Mercurial > repos > bgruening > deeptools

comparison tool_dependencies.xml @ 17:ef65d6b68ccc draft

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author bgruening
date Sat, 21 Dec 2013 14:26:06 -0500
parents b4c5dd45778a
children 5ea8782d650c
comparison
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16:16310f8b24d5 17:ef65d6b68ccc
55 </actions> 55 </actions>
56 </install> 56 </install>
57 <readme>The tools downloaded by this dependency definition are free for academic use. TODO: UCSC tools are only available with their latest version. That is not good for reproducibility.</readme> 57 <readme>The tools downloaded by this dependency definition are free for academic use. TODO: UCSC tools are only available with their latest version. That is not good for reproducibility.</readme>
58 </package> 58 </package>
59 59
60 <package name="deepTools" version="1.5.4_74aac0843a956ca352e3e85087f20c8f158e2f7d"> 60 <package name="deepTools" version="1.5.4_e5c75f3e967be0fa1d6dbcbb63a0f992e1cdcd61">
61 <install version="1.0"> 61 <install version="1.0">
62 <actions> 62 <actions>
63 <action type="shell_command">git clone --recursive https://github.com/fidelram/deepTools.git</action> 63 <action type="shell_command">git clone --recursive https://github.com/fidelram/deepTools.git</action>
64 <!-- populate the environment variables from the dependend repos --> 64 <!-- populate the environment variables from the dependend repos -->
65 <action type="set_environment_for_install"> 65 <action type="set_environment_for_install">
77 </repository> 77 </repository>
78 <repository changeset_revision="984d208b0808" name="package_scipy_0_12" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu"> 78 <repository changeset_revision="984d208b0808" name="package_scipy_0_12" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu">
79 <package name="scipy" version="0.12.0" /> 79 <package name="scipy" version="0.12.0" />
80 </repository> 80 </repository>
81 </action> 81 </action>
82 <action type="shell_command">git reset --hard 74aac0843a956ca352e3e85087f20c8f158e2f7d</action> 82 <action type="shell_command">git reset --hard e5c75f3e967be0fa1d6dbcbb63a0f992e1cdcd61</action>
83 <action type="make_directory">$INSTALL_DIR/lib/python</action> 83 <action type="make_directory">$INSTALL_DIR/lib/python</action>
84 <action type="shell_command"> 84 <action type="shell_command">
85 export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp; 85 export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp;
86 python setup.py install --install-lib $INSTALL_DIR/lib/python --install-scripts $INSTALL_DIR/bin 86 python setup.py install --install-lib $INSTALL_DIR/lib/python --install-scripts $INSTALL_DIR/bin
87 </action> 87 </action>