Mercurial > repos > biopython > package_biopython_1_61

comparison tool_dependencies.xml @ 1:ededc5ef3fc0 draft

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updated to point to the IUC account for external dependencies
author bgruening
date Mon, 12 Aug 2013 07:26:51 -0400
parents 5d0c54f7fea2
children b482933a6de5
comparison
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0:5d0c54f7fea2 1:ededc5ef3fc0
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool_dependency> 2 <tool_dependency>
3 <package name="numpy" version="1.7.1"> 3 <package name="numpy" version="1.7.1">
4 <repository name="package_numpy_1_7" owner="bgruening" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" /> 4 <repository changeset_revision="c75482be1d3a" name="package_numpy_1_7" owner="iuc" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" />
5 </package> 5 </package>
6 <package name="matplotlib" version="1.2.1"> 6 <package name="matplotlib" version="1.2.1">
7 <repository name="package_matplotlib_1_2" owner="bgruening" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" /> 7 <repository changeset_revision="9d164359606b" name="package_matplotlib_1_2" owner="iuc" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" />
8 </package> 8 </package>
9 <!-- TODO reportlab -> Python Imaging Library 9 <!-- TODO reportlab -> Python Imaging Library
10 <package name="reportlab" version="1.2.1"> 10 <package name="reportlab" version="1.2.1">
11 <repository name="package_reportlab_1_2" owner="bgruening" prior_installation_required="True" /> 11 <repository name="package_reportlab_1_2" owner="bgruening" prior_installation_required="True" />
12 </package> 12 </package>
14 <package name="biopython" version="1.61"> 14 <package name="biopython" version="1.61">
15 <install version="1.0"> 15 <install version="1.0">
16 <actions> 16 <actions>
17 <action type="download_by_url">https://pypi.python.org/packages/source/b/biopython/biopython-1.61.tar.gz</action> 17 <action type="download_by_url">https://pypi.python.org/packages/source/b/biopython/biopython-1.61.tar.gz</action>
18 <action type="set_environment_for_install"> 18 <action type="set_environment_for_install">
19 <repository name="package_matplotlib_1_2" owner="bgruening" toolshed="http://toolshed.g2.bx.psu.edu"> 19 <repository changeset_revision="9d164359606b" name="package_matplotlib_1_2" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu">
20 <package name="matplotlib" version="1.2.1" /> 20 <package name="matplotlib" version="1.2.1" />
21 </repository> 21 </repository>
22 <repository name="package_numpy_1_7" owner="bgruening" toolshed="http://toolshed.g2.bx.psu.edu"> 22 <repository changeset_revision="c75482be1d3a" name="package_numpy_1_7" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu">
23 <package name="numpy" version="1.7.1" /> 23 <package name="numpy" version="1.7.1" />
24 </repository> 24 </repository>
25 </action> 25 </action>
26 26
27 <action type="make_directory">$INSTALL_DIR/lib/python</action> 27 <action type="make_directory">$INSTALL_DIR/lib/python</action>
28 <action type="shell_command">export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp; 28 <action type="shell_command">
29 export PATH=$PATH:$PATH_NUMPY &amp;&amp; 29 export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp;
30 export PYTHONPATH=$PYTHONPATH:$PYTHONPATH_NUMPY:$PYTHONPATH_MATPLOTLIB &amp;&amp; 30 export PATH=$PATH:$PATH_NUMPY &amp;&amp;
31 python setup.py install --home $INSTALL_DIR</action> 31 export PYTHONPATH=$PYTHONPATH:$PYTHONPATH_NUMPY:$PYTHONPATH_MATPLOTLIB &amp;&amp;
32 python setup.py install --install-lib $INSTALL_DIR/lib/python
33 </action>
32 <action type="set_environment"> 34 <action type="set_environment">
33 <environment_variable action="append_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable> 35 <environment_variable action="append_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
34 36
35 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable> 37 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable>
36 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable> 38 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable>