Mercurial > repos > nml > package_python_3_4_pysam_0_8_3
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planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_pysam_0_8_3 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
author | nml |
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date | Thu, 07 Jul 2016 09:56:33 -0400 |
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<?xml version="1.0"?> <tool_dependency> <package name="python" version="3.4"> <repository changeset_revision="20ecf5cd3c0e" name="package_python_3_4" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> </package> <package name="pysam" version="0.8.3"> <install version="1.0"> <actions> <action type="download_by_url">https://depot.galaxyproject.org/software/pysam/pysam_0.8.3_src_all.tar.gz</action> <action type="set_environment_for_install"> <repository changeset_revision="20ecf5cd3c0e" name="package_python_3_4" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu"> <package name="python" version="3.4" /> </repository> </action> <action type="make_directory">$INSTALL_DIR/lib/python</action> <action type="shell_command"> export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python && python3 setup.py install --install-lib $INSTALL_DIR/lib/python --install-scripts $INSTALL_DIR/bin </action> <action type="set_environment"> <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable> <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> <environment_variable action="set_to" name="PYTHONPATH_PYSAM">$INSTALL_DIR/lib/python</environment_variable> <environment_variable action="set_to" name="PATH_PYSAM">$INSTALL_DIR/bin</environment_variable> <environment_variable action="set_to" name="PYSAM_ROOT_DIR">$INSTALL_DIR</environment_variable> </action> </actions> </install> <readme> Installation of pysam, pyrex and python are required. The installation can be accessed via PYSAM_PATH. </readme> </package> </tool_dependency>