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annotate tool_dependencies.xml @ 93:c174a815da9c draft

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add LIBRARY_PATH variable
author Jan Kanis <jan.code@jankanis.nl>
date Tue, 24 Jun 2014 17:13:41 +0200
parents 8a712d393559
children 20639b08d781
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1 <?xml version="1.0"?>
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2 <tool_dependency>
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3 <package name="libxml2" version="2.9.1">
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4 <repository name="package_libxml2_2_9_1" owner="jankanis" prior_installation_required="True"
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5 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="98807f0505f0" />
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6 </package>
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7
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8 <package name="libxslt" version="1.1.28">
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9 <repository name="package_libxslt_1_1_28" owner="devteam" prior_installation_required="True"
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10 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="039b04adcfee" />
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11 </package>
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12
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13 <package name="zlib" version="1.2.8">
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14 <repository name="package_zlib_1_2_8" owner="iuc" prior_installation_required="True"
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15 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="31f1e69aae89" />
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16 </package>
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17
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18 <package name="blast2html_venv" version="0.2">
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19 <install version="1.0">
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20 <actions>
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21 <action type="set_environment_for_install">
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22 <repository name="package_libxml2_2_9_1" owner="jankanis"
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23 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="98807f0505f0">
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24 <package name="libxml2" version="2.9.1" />
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25 </repository>
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26 <repository name="package_libxslt_1_1_28" owner="devteam"
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27 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="039b04adcfee">
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28 <package name="libxslt" version="1.1.28" />
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29 </repository>
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30 <repository name="package_zlib_1_2_8" owner="iuc"
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31 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="31f1e69aae89">
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32 <package name="zlib" version="1.2.8" />
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33 </repository>
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34 </action>
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36 <action type="setup_virtualenv">
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37 jinja2==2.7.3
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38 six==1.7.2
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39 argparse==1.2.1
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40 </action>
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42 <!-- install lxml manually, as the setup_virtualenv action does not include the environment
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43 from set_environment_for_install but shell_command does -->
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44 <action type="shell_command">
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45 export LIBRARY_PATH="$ZLIB_ROOT_PATH/lib:$LIBRARY_PATH"
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46 $INSTALL_DIR/venv/bin/pip install lxml==3.3.5
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47 </action>
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49 <action type="set_environment">
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50 <!-- add libxml2 library path so the runtime can find the shared library -->
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51 <environment_variable name="LD_LIBRARY_PATH" action="prepend_to">$ENV[LIBXML_ROOT_PATH]/lib</environment_variable>
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52 </action>
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53 </actions>
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54 </install>
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55 <readme>A Python 2 virtual environment that includes the python packages blast2html depends on, which are lxml and jinja2.</readme>
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56 </package>
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58 </tool_dependency>