Mercurial > repos > iuc > package_biopython_1_61

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
author iuc
date Tue, 19 May 2015 14:57:22 -0400
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5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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1 <?xml version="1.0"?>
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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2 <tool_dependency>
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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3 <package name="numpy" version="1.7.1">
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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4 <repository changeset_revision="c7ae57300a77" name="package_numpy_1_7" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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5 </package>
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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6 <package name="biopython" version="1.61">
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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7 <install version="1.0">
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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8 <actions>
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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9 <action type="download_by_url">https://pypi.python.org/packages/source/b/biopython/biopython-1.61.tar.gz</action>
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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10 <action type="set_environment_for_install">
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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11 <repository changeset_revision="c7ae57300a77" name="package_numpy_1_7" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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12 <package name="numpy" version="1.7.1" />
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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13 </repository>
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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14 </action>
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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15 <action type="make_directory">$INSTALL_DIR/lib/python</action>
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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16 <action type="shell_command">
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
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17 export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp;
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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18 export PATH=$PATH:$PATH_NUMPY &amp;&amp;
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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19 export PYTHONPATH=$PYTHONPATH:$PYTHONPATH_NUMPY:$PYTHONPATH_MATPLOTLIB &amp;&amp;
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
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20 python setup.py install --install-lib $INSTALL_DIR/lib/python
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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21 </action>
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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22 <action type="set_environment">
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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23 <environment_variable action="append_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
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5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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25 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable>
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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26 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable>
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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27 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_MATPLOTLIB]</environment_variable>
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
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5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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29 <environment_variable action="set_to" name="PYTHONPATH_BIOPYTHON">$INSTALL_DIR/lib/python</environment_variable>
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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30 </action>
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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31 </actions>
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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32 </install>
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
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33 <readme>The PYTHONPATH for biopython can be accessed through PYTHONPATH_BIOPYTHON.</readme>
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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34 </package>
5c57f6706664 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_biopython_1_61 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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35 </tool_dependency>