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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_scikit_learn_0_14_with_atlas commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
author iuc
date Tue, 19 May 2015 15:02:15 -0400
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-1:000000000000 0:f316e7893472
1 <?xml version="1.0"?>
2 <tool_dependency>
3 <package name="lapack" version="3.4.2">
4 <repository changeset_revision="98a7d116c15f" name="package_lapack_3_4" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
5 </package>
6 <package name="atlas" version="3.10.1">
7 <repository changeset_revision="37ff27ea37ed" name="package_atlas_3_10" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
8 </package>
9 <package name="numpy" version="1.7.1">
10 <repository changeset_revision="c7ae57300a77" name="package_numpy_1_7" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
11 </package>
12 <package name="scipy" version="0.12.0">
13 <repository changeset_revision="20d1dd0220d7" name="package_scipy_0_12" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
14 </package>
15 <package name="matplotlib" version="1.2.1">
16 <repository changeset_revision="a03ee94316b5" name="package_matplotlib_1_2" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
17 </package>
18
19 <package name="scikit_learn" version="0.14.1">
20 <install version="1.0">
21 <actions>
22 <action type="download_by_url">https://pypi.python.org/packages/source/s/scikit-learn/scikit-learn-0.14.1.tar.gz</action>
23 <action type="set_environment_for_install">
24 <repository changeset_revision="37ff27ea37ed" name="package_atlas_3_10" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
25 <package name="atlas" version="3.10.1" />
26 </repository>
27 <repository changeset_revision="98a7d116c15f" name="package_lapack_3_4" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
28 <package name="lapack" version="3.4.2" />
29 </repository>
30 <repository changeset_revision="c7ae57300a77" name="package_numpy_1_7" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
31 <package name="numpy" version="1.7.1" />
32 </repository>
33 <repository changeset_revision="20d1dd0220d7" name="package_scipy_0_12" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
34 <package name="scipy" version="0.12.0" />
35 </repository>
36 <repository changeset_revision="a03ee94316b5" name="package_matplotlib_1_2" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
37 <package name="matplotlib" version="1.2.1" />
38 </repository>
39 </action>
40
41 <action type="make_directory">$INSTALL_DIR/lib/python</action>
42 <action language="cheetah" type="template_command">
43 export PYTHONPATH=\$PYTHONPATH:$env.INSTALL_DIR/lib/python &amp;&amp;
44
45 #if env.get('ATLAS_LIB_DIR', False):
46 export ATLAS=$env.ATLAS_LIB_DIR/libatlas.a &amp;&amp;
47 #end if
48 #if env.get('LAPACK_LIB_DIR', False):
49 export BLAS=$env.LAPACK_LIB_DIR/libblas.a &amp;&amp;
50 export LAPACK=$env.LAPACK_LIB_DIR/liblapack.a &amp;&amp;
51 #end if
52
53 export PATH=\$PATH:$env.PATH_NUMPY &amp;&amp;
54 export PYTHONPATH=\$PYTHONPATH:$env.PYTHONPATH_NUMPY:$env.PYTHONPATH_SCIPY:$env.PYTHONPATH_MATPLOTLIB &amp;&amp;
55
56 python setup.py install --install-lib $env.INSTALL_DIR/lib/python
57 </action>
58 <action type="set_environment">
59 <environment_variable action="append_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
60 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
61 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable>
62 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable>
63 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_SCIPY]</environment_variable>
64 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_SCIPY]</environment_variable>
65 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_MATPLOTLIB]</environment_variable>
66
67 <environment_variable action="set_to" name="PYTHONPATH_SCIKIT_LEARN">$INSTALL_DIR/lib/python</environment_variable>
68 </action>
69 </actions>
70 </install>
71 <readme>
72 Compiling scikit-learn requires a C compiler (typically gcc).
73 The PYTHONPATH for scikit-learn can be accessed through PYTHONPATH_SCIKIT_LEARN.
74
75 Wrapper development: https://github.com/bgruening/galaxytools/tree/master/orphan_tool_dependencies
76 </readme>
77 </package>
78 </tool_dependency>