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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="1.7.1">
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2
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4 <repository changeset_revision="84125ffacb90" name="package_numpy_1_7" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
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5 </package>
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6 <package name="scipy" version="0.12.0">
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2
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7 <repository changeset_revision="4b2ef8519550" name="package_scipy_0_12" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
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8 </package>
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9 <package name="matplotlib" version="1.2.1">
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2
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10 <repository changeset_revision="85b7ddf90888" name="package_matplotlib_1_2" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
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11 </package>
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12 <package name="scikit_learn" version="0.14.1">
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13 <install version="1.0">
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14 <actions>
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15 <action type="download_by_url">https://pypi.python.org/packages/source/s/scikit-learn/scikit-learn-0.14.1.tar.gz</action>
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16 <action type="set_environment_for_install">
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2
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17 <repository changeset_revision="73854db866e7" name="package_lapack_3_4" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu">
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18 <package name="lapack" version="3.4.2" />
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19 </repository>
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2
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20 <repository changeset_revision="84125ffacb90" name="package_numpy_1_7" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu">
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21 <package name="numpy" version="1.7.1" />
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22 </repository>
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2
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23 <repository changeset_revision="4b2ef8519550" name="package_scipy_0_12" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu">
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24 <package name="scipy" version="0.12.0" />
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25 </repository>
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2
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26 <repository changeset_revision="85b7ddf90888" name="package_matplotlib_1_2" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu">
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27 <package name="matplotlib" version="1.2.1" />
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28 </repository>
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29 </action>
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30
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31 <action type="make_directory">$INSTALL_DIR/lib/python</action>
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32 <action language="cheetah" type="template_command">
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33 export PYTHONPATH=\$PYTHONPATH:$env.INSTALL_DIR/lib/python &&
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34
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35 export PATH=\$PATH:$env.PATH_NUMPY &&
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36 export PYTHONPATH=\$PYTHONPATH:$env.PYTHONPATH_NUMPY:$env.PYTHONPATH_SCIPY:$env.PYTHONPATH_MATPLOTLIB &&
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37
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38 python setup.py install --install-lib $env.INSTALL_DIR/lib/python
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39 </action>
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40 <action type="set_environment">
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2
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41 <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
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42 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
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2
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43 <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable>
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44 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable>
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2
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45 <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_SCIPY]</environment_variable>
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46 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_SCIPY]</environment_variable>
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2
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47 <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_MATPLOTLIB]</environment_variable>
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48
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49 <environment_variable action="set_to" name="PYTHONPATH_SCIKIT_LEARN">$INSTALL_DIR/lib/python</environment_variable>
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50 </action>
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51 </actions>
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52 </install>
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53 <readme>
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54 Compiling scikit-learn requires a C compiler (typically gcc).
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55 The PYTHONPATH for scikit-learn can be accessed through PYTHONPATH_SCIKIT_LEARN.
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56
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57 Wrapper development: https://github.com/bgruening/galaxytools/tree/master/orphan_tool_dependencies
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58 </readme>
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59 </package>
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60 </tool_dependency>
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