| Next changeset 1:ededc5ef3fc0 (2013-08-12) |
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Commit message:
Uploaded |
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added:
tool_dependencies.xml |
| b |
| diff -r 000000000000 -r 5d0c54f7fea2 tool_dependencies.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_dependencies.xml Sat Jul 06 10:30:00 2013 -0400 |
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| @@ -0,0 +1,45 @@ +<?xml version="1.0"?> +<tool_dependency> + <package name="numpy" version="1.7.1"> + <repository name="package_numpy_1_7" owner="bgruening" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" /> + </package> + <package name="matplotlib" version="1.2.1"> + <repository name="package_matplotlib_1_2" owner="bgruening" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" /> + </package> + <!-- TODO reportlab -> Python Imaging Library + <package name="reportlab" version="1.2.1"> + <repository name="package_reportlab_1_2" owner="bgruening" prior_installation_required="True" /> + </package> + --> + <package name="biopython" version="1.61"> + <install version="1.0"> + <actions> + <action type="download_by_url">https://pypi.python.org/packages/source/b/biopython/biopython-1.61.tar.gz</action> + <action type="set_environment_for_install"> + <repository name="package_matplotlib_1_2" owner="bgruening" toolshed="http://toolshed.g2.bx.psu.edu"> + <package name="matplotlib" version="1.2.1" /> + </repository> + <repository name="package_numpy_1_7" owner="bgruening" toolshed="http://toolshed.g2.bx.psu.edu"> + <package name="numpy" version="1.7.1" /> + </repository> + </action> + + <action type="make_directory">$INSTALL_DIR/lib/python</action> + <action type="shell_command">export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python && + export PATH=$PATH:$PATH_NUMPY && + export PYTHONPATH=$PYTHONPATH:$PYTHONPATH_NUMPY:$PYTHONPATH_MATPLOTLIB && + python setup.py install --home $INSTALL_DIR</action> + <action type="set_environment"> + <environment_variable action="append_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable> + + <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable> + <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable> + <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_MATPLOTLIB]</environment_variable> + + <environment_variable action="set_to" name="PYTHONPATH_BIOPYTHON">$INSTALL_DIR/lib/python</environment_variable> + </action> + </actions> + </install> + <readme>The PYTHONPATH for biopython can be accessed through PYTHONPATH_BIOPYTHON.</readme> + </package> +</tool_dependency> |