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4.0.0 (#79)
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* Fix account page

Updated the react on the account page to parse the new user object correctly.
Changes to be committed:
	modified:   views/account/AccountView/Permissions.js
	modified:   views/account/AccountView/ServerInfo.js

* 1st fix for account page

Account page will now load. it is still not functional for account details or groups and permissions
Changes to be committed:
	modified:   views/account/AccountView/AddServer.js
	modified:   views/account/AccountView/Permissions.js
	modified:   views/account/AccountView/Profile.js
	modified:   views/account/AccountView/ServerInfo.js

* Commit before re-factoring the object listing page.

* Some more fixes.

* update (#46)

* Add versioning to bottom bar

App.js now has a version object to indicate the version for each of the repositories associated with BCO portal and db
Changes to be committed:
	modified:   App.js
	deleted:    layouts/DashboardLayout/index.js
	deleted:    layouts/ObjectViewLayout/BottomBar.js
	modified:   layouts/shared/BottomBar.js
	modified:   routes.js

* fix bad url
Changes to be committed:
	modified:   layouts/shared/BottomBar.js

* Initialize 4.0.0
On branch 4.0.0
Changes to be committed:
	modified:   src/App.js

* Prefix int (#57)

* bottom bar (#49)

* Add versioning to bottom bar

App.js now has a version object to indicate the version for each of the repositories associated with BCO portal and db
Changes to be committed:
	modified:   App.js
	deleted:    layouts/DashboardLayout/index.js
	deleted:    layouts/ObjectViewLayout/BottomBar.js
	modified:   layouts/shared/BottomBar.js
	modified:   routes.js

* fix bad url
Changes to be committed:
	modified:   layouts/shared/BottomBar.js

* Fix Published object page
Changes to be committed:
	modified:   .env.example
	modified:   src/layouts/shared/BottomBar.js
	modified:   src/views/builder/BuilderView/Tools/ServerList.js
	modified:   src/views/builder/BuilderView/index.js
	modified:   src/views/objects/ObjectView/Views.js

* Object View page
Changes to be committed:
	modified:   src/App.js
	new file:   src/components/API/ModifyDraftObject.js
	new file:   src/components/API/RetrieveDraftObject.js
	new file:   src/components/API/RetrieveDraftObjectPermissions.js
	new file:   src/components/API/RetrieveObjectsFromToken.js
	new file:   src/components/API/untitled.txt
	renamed:    src/views/objects/ObjectsListView/Linker.js -> src/components/Linker.js
	renamed:    src/views/objects/ObjectsListView/Toolbar.js -> src/components/ObjectsListViewToolbar.js
	new file:   src/components/PermissionTools.js
	modified:   src/routes.js
	new file:   src/utils/AddCondition.js
	new file:   src/utils/Groups.js
	new file:   src/utils/LogicField.js
	new file:   src/utils/PublishDialog.js
	new file:   src/utils/RegexBox.js
	new file:   src/utils/SearchField.js
	new file:   src/utils/ServerList.js
	new file:   src/utils/Sharing.js
	modified:   src/views/builder/BuilderView/Tools.js
	modified:   src/views/builder/BuilderView/index.js
	deleted:    src/views/objects/ObjectView/ProductCard.js
	modified:   src/views/objects/ObjectsListView/Results.js
	modified:   src/views/objects/ObjectsListView/index.js
	new file:   src/views/permissions/PermissionView/index.js

* Update to API calls for User accounts

Separate API components created for new accounts, login, and profile.
Changes to be committed:
	new file:   src/components/API/ApiNewAccount.js
	new file:   src/components/API/TokenAuthentication.js
	new file:   src/components/API/UserdbNewAccount.js
	new file:   src/components/API/UserdbTokenAuth.js
	modified:   src/components/PermissionTools.js
	modified:   src/views/account/AccountView/AccountDetails.js
	modified:   src/views/account/AccountView/ProfileDetails.js
	modified:   src/views/account/AccountView/index.js
	modified:   src/views/auth/LoginView.js
	modified:   src/views/auth/RegisterView.js

* Account updates
Changes to be committed:
	modified:   package.json
	modified:   src/App.js
	new file:   src/components/API/CreateDraftObject.js
	modified:   src/components/API/RetrieveObjectsFromToken.js
	modified:   src/components/API/UserdbNewAccount.js
	new file:   src/components/API/UserdbUpdateAccount.js
	modified:   src/components/Linker.js
	modified:   src/components/PermissionTools.js
	modified:   src/views/account/AccountView/AccountDetails.js
	modified:   src/views/account/AccountView/Profile.js
	deleted:    src/views/account/AccountView/ProfileDetails.js
	modified:   src/views/account/AccountView/index.js
	modified:   src/views/auth/RegisterView.js
	modified:   src/views/builder/BuilderView/ColorCoded/DescriptionDomain.js
	modified:   src/views/builder/BuilderView/ColorCoded/ProvenanceDomain.js
	new file:   src/views/builder/BuilderView/Raw/RawOld/index.js
	renamed:    src/views/builder/BuilderView/Raw/json2.js -> src/views/builder/BuilderView/Raw/RawOld/json2.js
	renamed:    src/views/builder/BuilderView/Raw/jsonlint.js -> src/views/builder/BuilderView/Raw/RawOld/jsonlint.js
	modified:   src/views/builder/BuilderView/Raw/index.js
	new file:   src/views/builder/BuilderView/SaveDraft.js
	modified:   src/views/builder/BuilderView/Tools/Sharing.js
	modified:   src/views/builder/BuilderView/Views.js
	new file:   src/views/builder/BuilderView/index copy.js
	modified:   src/views/builder/BuilderView/index.js
	modified:   src/views/objects/ObjectsListView/index.js

* Updates to Provenance Domain

Fixed Reviewer fields
Added local storage on changes

Changes to be committed:
	modified:   package.json
	modified:   src/App.js
	modified:   src/views/builder/BuilderView/ColorCoded/DescriptionDomain.js
	modified:   src/views/builder/BuilderView/ColorCoded/ProvenanceDomain.js
	modified:   src/views/builder/BuilderView/ColorCoded/index.js
	modified:   src/views/builder/BuilderView/index.js
	modified:   src/views/objects/ObjectView/ColorCoded/index.js
	modified:   src/views/objects/ObjectsListView/index.js

* Prefix int (#58)

* bottom bar (#49)

* Add versioning to bottom bar

App.js now has a version object to indicate the version for each of the repositories associated with BCO portal and db
Changes to be committed:
	modified:   App.js
	deleted:    layouts/DashboardLayout/index.js
	deleted:    layouts/ObjectViewLayout/BottomBar.js
	modified:   layouts/shared/BottomBar.js
	modified:   routes.js

* fix bad url
Changes to be committed:
	modified:   layouts/shared/BottomBar.js

* Fix Published object page
Changes to be committed:
	modified:   .env.example
	modified:   src/layouts/shared/BottomBar.js
	modified:   src/views/builder/BuilderView/Tools/ServerList.js
	modified:   src/views/builder/BuilderView/index.js
	modified:   src/views/objects/ObjectView/Views.js

* Object View page
Changes to be committed:
	modified:   src/App.js
	new file:   src/components/API/ModifyDraftObject.js
	new file:   src/components/API/RetrieveDraftObject.js
	new file:   src/components/API/RetrieveDraftObjectPermissions.js
	new file:   src/components/API/RetrieveObjectsFromToken.js
	new file:   src/components/API/untitled.txt
	renamed:    src/views/objects/ObjectsListView/Linker.js -> src/components/Linker.js
	renamed:    src/views/objects/ObjectsListView/Toolbar.js -> src/components/ObjectsListViewToolbar.js
	new file:   src/components/PermissionTools.js
	modified:   src/routes.js
	new file:   src/utils/AddCondition.js
	new file:   src/utils/Groups.js
	new file:   src/utils/LogicField.js
	new file:   src/utils/PublishDialog.js
	new file:   src/utils/RegexBox.js
	new file:   src/utils/SearchField.js
	new file:   src/utils/ServerList.js
	new file:   src/utils/Sharing.js
	modified:   src/views/builder/BuilderView/Tools.js
	modified:   src/views/builder/BuilderView/index.js
	deleted:    src/views/objects/ObjectView/ProductCard.js
	modified:   src/views/objects/ObjectsListView/Results.js
	modified:   src/views/objects/ObjectsListView/index.js
	new file:   src/views/permissions/PermissionView/index.js

* Update to API calls for User accounts

Separate API components created for new accounts, login, and profile.
Changes to be committed:
	new file:   src/components/API/ApiNewAccount.js
	new file:   src/components/API/TokenAuthentication.js
	new file:   src/components/API/UserdbNewAccount.js
	new file:   src/components/API/UserdbTokenAuth.js
	modified:   src/components/PermissionTools.js
	modified:   src/views/account/AccountView/AccountDetails.js
	modified:   src/views/account/AccountView/ProfileDetails.js
	modified:   src/views/account/AccountView/index.js
	modified:   src/views/auth/LoginView.js
	modified:   src/views/auth/RegisterView.js

* Account updates
Changes to be committed:
	modified:   package.json
	modified:   src/App.js
	new file:   src/components/API/CreateDraftObject.js
	modified:   src/components/API/RetrieveObjectsFromToken.js
	modified:   src/components/API/UserdbNewAccount.js
	new file:   src/components/API/UserdbUpdateAccount.js
	modified:   src/components/Linker.js
	modified:   src/components/PermissionTools.js
	modified:   src/views/account/AccountView/AccountDetails.js
	modified:   src/views/account/AccountView/Profile.js
	deleted:    src/views/account/AccountView/ProfileDetails.js
	modified:   src/views/account/AccountView/index.js
	modified:   src/views/auth/RegisterView.js
	modified:   src/views/builder/BuilderView/ColorCoded/DescriptionDomain.js
	modified:   src/views/builder/BuilderView/ColorCoded/ProvenanceDomain.js
	new file:   src/views/builder/BuilderView/Raw/RawOld/index.js
	renamed:    src/views/builder/BuilderView/Raw/json2.js -> src/views/builder/BuilderView/Raw/RawOld/json2.js
	renamed:    src/views/builder/BuilderView/Raw/jsonlint.js -> src/views/builder/BuilderView/Raw/RawOld/jsonlint.js
	modified:   src/views/builder/BuilderView/Raw/index.js
	new file:   src/views/builder/BuilderView/SaveDraft.js
	modified:   src/views/builder/BuilderView/Tools/Sharing.js
	modified:   src/views/builder/BuilderView/Views.js
	new file:   src/views/builder/BuilderView/index copy.js
	modified:   src/views/builder/BuilderView/index.js
	modified:   src/views/objects/ObjectsListView/index.js

* Updates to Provenance Domain

Fixed Reviewer fields
Added local storage on changes

Changes to be committed:
	modified:   package.json
	modified:   src/App.js
	modified:   src/views/builder/BuilderView/ColorCoded/DescriptionDomain.js
	modified:   src/views/builder/BuilderView/ColorCoded/ProvenanceDomain.js
	modified:   src/views/builder/BuilderView/ColorCoded/index.js
	modified:   src/views/builder/BuilderView/index.js
	modified:   src/views/objects/ObjectView/ColorCoded/index.js
	modified:   src/views/objects/ObjectsListView/index.js

* Docs
Changes to be committed:
	new file:   docs/App.js.html
	new file:   docs/FetchContext.html
	new file:   docs/fonts/OpenSans-Bold-webfont.eot
	new file:   docs/fonts/OpenSans-Bold-webfont.svg
	new file:   docs/fonts/OpenSans-Bold-webfont.woff
	new file:   docs/fonts/OpenSans-BoldItalic-webfont.eot
	new file:   docs/fonts/OpenSans-BoldItalic-webfont.svg
	new file:   docs/fonts/OpenSans-BoldItalic-webfont.woff
	new file:   docs/fonts/OpenSans-Italic-webfont.eot
	new file:   docs/fonts/OpenSans-Italic-webfont.svg
	new file:   docs/fonts/OpenSans-Italic-webfont.woff
	new file:   docs/fonts/OpenSans-Light-webfont.eot
	new file:   docs/fonts/OpenSans-Light-webfont.svg
	new file:   docs/fonts/OpenSans-Light-webfont.woff
	new file:   docs/fonts/OpenSans-LightItalic-webfont.eot
	new file:   docs/fonts/OpenSans-LightItalic-webfont.svg
	new file:   docs/fonts/OpenSans-LightItalic-webfont.woff
	new file:   docs/fonts/OpenSans-Regular-webfont.eot
	new file:   docs/fonts/OpenSans-Regular-webfont.svg
	new file:   docs/fonts/OpenSans-Regular-webfont.woff
	new file:   docs/global.html
	new file:   docs/index.html
	new file:   docs/scripts/linenumber.js
	new file:   docs/scripts/prettify/Apache-License-2.0.txt
	new file:   docs/scripts/prettify/lang-css.js
	new file:   docs/scripts/prettify/prettify.js
	new file:   docs/styles/jsdoc-default.css
	new file:   docs/styles/prettify-jsdoc.css
	new file:   docs/styles/prettify-tomorrow.css
	new file:   jsdoc.conf.json
	modified:   src/App.js
	modified:   src/views/builder/BuilderView/ColorCoded/index.js

* Fix issue with public state (#72)

* fix issue with public state

* Return proper message when retrieving token and failed.

* Cleanup

* Make biocompute ojbect servers update on close of window to add server.

* Clean the hostname, email, server info, token on closing of the add server popover.  Write out failed message to log; update timeout to be a little quicker.

* Set success or error handle properly.

* Cleanup of result parsing, update state variable properly for changing information.  Add new API Account call for requesting a Token.

* Support for deleting API servers.

* Remove erroneous todo

Co-authored-by: John Torcivia <[email protected]>

Co-authored-by: John Torcivia <[email protected]>
Co-authored-by: John Torcivia <[email protected]>

* Added UI fixes from 3.96.3 to 4.0.0
Changes to be committed:
	modified:   src/views/account/AccountView/ServerInfo.js
	modified:   src/views/builder/BuilderView/ColorCoded/DescriptionDomain.js
	modified:   src/views/builder/BuilderView/ColorCoded/ProvenanceDomain.js
	modified:   src/views/builder/BuilderView/ColorCoded/index.js
	modified:   src/views/builder/BuilderView/index.js
	renamed:    src/views/builder/BuilderView/index copy.js -> src/views/builder/BuilderView/index_bk.js
	modified:   src/views/objects/ObjectView/ColorCoded/DescriptionDomain.js
	modified:   src/views/objects/ObjectView/ColorCoded/ProvenanceDomain.js
	modified:   src/views/objects/ObjectsListView/index.js

Co-authored-by: Chris Armstrong <[email protected]>
Co-authored-by: John Torcivia <[email protected]>
Co-authored-by: John Torcivia <[email protected]>
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4 changes: 2 additions & 2 deletions .env.example
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REACT_APP_GA_MEASUREMENT_ID=
REACT_EDITOR=mate
REACT_EDITOR=mate
REACT_APP_GA_MEASUREMENT_ID=
192 changes: 192 additions & 0 deletions docs/App.js.html
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<!DOCTYPE html>
<html lang="en">
<head>
<meta charset="utf-8">
<title>JSDoc: Source: App.js</title>

<script src="scripts/prettify/prettify.js"> </script>
<script src="scripts/prettify/lang-css.js"> </script>
<!--[if lt IE 9]>
<script src="//html5shiv.googlecode.com/svn/trunk/html5.js"></script>
<![endif]-->
<link type="text/css" rel="stylesheet" href="styles/prettify-tomorrow.css">
<link type="text/css" rel="stylesheet" href="styles/jsdoc-default.css">
</head>

<body>

<div id="main">

<h1 class="page-title">Source: App.js</h1>






<section>
<article>
<pre class="prettyprint source linenums"><code>//src/App.js

import 'react-perfect-scrollbar/dist/css/styles.css';
import React, { createContext } from 'react';
import { useRoutes } from 'react-router-dom';
import { ThemeProvider } from '@material-ui/core';
import GlobalStyles from 'src/components/GlobalStyles';
import theme from 'src/theme';
import routes from 'src/routes';

/**
* Create a context to pass the fetch variables.
*
* @component
*/
export const FetchContext = createContext();

function App() {
const routing = useRoutes(routes());

/*
* Define hostnames here.
*/
const hostnames = {
local: {
bcoapi_accounts_new: 'http://127.0.0.1:8000/api/accounts/new/',
bcoapi_description_permissions: 'http://127.0.0.1:8000/api/description/permissions/',
bcoapi_objects_create: 'http://127.0.0.1:8000/api/objects/create/',
bcoapi_objects_list: 'http://127.0.0.1:8000/api/objects/token/',
bcoapi_objects_read: 'http://127.0.0.1:8000/api/objects/read/',
bcoapi_objects_view: 'http://127.0.0.1:8000/api/objects/view/',
userdb_addapi: 'http://127.0.0.1:8080/users/add_api/',
userdb_users: 'http://127.0.0.1:8080/users/list/',
update_user: 'http://127.0.0.1:8080/users/update_user/',
userdb_tokenauth: 'http://127.0.0.1:8080/users/token-auth/',
anon_api_info: [
{
token: '627626823549f787c3ec763ff687169206626149',
public_hostname: 'http://127.0.0.1:8000'
}
]
},
development: {
bcoapi_accounts_new: 'https://dev.portal.aws.biochemistry.gwu.edu/api/accounts/new/',
bcoapi_description_permissions: 'https://dev.portal.aws.biochemistry.gwu.edu/api/description/permissions/',
bcoapi_objects_create: 'https://dev.portal.aws.biochemistry.gwu.edu/api/objects/create/',
bcoapi_objects_list: 'https://dev.portal.aws.biochemistry.gwu.edu/api/objects/token/',
bcoapi_objects_read: 'https://dev.portal.aws.biochemistry.gwu.edu/api/objects/read/',
bcoapi_objects_view: 'https://dev.portal.aws.biochemistry.gwu.edu/api/objects/view/',
userdb_addapi: 'https://dev.portal.aws.biochemistry.gwu.edu/users/add_api/',
userdb_users: 'https://dev.portal.aws.biochemistry.gwu.edu/users/list/',
update_user: 'http://dev.portal.aws.biochemistry.gwu.edu/users/update_user/',
userdb_tokenauth: 'https://dev.portal.aws.biochemistry.gwu.edu/users/token-auth/',
anon_api_info: [
{
token: '9f0b1e3661f56cb14b5f516003b41b23971cbd6a',
public_hostname: 'https://dev.portal.aws.biochemistry.gwu.edu'
}
]
},
beta: {
bcoapi_accounts_new: 'https://beta.portal.aws.biochemistry.gwu.edu/api/accounts/new/',
bcoapi_description_permissions: 'https://beta.portal.aws.biochemistry.gwu.edu/api/description/permissions/',
bcoapi_objects_create: 'https://beta.portal.aws.biochemistry.gwu.edu/api/objects/create/',
bcoapi_objects_list: 'https://beta.portal.aws.biochemistry.gwu.edu/api/objects/token/',
bcoapi_objects_read: 'https://beta.portal.aws.biochemistry.gwu.edu/api/objects/read/',
bcoapi_objects_view: 'https://beta.portal.aws.biochemistry.gwu.edu/api/objects/view/',
userdb_addapi: 'https://beta.portal.aws.biochemistry.gwu.edu/users/add_api/',
userdb_users: 'https://beta.portal.aws.biochemistry.gwu.edu/users/list/',
update_user: 'https://beta.portal.aws.biochemistry.gwu.edu/users/update_user/',
userdb_tokenauth: 'https://beta.portal.aws.biochemistry.gwu.edu/users/token-auth/',
anon_api_info: [
{
token: '391d9d985c5cb491ad5e563e345282e98c361105',
public_hostname: 'https://beta.portal.aws.biochemistry.gwu.edu'
}
]
},
test: {
bcoapi_accounts_new: 'https://test.portal.biochemistry.gwu.edu/api/accounts/new/',
bcoapi_description_permissions: 'https://test.portal.biochemistry.gwu.edu/api/description/permissions/',
bcoapi_objects_create: 'https://test.portal.biochemistry.gwu.edu/api/objects/create/',
bcoapi_objects_list: 'https://test.portal.biochemistry.gwu.edu/api/objects/token/',
bcoapi_objects_read: 'https://test.portal.biochemistry.gwu.edu/api/objects/read/',
bcoapi_objects_view: 'https://test.portal.biochemistry.gwu.edu/api/objects/view/',
userdb_addapi: 'https://test.portal.biochemistry.gwu.edu/users/add_api/',
userdb_users: 'https://test.portal.biochemistry.gwu.edu/users/list/',
update_user: 'https://test.portal.biochemistry.gwu.edu/users/update_user/',
userdb_tokenauth: 'https://test.portal.biochemistry.gwu.edu/users/token-auth/',
anon_api_info: [
{
token: 'f8e583d6b4c44c901ade8092994a1f6ceb892c0d',
public_hostname: 'https://test.portal.biochemistry.gwu.edu'
}
]
},
production: {
bcoapi_accounts_new: 'https://portal.biochemistry.gwu.edu/api/accounts/new/',
bcoapi_description_permissions: 'https://portal.biochemistry.gwu.edu/api/description/permissions/',
bcoapi_objects_create: 'https://portal.biochemistry.gwu.edu/api/objects/create/',
bcoapi_objects_list: 'https://portal.biochemistry.gwu.edu/api/objects/token/',
bcoapi_objects_read: 'https://portal.biochemistry.gwu.edu/api/objects/read/',
bcoapi_objects_view: 'https://portal.biochemistry.gwu.edu/api/objects/view/',
userdb_addapi: 'https://portal.biochemistry.gwu.edu/users/add_api/',
userdb_users: 'https://portal.biochemistry.gwu.edu/users/list/',
update_user: 'https://portal.biochemistry.gwu.edu/users/update_user/',
userdb_tokenauth: 'https://portal.biochemistry.gwu.edu/users/token-auth/',
anon_api_info: [
{
token: '!hGNijCIZrBxPGRvUuLgNt7RJwLBsMW6bGve8cjbR',
public_hostname: 'https://portal.biochemistry.gwu.edu'
}
]
}
};
const versions = {
portal: '3.96.1',
bcodb: '1.2.0',
userdb: '1.1.0'
};

/**
* LOCAL / DEVELOPMENT / BETA SWITCH / TEST
* Change hostnames.* to match the deployment environment
*
* @example
* const sending = hostnames.local;
*/
const sending = hostnames.local;

return (
&lt;ThemeProvider theme={theme}>
&lt;FetchContext.Provider value={{ sending, versions }}>
&lt;GlobalStyles />
{routing}
&lt;/FetchContext.Provider>
&lt;/ThemeProvider>
);
}

export default App;
</code></pre>
</article>
</section>




</div>

<nav>
<h2><a href="index.html">Home</a></h2><h3>Classes</h3><ul><li><a href="FetchContext.html">FetchContext</a></li></ul>
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<footer>
Documentation generated by <a href="https://github.com/jsdoc/jsdoc">JSDoc 3.6.7</a> on Thu Oct 07 2021 11:18:05 GMT-0400 (Eastern Daylight Time)
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170 changes: 170 additions & 0 deletions docs/FetchContext.html
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<!DOCTYPE html>
<html lang="en">
<head>
<meta charset="utf-8">
<title>JSDoc: Class: FetchContext</title>

<script src="scripts/prettify/prettify.js"> </script>
<script src="scripts/prettify/lang-css.js"> </script>
<!--[if lt IE 9]>
<script src="//html5shiv.googlecode.com/svn/trunk/html5.js"></script>
<![endif]-->
<link type="text/css" rel="stylesheet" href="styles/prettify-tomorrow.css">
<link type="text/css" rel="stylesheet" href="styles/jsdoc-default.css">
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<div id="main">

<h1 class="page-title">Class: FetchContext</h1>






<section>

<header>

<h2><span class="attribs"><span class="type-signature"></span></span>FetchContext<span class="signature">()</span><span class="type-signature"></span></h2>


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<article>
<div class="container-overview">






<h4 class="name" id="FetchContext"><span class="type-signature"></span>new FetchContext<span class="signature">()</span><span class="type-signature"></span></h4>






<div class="description">
<p>Create a context to pass the fetch variables.</p>
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<dt class="tag-source">Source:</dt>
<dd class="tag-source"><ul class="dummy"><li>
<a href="App.js.html">App.js</a>, <a href="App.js.html#line16">line 16</a>
</li></ul></dd>







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</article>

</section>




</div>

<nav>
<h2><a href="index.html">Home</a></h2><h3>Classes</h3><ul><li><a href="FetchContext.html">FetchContext</a></li></ul>
</nav>

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<footer>
Documentation generated by <a href="https://github.com/jsdoc/jsdoc">JSDoc 3.6.7</a> on Thu Oct 07 2021 11:18:05 GMT-0400 (Eastern Daylight Time)
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<script> prettyPrint(); </script>
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