comparison tool_dependencies.xml @ 1:af0cf1f508fa draft

planemo upload for repository https://github.com/phac-nml/galaxy_tools/tree/master/packages/package_python_3_4_hivtrace_0_1_4 commit e2554dc878f6abf1c02ed9e6e4f4440ed32b02aa-dirty
author nml
date Thu, 07 Jul 2016 13:43:14 -0400
parents 38541eaf0d20
children 8ba7ea2370cb
comparison
equal deleted inserted replaced
0:38541eaf0d20 1:af0cf1f508fa
4 <repository changeset_revision="20ecf5cd3c0e" name="package_python_3_4" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> 4 <repository changeset_revision="20ecf5cd3c0e" name="package_python_3_4" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
5 </package> 5 </package>
6 <package name="cmake" version="3.2.3"> 6 <package name="cmake" version="3.2.3">
7 <repository changeset_revision="1aea698a1c63" name="package_cmake_3_2_3" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> 7 <repository changeset_revision="1aea698a1c63" name="package_cmake_3_2_3" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
8 </package> 8 </package>
9 <package name="hyphy" version="2.2.6"> 9 <package name="hyphy-python" version="0.1.3">
10 <repository changeset_revision="6e10967fdc7a" name="package_python_3_4_hyphy_2_2_6" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> 10 <repository changeset_revision="5c14a49141f0" name="package_python_3_4_hyphy_python_0_1_3" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
11 </package> 11 </package>
12 <package name="pysam" version="0.8.3"> 12 <package name="pysam" version="0.8.3">
13 <repository changeset_revision="085a17b297b1" name="package_python_3_4_pysam_0_8_3" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> 13 <repository changeset_revision="085a17b297b1" name="package_python_3_4_pysam_0_8_3" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
14 </package> 14 </package>
15 <package name="numpy" version="1.10.1"> 15 <package name="numpy" version="1.10.1">
17 </package> 17 </package>
18 <package name="biopython" version="1.66"> 18 <package name="biopython" version="1.66">
19 <repository changeset_revision="cb43753d0467" name="package_python_3_4_biopython_1_66" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> 19 <repository changeset_revision="cb43753d0467" name="package_python_3_4_biopython_1_66" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
20 </package> 20 </package>
21 <package name="bioext" version="0.17.3"> 21 <package name="bioext" version="0.17.3">
22 <repository changeset_revision="d71e21675123" name="package_python_3_4_bioext_0_17_3" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> 22 <repository changeset_revision="1ca9f5fd8b65" name="package_python_3_4_bioext_0_17_3" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
23 </package>
24 <package name="cython" version="0.23.4">
25 <repository changeset_revision="52c11d398790" name="package_python_3_4_cython_0_23_4" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
26 </package>
27 <package name="fakemp" version="0.9.1">
28 <repository changeset_revision="13da2754601c" name="package_python_3_4_fakemp_0_9_1" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
23 </package> 29 </package>
24 <package name="hppy" version="0.9.6"> 30 <package name="hppy" version="0.9.6">
25 <repository changeset_revision="ded93000c5da" name="package_python_3_4_hppy_0_9_6" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> 31 <repository changeset_revision="46decde5b780" name="package_python_3_4_hppy_0_9_6" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
26 </package> 32 </package>
27 <package name="hivclustering" version="1.2.3"> 33 <package name="hivclustering" version="1.2.3">
28 <repository changeset_revision="594976628691" name="package_python_3_4_hivclustering_1_2_3" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> 34 <repository changeset_revision="eda1cbde6572" name="package_python_3_4_hivclustering_1_2_3" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
29 </package> 35 </package>
30 <package name="tn93" version="1.0.2"> 36 <package name="tn93" version="1.0.2">
31 <repository changeset_revision="e1abbe60f3d4" name="package_tn93_1_0_2" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> 37 <repository changeset_revision="e1abbe60f3d4" name="package_tn93_1_0_2" owner="nml" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
32 </package> 38 </package>
33 <package name="hivtrace" version="0.1.4"> 39 <package name="hivtrace" version="0.1.4">
34 <install version="1.0"> 40 <install version="1.0">
35 <actions> 41 <actions>
36 <action type="download_by_url">https://github.com/veg/hivtrace/archive/0.1.4.tar.gz</action> 42 <action type="download_by_url">https://github.com/veg/hivtrace/archive/0.1.4.tar.gz</action>
37 <action type="set_environment_for_install"> 43 <action type="set_environment_for_install">
38 <repository changeset_revision="6e10967fdc7a" name="package_python_3_4_hyphy_2_2_6" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu"> 44 <repository changeset_revision="5c14a49141f0" name="package_python_3_4_hyphy_python_0_1_3" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu">
39 <package name="hyphy" version="2.2.6" /> 45 <package name="hyphy-python" version="0.1.3" />
40 </repository> 46 </repository>
41 <repository changeset_revision="085a17b297b1" name="package_python_3_4_pysam_0_8_3" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu"> 47 <repository changeset_revision="085a17b297b1" name="package_python_3_4_pysam_0_8_3" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu">
42 <package name="pysam" version="0.8.3" /> 48 <package name="pysam" version="0.8.3" />
43 </repository> 49 </repository>
44 <repository changeset_revision="f182da2b1d78" name="package_python_3_4_numpy_1_10_1" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu"> 50 <repository changeset_revision="f182da2b1d78" name="package_python_3_4_numpy_1_10_1" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu">
45 <package name="numpy" version="1.10.1" /> 51 <package name="numpy" version="1.10.1" />
46 </repository> 52 </repository>
47 <repository changeset_revision="cb43753d0467" name="package_python_3_4_biopython_1_66" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu"> 53 <repository changeset_revision="cb43753d0467" name="package_python_3_4_biopython_1_66" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu">
48 <package name="biopython" version="1.66" /> 54 <package name="biopython" version="1.66" />
49 </repository> 55 </repository>
50 <repository changeset_revision="d71e21675123" name="package_python_3_4_bioext_0_17_3" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu"> 56 <repository changeset_revision="1ca9f5fd8b65" name="package_python_3_4_bioext_0_17_3" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu">
51 <package name="bioext" version="0.17.3" /> 57 <package name="bioext" version="0.17.3" />
52 </repository> 58 </repository>
53 <repository changeset_revision="594976628691" name="package_python_3_4_hivclustering_1_2_3" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu"> 59 <repository changeset_revision="eda1cbde6572" name="package_python_3_4_hivclustering_1_2_3" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu">
54 <package name="hivclustering" version="1.2.3" /> 60 <package name="hivclustering" version="1.2.3" />
61 </repository>
62 <repository changeset_revision="52c11d398790" name="package_python_3_4_cython_0_23_4" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu">
63 <package name="cython" version="0.23.4" />
64 </repository>
65 <repository changeset_revision="13da2754601c" name="package_python_3_4_fakemp_0_9_1" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu">
66 <package name="fakemp" version="0.9.1" />
67 </repository>
68 <repository changeset_revision="46decde5b780" name="package_python_3_4_hppy_0_9_6" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu">
69 <package name="hppy" version="0.9.6" />
55 </repository> 70 </repository>
56 <repository changeset_revision="e1abbe60f3d4" name="package_tn93_1_0_2" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu"> 71 <repository changeset_revision="e1abbe60f3d4" name="package_tn93_1_0_2" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu">
57 <package name="tn93" version="1.0.2" /> 72 <package name="tn93" version="1.0.2" />
58 </repository> 73 </repository>
59 <repository changeset_revision="20ecf5cd3c0e" name="package_python_3_4" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu"> 74 <repository changeset_revision="20ecf5cd3c0e" name="package_python_3_4" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
74 <environment_variable action="append_to" name="PYTHONPATH">$INSTALL_DIR</environment_variable> 89 <environment_variable action="append_to" name="PYTHONPATH">$INSTALL_DIR</environment_variable>
75 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_BIOPYTHON]</environment_variable> 90 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_BIOPYTHON]</environment_variable>
76 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_BIOEXT]</environment_variable> 91 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_BIOEXT]</environment_variable>
77 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable> 92 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable>
78 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_PYSAM]</environment_variable> 93 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_PYSAM]</environment_variable>
94 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_HYPHY_PYTHON]</environment_variable>
95 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_CYTHON]</environment_variable>
96 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_HIVCLUSTERING]</environment_variable>
97 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_FAKEMP]</environment_variable>
98 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_HPPY]</environment_variable>
79 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable> 99 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable>
80 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_PYSAM]</environment_variable> 100 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_PYSAM]</environment_variable>
81 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> 101 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
82 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_HIVCLUSTERING]</environment_variable> 102 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_HIVCLUSTERING]</environment_variable>
83 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_BIOEXT]</environment_variable> 103 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_BIOEXT]</environment_variable>