Mercurial > repos > biopython > package_biopython_1_67
comparison tool_dependencies.xml @ 0:fc45a61abc2f draft default tip
Adding SHA256 checksum
author | peterjc |
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date | Wed, 19 Oct 2016 10:20:54 -0400 |
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1 <?xml version="1.0"?> | |
2 <tool_dependency> | |
3 <package name="numpy" version="1.9"> | |
4 <repository changeset_revision="1e2b7e63dec2" name="package_numpy_1_9" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> | |
5 </package> | |
6 <package name="biopython" version="1.67"> | |
7 <readme> | |
8 This Galaxy Tool Shed package installs Biopython from source, having | |
9 first installed NumPy which is a build time depencency. This requires | |
10 and assumes a standard C compiler is already installed, along with | |
11 the Python header files. | |
12 | |
13 Development of this dependency definition is being done here on GitHub: | |
14 https://github.com/biopython/galaxy_packages | |
15 | |
16 The PYTHONPATH for biopython can be accessed through PYTHONPATH_BIOPYTHON. | |
17 </readme> | |
18 <install version="1.0"> | |
19 <actions> | |
20 <action sha256sum="dd26fab41ebd042a6f04f882ff790b6fa835f8c013007a21ce00af3c19530168" type="download_by_url">https://pypi.python.org/packages/source/b/biopython/biopython-1.67.tar.gz</action> | |
21 <action type="set_environment_for_install"> | |
22 <repository changeset_revision="1e2b7e63dec2" name="package_numpy_1_9" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> | |
23 <package name="numpy" version="1.9" /> | |
24 </repository> | |
25 </action> | |
26 <action type="make_directory">$INSTALL_DIR/lib/python</action> | |
27 <action type="shell_command"> | |
28 export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python && | |
29 export PATH=$PATH:$PATH_NUMPY && | |
30 export PYTHONPATH=$PYTHONPATH:$PYTHONPATH_NUMPY && | |
31 python setup.py install --install-lib $INSTALL_DIR/lib/python | |
32 </action> | |
33 <action type="set_environment"> | |
34 <environment_variable action="append_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable> | |
35 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable> | |
36 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable> | |
37 <environment_variable action="set_to" name="PYTHONPATH_BIOPYTHON">$INSTALL_DIR/lib/python</environment_variable> | |
38 </action> | |
39 </actions> | |
40 </install> | |
41 </package> | |
42 </tool_dependency> |