Mercurial > repos > nml > package_python_3_4_biopython_1_66

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planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
author nml
date Thu, 07 Jul 2016 09:56:45 -0400
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-1:000000000000 0:cb43753d0467
1 <?xml version="1.0"?>
2 <tool_dependency>
3 <package name="python" version="3.4">
4 <repository changeset_revision="20ecf5cd3c0e" name="package_python_3_4" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
5 </package>
6 <package name="numpy" version="1.10.1">
7 <repository changeset_revision="f182da2b1d78" name="package_python_3_4_numpy_1_10_1" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
8 </package>
9 <package name="biopython" version="1.66">
10 <install version="1.0">
11 <actions>
12 <action type="download_by_url">http://biopython.org/DIST/biopython-1.66.tar.gz</action>
13 <action type="set_environment_for_install">
14 <repository changeset_revision="f182da2b1d78" name="package_python_3_4_numpy_1_10_1" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu">
15 <package name="numpy" version="1.10.1" />
16 </repository>
17 <repository changeset_revision="20ecf5cd3c0e" name="package_python_3_4" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
18 <package name="python" version="3.4" />
19 </repository>
20 </action>
21 <action type="make_directory">$INSTALL_DIR/lib/python</action>
22 <action type="shell_command">
23 export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp;
24 export PATH=$PATH:$PATH_NUMPY &amp;&amp;
25 export PYTHONPATH=$PYTHONPATH:$PYTHONPATH_NUMPY:$PYTHONPATH_MATPLOTLIB &amp;&amp;
26 python3 setup.py install --install-lib $INSTALL_DIR/lib/python
27 </action>
28 <action type="set_environment">
29 <environment_variable action="append_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
30 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable>
31 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable>
32 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_MATPLOTLIB]</environment_variable>
33 <environment_variable action="set_to" name="PYTHONPATH_BIOPYTHON">$INSTALL_DIR/lib/python</environment_variable>
34 </action>
35 </actions>
36 </install>
37 <readme>The PYTHONPATH for biopython can be accessed through PYTHONPATH_BIOPYTHON.</readme>
38 </package>
39 </tool_dependency>