Mercurial > repos > bgruening > deeptools

comparison tool_dependencies.xml @ 6:1ee0b1ecf500 draft

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Uploaded
author bgruening
date Mon, 02 Dec 2013 07:49:06 -0500
parents c54d31467be4
children c53a73b8eef9
comparison
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5:c54d31467be4 6:1ee0b1ecf500
55 </package> 55 </package>
56 56
57 <package name="deepTools" version="1.5.1_323fa6bf083c9d40e5092a6364a4ab8fee57507a"> 57 <package name="deepTools" version="1.5.1_323fa6bf083c9d40e5092a6364a4ab8fee57507a">
58 <install version="1.0"> 58 <install version="1.0">
59 <actions> 59 <actions>
60 <action type="shell_command">git clone --recursive https://github.com/fidelram/deepTools.git</action>
60 <!-- populate the environment variables from the dependend repos --> 61 <!-- populate the environment variables from the dependend repos -->
61 <action type="set_environment_for_install"> 62 <action type="set_environment_for_install">
62 <repository changeset_revision="b62538c8c664" name="package_pysam_0_7_7" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu"> 63 <repository changeset_revision="b62538c8c664" name="package_pysam_0_7_7" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu">
63 <package name="pysam" version="0.7.7" /> 64 <package name="pysam" version="0.7.7" />
64 </repository> 65 </repository>
65 </action> 66 </action>
66 <action type="shell_command">git clone --recursive https://github.com/fidelram/deepTools.git</action>
67 <action type="shell_command">git reset --hard 323fa6bf083c9d40e5092a6364a4ab8fee57507a</action> 67 <action type="shell_command">git reset --hard 323fa6bf083c9d40e5092a6364a4ab8fee57507a</action>
68 <action type="make_directory">$INSTALL_DIR/lib/python</action> 68 <action type="make_directory">$INSTALL_DIR/lib/python</action>
69 <action type="shell_command"> 69 <action type="shell_command">
70 export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp; 70 export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp;
71 python setup.py install --install-lib $INSTALL_DIR/lib/python --install-scripts $INSTALL_DIR/bin 71 python setup.py install --install-lib $INSTALL_DIR/lib/python --install-scripts $INSTALL_DIR/bin
72 </action> 72 </action>
73
74 <action type="set_environment"> 73 <action type="set_environment">
75 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> 74 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
76 <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable> 75 <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
77 <!-- disable the config file of deepTools --> 76 <!-- disable the config file of deepTools -->
78 <environment_variable action="set_to" name="DEEP_TOOLS_NO_CONFIG">TRUE</environment_variable> 77 <environment_variable action="set_to" name="DEEP_TOOLS_NO_CONFIG">TRUE</environment_variable>