Mercurial > repos > iuc > package_python_2_7_deeptools_1_5_10

comparison tool_dependencies.xml @ 2:f5929e04efc6 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_deeptools_1_5_10 commit 5a986267144da2093f820e1833325fd3d5902c7d-dirty
author iuc
date Sun, 17 May 2015 17:27:14 -0400
parents fde32464913e
children b99bbf01b36b
comparison
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1:fde32464913e 2:f5929e04efc6
2 <tool_dependency> 2 <tool_dependency>
3 <package name="samtools" version="0.1.19"> 3 <package name="samtools" version="0.1.19">
4 <repository changeset_revision="786e3000ca58" name="package_samtools_0_1_19" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> 4 <repository changeset_revision="786e3000ca58" name="package_samtools_0_1_19" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
5 </package> 5 </package>
6 <package name="numpy" version="1.9"> 6 <package name="numpy" version="1.9">
7 <repository changeset_revision="1b7d6172a358" name="package_python_2_7_numpy_1_9" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> 7 <repository changeset_revision="67d8bb2369e2" name="package_python_2_7_numpy_1_9" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
8 </package> 8 </package>
9 <package name="matplotlib" version="1.4"> 9 <package name="matplotlib" version="1.4">
10 <repository changeset_revision="652ee3afbd12" name="package_python_2_7_matplotlib_1_4" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> 10 <repository changeset_revision="30fcaadeb700" name="package_python_2_7_matplotlib_1_4" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
11 </package> 11 </package>
12 <package name="scipy" version="0.14"> 12 <package name="scipy" version="0.14">
13 <repository changeset_revision="b24af010d80a" name="package_python_2_7_scipy_0_14" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> 13 <repository changeset_revision="b6904bdb14c4" name="package_python_2_7_scipy_0_14" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
14 </package> 14 </package>
15 <package name="pysam" version="0.8.3"> 15 <package name="pysam" version="0.8.3">
16 <repository changeset_revision="d2acc22011f9" name="package_python_2_7_pysam_0_8_3" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> 16 <repository changeset_revision="d2acc22011f9" name="package_python_2_7_pysam_0_8_3" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
17 </package> 17 </package>
18 <package name="bx-python" version="0.7.2"> 18 <package name="bx-python" version="0.7.2">
19 <repository changeset_revision="2ded28a666c7" name="package_python_2_7_bx_python_0_7" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> 19 <repository changeset_revision="2ac1c3874d55" name="package_python_2_7_bx_python_0_7" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
20 </package> 20 </package>
21 <package name="ucsc_tools" version="0.1"> 21 <package name="ucsc_tools" version="0.1">
22 <repository changeset_revision="535261946ba0" name="package_ucsc_tools" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> 22 <repository changeset_revision="535261946ba0" name="package_ucsc_tools" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
23 </package> 23 </package>
24 <package name="python" version="2.7"> 24 <package name="python" version="2.7">
32 <package name="python" version="2.7" /> 32 <package name="python" version="2.7" />
33 </repository> 33 </repository>
34 <repository changeset_revision="d2acc22011f9" name="package_python_2_7_pysam_0_8_3" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu"> 34 <repository changeset_revision="d2acc22011f9" name="package_python_2_7_pysam_0_8_3" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu">
35 <package name="pysam" version="0.8.3" /> 35 <package name="pysam" version="0.8.3" />
36 </repository> 36 </repository>
37 <repository changeset_revision="2ded28a666c7" name="package_python_2_7_bx_python_0_7" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu"> 37 <repository changeset_revision="2ac1c3874d55" name="package_python_2_7_bx_python_0_7" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu">
38 <package name="bx-python" version="0.7.2" /> 38 <package name="bx-python" version="0.7.2" />
39 </repository> 39 </repository>
40 <repository changeset_revision="1b7d6172a358" name="package_python_2_7_numpy_1_9" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu"> 40 <repository changeset_revision="67d8bb2369e2" name="package_python_2_7_numpy_1_9" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu">
41 <package name="numpy" version="1.9" /> 41 <package name="numpy" version="1.9" />
42 </repository> 42 </repository>
43 <repository changeset_revision="652ee3afbd12" name="package_python_2_7_matplotlib_1_4" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu"> 43 <repository changeset_revision="30fcaadeb700" name="package_python_2_7_matplotlib_1_4" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu">
44 <package name="matplotlib" version="1.4" /> 44 <package name="matplotlib" version="1.4" />
45 </repository> 45 </repository>
46 <repository changeset_revision="b24af010d80a" name="package_python_2_7_scipy_0_14" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu"> 46 <repository changeset_revision="b6904bdb14c4" name="package_python_2_7_scipy_0_14" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu">
47 <package name="scipy" version="0.14" /> 47 <package name="scipy" version="0.14" />
48 </repository> 48 </repository>
49 <repository changeset_revision="786e3000ca58" name="package_samtools_0_1_19" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu"> 49 <repository changeset_revision="786e3000ca58" name="package_samtools_0_1_19" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu">
50 <package name="samtools" version="0.1.19" /> 50 <package name="samtools" version="0.1.19" />
51 </repository> 51 </repository>
57 57
58 <action type="set_environment"> 58 <action type="set_environment">
59 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> 59 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
60 <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR</environment_variable> 60 <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR</environment_variable>
61 <environment_variable action="set_to" name="DEEPTOOLS_ROOT_PATH">$INSTALL_DIR</environment_variable> 61 <environment_variable action="set_to" name="DEEPTOOLS_ROOT_PATH">$INSTALL_DIR</environment_variable>
62 <environment_variable action="set_to" name="DEEPTOOLS_PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable> 62 <environment_variable action="set_to" name="DEEPTOOLS_PYTHONPATH">$INSTALL_DIR</environment_variable>
63 <environment_variable action="set_to" name="DEEPTOOLS_PATH">$INSTALL_DIR/bin</environment_variable> 63 <environment_variable action="set_to" name="DEEPTOOLS_PATH">$INSTALL_DIR/bin</environment_variable>
64 <!-- include samtools into PATH --> 64 <!-- include samtools into PATH -->
65 <environment_variable action="prepend_to" name="PATH">$ENV[BAM_ROOT]/bin</environment_variable> 65 <environment_variable action="prepend_to" name="PATH">$ENV[BAM_ROOT]/bin</environment_variable>
66 <!-- include numpy --> 66 <!-- include numpy -->
67 <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable> 67 <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable>
68 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable> 68 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable>
69 <!-- include matplotlib --> 69 <!-- include matplotlib -->
70 <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_MATPLOTLIB]</environment_variable> 70 <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_MATPLOTLIB]</environment_variable>
71 <environment_variable action="prepend_to" name="LD_LIBRARY_PATH">$ENV[MATPLOTLIB_LIB_PATH]</environment_variable>
72 <!-- include scipy --> 71 <!-- include scipy -->
73 <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_SCIPY]</environment_variable> 72 <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_SCIPY]</environment_variable>
74 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_SCIPY]</environment_variable> 73 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_SCIPY]</environment_variable>
75 <!-- include bx-python --> 74 <!-- include bx-python -->
76 <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[BX_PYTHON_PATH]/lib/python</environment_variable> 75 <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_BX_PYTHON]</environment_variable>
77 <environment_variable action="prepend_to" name="PATH">$ENV[BX_PYTHON_PATH]/bin</environment_variable> 76 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_BX_PYTHON]</environment_variable>
78 <!-- include pysam --> 77 <!-- include pysam -->
79 <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYSAM_PATH]/lib/python</environment_variable> 78 <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_PYSAM]</environment_variable>
80 <environment_variable action="prepend_to" name="PATH">$ENV[PYSAM_PATH]/bin</environment_variable> 79 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_PYSAM]</environment_variable>
81 <!-- include ucsc tools --> 80 <!-- include ucsc tools -->
82 <environment_variable action="prepend_to" name="PATH">$ENV[UCSC_TOOLS_ROOT_PATH]</environment_variable> 81 <environment_variable action="prepend_to" name="PATH">$ENV[UCSC_TOOLS_ROOT_PATH]</environment_variable>
83 82
84 <!-- disable the config file of deepTools --> 83 <!-- disable the config file of deepTools -->
85 <environment_variable action="set_to" name="DEEP_TOOLS_NO_CONFIG">TRUE</environment_variable> 84 <environment_variable action="set_to" name="DEEP_TOOLS_NO_CONFIG">TRUE</environment_variable>