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annotate tool_dependencies.xml @ 18:cff63cf0dea8

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Update tool_dependencies to install package from pip
author Vimalkumar Velayudhan <vimal@biotechcoder.com>
date Mon, 31 Aug 2015 14:13:03 +0100
parents 805b779d4013
children a013fc01d8f3
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1 <?xml version="1.0"?>
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2 <tool_dependency>
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3 <package name="ez_setup" version="0.9">
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4 <repository changeset_revision="f50b27b88d30" name="package_ez_setup_0_9" owner="iuc"
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5 prior_installation_required="True"/>
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6 </package>
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7 <package name="riboplot" version="0.1.0">
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8 <install version="1.0">
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9 <actions>
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10 <action type="download_by_url">https://pypi.python.org/packages/source/r/riboplot/riboplot-0.1.0.tar.gz</action>
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11 <action type="set_environment_for_install">
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12 <repository changeset_revision="f50b27b88d30" name="package_ez_setup_0_9" owner="iuc">
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13 <package name="ez_setup" version="0.9" />
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14 </repository>
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15 </action>
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16 <action type="make_directory">$INSTALL_DIR/lib/python</action>
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17 <action type="shell_command">export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp; python setup.py install --install-lib $INSTALL_DIR/lib/python --install-scripts $INSTALL_DIR/bin</action>
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18 <action type="set_environment">
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19 <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
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20 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
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21 <environment_variable action="set_to" name="RIBOPLOT_PATH">$INSTALL_DIR</environment_variable>
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22 </action>
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23 </actions>
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24 </install>
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25 <readme>
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26 Requires installation of matplotlib 1.3.1 and pysam 0.8.3. RNA coverage requires bedtools installed.
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27 </readme>
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28 </package>
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29 </tool_dependency>