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# Tablite | ||
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![Build status](https://github.com/root-11/tablite/actions/workflows/python-test.yml/badge.svg) | ||
[![codecov](https://codecov.io/gh/root-11/tablite/branch/master/graph/badge.svg?token=A0QEWGO9R6)](https://codecov.io/gh/root-11/tablite) | ||
[![Downloads](https://pepy.tech/badge/tablite)](https://pepy.tech/project/tablite) | ||
[![Downloads](https://pepy.tech/badge/tablite/month)](https://pepy.tech/project/tablite) | ||
[![PyPI version](https://badge.fury.io/py/tablite.svg)](https://badge.fury.io/py/tablite) | ||
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-------------- | ||
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## Contents | ||
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- [introduction](#introduction) | ||
- [installation](#installation) | ||
- [feature overview](#feature_overview) | ||
- [api](#api) | ||
- [tutorial](#tutorial) | ||
- [latest updates](#latest_updates) | ||
- [credits](#credits) | ||
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## <a name="introduction"></a>Introduction | ||
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`Tablite` seeks to be the go-to library for manipulating tabular data with an api that is as close in syntax to pure python as possible. | ||
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### Even smaller memory footprint | ||
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Tablite uses [numpys fileformat](https://numpy.org/doc/stable/reference/generated/numpy.lib.format.html) as a backend with strong abstraction, so that copy, append & repetition of data is handled in pages. This is imperative for [incremental data processing](https://raw.githubusercontent.com/root-11/tablite/74e7b44cfc314950b7a769316cb48d67cce725d0/images/incremental_dataprocessing.svg). | ||
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Tablite tests [for memory footprint](https://github.com/root-11/tablite/blob/master/tests/test_memory_footprint.py). One test compares the memory footprint of 10,000,000 integers where `tablite` will use < 1 Mb RAM in contrast to python which will require around 133.7 Mb of RAM (1M lists with 10 integers). Tablite also tests to assure that working with [1Tb of data](https://github.com/root-11/tablite/blob/9bb6e572538a85aee31ef8a4a60c0945a6f857a4/tests/test_filereader_performance.py#L104) is tolerable. | ||
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Tablite achieves this minimal memory footprint by using a temporary storage set in `config.Config.workdir` as `tempfile.gettempdir()/tablite-tmp`. | ||
If your OS (windows/linux/mac) sits on a SSD this will benefit from high IOPS and permit slices of [9,000,000,000 rows in less than a second](https://github.com/root-11/tablite/blob/master/images/1TB_test.png?raw=true). | ||
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### Multiprocessing enabled by default | ||
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Tablite uses numpy whereever possible and applies multiprocessing for bypassing the GIL on all major operations. | ||
CSV import is performed in C through using `nim`s compiler and is as fast the hardware allows. | ||
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### All algorithms have been reworked to respect memory limits | ||
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Tablite respects the limits of free memory by tagging the free memory and defining task size before each memory intensive task is initiated (join, groupby, data import, etc). | ||
If you still run out of memory you may try to reduce the `config.Config.PAGE_SIZE` and rerun your program. | ||
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### 100% support for all python datatypes | ||
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Tablite wants to make it easy for you to work with data. `tablite.Table's` behave like a dict with lists: | ||
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`my_table[column name] = [... data ...]`. | ||
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Tablite uses datatype mapping to native numpy types where possible and uses type mapping for non-native types such as timedelta, None, date, time… e.g. what you put in, is what you get out. This is inspired by [bank python](https://calpaterson.com/bank-python.html). | ||
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### Light weight | ||
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Tablite is ~200 kB. | ||
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### Helpful | ||
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Tablite wants you to be productive, so a number of helpers are available. | ||
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- `Table.import_file` to import csv*, tsv, txt, xls, xlsx, xlsm, ods, zip and logs. There is automatic type detection (see [tutorial.ipynb](https://nbviewer.org/github/root-11/tablite/blob/master/tutorial.ipynb) ) | ||
- To peek into any supported file use `get_headers` which shows the first 10 rows. | ||
- Use `mytable.rows` and `mytable.columns` to iterate over rows or columns. | ||
- Create multi-key `.index` for quick lookups. | ||
- Perform multi-key `.sort`, | ||
- Filter using `.any` and `.all` to select specific rows. | ||
- use multi-key `.lookup` and `.join` to find data across tables. | ||
- Perform `.groupby` and reorganise data as a `.pivot` table with max, min, sum, first, last, count, unique, average, st.deviation, median and mode | ||
- Append / concatenate tables with `+=` which automatically sorts out the columns - even if they're not in perfect order. | ||
- Should you tables be similar but not the identical you can use `.stack` to "stack" tables on top of each other | ||
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If you're still missing something add it to the [wishlist](https://github.com/root-11/tablite/issues) | ||
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--------------- | ||
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## <a name="installation"></a>Installation | ||
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Get it from pypi: [![PyPI version](https://badge.fury.io/py/tablite.svg)](https://badge.fury.io/py/tablite) | ||
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Install: `pip install tablite` | ||
Usage: `>>> from tablite import Table` | ||
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## <a name="build & test"></a>Build & test | ||
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install nim >= 2.0.0 | ||
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run: `chmod +x ./build_nim.sh` | ||
run: `./build_nim.sh` | ||
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Should the default nim not be your desired taste, please use `nims` environment manager (`atlas`) and run `source nim-2.0.0/activate.sh` on UNIX or `nim-2.0.0/activate.bat` on windows. | ||
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``` | ||
install python >= 3.8 | ||
python -m venv /your/venv/dir | ||
activate /your/venv/dir | ||
pip install -r requirements.txt | ||
pip install -r requirements_for_testing.py | ||
pytest ./tests | ||
``` | ||
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## <a name="feature_overview"></a>Feature overview | ||
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|want to...| this way... | | ||
|---|---| | ||
|loop over rows| `[ row for row in table.rows ]`| | ||
|loop over columns| `[ table[col_name] for col_name in table.columns ]`| | ||
|slice | `myslice = table['A', 'B', slice(0,None,15)]`| | ||
|get column by name | `my_table['A']` | | ||
|get row by index | `my_table[9_000_000_001]` | | ||
|value update| `mytable['A'][2] = new value` | | ||
|update w. list comprehension | `mytable['A'] = [ x*x for x in mytable['A'] if x % 2 != 0 ]`| | ||
|join| `a_join = numbers.join(letters, left_keys=['colour'], right_keys=['color'], left_columns=['number'], right_columns=['letter'], kind='left')`| | ||
| lookup| `travel_plan = friends.lookup(bustable, (DataTypes.time(21, 10), "<=", 'time'), ('stop', "==", 'stop'))`| | ||
| groupby| `group_by = table.groupby(keys=['C', 'B'], functions=[('A', gb.count)])`| | ||
| pivot table | `my_pivot = t.pivot(rows=['C'], columns=['A'], functions=[('B', gb.sum), ('B', gb.count)], values_as_rows=False)`| | ||
| index| `indices = old_table.index(*old_table.columns)`| | ||
| sort| `lookup1_sorted = lookup_1.sort(**{'time': True, 'name':False, "sort_mode":'unix'})`| | ||
| filter | `true, false = unfiltered.filter( [{"column1": 'a', "criteria":">=", 'value2':3}, ... more criteria ... ], filter_type='all' )`| | ||
| find any | `any_even_rows = mytable.any('A': lambda x : x%2==0, 'B': lambda x > 0)`| | ||
| find all | `all_even_rows = mytable.all('A': lambda x : x%2==0, 'B': lambda x > 0)`| | ||
| to json | `json_str = my_table.to_json()`| | ||
| from json | `Table.from_json(json_str)`| | ||
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## <a name="api"></a>API | ||
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To view the detailed API see [api](https://root-11.github.io/tablite/latest/) | ||
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## <a name="tutorial"></a>Tutorial | ||
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To learn more see the [tutorial.ipynb](https://github.com/root-11/tablite/blob/master/tutorial.ipynb) (Jupyter notebook) | ||
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## <a name="latest_updates"></a>Latest updates | ||
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See [changelog.md](https://github.com/root-11/tablite/blob/master/changelog.md) | ||
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## <a name="credits"></a>Credits | ||
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- [Eugene Antonov](https://github.com/Jetman80) - the api documentation. | ||
- [Audrius Kulikajevas](https://github.com/realratchet) - Edge case testing / various bugs, Jupyter notebook integration. | ||
- [Ovidijus Grigas](https://github.com/omenSi) - various bugs, documentation. | ||
- Martynas Kaunas - GroupBy functionality. | ||
- Sergej Sinkarenko - various bugs. | ||
- Lori Cooper - spell checking. |
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/* Avoid breaking parameter names, etc. in table cells. */ | ||
.doc-contents td code { | ||
word-break: normal !important; | ||
} | ||
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/* No line break before first paragraph of descriptions. */ | ||
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display: inline; | ||
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/* Max width for docstring sections tables. */ | ||
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/* Defaults in Spacy table style. */ | ||
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float: right; | ||
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/* Symbols in Navigation and ToC. */ | ||
:root, | ||
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--doc-symbol-attribute-bg-color: #9538001a; | ||
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code.doc-symbol { | ||
border-radius: .1rem; | ||
font-size: .85em; | ||
padding: 0 .3em; | ||
font-weight: bold; | ||
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code.doc-symbol-attribute { | ||
color: var(--doc-symbol-attribute-fg-color); | ||
background-color: var(--doc-symbol-attribute-bg-color); | ||
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code.doc-symbol-attribute::after { | ||
content: "attr"; | ||
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code.doc-symbol-function { | ||
color: var(--doc-symbol-function-fg-color); | ||
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.doc-signature .autorefs { | ||
color: inherit; | ||
border-bottom: 1px dotted currentcolor; | ||
} |
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