Mercurial > repos > qfab > package_pycogent_1_5_2

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author qfab
date Thu, 29 May 2014 20:35:40 -0400
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1 <?xml version="1.0"?>
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2 <tool_dependency>
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3 <package name="numpy" version="1.8.1">
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4 <repository changeset_revision="36659940cecb" name="package_numpy_1_8" owner="qfab" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu/" />
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5 </package>
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6 <package name="pycogent" version="1.5.2">
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7 <install version="1.0">
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8 <actions>
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9 <action type="download_by_url">http://sourceforge.net/projects/pycogent/files/PyCogent/1.5.2/PyCogent-1.5.2.tgz/download</action>
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10 <action type="make_directory">$INSTALL_DIR/cogent</action>
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11 <action type="set_environment_for_install">
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12 <repository changeset_revision="36659940cecb" name="package_numpy_1_8" owner="qfab" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu/" >
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13 <package name="numpy" version="1.8.1" />
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14 </repository>
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15 <action type="shell_command">
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16 python -c "import numpy; print numpy.version.version" &amp;&amp; env >> /opt/galaxy/log.txt:
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17 </action>
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18 </action>
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19 <action type="shell_command">
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20 python setup.py build_ext -if
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21 </action>
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22 <action type="move_directory_files">
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23 <source_directory>cogent</source_directory>
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24 <destination_directory>$INSTALL_DIR/cogent/</destination_directory>
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25 </action>
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26 <action type="set_environment">
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27 <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR</environment_variable>
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28 <environment_variable action="set_to" name="PATH_PYCOGENT">$INSTALL_DIR</environment_variable>
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29 <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable>
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30 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable>
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31 </action>
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32 </actions>
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33 </install>
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34 <readme>It is required to install a numpy python package (here numpy python package version 1.8.1) before installing the pycogent package.</readme>
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35 </package>
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36 </tool_dependency>