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    "info": {
        "author": "paola masuzzo",
        "author_email": "paola.masuzzo@ugent.be",
        "bugtrack_url": null,
        "classifiers": [
            "Intended Audience :: Science/Research",
            "License :: OSI Approved :: BSD License",
            "Programming Language :: Python :: 3",
            "Topic :: Scientific/Engineering :: Bio-Informatics"
        ],
        "description": "Biotracks: a standard format for cell migration-derived tracking files\n======================================================================\n\n.. image:: https://travis-ci.org/CellMigStandOrg/biotracks.svg?branch=master\n    :target: https://travis-ci.org/CellMigStandOrg/biotracks\n\n.. image:: https://badge.fury.io/py/biotracks.svg\n    :target: https://badge.fury.io/py/biotracks\n\nBiotracks provides a standard format for cell migration tracking files and a series of converters from popular tracking sofware packages to the biotracks format, which is a specialization of the `Frictionless Tabular Data Package <http://specs.frictionlessdata.io/tabular-data-package/>`_ .\n\n\nInstallation from sources (Python 3 only)\n-----------------------------------------\n\n.. code-block::\n\n   python setup.py install\n\nInstallation from PiPy\n----------------------\n\n.. code-block::\n\n    pip install biotracks\n\nUsage\n-----\n\nMove to the ``scripts`` directory and run:\n\n.. code-block:: bash\n\n  python create_dpkg.py your_tracking_file\n\nThis will create a tabular data package directory containing:\n\n+ a csv file for the **objects** (e.g., cells)\n+ a csv file for the **links** (linear collections of objects)\n+ the json descriptor file for the data package\n\nThe latter will look like this:\n\n.. code-block:: json\n\n  {\n      \"name\": \"cmso_tracks\",\n      \"resources\": [\n          {\n              \"name\": \"cmso_objects_table\",\n              \"path\": \"objects.csv\",\n              \"schema\": {\n                  \"fields\": [\n                      {\n                          \"constraints\": {\n                              \"unique\": true\n                          },\n                          \"description\": \"\",\n                          \"format\": \"default\",\n                          \"name\": \"cmso_object_id\",\n                          \"title\": \"\",\n                          \"type\": \"integer\"\n                      },\n                      {\n                          \"description\": \"\",\n                          \"format\": \"default\",\n                          \"name\": \"cmso_frame_id\",\n                          \"title\": \"\",\n                          \"type\": \"integer\"\n                      },\n                      {\n                          \"description\": \"\",\n                          \"format\": \"default\",\n                          \"name\": \"cmso_x_coord\",\n                          \"title\": \"\",\n                          \"type\": \"number\"\n                      },\n                      {\n                          \"description\": \"\",\n                          \"format\": \"default\",\n                          \"name\": \"cmso_y_coord\",\n                          \"title\": \"\",\n                          \"type\": \"number\"\n                      }\n                  ],\n                  \"primaryKey\": \"cmso_object_id\"\n              }\n          },\n          {\n              \"name\": \"cmso_links_table\",\n              \"path\": \"links.csv\",\n              \"schema\": {\n                  \"fields\": [\n                      {\n                          \"description\": \"\",\n                          \"format\": \"default\",\n                          \"name\": \"cmso_link_id\",\n                          \"title\": \"\",\n                          \"type\": \"integer\"\n                      },\n                      {\n                          \"description\": \"\",\n                          \"format\": \"default\",\n                          \"name\": \"cmso_object_id\",\n                          \"title\": \"\",\n                          \"type\": \"integer\"\n                      }\n                  ],\n                  \"foreignKeys\": [\n                      {\n                          \"fields\": \"cmso_object_id\",\n                          \"reference\": {\n                              \"datapackage\": \"\",\n                              \"fields\": \"cmso_object_id\",\n                              \"resource\": \"cmso_objects_table\"\n                          }\n                      }\n                  ]\n              }\n          }\n      ]\n  }\n\n\nConfiguration\n-------------\n\nSome formats require a configuration file that specifies how to map object IDs, coordinate names, etc. This file must be in the `INI <https://en.wikipedia.org/wiki/INI_file>`_ format with two sections:\n\n+ TOP_LEVEL_INFO: specifies a name for the data package and additional (optional) information\n+ TRACKING_DATA: specifies how to map information from the source format to the biotracks column headers\n\nYou can provide a configuration file by passing it via the ``-c`` option to ``create_dpkg.py``; if this option is not set, the script will look for a ``biotracks.ini`` file in the same directory as your tracking file; if this is not found, the script will use default names for both the overall package and the column headers.\n\nExample:\n\n.. code-block::\n\n  [TOP_LEVEL_INFO]\n  author = the author of the dp\n  title = a title describing the dp\n  name = a name for the dp\n  author_institute = the insitute of the author\n  author_email = a valid email address\n\n  [TRACKING_DATA]\n  cmso_x_coord = the column name pointing to the x coordinate\n  cmso_y_coord = the column name pointing to the y coordinate\n  cmso_z_coord = the column name pointing to the z coordinate\n  cmso_frame_id = the column name pointing to the frame information\n  cmso_object_id = the object identifier\n  cmso_link_id = the link identifier\n  \n  \n  Examples\n  --------\n  \n  `CELLMIA <https://github.com/CellMigStandOrg/biotracks/tree/master/examples/CELLMIA>`_ .\n  `CellProfiler <https://github.com/CellMigStandOrg/biotracks/tree/master/examples/CellProfiler>`_ .\n  `ICY <https://github.com/CellMigStandOrg/biotracks/tree/master/examples/ICY>`_ .\n  `Mosaic <https://github.com/CellMigStandOrg/biotracks/tree/master/examples/Mosaic>`_ .\n  `TrackMate <https://github.com/CellMigStandOrg/biotracks/tree/master/examples/TrackMate>`_ .",
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