Mercurial > repos > iuc > package_python_2_7_deeptools_1_5_10
changeset 8:352cfe69d08e draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_deeptools_1_5_10 commit ab1ab06323702186cf0c883d5774720cbb822cb5-dirty
| author | iuc |
|---|---|
| date | Sat, 23 May 2015 15:05:34 -0400 |
| parents | dfbd18874c87 |
| children | 2cfa2cdcdf79 |
| files | tool_dependencies.xml |
| diffstat | 1 files changed, 2 insertions(+), 89 deletions(-) [+] |
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--- a/tool_dependencies.xml Fri May 22 22:48:19 2015 -0400 +++ b/tool_dependencies.xml Sat May 23 15:05:34 2015 -0400 @@ -1,93 +1,6 @@ <?xml version="1.0"?> <tool_dependency> - <package name="samtools" version="0.1.19"> - <repository changeset_revision="786e3000ca58" name="package_samtools_0_1_19" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> - </package> - <package name="numpy" version="1.9"> - <repository changeset_revision="baf8064f280c" name="package_python_2_7_numpy_1_9" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> - </package> - <package name="matplotlib" version="1.4"> - <repository changeset_revision="513b3bf6cdc3" name="package_python_2_7_matplotlib_1_4" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> - </package> - <package name="scipy" version="0.14"> - <repository changeset_revision="c482361097f5" name="package_python_2_7_scipy_0_14" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> - </package> - <package name="pysam" version="0.8.3"> - <repository changeset_revision="b1cd8e8b8346" name="package_python_2_7_pysam_0_8_3" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> - </package> - <package name="bx-python" version="0.7.2"> - <repository changeset_revision="15a0f73e1325" name="package_python_2_7_bx_python_0_7" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> - </package> - <package name="ucsc_tools" version="0.1"> - <repository changeset_revision="535261946ba0" name="package_ucsc_tools" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> - </package> - <package name="python" version="2.7"> - <repository changeset_revision="00d2c3e43807" name="package_python_2_7" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> + <package name="deepTools" version="1.5.10"> + <repository changeset_revision="dfbd18874c87" name="package_python_2_7_deeptools_1_5_10" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" /> </package> - <package name="deepTools" version="1.5.10"> - <install version="1.0"> - <actions> - <action type="setup_python_environment"> - <repository changeset_revision="00d2c3e43807" name="package_python_2_7" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> - <package name="python" version="2.7" /> - </repository> - <repository changeset_revision="b1cd8e8b8346" name="package_python_2_7_pysam_0_8_3" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu"> - <package name="pysam" version="0.8.3" /> - </repository> - <repository changeset_revision="15a0f73e1325" name="package_python_2_7_bx_python_0_7" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu"> - <package name="bx-python" version="0.7.2" /> - </repository> - <repository changeset_revision="baf8064f280c" name="package_python_2_7_numpy_1_9" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu"> - <package name="numpy" version="1.9" /> - </repository> - <repository changeset_revision="513b3bf6cdc3" name="package_python_2_7_matplotlib_1_4" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu"> - <package name="matplotlib" version="1.4" /> - </repository> - <repository changeset_revision="c482361097f5" name="package_python_2_7_scipy_0_14" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu"> - <package name="scipy" version="0.14" /> - </repository> - <repository changeset_revision="786e3000ca58" name="package_samtools_0_1_19" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu"> - <package name="samtools" version="0.1.19" /> - </repository> - <repository changeset_revision="535261946ba0" name="package_ucsc_tools" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu"> - <package name="ucsc_tools" version="0.1" /> - </repository> - <package>https://github.com/fidelram/deepTools/archive/1.5.10.tar.gz</package> - </action> - - <action type="set_environment"> - <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> - <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR</environment_variable> - <environment_variable action="set_to" name="DEEPTOOLS_ROOT_PATH">$INSTALL_DIR</environment_variable> - <environment_variable action="set_to" name="DEEPTOOLS_PYTHONPATH">$INSTALL_DIR</environment_variable> - <environment_variable action="set_to" name="DEEPTOOLS_PATH">$INSTALL_DIR/bin</environment_variable> - <!-- include samtools into PATH --> - <environment_variable action="prepend_to" name="PATH">$ENV[BAM_ROOT]/bin</environment_variable> - <!-- include numpy --> - <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable> - <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable> - <!-- include matplotlib --> - <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_MATPLOTLIB]</environment_variable> - <!-- include scipy --> - <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_SCIPY]</environment_variable> - <environment_variable action="prepend_to" name="PATH">$ENV[PATH_SCIPY]</environment_variable> - <!-- include bx-python --> - <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_BX_PYTHON]</environment_variable> - <environment_variable action="prepend_to" name="PATH">$ENV[PATH_BX_PYTHON]</environment_variable> - <!-- include pysam --> - <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_PYSAM]</environment_variable> - <environment_variable action="prepend_to" name="PATH">$ENV[PATH_PYSAM]</environment_variable> - <!-- include ucsc tools --> - <environment_variable action="prepend_to" name="PATH">$ENV[UCSC_TOOLS_ROOT_PATH]</environment_variable> - - <!-- disable the config file of deepTools --> - <environment_variable action="set_to" name="DEEP_TOOLS_NO_CONFIG">TRUE</environment_variable> - </action> - </actions> - </install> - <readme> - Installation of deepTools from Fidel Ramirez. - https://github.com/fidelram/deepTools - </readme> - </package> </tool_dependency>