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1 <?xml version="1.0"?>
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2 <tool_dependency>
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3 <package name="openssl" version="1.0.1g">
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4 <repository changeset_revision="e459a9ce3fce" name="package_openssl" owner="jankanis" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" />
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5 </package>
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6
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7 <package name="python3" version="3.4.1">
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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://www.python.org/ftp/python/3.4.1/Python-3.4.1.tgz</action>
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11 <action type="set_environment_for_install">
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12 <repository changeset_revision="e459a9ce3fce" name="package_openssl" owner="jankanis" toolshed="http://toolshed.g2.bx.psu.edu">
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13 <package name="openssl" version="1.0.1g" />
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14 </repository>
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15 </action>
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16 <action type="autoconf">--prefix=$INSTALL_DIR</action>
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17 <action type="set_environment">
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18 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
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19 <!-- empty PYTHONPATH, otherwise we will get Galaxy's Python 2 libraries in the Python 3 path-->
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20 <environment_variable action="set_to" name="PYTHONPATH" />
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21 <environment_variable action="set_to" name="PYTHONHOME">$INSTALL_DIR</environment_variable>
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22 </action>
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23 </actions>
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24 </install>
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25
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26 <readme>
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27 Python 3.4.1. Configured with the default settings, using --prefix=$INSTALL_DIR.
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28
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29 Python as of version 3.3 includes a built-in virtual environment manager. To create a python 3 virtual env, include the following actions in your tool_dependencies.xml:
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30
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31 <action type="set_environment_for_install">
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32 <repository name="python3" owner="jankanis">
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33 <package name="python3" version="3.4.1" />
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34 </repository>
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35 </action>
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36 <action type="shell_command">
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37 # Unset any saved environment settings from parent virtual
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38 # environments, e.g. for python 2 or if Galaxy itself is running
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39 # from within a virtual environment.
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40 unset _OLD_VIRTUAL_PATH; unset _OLD_VIRTUAL_PYTHONHOME
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41 pyvenv {{$MY_PACKAGE_NAME}}
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42 . {{$MY_PACKAGE_NAME}}/bin/activate
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43 pip install {{$PYTHON-PACKAGE}}
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44 </action>
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45 <action type="set_environment">
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46 <environment_variable name="PYTHONPATH" action="prepend_to">$INSTALL_DIR/lib/python3.4/site-packages:$INSTALL_DIR/lib64/python3.4/iste-packages</environment_variable>
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47 </action>
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48
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49 </readme>
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50
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51 </package>
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52 </tool_dependency>
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