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            "License :: OSI Approved :: GNU General Public License (GPL)",
            "Natural Language :: English",
            "Programming Language :: Python :: 2",
            "Programming Language :: Python :: 2.6",
            "Programming Language :: Python :: 2.7",
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        "description": "=====\nAbout\n=====\n\n.. image:: https://img.shields.io/pypi/v/riboplot.svg\n        :target: https://pypi.python.org/pypi/riboplot\n\nRiboPlot includes programs to plot and output Ribo-Seq read counts from an alignment file (BAM format).\n\nThere are two programs in the package:\n\n**riboplot**\n\n    Plot and output read counts (csv) for a single transcript.\n\n**ribocount**\n\n    Output read counts for all transcripts in an alignment.\n\n\nFree software: GPL license.\n\nDocumentation: http://pythonhosted.org/riboplot.\n\nPyPI: https://pypi.python.org/pypi/riboplot.\n\nGithub Repository: https://github.com/vimalkvn/riboplot.\n\nOnline: http://ribogalaxy.ucc.ie (under RiboSeq Analysis/RiboPlot).\n\n\n\n\n\nHistory\n=======\n0.3.1 (2017-03-04)\n------------------\n* Bugfix: ribocount: allow creation of zip files larger than 2GB.\n\n0.3.0 (2015-12-10)\n------------------\n* Support for multiple read lengths and corresponding offsets.\n* Optional arguments check is now split into multiple steps.\n* Remove the calculation of read lengths present in the BAM alignment. \n\n0.2.5 (2015-11-30)\n------------------\n* Bugfix: Use known versions of libraries as dependencies in setup.py.\n  Otherwise, pip installs latest versions which haven't been tested.\n* Remove Codons label, change START to AUG [riboplot].\n\n0.2.4 (2015-11-25)\n------------------\n* Bugfix: ribocount now returns correct read counts if an offset is provided.\n* Bugfix: Don't include read counts in the longest ORF start or stop positions\n  i.e., only include reads upstream or downstream of the start or stop positions.\n\n0.2.3 (2015-11-24)\n------------------\n* Bugfix: Recalculate read frame positions after applying offset.\n* Add sequence to CSV output.\n\n0.2.2 (2015-10-29)\n------------------\n* Use default linewidth (riboplot), Minor changes to default plot style.\n* Use 'Agg' as the default matplotlib backend (prevent $DISPLAY errors).\n* Use smaller images for the help section.\n* Fix typo in HISTORY.rst.\n* Update Github repository URL.\n\n0.2.1 (2015-10-16)\n------------------\nFix: Add mock again to setup requirements. Matplolib install under Galaxy fails otherwise.\n\n0.2.0 (2015-10-15)\n------------------\n**riboplot**\n\n* Support for color schemes - options: default, colorbrewer, rgb, greyorfs.\n* Plot changes - colored, light background for ORF architecture, legend moved down.\n* Image DPI change 300 |srarr| 600.\n* Sample scripts to plot multiple transcripts and multiple color schemes.\n\n**ribocount**\n\n* Ability to output read counts in 5'(``-v``) and 3'(``-r``) leader region.\n       \nBugfixes\n\n1. Report error if a bam index could not be generated (ex. bam sorted using \n   reference names instead of chromosome coordinates).\n2. No start/stop values when transcript sequences are in lower case.\n\nTests\n\n* Split into three different files.\n* Updated test configuration.\n\nMinor\n\n* XML wrapper changes - remove 'leader', add help text and output label change [ribocount].\n* Remove unused pysam import [riboplot].\n* Replace doc includes with sym links (breaks Galaxy toolshed otherwise).\n* Updated CSS/Table styles (removed number column from table).\n* y limit is now 1.25x [riboplot].\n* Removed line width on bars [riboplot].\n\n0.1.1 (2015-09-08)\n------------------\n* Remove invalid Python 3 version (whl).\n* Remove unused test data files.\n* Remove strict dependence on matplotlib and pysam versions.\n* Cleanup MANIFEST.\n\n0.1.0 (2015-08-24)\n------------------\n* First release on PyPI.\n\n.. substitutions  \n.. |srarr|    unicode:: U+02192 .. RIGHTWARDS ARROW",
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