Mercurial > repos > dpryan79 > package_python_2_7_10_deeptools_2_0_0
changeset 0:fb99562582d7 draft
Uploaded
| author | dpryan79 |
|---|---|
| date | Wed, 02 Dec 2015 10:13:19 -0500 |
| parents | |
| children | 2cc21210969f |
| files | tool_dependencies.xml |
| diffstat | 1 files changed, 84 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_dependencies.xml Wed Dec 02 10:13:19 2015 -0500 @@ -0,0 +1,84 @@ +<?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="db045339112b" 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="f05de70312d0" 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="68c8bff2b07b" 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="b6a9c72acd7e" 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="0fc815b1609d" 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="312"> + <repository changeset_revision="ceda74761368" name="package_ucsc_tools_312" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> + </package> + <!-- The updated iuc versions aren't in the toolshed yet --> + <package name="pybigwig" version="0.1.9"> + <repository changeset_revision="7af2c2f2ed3b" name="package_python_2_7_pybigwig" owner="dpryan79" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> + </package> + <package name="python" version="2.7.10"> + <repository changeset_revision="a9a28015c0ce" name="test_package_python_2_7_10" owner="dpryan79" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> + </package> + <package name="deepTools" version="2.0.0"> + <install version="1.0"> + <actions> + <action type="setup_python_environment"> + <repository changeset_revision="a9a28015c0ce" name="test_package_python_2_7_10" owner="dpryan79" toolshed="https://testtoolshed.g2.bx.psu.edu"> + <package name="python" version="2.7.10" /> + </repository> + <repository changeset_revision="b6a9c72acd7e" name="package_python_2_7_pysam_0_8_3" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> + <package name="pysam" version="0.8.3" /> + </repository> + <repository changeset_revision="db045339112b" name="package_python_2_7_numpy_1_9" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> + <package name="numpy" version="1.9" /> + </repository> + <repository changeset_revision="f05de70312d0" name="package_python_2_7_matplotlib_1_4" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> + <package name="matplotlib" version="1.4" /> + </repository> + <repository changeset_revision="68c8bff2b07b" name="package_python_2_7_scipy_0_14" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> + <package name="scipy" version="0.14" /> + </repository> + <repository changeset_revision="0fc815b1609d" name="package_python_2_7_bx_python_0_7" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> + <package name="bx-python" version="0.7.2" /> + </repository> + <repository changeset_revision="786e3000ca58" name="package_samtools_0_1_19" owner="devteam" toolshed="https://testtoolshed.g2.bx.psu.edu"> + <package name="samtools" version="0.1.19" /> + </repository> + <repository changeset_revision="ceda74761368" name="package_ucsc_tools_312" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> + <package name="ucsc_tools" version="312" /> + </repository> + <repository changeset_revision="7af2c2f2ed3b" name="package_python_2_7_pybigwig" owner="dpryan79" toolshed="https://testtoolshed.g2.bx.psu.edu"> + <package name="pybigwig" version="0.1.9" /> + </repository> + <package>https://github.com/dpryan79/deepTools/archive/1.6.1.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">$INSTALL_DIR/bin</environment_variable> + <!-- libpng lib path --> + <environment_variable action="set_to" name="LIBPNG_LIB_PATH">$ENV[LIBPNG_LIB_PATH]</environment_variable> + <environment_variable action="prepend_to" name="LD_LIBRARY_PATH">$ENV[LIBPNG_LIB_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>