms","text":"","code":"ppm_platforms()"},{"path":"https://pak.r-lib.org/dev/reference/ppm_platforms.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"List all platforms supported by Posit Package Manager (PPM) — ppm_platforms","text":"Data frame columns: name: platform name, essentially identifier, os: operating system, linux, windows macOS currently, binary_url: URL segment binary repository URL platform, see ppm_snapshots(). distribution: Linux platforms name distribution, release: Linux platforms, name release, binaries: whether PPM builds binaries platform.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/ppm_platforms.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"List all platforms supported by Posit Package Manager (PPM) — ppm_platforms","text":"","code":"if (FALSE) { ppm_platforms() }"},{"path":"https://pak.r-lib.org/dev/reference/ppm_r_versions.html","id":null,"dir":"Reference","previous_headings":"","what":"List all R versions supported by Posit Package Manager (PPM) — ppm_r_versions","title":"List all R versions supported by Posit Package Manager (PPM) — ppm_r_versions","text":"List R versions supported Posit Package Manager (PPM)","code":""},{"path":"https://pak.r-lib.org/dev/reference/ppm_r_versions.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"List all R versions supported by Posit Package Manager (PPM) — ppm_r_versions","text":"","code":"ppm_r_versions()"},{"path":"https://pak.r-lib.org/dev/reference/ppm_r_versions.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"List all R versions supported by Posit Package Manager (PPM) — ppm_r_versions","text":"Data frame columns: r_version: minor R versions, .e. version numbers containing first two components R versions supported PPM instance.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/ppm_r_versions.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"List all R versions supported by Posit Package Manager (PPM) — ppm_r_versions","text":"","code":"if (FALSE) { ppm_r_versions() }"},{"path":"https://pak.r-lib.org/dev/reference/ppm_repo_url.html","id":null,"dir":"Reference","previous_headings":"","what":"Returns the current Posit Package Manager (PPM) repository URL — ppm_repo_url","title":"Returns the current Posit Package Manager (PPM) repository URL — ppm_repo_url","text":"Returns current Posit Package Manager (PPM) repository URL","code":""},{"path":"https://pak.r-lib.org/dev/reference/ppm_repo_url.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Returns the current Posit Package Manager (PPM) repository URL — ppm_repo_url","text":"","code":"ppm_repo_url()"},{"path":"https://pak.r-lib.org/dev/reference/ppm_repo_url.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Returns the current Posit Package Manager (PPM) repository URL — ppm_repo_url","text":"String scalar, repository URL configured PPM instance. PPM instance configured, URL Posit Public Package Manager instance. includes repository name, e.g. https://packagemanager.posit.co/.","code":""},{"path":"https://pak.r-lib.org/dev/reference/ppm_repo_url.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Returns the current Posit Package Manager (PPM) repository URL — ppm_repo_url","text":"URL form {base}/{repo}, e.g. https://packagemanager.posit.co/. configure hosted PPM instance, set PKGCACHE_PPM_URL environment variable base URL (e.g. https://packagemanager.posit.co). use repo_add() PPM snapshots, may also set PKGCACHE_PPM_REPO environment variable name default repository. Linux, instead setting environment variables, can also add PPM repository repos option, see base::options(). environment variables set, ppm_repo_url() try extract PPM base URL repository name option. PKGCACHE_PPM_URL environment variable set, repos option contain PPM URL (Linux), pak uses public PPM instance https://packagemanager.posit.co, cran repository.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/ppm_repo_url.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Returns the current Posit Package Manager (PPM) repository URL — ppm_repo_url","text":"","code":"if (FALSE) { ppm_repo_url() }"},{"path":"https://pak.r-lib.org/dev/reference/ppm_snapshots.html","id":null,"dir":"Reference","previous_headings":"","what":"List all available Posit Package Manager (PPM) snapshots — ppm_snapshots","title":"List all available Posit Package Manager (PPM) snapshots — ppm_snapshots","text":"List available Posit Package Manager (PPM) snapshots","code":""},{"path":"https://pak.r-lib.org/dev/reference/ppm_snapshots.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"List all available Posit Package Manager (PPM) snapshots — ppm_snapshots","text":"","code":"ppm_snapshots()"},{"path":"https://pak.r-lib.org/dev/reference/ppm_snapshots.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"List all available Posit Package Manager (PPM) snapshots — ppm_snapshots","text":"Data frame two columns: date: time snapshot taken, POSIXct vector, id:  integer id snapshot, can used repository URL.","code":""},{"path":"https://pak.r-lib.org/dev/reference/ppm_snapshots.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"List all available Posit Package Manager (PPM) snapshots — ppm_snapshots","text":"repository URL snapshot following form Windows:   {base} base URL PPM (see ppm_repo_url()) {id} either date id snapshot, latest latest snapshot. E.g. equivalent:   Linux distribution PPM support, repository URL contains binary packages looks like :   {id} , {binary_url} code name release supported Linux distribution. See binary_url column result ppm_platforms() code names.","code":"{base}/{repo}/{id} https://packagemanager.posit.co/cran/5 https://packagemanager.posit.co/cran/2017-10-10 {base}/{repo}/__linux__/{binary_url}/{id}"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/ppm_snapshots.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"List all available Posit Package Manager (PPM) snapshots — ppm_snapshots","text":"","code":"if (FALSE) { ppm_snapshots() }"},{"path":"https://pak.r-lib.org/dev/reference/repo_add.html","id":null,"dir":"Reference","previous_headings":"","what":"Add a new CRAN-like repository — repo_add","title":"Add a new CRAN-like repository — repo_add","text":"Add new repository list repositories pak uses look packages.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_add.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Add a new CRAN-like repository — repo_add","text":"","code":"repo_add(..., .list = NULL)  repo_resolve(spec)"},{"path":"https://pak.r-lib.org/dev/reference/repo_add.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Add a new CRAN-like repository — repo_add","text":"... Repository specifications, possibly named character vectors. See details . .list List character vector repository specifications. argument easier use programmatically .... See details . spec Repository specification, possibly named character scalar.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_add.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Add a new CRAN-like repository — repo_add","text":"repo_resolve() returns named character scalar, URL repository.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_add.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Add a new CRAN-like repository — repo_add","text":"repo_add() adds new repositories. resolves specified repositories using repo_resolve() modifies repos global option. repo_add() effect current R session. want keep configuration R sessions, set repos option desired value user project .Rprofile file.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_add.html","id":"repository-specifications","dir":"Reference","previous_headings":"","what":"Repository specifications","title":"Add a new CRAN-like repository — repo_add","text":"format repository specification named unnamed character scalar. name missing, pak adds name automatically. repository named CRAN main CRAN repository, otherwise names informational. Currently supported repository specifications: URL pointing root CRAN-like repository. Example:   PPM@latest, PPM (Posit Package Manager, formerly RStudio Package Manager), latest snapshot. PPM@<date>, PPM (Posit Package Manager, formerly RStudio Package Manager) snapshot, specified date. PPM@<package>-<version> PPM snapshot, day release <version> <package>. PPM@R-<version> PPM snapshot, day R <version> released. Still works dates starting 2017-10-10, now deprecated, MRAN discontinued: MRAN@<date>, MRAN (Microsoft R Application Network) snapshot, specified date. MRAN@<package>-<version> MRAN snapshot, day release <version> <package>. MRAN@R-<version> MRAN snapshot, day R <version> released. Notes: See PPM https://packagemanager.posit.co/client/#/. RSPM@ prefix still supported treated way PPM@. MRAN service now retired, see https://techcommunity.microsoft.com/t5/azure-sql-blog/microsoft-r-application-network-retirement/ba-p/3707161 details. MRAN@... repository specifications now resolve PPM, note PPM snapshots available 2017-10-10. See https://posit.co/blog/migrating--mran--posit-package-manager/. dates (times) can specified ISO 8601 format. PPM snapshot available date, next available date used. Dates first, last PPM snapshot trigger error. Unknown R package versions trigger error.","code":"https://cloud.r-project.org"},{"path":"https://pak.r-lib.org/dev/reference/repo_add.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Add a new CRAN-like repository — repo_add","text":"","code":"repo_add(PPMdplyr100 = \"PPM@dplyr-1.0.0\") repo_get() #> # A data frame: 7 × 5 #>   name          url                         type  r_version bioc_version #> * <chr>         <chr>                       <chr> <chr>     <chr> #> 1 CRAN          https://cloud.r-project.org cran  *         NA #> 2 PPMdplyr100   https://packagemanager.pos… cran… *         NA #> 3 BioCsoft      https://bioconductor.org/p… bioc  4.3.1     3.17 #> 4 BioCann       https://bioconductor.org/p… bioc  4.3.1     3.17 #> 5 BioCexp       https://bioconductor.org/p… bioc  4.3.1     3.17 #> 6 BioCworkflows https://bioconductor.org/p… bioc  4.3.1     3.17 #> 7 BioCbooks     https://bioconductor.org/p… bioc  4.3.1     3.17 repo_resolve(\"PPM@2020-01-21\") #>                                       CRAN #> \"https://packagemanager.posit.co/cran/245\" repo_resolve(\"PPM@dplyr-1.0.0\") #>                                       CRAN #> \"https://packagemanager.posit.co/cran/289\" repo_resolve(\"PPM@R-4.0.0\") #>                                       CRAN #> \"https://packagemanager.posit.co/cran/276\""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/repo_get.html","id":null,"dir":"Reference","previous_headings":"","what":"Query the currently configured CRAN-like repositories — repo_get","title":"Query the currently configured CRAN-like repositories — repo_get","text":"pak uses repos option, see options(). also automatically adds CRAN mirror none set , correct version Bioconductor repositories. See cran_mirror bioc arguments.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_get.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Query the currently configured CRAN-like repositories — repo_get","text":"","code":"repo_get(r_version = getRversion(), bioc = TRUE, cran_mirror = NULL)"},{"path":"https://pak.r-lib.org/dev/reference/repo_get.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Query the currently configured CRAN-like repositories — repo_get","text":"r_version R version use determine correct Bioconductor version, bioc = TRUE. bioc Whether automatically add Bioconductor repositories result. cran_mirror CRAN mirror use. Leave NULL use mirror getOption(\"repos\") automatically selected one.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_get.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Query the currently configured CRAN-like repositories — repo_get","text":"repo_get() returns table currently configured repositories.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_get.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Query the currently configured CRAN-like repositories — repo_get","text":"","code":"repo_get() #> # A data frame: 5 × 5 #>   name          url                                type  r_ver…¹ bioc_…² #> * <chr>         <chr>                              <chr> <chr>   <chr> #> 1 CRAN          https://cloud.r-project.org        cran  *       NA #> 2 BioCsoft      https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 3 BioCann       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 4 BioCexp       https://bioconductor.org/packages… bioc  4.2.2   3.16 #> 5 BioCworkflows https://bioconductor.org/packages… bioc  4.2.2   3.16 #> # … with abbreviated variable names ¹​r_version, ²​bioc_version"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/repo_status.html","id":null,"dir":"Reference","previous_headings":"","what":"Show the status of CRAN-like repositories — repo_status","title":"Show the status of CRAN-like repositories — repo_status","text":"checks status configured supplied repositories.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_status.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Show the status of CRAN-like repositories — repo_status","text":"","code":"repo_status(   platforms = NULL,   r_version = getRversion(),   bioc = TRUE,   cran_mirror = NULL )  repo_ping(   platforms = NULL,   r_version = getRversion(),   bioc = TRUE,   cran_mirror = NULL )"},{"path":"https://pak.r-lib.org/dev/reference/repo_status.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Show the status of CRAN-like repositories — repo_status","text":"platforms Platforms use, default current platform, plus source packages. r_version R version(s) use, default current R version, via getRversion(). bioc Whether add Bioconductor repositories. already configured via options(repos), can set FALSE. cran_mirror CRAN mirror use.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_status.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Show the status of CRAN-like repositories — repo_status","text":"data frame row every repository, every queried platform R version. columns: name: name repository. comes names configured repositories options(\"repos\"), added pak. typically CRAN CRAN, current Bioconductor repositories BioCsoft, BioCann, BioCexp, BioCworkflows. url: base URL repository. bioc_version: Bioconductor version, NA non-Bioconductor repositories. platform: platform, possible values source, macos windows currently. path: path packages within base URL, given platform R version. r_version: R version, one specified R versions. ok: Logical flag, whether repository contains metadata file given platform R version. ping: HTTP response time repository seconds. ok column FALSE, columns NA. error: error object HTTP query failed repository, platform R version.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_status.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Show the status of CRAN-like repositories — repo_status","text":"repo_ping() similar repo_status() also prints short summary data, returns result invisibly.","code":""},{"path":"https://pak.r-lib.org/dev/reference/repo_status.html","id":"examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Show the status of CRAN-like repositories — repo_status","text":"","code":"repo_status() #> # A data frame: 10 × 10 #>    name     url   type  bioc_…¹ platf…² path  r_ver…³ ok     ping error #>    <chr>    <chr> <chr> <chr>   <chr>   <chr> <chr>   <lgl> <dbl> <list> #>  1 CRAN     http… cran  NA      source  src/… 4.2     TRUE  0.269 <NULL> #>  2 CRAN     http… cran  NA      aarch6… bin/… 4.2     TRUE  0.265 <NULL> #>  3 BioCsoft http… bioc  3.16    source  src/… 4.2     TRUE  0.264 <NULL> #>  4 BioCsoft http… bioc  3.16    aarch6… bin/… 4.2     TRUE  0.271 <NULL> #>  5 BioCann  http… bioc  3.16    source  src/… 4.2     TRUE  0.383 <NULL> #>  6 BioCann  http… bioc  3.16    aarch6… bin/… 4.2     TRUE  0.392 <NULL> #>  7 BioCexp  http… bioc  3.16    source  src/… 4.2     TRUE  0.507 <NULL> #>  8 BioCexp  http… bioc  3.16    aarch6… bin/… 4.2     TRUE  0.739 <NULL> #>  9 BioCwor… http… bioc  3.16    source  src/… 4.2     TRUE  0.505 <NULL> #> 10 BioCwor… http… bioc  3.16    aarch6… bin/… 4.2     TRUE  0.766 <NULL> #> # … with abbreviated variable names ¹​bioc_version, ²​platform, #> #   ³​r_version repo_status(   platforms = c(\"windows\", \"macos\"),   r_version = c(\"4.0\", \"4.1\") ) #> # A data frame: 15 × 10 #>    name          url    type  bioc_…¹ platf…² r_ver…³ path  ok      ping #>    <chr>         <chr>  <chr> <chr>   <chr>   <chr>   <chr> <lgl>  <dbl> #>  1 CRAN          https… cran  NA      i386+x… 4.0     bin/… TRUE   0.198 #>  2 CRAN          https… cran  NA      i386+x… 4.1     bin/… TRUE   0.197 #>  3 CRAN          https… cran  NA      aarch6… 4.1     bin/… TRUE   0.197 #>  4 BioCsoft      https… bioc  3.12    i386+x… 4.0     bin/… TRUE   0.988 #>  5 BioCann       https… bioc  3.12    i386+x… 4.0     bin/… TRUE   1.03 #>  6 BioCexp       https… bioc  3.12    i386+x… 4.0     bin/… TRUE   1.25 #>  7 BioCworkflows https… bioc  3.12    i386+x… 4.0     bin/… TRUE   1.47 #>  8 BioCsoft      https… bioc  3.14    i386+x… 4.1     bin/… TRUE   1.48 #>  9 BioCsoft      https… bioc  3.14    aarch6… 4.1     bin/… FALSE NA #> 10 BioCann       https… bioc  3.14    i386+x… 4.1     bin/… TRUE   1.45 #> 11 BioCann       https… bioc  3.14    aarch6… 4.1     bin/… FALSE NA #> 12 BioCexp       https… bioc  3.14    i386+x… 4.1     bin/… TRUE   1.72 #> 13 BioCexp       https… bioc  3.14    aarch6… 4.1     bin/… FALSE NA #> 14 BioCworkflows https… bioc  3.14    i386+x… 4.1     bin/… TRUE   1.71 #> 15 BioCworkflows https… bioc  3.14    aarch6… 4.1     bin/… FALSE NA #> # … with 1 more variable: error <list>, and abbreviated variable names #> #   ¹​bioc_version, ²​platform, ³​r_version repo_ping() #> Repository summary:                   source aarch64-apple-darwin20           #> CRAN          @ cloud.r-project.org     ✔              ✔              (194ms) #> BioCsoft      @ bioconductor.org        ✔              ✔              (352ms) #> BioCann       @ bioconductor.org        ✔              ✔              (511ms) #> BioCexp       @ bioconductor.org        ✔              ✔              (675ms) #> BioCworkflows @ bioconductor.org        ✔              ✔              (698ms)"},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":null,"dir":"Reference","previous_headings":"","what":"System requirements — System requirements","title":"System requirements — System requirements","text":"pak takes care system requirements.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"introduction","dir":"Reference","previous_headings":"","what":"Introduction","title":"System requirements — System requirements","text":"Many R packages need external software present machine, otherwise work, even load. example RPostgres R package uses PostgreSQL client library, default dynamically links Linux systems. means (administrators system) need install library, typically form system package: libpq-dev Ubuntu Debian systems, postgresql-server-devel postgresql-devel RedHat, Fedora, etc. systems. good news pak helps : - looks required system packages installing R packages, - checks required system packages installed, - installs automatically, superuser, can use password-less sudo start superuser shell. addition, pak also functions query system requirements system packages.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"requirements-supported-platforms","dir":"Reference","previous_headings":"","what":"Requirements, supported platforms","title":"System requirements — System requirements","text":"Call pak::sysreqs_platforms() list platforms support system requirements:   Call pak::sysreqs_is_supported() see system supported:   vignette built Ubuntu 22.04.2 LTS, platform pak support. following see output code.","code":"pak::sysreqs_platforms() ## # A data frame: 10 × 7 ##    name        os    distribution version update_command install_command ##    <chr>       <chr> <chr>        <chr>   <chr>          <chr> ##  1 Ubuntu Lin… linux ubuntu       *       apt-get -y up… apt-get -y ins… ##  2 Debian Lin… linux debian       *       apt-get -y up… apt-get -y ins… ##  3 CentOS Lin… linux centos       *       NA             yum install -y ##  4 Rocky Linux linux rockylinux   *       NA             dnf install -y ##  5 Red Hat En… linux redhat       6       NA             yum install -y ##  6 Red Hat En… linux redhat       7       NA             yum install -y ##  7 Red Hat En… linux redhat       *       NA             dnf install -y ##  8 Fedora Lin… linux fedora       *       NA             dnf install -y ##  9 openSUSE L… linux opensuse     *       NA             zypper --non-i… ## 10 SUSE Linux… linux sle          *       NA             zypper --non-i… ## # ℹ 1 more variable: query_command <chr> pak::sysreqs_is_supported() ## [1] TRUE"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"r-package-installation","dir":"Reference","previous_headings":"","what":"R package installation","title":"System requirements — System requirements","text":"using pak superuser, supported platform, pak look system requirements, install missing ones. example:","code":"pak::pkg_install(\"RPostgres\") ## ✔ Loading metadata database ... done ## ## → Will install 17 packages. ## → All 17 packages (0 B) are cached. ## + DBI          1.1.3 ## + RPostgres    1.4.5   + ✖ libpq-dev ## + Rcpp         1.0.10 ## + bit          4.0.5 ## + bit64        4.0.5 ## + blob         1.2.4 ## + cli          3.6.1 ## + generics     0.1.3 ## + glue         1.6.2 ## + hms          1.1.3 ## + lifecycle    1.0.3 ## + lubridate    1.9.2 ## + pkgconfig    2.0.3 ## + rlang        1.1.1 ## + timechange   0.2.0 ## + vctrs        0.6.2 ## + withr        2.5.0 ## → Will install 1 system package: ## + libpq-dev  - RPostgres ## ℹ No downloads are needed, 17 pkgs are cached ## ℹ Installing system requirements ## ℹ Executing `sh -c apt-get -y update` ## ℹ Executing `sh -c apt-get -y install libpq-dev` ## ✔ Installed DBI 1.1.3  (1.1s) ## ✔ Installed RPostgres 1.4.5  (1.2s) ## ✔ Installed Rcpp 1.0.10  (1.2s) ## ✔ Installed bit 4.0.5  (1.2s) ## ✔ Installed bit64 4.0.5  (148ms) ## ✔ Installed blob 1.2.4  (63ms) ## ✔ Installed cli 3.6.1  (88ms) ## ✔ Installed generics 0.1.3  (61ms) ## ✔ Installed glue 1.6.2  (63ms) ## ✔ Installed hms 1.1.3  (62ms) ## ✔ Installed lifecycle 1.0.3  (61ms) ## ✔ Installed lubridate 1.9.2  (87ms) ## ✔ Installed pkgconfig 2.0.3  (62ms) ## ✔ Installed rlang 1.1.1  (1.1s) ## ✔ Installed timechange 0.2.0  (1.1s) ## ✔ Installed vctrs 0.6.2  (1.1s) ## ✔ Installed withr 2.5.0  (1.1s) ## ✔ 1 pkg + 16 deps: added 17 [17.5s]"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"running-r-as-a-regular-user","dir":"Reference","previous_headings":"","what":"Running R as a regular user","title":"System requirements — System requirements","text":"don’t want use R superuser, can set sudo without password, works well. pak automatically detect password-less sudo capability, use install system packages, needed. run R regular (root) user, password-less sudo available, pak print system requirements, try install update . installing source packages need link system libraries, installation probably fail, install system packages. installing binary R packages, installation typically succeeds, won’t able load packages R, install required system packages. example, system required system package installed RPostgres. installing source R package, installation already fails:   hand, installing binary packages, e.g. Posit Package Manager, installation typically succeeds, loading package fails:","code":"pak::pkg_install(\"RPostgres?source\") ## + plogr       0.2.0 ## ✖ Missing 1 system package. You'll probably need to install it ## manually: ## + libpq-dev  - RPostgres ## ℹ No downloads are needed, 2 pkgs (1.47 MB) are cached ## ✔ Installed plogr 0.2.0  (1.1s) ## ℹ Building RPostgres 1.4.5 ## ✖ Failed to build RPostgres 1.4.5 ## Registered S3 methods overwritten by 'callr': ##   method                    from ##   format.callr_status_error ##   print.callr_status_error ## Error: ## ! error in pak subprocess ## Caused by error in `stop_task_build(state, worker)`: ## ! Failed to build source package 'RPostgres' ## Full installation output: ## * installing *source* package ‘RPostgres’ ... ## ** package ‘RPostgres’ successfully unpacked and MD5 sums checked ## staged installation is only possible with locking ## ** using non-staged installation ## Using PKG_CFLAGS= ## Using PKG_LIBS=-lpq ## Using PKG_PLOGR= ## ------------------------- ANTICONF ERROR --------------------------- ## Configuration failed because libpq was not found. Try installing: ##  * deb: libpq-dev libssl-dev (Debian, Ubuntu, etc) ##  * rpm: postgresql-devel (Fedora, EPEL) ##  * rpm: postgreql8-devel, psstgresql92-devel, postgresql93-devel, or pos ## tgresql94-devel (Amazon Linux) ##  * csw: postgresql_dev (Solaris) ##  * brew: libpq (OSX) ## If libpq is already installed, check that either: ## (i)  'pkg-config' is in your PATH AND PKG_CONFIG_PATH contains ##      a libpq.pc file; or ## (ii) 'pg_config' is in your PATH. ## If neither can detect , you can set INCLUDE_DIR ## and LIB_DIR manually via: ## R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...' ## --------------------------[ ERROR MESSAGE ]---------------------------- ## <stdin>:1:10: fatal error: libpq-fe.h: No such file or directory ## compilation terminated. ## ----------------------------------------------------------------------- ## ERROR: configuration failed for package ‘RPostgres’ ## * removing ‘/tmp/RtmpsOXbPZ/pkg-lib4a492949a49e/RPostgres’ ## --- ## Backtrace: ## 1. pak::pkg_install(\"RPostgres?source\") ## 2. pak:::remote(function(...) get(\"pkg_install_do_plan\", asNamespace(\"pa ## k\")… at package.R:84:3 ## 3. err$throw(res$error) at subprocess.R:115:5 ## --- ## Subprocess backtrace: ##  1. base::withCallingHandlers(cli_message = function(msg) { … ##  2. get(\"pkg_install_do_plan\", asNamespace(\"pak\"))(...) ##  3. proposal$install() ##  4. pkgdepends::install_package_plan(plan, lib = private$library, num_wo ## rkers = nw… ##  5. base::withCallingHandlers({ … ##  6. pkgdepends:::handle_events(state, events) ##  7. pkgdepends:::handle_event(state, i) ##  8. pkgdepends:::stop_task(state, worker) ##  9. pkgdepends:::stop_task_build(state, worker) ## 10. base::throw(new_pkg_build_error(\"Failed to build source package {pkg ## }\", …                                                                    ## 11. | base::signalCondition(cond)                                        ## 12. global (function (e) …                                               ## Execution halted pak::pkg_install(\"RPostgres\") library(RPostgres) ## → Will install 17 packages. ## → All 17 packages (0 B) are cached. ## + DBI          1.1.3 ## + RPostgres    1.4.5   + ✖ libpq-dev ## + Rcpp         1.0.10 ## + bit          4.0.5 ## + bit64        4.0.5 ## + blob         1.2.4 ## + cli          3.6.1 ## + generics     0.1.3 ## + glue         1.6.2 ## + hms          1.1.3 ## + lifecycle    1.0.3 ## + lubridate    1.9.2 ## + pkgconfig    2.0.3 ## + rlang        1.1.1 ## + timechange   0.2.0 ## + vctrs        0.6.2 ## + withr        2.5.0 ## ✖ Missing 1 system package. You'll probably need to install it ## manually: ## + libpq-dev  - RPostgres ## ℹ No downloads are needed, 17 pkgs are cached ## ✔ Installed DBI 1.1.3  (1.1s) ## ✔ Installed RPostgres 1.4.5  (1.1s) ## ✔ Installed Rcpp 1.0.10  (1.2s) ## ✔ Installed bit 4.0.5  (1.2s) ## ✔ Installed bit64 4.0.5  (144ms) ## ✔ Installed blob 1.2.4  (1.1s) ## ✔ Installed cli 3.6.1  (1.1s) ## ✔ Installed generics 0.1.3  (90ms) ## ✔ Installed glue 1.6.2  (87ms) ## ✔ Installed hms 1.1.3  (1.1s) ## ✔ Installed lifecycle 1.0.3  (1.1s) ## ✔ Installed lubridate 1.9.2  (1.1s) ## ✔ Installed pkgconfig 2.0.3  (1.1s) ## ✔ Installed rlang 1.1.1  (1.1s) ## ✔ Installed timechange 0.2.0  (1.1s) ## ✔ Installed vctrs 0.6.2  (1.1s) ## ✔ Installed withr 2.5.0  (1.1s) ## ✔ 1 pkg + 16 deps: added 17 [11.6s] ## Error: package or namespace load failed for ‘RPostgres’ in dyn.load(file ## , DLLpath = DLLpath, ...): ##  unable to load shared object '/tmp/RtmpWqZycA/lib/RPostgres/libs/RPostg ## res.so': ##   libpq.so.5: cannot open shared object file: No such file or directory ## Execution halted"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"query-system-requirements-without-installation","dir":"Reference","previous_headings":"","what":"Query system requirements without installation","title":"System requirements — System requirements","text":"want query system requirements, without installing packages, use pkg_sysreqs() function. similar pkg_deps() addition looking package dependencies, also looks system dependencies, reports latter:   See manual pkg_sysreqs() see programmatically extract information return value.","code":"pak::pkg_sysreqs(c(\"curl\", \"xml2\", \"devtools\", \"CHRONOS\")) ## ✔ Loading metadata database ... done ## ── Install scripts ───────────────────────────────────── Ubuntu 22.04 ── ## apt-get -y update ## apt-get -y install libcurl4-openssl-dev libssl-dev libxml2-dev git make ##   libgit2-dev zlib1g-dev pandoc libfreetype6-dev libjpeg-dev libpng-dev ##   libtiff-dev libicu-dev libfontconfig1-dev libfribidi-dev ##   libharfbuzz-dev libglpk-dev libgmp3-dev default-jdk ## R CMD javareconf ## R CMD javareconf ## ## ── Packages and their system dependencies ────────────────────────────── ## CHRONOS     – default-jdk, pandoc ## credentials – git ## curl        – libcurl4-openssl-dev, libssl-dev ## fs          – make ## gert        – libgit2-dev ## gitcreds    – git ## httpuv      – make, zlib1g-dev ## igraph      – libglpk-dev, libgmp3-dev, libxml2-dev ## knitr       – pandoc ## openssl     – libssl-dev ## pkgdown     – pandoc ## png         – libpng-dev ## ragg        – libfreetype6-dev, libjpeg-dev, libpng-dev, libtiff-dev ## RCurl       – libcurl4-openssl-dev, make ## remotes     – git ## rJava       – default-jdk, make ## rmarkdown   – pandoc ## sass        – make ## stringi     – libicu-dev ## systemfonts – libfontconfig1-dev, libfreetype6-dev ## textshaping – libfreetype6-dev, libfribidi-dev, libharfbuzz-dev ## XML         – libxml2-dev ## xml2        – libxml2-dev"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"other-queries","dir":"Reference","previous_headings":"","what":"Other queries","title":"System requirements — System requirements","text":"addition automatic system package lookup installation, pak also functions help system dependencies. sysreqs_db_list() function lists system requirements pak knows .   sysreqs_db_match() manually matches SystemREquirements fields againts system requirements:     can also use query system requirements platfosm:     sysreqs_list_system_packages() cross-platform way listing installed system packages capabilities:   sysreqs_check_installed() handy function checks system requirements installed R packages installed library:   sysreqs_fix_installed() goes one step also tries install missing system requirements.","code":"pak::sysreqs_db_list() ## # A data frame: 106 × 5 ##    name       patterns  packages  pre_install post_install ##    <chr>      <list>    <list>    <list>      <list> ##  1 QuantLib   <chr [1]> <chr [1]> <NULL>      <NULL> ##  2 apparmor   <chr [2]> <chr [1]> <NULL>      <NULL> ##  3 atk        <chr [1]> <chr [1]> <NULL>      <NULL> ##  4 automake   <chr [1]> <chr [1]> <NULL>      <NULL> ##  5 berkeleydb <chr [2]> <chr [1]> <NULL>      <NULL> ##  6 blender    <chr [1]> <chr [1]> <NULL>      <NULL> ##  7 bowtie2    <chr [1]> <chr [1]> <NULL>      <NULL> ##  8 bwidget    <chr [1]> <chr [1]> <NULL>      <NULL> ##  9 cairo      <chr [1]> <chr [1]> <NULL>      <NULL> ## 10 chrome     <chr [1]> <NULL>    <chr [3]>   <chr [1]> ## # ℹ 96 more rows sq <- pak::sysreqs_db_match(\"Needs libcurl and also Java.\") sq ## [[1]] ## # A data frame: 2 × 5 ##   spec                         sysreq  packages pre_install post_install ##   <chr>                        <chr>   <list>   <list>      <list> ## 1 Needs libcurl and also Java. java    <chr>    <NULL>      <chr [1]> ## 2 Needs libcurl and also Java. libcurl <chr>    <NULL>      <NULL> ## sq[[1]]$packages ## [[1]] ## [1] \"default-jdk\" ## ## [[2]] ## [1] \"libcurl4-openssl-dev\" ## sqrhel9 <- pak::sysreqs_db_match(\"Needs libcurl and also Java.\", \"redhat-9\") sqrhel9 ## [[1]] ## # A data frame: 2 × 5 ##   spec                         sysreq  packages pre_install post_install ##   <chr>                        <chr>   <list>   <list>      <list> ## 1 Needs libcurl and also Java. java    <chr>    <NULL>      <chr [1]> ## 2 Needs libcurl and also Java. libcurl <chr>    <NULL>      <NULL> ## sqrhel9[[1]]$packages ## [[1]] ## [1] \"java-11-openjdk-devel\" ## ## [[2]] ## [1] \"libcurl-devel\" ## pak::sysreqs_list_system_packages() ## # A data frame: 433 × 4 ##    status package         version         provides ##    <chr>  <chr>           <chr>           <list> ##  1 ii     adduser         3.118ubuntu5    <chr [0]> ##  2 ii     apt             2.4.8           <chr [1]> ##  3 ii     autoconf        2.71-2          <chr [0]> ##  4 ii     automake        1:1.16.5-1.3    <chr [2]> ##  5 ii     autotools-dev   20220109.1      <chr [0]> ##  6 ii     base-files      12ubuntu4.3     <chr [1]> ##  7 ii     base-passwd     3.5.52build1    <chr [0]> ##  8 ii     bash            5.1-6ubuntu1    <chr [0]> ##  9 ii     binutils        2.38-4ubuntu2.1 <chr [2]> ## 10 ii     binutils-common 2.38-4ubuntu2.1 <chr [0]> ## # ℹ 423 more rows pak::sysreqs_check_installed() ## system package       installed required by ## --------------       --        ----------- ## git                  ✔         gitcreds ## gsfonts              ✔         magick ## imagemagick          ✔         magick ## libarchive-dev       ✔         archive ## libcurl4-openssl-dev ✔         curl ## libfontconfig1-dev   ✔         systemfonts ## libfreetype6-dev     ✔         ragg, systemfonts, textshaping ## libfribidi-dev       ✔         textshaping ## libharfbuzz-dev      ✔         textshaping ## libicu-dev           ✔         stringi ## libjpeg-dev          ✔         ragg ## libmagick++-dev      ✔         magick ## libnode-dev          ✔         V8 ## libpng-dev           ✔         ragg ## libpq-dev            ✖         RPostgres ## libssl-dev           ✔         curl, openssl ## libtiff-dev          ✔         ragg ## libxml2-dev          ✔         xml2 ## make                 ✔         fs, sass ## pandoc               ✔         knitr, rmarkdown ## zlib1g-dev           ✔         data.table"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"build-time-and-run-time-dependencies","dir":"Reference","previous_headings":"","what":"Build-time and run-time dependencies","title":"System requirements — System requirements","text":"system requirements database pak uses currently differentiate build-time run-time dependencies. build-time dependency system package need installing R package source. run-time dependency system package need using R package. Linux distribution create (least) two packages software library: runtime package development package. R package uses software library, runtime package run-time dependency development package build-time dependency. However, pak currently know difference build-time run-time dependencies, install types dependencies, always. means pak usually installs system packages strictly necessary. typically development packages libraries, .e. header files, typically cause issues. short disk space, can try removing .","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"how-it-works","dir":"Reference","previous_headings":"","what":"How it works","title":"System requirements — System requirements","text":"pak uses database system requirements https://github.com/rstudio/r-system-requirements. copy database embedded package, also tries download updated versions database GitHub, current copy older one day. can explicitly update database GitHub using sysreqs_db_update() function. CRAN packages, downloads SystemRequirements fields https://cran.r-pkg.org/metadata, database updated daily. Bioconductor packages, downloads GitHub. (planning moving CRAN database GitHub well.) packages sources require pak obtain package DESCRIPTION file (e.g. github::, git::, etc.), pak obtains SystemRequirements directly DESCRIPTION file. SystemRequirements fields, pak matches database, obtain cacnonized list system requirements. pak queries local platform, see exact system packages needed. also queries installed system packages, avoid trying install system packages already installed.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"configuration","dir":"Reference","previous_headings":"","what":"Configuration","title":"System requirements — System requirements","text":"several pak configuration options can use adjust system requirements handled. list , please see options sysreqs prefix ?pak-config manual page complete current list. sysreqs: whether install system requirements. default TRUE platform supported user can install system packages, either superuser, via sudo. FALSE (user install system packages), platform supported, system requirements printed, installed. sysreqs_db_update: whether try update system requirements database GitHub. sysreqs_db_update_timeout: timeout system requirements update GitHub. sysreqs_dry_run: TRUE pak prints install commands, actually run . sysreqs_platform: platform name use determining system requirements. Defaults current platform. using Linux distribution compatible distribution pak supports, can set option manually. E.g. Ubuntu-based distros can set ubuntu-22.04, appropriate Ubuntu version. sysreqs_sudo: whether use sudo install system packages. set, pak tries auto-detect sudo needed . sysreqs_update: whether try update system packages already installed. pak know version system package required, try update system packages default. think need newer system packages, can set option TRUE. sysreqs_verbose: whether print output system package installation commands. Useful debugging, TRUE default CI environment.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"windows","dir":"Reference","previous_headings":"","what":"Windows","title":"System requirements — System requirements","text":"system requirements database information system dependencies Windows, pak use information try install system software Windows. CRAN, PPM Bioconductor Windows binary packages available majority R packages serve, packages practically always link system libraries statically, don’t need external software. wish compile Windows packages source, need install appropriate version Rtools, possibly extra packages using pacman tool Rtools4x. Rtools42 newer Rtools versions bundle lots libraries, likely extra pacman packages needed. Rtools40 leaner default installation, ’ll probably need install packages manually: https://github.com/r-windows/docs/blob/master/rtools40.md#readme planning adding better Windows system software support pak future.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs.html","id":"macos","dir":"Reference","previous_headings":"","what":"macOS","title":"System requirements — System requirements","text":"pak currently system requirement information macOS. macOS similar Windows, repositories serve statically linked macOS binary packages need system software. need compile packages source, possibly need install sytem libraries, either via Homebrew, downloading CRAN’s static library builds https://mac.r-project.org/bin/ planning adding better macOS system software support pak future.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_check_installed.html","id":null,"dir":"Reference","previous_headings":"","what":"Check if installed packages have all their system requirements — sysreqs_check_installed","title":"Check if installed packages have all their system requirements — sysreqs_check_installed","text":"sysreqs_check_installed() checks system requirements packages (subset packages) installed. sysreqs_fix_installed() installs missing system packages.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_check_installed.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Check if installed packages have all their system requirements — sysreqs_check_installed","text":"","code":"sysreqs_check_installed(packages = NULL, library = .libPaths()[1]) sysreqs_fix_installed(packages = NULL, library = .libPaths()[1])"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_check_installed.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Check if installed packages have all their system requirements — sysreqs_check_installed","text":"packages NULL, packages checked. package packages installed, pak throws warning. library Library libraries check.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_check_installed.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Check if installed packages have all their system requirements — sysreqs_check_installed","text":"Data frame custom print format method, pkg_sysreqs_check_result class. columns : system_package: string, name required system package. installed: logical, whether system package correctly installed. packages: list column character vectors. names installed R packages need system package. pre_install: list column character vectors. Commands run installation system package. post_install: list column character vectors. Commands run installation system package. data frame also two attributes additional data: sysreqs_records: raw system requirements records, system_packages: list installed system packages. sysreqs_fix_packages() returns value, invisibly.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_check_installed.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Check if installed packages have all their system requirements — sysreqs_check_installed","text":"functions use sysreqs_platform configuration option, see Configuration . Set pak detect platform correctly.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_check_installed.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Check if installed packages have all their system requirements — sysreqs_check_installed","text":"","code":"# This only works on supported platforms sysreqs_check_installed() #> system package       installed required by                    #> --------------       --        -----------                    #> git                  ✔         credentials, gitcreds          #> gsfonts              ✔         magick                         #> libcurl4-openssl-dev ✔         curl                           #> libfontconfig1-dev   ✔         systemfonts                    #> libfreetype6-dev     ✔         ragg, systemfonts, textshaping #> libfribidi-dev       ✔         textshaping                    #> libgit2-dev          ✔         gert                           #> libharfbuzz-dev      ✔         textshaping                    #> libicu-dev           ✔         stringi                        #> libjpeg-dev          ✔         ragg                           #> libmagick++-dev      ✔         magick                         #> libnode-dev          ✔         V8                             #> libpng-dev           ✔         ragg                           #> libssl-dev           ✔         curl, openssl, PKI             #> libtiff-dev          ✔         ragg                           #> libx11-dev           ✔         clipr                          #> libxml2-dev          ✔         xml2                           #> make                 ✔         fs, httpuv, rticles, sass      #> pandoc               ✔         knitr, pkgdown, rmarkdown      #> zlib1g-dev           ✔         httpuv"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_list.html","id":null,"dir":"Reference","previous_headings":"","what":"List contents of the system requirements DB, for a platform — sysreqs_db_list","title":"List contents of the system requirements DB, for a platform — sysreqs_db_list","text":"also tries update system dependency database, outdated. (.e. older allowed metadata_update_after configuration option .","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_list.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"List contents of the system requirements DB, for a platform — sysreqs_db_list","text":"","code":"sysreqs_db_list(sysreqs_platform = NULL)"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_list.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"List contents of the system requirements DB, for a platform — sysreqs_db_list","text":"sysreqs_platform System requirements platform. NULL, sysreqs_platform configuration option  used, defaults current platform. Set option pak  detect platform correctly.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_list.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"List contents of the system requirements DB, for a platform — sysreqs_db_list","text":"Data frame columns: name: cross platform system dependency name database. patterns: one regular expressions match SystemRequirements fields. packages: one system package names install. pre_install: command(s) run installing packages. post_install:: command(s) run installing packages.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_list.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"List contents of the system requirements DB, for a platform — sysreqs_db_list","text":"","code":"sysreqs_db_list(sysreqs_platform = \"ubuntu-22.04\") #> # A data frame: 122 × 5 #>    name       patterns  packages  pre_install post_install #>    <chr>      <list>    <list>    <list>      <list>       #>  1 apparmor   <chr [2]> <chr [1]> <NULL>      <NULL>       #>  2 atk        <chr [1]> <chr [1]> <NULL>      <NULL>       #>  3 automake   <chr [1]> <chr [1]> <NULL>      <NULL>       #>  4 berkeleydb <chr [2]> <chr [1]> <NULL>      <NULL>       #>  5 blender    <chr [1]> <chr [1]> <NULL>      <NULL>       #>  6 boost      <chr [1]> <chr [1]> <NULL>      <NULL>       #>  7 bowtie2    <chr [1]> <chr [1]> <NULL>      <NULL>       #>  8 bwidget    <chr [1]> <chr [1]> <NULL>      <NULL>       #>  9 cairo      <chr [1]> <chr [1]> <NULL>      <NULL>       #> 10 chrome     <chr [2]> <chr [1]> <chr [3]>   <NULL>       #> # ℹ 112 more rows"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_match.html","id":null,"dir":"Reference","previous_headings":"","what":"Match system requirement descriptions to the database — sysreqs_db_match","title":"Match system requirement descriptions to the database — sysreqs_db_match","text":"usual workflow pak matches SystemRequirements fields DESCRIPTION files database.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_match.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Match system requirement descriptions to the database — sysreqs_db_match","text":"","code":"sysreqs_db_match(specs, sysreqs_platform = NULL)"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_match.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Match system requirement descriptions to the database — sysreqs_db_match","text":"specs Character vector system requirements descriptions. sysreqs_platform System requirements platform. NULL, sysreqs_platform configuration option  used, defaults current platform. Set option pak  detect platform correctly.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_match.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Match system requirement descriptions to the database — sysreqs_db_match","text":"Data frame columns: spec: input specs. sysreq:  name system library tool. packages: system packages, list column character vectors. Rarely can empty string, e.g. pre_install script performs installation. pre_install: list column character vectors. Shell script(s) run installation. post_install: list column character vectors. Shell script(s) run installation.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_match.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Match system requirement descriptions to the database — sysreqs_db_match","text":"sysreqs_db_match() function lets match string, mainly useful debugging.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_match.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Match system requirement descriptions to the database — sysreqs_db_match","text":"","code":"sysreqs_db_match(   c(\"Needs libcurl\", \"Java, libssl\"),   sysreqs_platform = \"ubuntu-22.04\" ) #> [[1]] #> # A data frame: 1 × 5 #>   spec          sysreq  packages  pre_install post_install #>   <chr>         <chr>   <list>    <list>      <list>       #> 1 Needs libcurl libcurl <chr [1]> <NULL>      <NULL>       #>  #> [[2]] #> # A data frame: 1 × 5 #>   spec         sysreq packages  pre_install post_install #>   <chr>        <chr>  <list>    <list>      <list>       #> 1 Java, libssl java   <chr [1]> <NULL>      <chr [1]>    #>"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_update.html","id":null,"dir":"Reference","previous_headings":"","what":"Update the cached copy of the system requirements database — sysreqs_db_update","title":"Update the cached copy of the system requirements database — sysreqs_db_update","text":"Update cached copy system requirements database","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_update.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Update the cached copy of the system requirements database — sysreqs_db_update","text":"","code":"sysreqs_db_update()"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_db_update.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Update the cached copy of the system requirements database — sysreqs_db_update","text":"cached copy recent, update attempted. See metadata_update_after configuration option .","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_is_supported.html","id":null,"dir":"Reference","previous_headings":"","what":"Check if a platform has system requirements support — sysreqs_is_supported","title":"Check if a platform has system requirements support — sysreqs_is_supported","text":"Check platform system requirements support","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_is_supported.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Check if a platform has system requirements support — sysreqs_is_supported","text":"","code":"sysreqs_is_supported(sysreqs_platform = NULL)"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_is_supported.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Check if a platform has system requirements support — sysreqs_is_supported","text":"sysreqs_platform System requirements platform. NULL, sysreqs_platform configuration option  used, defaults current platform. Set option pak  detect platform correctly.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_is_supported.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Check if a platform has system requirements support — sysreqs_is_supported","text":"Logical scalar.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_is_supported.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Check if a platform has system requirements support — sysreqs_is_supported","text":"","code":"sysreqs_is_supported() #> [1] TRUE"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_list_system_packages.html","id":null,"dir":"Reference","previous_headings":"","what":"List installed system packages — sysreqs_list_system_packages","title":"List installed system packages — sysreqs_list_system_packages","text":"List installed system packages","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_list_system_packages.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"List installed system packages — sysreqs_list_system_packages","text":"","code":"sysreqs_list_system_packages()"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_list_system_packages.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"List installed system packages — sysreqs_list_system_packages","text":"Data frame columns: status. two three characters, notation dpkg Debian based systems. \"ii\" means package correctly installed. RPM based systems always \"ii\" currently. package: name system package. version: installed version system package. capabilities: list column character vectors, capabilities provided package.","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_list_system_packages.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"List installed system packages — sysreqs_list_system_packages","text":"function uses sysreqs_platform configuration option, see Configuration . Set pak detect platform correctly.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_list_system_packages.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"List installed system packages — sysreqs_list_system_packages","text":"","code":"sysreqs_list_system_packages()[1:10,] #> # A data frame: 10 × 4 #>    status package                  version             provides  #>  * <chr>  <chr>                    <chr>               <list>    #>  1 ii     acl                      2.3.1-1             <chr [0]> #>  2 ii     adduser                  3.118ubuntu5        <chr [0]> #>  3 ii     adoptium-ca-certificates 1.0.3-1             <chr [0]> #>  4 ii     adwaita-icon-theme       41.0-1ubuntu1       <chr [0]> #>  5 ii     alsa-topology-conf       1.2.5.1-2           <chr [0]> #>  6 ii     alsa-ucm-conf            1.2.6.3-1ubuntu1.12 <chr [0]> #>  7 ii     ant                      1.10.12-1           <chr [0]> #>  8 ii     ant-optional             1.10.12-1           <chr [0]> #>  9 ii     apache2                  2.4.52-1ubuntu4.12  <chr [2]> #> 10 ii     apache2-bin              2.4.52-1ubuntu4.12  <chr [2]>"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_platforms.html","id":null,"dir":"Reference","previous_headings":"","what":"List platforms with system requirements support — sysreqs_platforms","title":"List platforms with system requirements support — sysreqs_platforms","text":"List platforms system requirements support","code":""},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_platforms.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"List platforms with system requirements support — sysreqs_platforms","text":"","code":"sysreqs_platforms()"},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_platforms.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"List platforms with system requirements support — sysreqs_platforms","text":"Data frame columns: name: human readable OS name. os: OS name, e.g. linux. distribution: OS id, e.g. ubuntu redhat. version: distribution version. star means versions supported, also supported vendor. update_command: command run update system package metadata. install_command: command run install packages. query_command: name tool use query system package information.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/sysreqs_platforms.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"List platforms with system requirements support — sysreqs_platforms","text":"","code":"sysreqs_platforms() #> # A data frame: 22 × 7 #>    name          os    distribution version update_command install_command #>    <chr>         <chr> <chr>        <chr>   <chr>          <chr>           #>  1 Ubuntu Linux  linux ubuntu       *       apt-get -y up… apt-get -y ins… #>  2 Debian Linux  linux debian       *       apt-get -y up… apt-get -y ins… #>  3 CentOS Linux  linux centos       *       NA             yum install -y  #>  4 Rocky Linux   linux rockylinux   *       NA             dnf install -y  #>  5 Red Hat Ente… linux redhat       6       NA             yum install -y  #>  6 Red Hat Ente… linux redhat       7       NA             yum install -y  #>  7 Red Hat Ente… linux redhat       *       NA             dnf install -y  #>  8 Red Hat Ente… linux rhel         7.0     NA             yum install -y  #>  9 Red Hat Ente… linux rhel         7.1     NA             yum install -y  #> 10 Red Hat Ente… linux rhel         7.2     NA             yum install -y  #> # ℹ 12 more rows #> # ℹ 1 more variable: query_command <chr>"},{"path":"https://pak.r-lib.org/dev/reference/system_r_platform.html","id":null,"dir":"Reference","previous_headings":"","what":"R platforms — system_r_platform","title":"R platforms — system_r_platform","text":"R platforms","code":""},{"path":"https://pak.r-lib.org/dev/reference/system_r_platform.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"R platforms — system_r_platform","text":"","code":"system_r_platform()  system_r_platform_data()"},{"path":"https://pak.r-lib.org/dev/reference/system_r_platform.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"R platforms — system_r_platform","text":"system_r_platform() returns character scalar. system_r_platform_data() returns data frame character scalar columns: cpu, vendor, os, distribution (Linux), release (Linux), platform: concatenation columns, separated dash.","code":""},{"path":"https://pak.r-lib.org/dev/reference/system_r_platform.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"R platforms — system_r_platform","text":"system_r_platform() detects platform current R version. system_r_platform_data() similar, returns raw data instead character scalar. default pak works source packages binary packages current platform. can change , providing different platform names pkg.platforms option PKG_PLATFORMS environment variable. option may contain following platform names: \"source\" source packages, \"macos\" macOS binaries appropriate R versions pak working . Packages incompatible CPU architectures dropped (defaulting CPU current macOS machine x86_64 non-macOS systems). macOS Darwin version selected based CRAN macOS binaries. E.g. R 3.5.0 macOS binaries built macOS El Capitan. \"windows\" Windows binaries default CRAN architecture. currently Windows Vista supported R versions, might change future. actual binary packages repository might support 32 bit 64 builds, one . practice 32-bit packages rare. CRAN builds including R 4.1 architectures, R 4.2 64 bit . \"windows\" alias i386+x86_64-w64-mingw32 currently. platform string like R.version$platform, Linux name version distribution also included. Examples: x86_64-apple-darwin17.0: macOS High Sierra. aarch64-apple-darwin20: macOS Big Sur arm64. x86_64-w64-mingw32: 64 bit Windows. i386-w64-mingw32: 32 bit Windows. i386+x86_64-w64-mingw32: 64 bit + 32 bit Windows. i386-pc-solaris2.10: 32 bit Solaris. (broken 64 Solaris builds might platform string, unfortunately.) x86_64-pc-linux-gnu-debian-10: Debian Linux 10 x86_64. x86_64-pc-linux-musl-alpine-3.14.1: Alpine Linux. x86_64-pc-linux-gnu-unknown: Unknown Linux Distribution x86_64. s390x-ibm-linux-gnu-ubuntu-20.04: Ubuntu Linux 20.04 S390x. amd64-portbld-freebsd12.1: FreeBSD 12.1 x86_64.","code":""},{"path":[]},{"path":"https://pak.r-lib.org/dev/reference/system_r_platform.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"R platforms — system_r_platform","text":"","code":"if (FALSE) { system_r_platform() system_r_platform_data() }"},{"path":[]},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-080","dir":"Changelog","previous_headings":"","what":"pak 0.8.0","title":"pak 0.8.0","text":"CRAN release: 2024-08-26 pkg_deps() now accepts vector package names. metadata cache now use source URLs packages Archive Posit Package Manager repositories. URLs may serve different package, even source package main URL package serves binary package. alternative URLs needed PPM, anyway, PPM consistent state w.r.t. metadata package files (#623). pak now supports gitlab:: package sources better, adding explicit syntax specify subdirectories (https://github.com/r-lib/pkgdepends/issues/353, @dgkf). gitlab:: git:: package sources now support git submodules git-submodules configuration option set TRUE. See ?\"pak-config\" (https://github.com/r-lib/pkgdepends/issues/354). new ?ignore-unavailable parameter makes easy ignore soft dependencies unavailable (#606). pak now automatically ignores soft dependencies incompatible OS type (OS_type entry DESCRIPTION) installing packages. repo_add() ppm_*() functions, e.g. ppm_snapshots(), now work PPM API changes (https://github.com/r-lib/pkgcache/issues/110, https://github.com/r-lib/pkgcache/issues/115).","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-072","dir":"Changelog","previous_headings":"","what":"pak 0.7.2","title":"pak 0.7.2","text":"CRAN release: 2024-03-17 pak now supports using parameters packages *=?<param> form. E.g. *=?source installs packages source. pak now supports R 4.4.0 , also Rtools44.","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-071","dir":"Changelog","previous_headings":"","what":"pak 0.7.1","title":"pak 0.7.1","text":"CRAN release: 2023-12-10 pak can now handle case Config/Needs/* dependencies requested package repository. pak uses safer *printf() format strings now.","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-070","dir":"Changelog","previous_headings":"","what":"pak 0.7.0","title":"pak 0.7.0","text":"CRAN release: 2023-11-17 pak now correctly handles latest GitHub release @*release notation (@pawelru, https://github.com/r-lib/pkgdepends/pull/321) pak now correctly handles multiple instances package metadata, different R version requirements (#534, #538, https://github.com/r-lib/pkgdepends/pull/331). git:: package references work better now Azure DevOps (@jameslairdsmith, https://github.com/r-lib/pkgdepends/pull/333, https://github.com/r-lib/pkgdepends/pull/342). pak now better job accepting installed packages, avoids reinstalling packages needed using lock file (https://github.com/r-lib/actions/issues/759, https://github.com/r-lib/pkgdepends/pull/338).","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-060","dir":"Changelog","previous_headings":"","what":"pak 0.6.0","title":"pak 0.6.0","text":"CRAN release: 2023-08-29 pak now requires R >= 3.5.0. Many improvements system requirements support: pkg_sysreqs(): calculate system requirements packages. sysreqs_db_list(), sysreqs_db_match(), sysreqs_db_update(): query system requirements database. sysreqs_list_system_packages(), sysreqs_check_installed(), sysreqs_fix_installed(): query install missing system packages. sysreqs_platforms(): list supported platforms. installation proposal, printed installation, now includes required missing system packages, supported platforms. New sysreqs_platform configuration option override auto-detected platform. Faster, asynchronous system requirements lookup. pak now reinstall system requirements default, already installed. (can force reinstall/upgrade sysreqs_update configuration option.) New gitlab:: package source install packages GitLab (https://github.com/r-lib/pkgdepends/pull/315). pak now correctly parses multiple git:: packages (https://github.com/r-lib/pkgdepends/issues/318). git:: package sources now support version 1 git protocol. E.g. Bioconductor git repositories now work: git::https://git.bioconductor.org/packages/limma (https://github.com/r-lib/pkgdepends/issues/314). platforms config parameter now works correctly deps:: package sources (#522). New include_linkingto config parameter always include LinkingTo packages solution, even binaries (https://github.com/r-lib/pkgdepends/issues/485). pkg_name_check() now include Acromine results, web site unstable. repo_add() repo_resolve() MRAN@ prefix now deprecated resolves PPM, MRAN retired soon. See https://posit.co/blog/migrating--mran--posit-package-manager/. metadata cache now SystemRequirements information Bioconductor packages.","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-051","dir":"Changelog","previous_headings":"","what":"pak 0.5.1","title":"pak 0.5.1","text":"CRAN release: 2023-04-27 user visible changes.","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-050","dir":"Changelog","previous_headings":"","what":"pak 0.5.0","title":"pak 0.5.0","text":"CRAN release: 2023-04-20 meta_*() functions now consider platforms, cran_mirror r_versions config entries, see ?\"pak-config\". Better Posit Package Manager (PPM) support. New +ppm_has_binaries(), ppm_r_versions(), ppm_repo_url(), ppm_snapshots() ppm_platforms() functions help interacting PPM. See new ‘pkgcache Posit Package Manager Linux’ article https://r-lib.github.io/pkgcache. (r-lib/pkgcache#47 r-lib/pkgdepends#186). New system_r_platform() system_r_platform_data() functions query current platform. pak now support git repositories package references. E.g. git::https://github.com/r-lib/pak.git. pak now supports versioned CRAN packages, e.g. dplyr@1.1.1 always install dplyr 1.1.1. Note CRAN packages supported, Bioconductor packages (yet). pak now alternative system requirements lookup implementation. supports Fedora Debian systems well, addition Debian, Ubuntu, SUSE RedHat derivatives. can switch implementation setting R_PKG_SYSREQS2 environment variable true. pak now better job looking dependencies hand-selected dependency types. E.g. dependencies = \"LinkingTo\". pak now removes ?ignore-d packages dependencies, uses correct version comparison ?ignore-.r (https://github.com/r-lib/actions/issues/708). pak now fail circular soft dependencies (#306). pak now reports dependency solver failures better cases (#305, https://github.com/r-lib/pak/issues/474). pak now uses locally built CRAN binaries cache. Use ?nocache parameter opt , cache_delete(package = ...) remove package cache.","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-040","dir":"Changelog","previous_headings":"","what":"pak 0.4.0","title":"pak 0.4.0","text":"CRAN release: 2023-01-15 pak much improved informative error messages now. work yet finished, find unclear error message, please open issue. Thank ! solver now robust non-canonical input (e.g. DESCRIPTION files) (https://github.com/r-lib/pak/issues/423). Better installation output. Standard output error now collected together (https://github.com/r-lib/pkgdepends/commit/0669f0f8c). solver now better job multiple versions package present repository (https://github.com/r-lib/actions/issues/559). pkg_name_check() now works , needed fix changes https://crandb.r-pkg.org. Explicit package names local URL package sources, package=local::... package=url::... now parsed correctly dependencies. pak now robust Archs fields missing CRAN metadata packages compiled code (https://github.com/r-lib/pak/issues/448). url:: packages now always work correctly, even digest package installed (https://github.com/r-lib/pak/issues/433). pak now robust installing packages subdirectories GitHub repositories (https://github.com/r-lib/pak/issues/431, @paleolimbot). Parameters ?reinstall, ?source ?ignore now work correctly specified package=?parameter format (#294). ?ignore parameter works correctly now. Dependency resolution now fail package found. pak can now install url:: remotes GitHub. pak now fail package .tar.gz GitHub snapshot subdirectory, subdirectory subdirectory. pak now errors early deduce name package Remotes Config/Needs/* entry. Solver failures now include details cases previously . pak can now update packages Docker containers old version installed different Docker later (https://github.com/r-lib/pak/issues/251) Update R version -> Bioconductor version mapping. R 4.2.x now maps Bioconductor 3.16.","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-031","dir":"Changelog","previous_headings":"","what":"pak 0.3.1","title":"pak 0.3.1","text":"CRAN release: 2022-09-08 ?ignore parameter works correctly now. Dependency resolution now fail package found. pak can now install url:: remotes GitHub. pak now fail package .tar.gz GitHub snapshot subdirectory, subdirectory subdirectory. pak now errors early deduce name package Remotes Config/Needs/* entry. Solver failures now include details cases previously . pak can now update packages Docker containers old version installed different Docker later (#251) pak errors now user friendlier better formatted. pak now load tibble dependencies pak subprocess, dlls locked pak subprocess Windows. pak now fail installing package uses non-UTF-8 encoding R 4.3.x later (#404).","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-030","dir":"Changelog","previous_headings":"","what":"pak 0.3.0","title":"pak 0.3.0","text":"CRAN release: 2022-04-11 pak functions used return tibbles return data frames now. data frames tibbles similar, completely compatible. convert outputs pak functions tibbles call tibble::as_tibble() function . pillar package loaded, improves printing returned data frames. Relatedly, pak::pak_install_extra() installs pillar now, instead tibble. pak now supports file:// repositories. pak now uses HTTP 1.1 download packages Linux, addition macOS. fixes HTTP issues servers (#358). New ?ignore--r parameter ignore optional dependencies need newer R version (https://github.com/r-lib/pkgdepends/issues/243). New ?ignore parameter ignore optional dependency. Allow specifying downstream package parameters package=?param syntax. lockfile_install() now works better :: refs, pak always install version planned . System requirement installation now robust works Unix shell expressions (#347). CRAN-like resolution robust now repository missing usual metadata. lock file pretty JSON now. pak now handles version requirement types properly: ‘<’, ‘<=’, ==, >=, >. dependency solver now uses better heuristics (effectively) freeze multiple repositories multiple versions packages (e.g. RSPM CRAN) (https://github.com/r-lib/pkgdepends/pull/277)","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-021","dir":"Changelog","previous_headings":"","what":"pak 0.2.1","title":"pak 0.2.1","text":"CRAN release: 2021-12-20 user visible changes.","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-020","dir":"Changelog","previous_headings":"","what":"pak 0.2.0","title":"pak 0.2.0","text":"CRAN release: 2021-12-01 Lots news, much list. completely new package now.","code":""},{"path":"https://pak.r-lib.org/dev/news/index.html","id":"pak-012","dir":"Changelog","previous_headings":"","what":"pak 0.1.2","title":"pak 0.1.2","text":"CRAN release: 2019-02-19 First version CRAN.","code":""}]