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Commit message:
planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_pysam_0_8_3 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa |
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added:
tool_dependencies.xml |
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| diff -r 000000000000 -r 085a17b297b1 tool_dependencies.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_dependencies.xml Thu Jul 07 09:56:33 2016 -0400 |
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| @@ -0,0 +1,33 @@ +<?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> |