Mercurial > repos > iuc > package_scikit_learn_0_14_with_atlas
annotate tool_dependencies.xml @ 9:448759e70b30 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_scikit_learn_0_14_with_atlas commit bd736b6361ba659a1251dd1a1a05f7e3b633bdf5
| author | iuc |
|---|---|
| date | Tue, 22 Dec 2015 19:39:22 -0500 |
| parents | 9df42e07519a |
| children |
| rev | line source |
|---|---|
| 0 | 1 <?xml version="1.0"?> |
| 2 <tool_dependency> | |
| 3 <package name="lapack" version="3.4.2"> | |
|
9
448759e70b30
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_scikit_learn_0_14_with_atlas commit bd736b6361ba659a1251dd1a1a05f7e3b633bdf5
iuc
parents:
8
diff
changeset
|
4 <repository changeset_revision="b5caa0c1be7b" name="package_lapack_3_4" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> |
| 0 | 5 </package> |
| 6 <package name="atlas" version="3.10.1"> | |
|
7
49fcd59ac618
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_scikit_learn_0_14_with_atlas commit e6f0b88b7a59f0a10827fd55436b137b13cd1921
iuc
parents:
6
diff
changeset
|
7 <repository changeset_revision="86b7c19454fa" name="package_atlas_3_10" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> |
| 0 | 8 </package> |
| 9 <package name="numpy" version="1.7.1"> | |
|
7
49fcd59ac618
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_scikit_learn_0_14_with_atlas commit e6f0b88b7a59f0a10827fd55436b137b13cd1921
iuc
parents:
6
diff
changeset
|
10 <repository changeset_revision="5c489d2d630b" name="package_numpy_1_7" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> |
| 0 | 11 </package> |
| 12 <package name="scipy" version="0.12.0"> | |
|
8
9df42e07519a
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_scikit_learn_0_14_with_atlas commit c5b99dd9482d52035bbfec5ac717f60ef968e989-dirty
iuc
parents:
7
diff
changeset
|
13 <repository changeset_revision="63808602082c" name="package_scipy_0_12" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> |
| 0 | 14 </package> |
| 15 <package name="matplotlib" version="1.2.1"> | |
|
9
448759e70b30
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_scikit_learn_0_14_with_atlas commit bd736b6361ba659a1251dd1a1a05f7e3b633bdf5
iuc
parents:
8
diff
changeset
|
16 <repository changeset_revision="8df10d8dc7f5" name="package_matplotlib_1_2" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> |
| 0 | 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"> | |
|
7
49fcd59ac618
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_scikit_learn_0_14_with_atlas commit e6f0b88b7a59f0a10827fd55436b137b13cd1921
iuc
parents:
6
diff
changeset
|
24 <repository changeset_revision="86b7c19454fa" name="package_atlas_3_10" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> |
| 0 | 25 <package name="atlas" version="3.10.1" /> |
| 26 </repository> | |
|
9
448759e70b30
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_scikit_learn_0_14_with_atlas commit bd736b6361ba659a1251dd1a1a05f7e3b633bdf5
iuc
parents:
8
diff
changeset
|
27 <repository changeset_revision="b5caa0c1be7b" name="package_lapack_3_4" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> |
| 0 | 28 <package name="lapack" version="3.4.2" /> |
| 29 </repository> | |
|
7
49fcd59ac618
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_scikit_learn_0_14_with_atlas commit e6f0b88b7a59f0a10827fd55436b137b13cd1921
iuc
parents:
6
diff
changeset
|
30 <repository changeset_revision="5c489d2d630b" name="package_numpy_1_7" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> |
| 0 | 31 <package name="numpy" version="1.7.1" /> |
| 32 </repository> | |
|
8
9df42e07519a
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_scikit_learn_0_14_with_atlas commit c5b99dd9482d52035bbfec5ac717f60ef968e989-dirty
iuc
parents:
7
diff
changeset
|
33 <repository changeset_revision="63808602082c" name="package_scipy_0_12" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> |
| 0 | 34 <package name="scipy" version="0.12.0" /> |
| 35 </repository> | |
|
9
448759e70b30
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_scikit_learn_0_14_with_atlas commit bd736b6361ba659a1251dd1a1a05f7e3b633bdf5
iuc
parents:
8
diff
changeset
|
36 <repository changeset_revision="8df10d8dc7f5" name="package_matplotlib_1_2" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> |
| 0 | 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 && | |
| 44 | |
| 45 #if env.get('ATLAS_LIB_DIR', False): | |
| 46 export ATLAS=$env.ATLAS_LIB_DIR/libatlas.a && | |
| 47 #end if | |
| 48 #if env.get('LAPACK_LIB_DIR', False): | |
| 49 export BLAS=$env.LAPACK_LIB_DIR/libblas.a && | |
| 50 export LAPACK=$env.LAPACK_LIB_DIR/liblapack.a && | |
| 51 #end if | |
| 52 | |
| 53 export PATH=\$PATH:$env.PATH_NUMPY && | |
| 54 export PYTHONPATH=\$PYTHONPATH:$env.PYTHONPATH_NUMPY:$env.PYTHONPATH_SCIPY:$env.PYTHONPATH_MATPLOTLIB && | |
| 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> |