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        "author": "Ying Jin",
        "author_email": "yjin@cshl.edu",
        "bugtrack_url": null,
        "classifiers": [
            "Development Status :: 4 - Beta",
            "Intended Audience :: Science/Research",
            "License :: OSI Approved :: GNU General Public License v3 (GPLv3)",
            "Natural Language :: English",
            "Operating System :: Unix",
            "Programming Language :: C++",
            "Programming Language :: Python :: 2.7",
            "Topic :: Scientific/Engineering :: Bio-Informatics"
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        "description": ".. image:: https://raw.githubusercontent.com/mhammell-laboratory/bamqc/master/doc/bamqc-icon.png\n   :width: 200 px\n   :alt: generated at codeology.braintreepayments.com/mhammell-laboratory/bamqc\n   :align: right\n   :target: http://codeology.braintreepayments.com/mhammell-laboratory/bamqc\n\nBAMQC\n=====\n\nVersion 0.6.5\n\n`Github Page <https://github.com/mhammell-laboratory/bamqc>`_\n\n`Pypi Page <https://pypi.python.org/pypi/BAMQC>`_\n\n`MHammell Lab <http://hammelllab.labsites.cshl.edu/software>`_\n\nInstallation guide for BAMQC for from source installs\n-----------------------------------------------------\n\n`Source Code <https://github.com/mhammell-laboratory/bamqc/archive/0.6.4.tar.gz>`_\n\n`Pypi <https://pypi.python.org/pypi?:action=display&name=BAMQC&version=0.6.5>`_\n\n*Prerequisites:*\n   * `python2.7 <https://www.python.org/download/releases/2.7/>`_\n   * `R <https://www.r-project.org/>`_\n   * `corrplot <https://cran.r-project.org/web/packages/corrplot/>`_\n   * `GCC 4.8.1 or greater <https://gcc.gnu.org/gcc-4.8/>`_\n\nWhile there are multiple methods of installing the prerequistes it may\nhelp to look at (if using a yum based linux distro):\n\n   * `Devtoolset-3 <https://access.redhat.com/documentation/en-US/Red_Hat_Developer_Toolset/3/html/User_Guide/sect-Red_Hat_Developer_Toolset-Install.html>`_ for GCC compilers\n   * `IUS <https://ius.io/>`_ for Python2.7\n   * `Software Collections <https://www.softwarecollections.org/>`_ for collections of software (like devtoolset 3 or python)\n   * `rpmfinder <https://www.rpmfind.net/>`_ for searching rpms across mutliple systems\n\n*Setup*\n\nmake sure that the GCC comiler is in your PATH\n\n.. code:: bash\n export PATH=/path/to/gcc:$PATH\n\n\nmake sure that python2.7 is is in your PYTHONPATH, for permance add it to your .bashrc\n\n.. code:: bash\n export PYTHONPATH=/path/to/python2.7/site-packages:$PYTHONPATH\n\nThere are three methods of installation of BAMqc, from source, setup.py, and from pypi, once prequistes are setup. \n\n*From Source*\n\ndownload source \n\n.. code:: bash\n wget https://github.com/mhammell-laboratory/bamqc/archive/0.6.4.tar.gz\n tar xvfz bamqc-0.6.4.tar.gz\n cd bamqc-0.6.4\n\nrun make on htslib\n\nnote: make sure to have -fPIC in your cflags ie: ``export CFLAGS=\"$CFLAGS -fPIC\"``\n\n.. code:: bash\n \n cd src/htslib\n make \n\nrun make \n\n.. code:: bash\n\n cd ../..\n make\n\n*From Setup.py*\n\n.. code:: bash\n\n python2.7 setup.py install \n\n*From Pypi*\n\n.. code:: bash\n\n pip2.7 install BAMqc\n\nContacts\n--------\n\nYing Jin: yjin@cshl.edu\n\nAcknowledgements goes to\n------------------------\n\n#) Samtools and pysam contributors\n#) Molly Hammell and members of her laboratory at Cold Spring Harbor Laboratory\n#) Users' valuable feedback\n\nCopying & distribution\n----------------------\n\nBAMQC is free software: you can redistribute it and/or modify\nit under the terms of the GNU General Public License as published by\nthe Free Software Foundation, either version 3 of the License, or\n(at your option) any later version.\n\nThis program is distributed in the hope that it will be useful,\nbut *WITHOUT ANY WARRANTY*; without even the implied warranty of\n*MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE*.  See the\nGNU General Public License for more details.\n\nYou should have received a copy of the GNU General Public License\nalong with BAMQC.  If not, see `this website <http://www.gnu.org/licenses/>`_.",
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