Mercurial > repos > nml > package_python_3_4_biopython_1_66

annotate tool_dependencies.xml @ 0:cb43753d0467 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
author nml
date Thu, 07 Jul 2016 09:56:45 -0400
parents
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
1 <?xml version="1.0"?>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
2 <tool_dependency>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
3 <package name="python" version="3.4">
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
4 <repository changeset_revision="20ecf5cd3c0e" name="package_python_3_4" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
5 </package>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
6 <package name="numpy" version="1.10.1">
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
7 <repository changeset_revision="f182da2b1d78" name="package_python_3_4_numpy_1_10_1" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
8 </package>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
9 <package name="biopython" version="1.66">
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
10 <install version="1.0">
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
11 <actions>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
12 <action type="download_by_url">http://biopython.org/DIST/biopython-1.66.tar.gz</action>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
13 <action type="set_environment_for_install">
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
14 <repository changeset_revision="f182da2b1d78" name="package_python_3_4_numpy_1_10_1" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu">
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
15 <package name="numpy" version="1.10.1" />
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
16 </repository>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
17 <repository changeset_revision="20ecf5cd3c0e" name="package_python_3_4" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
18 <package name="python" version="3.4" />
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
19 </repository>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
20 </action>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
21 <action type="make_directory">$INSTALL_DIR/lib/python</action>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
22 <action type="shell_command">
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
23 export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp;
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
24 export PATH=$PATH:$PATH_NUMPY &amp;&amp;
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
25 export PYTHONPATH=$PYTHONPATH:$PYTHONPATH_NUMPY:$PYTHONPATH_MATPLOTLIB &amp;&amp;
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
26 python3 setup.py install --install-lib $INSTALL_DIR/lib/python
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
27 </action>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
28 <action type="set_environment">
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
29 <environment_variable action="append_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
30 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
31 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
32 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_MATPLOTLIB]</environment_variable>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
33 <environment_variable action="set_to" name="PYTHONPATH_BIOPYTHON">$INSTALL_DIR/lib/python</environment_variable>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
34 </action>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
35 </actions>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
36 </install>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
37 <readme>The PYTHONPATH for biopython can be accessed through PYTHONPATH_BIOPYTHON.</readme>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
38 </package>
cb43753d0467 planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_biopython_1_66 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa
nml
parents:
diff changeset
39 </tool_dependency>