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comparison tool_dependencies.xml @ 7:7ed66f11cdcc draft

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Install bx_python dependency from toolshed.
author pjbriggs
date Tue, 18 Oct 2016 08:09:31 -0400
parents 55ed5e1b7a07
children c9c4792d0876
comparison
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6:55ed5e1b7a07 7:7ed66f11cdcc
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool_dependency> 2 <tool_dependency>
3 <!-- R 3.1.2 from main/test toolshed --> 3 <!-- R 3.1.2 from main/test toolshed -->
4 <package name="R" version="3.1.2"> 4 <package name="R" version="3.1.2">
5 <repository changeset_revision="1ca39eb16186" name="package_r_3_1_2" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> 5 <repository changeset_revision="1ca39eb16186" name="package_r_3_1_2" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
6 </package>
7 <!-- bx_python from main/test toolshed -->
8 <package name="bx_python" version="0.7.1">
9 <repository changeset_revision="6a811020ff2f" name="package_bx_python_0_7" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
6 </package> 10 </package>
7 <!-- Python mysqldb package --> 11 <!-- Python mysqldb package -->
8 <package name="python_mysqldb" version="1.2.5"> 12 <package name="python_mysqldb" version="1.2.5">
9 <install version="1.0"> 13 <install version="1.0">
10 <actions> 14 <actions>
19 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> 23 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
20 </action> 24 </action>
21 </actions> 25 </actions>
22 </install> 26 </install>
23 <readme>Installs Python module MySQLdb 1.2.5</readme> 27 <readme>Installs Python module MySQLdb 1.2.5</readme>
24 </package>
25 <!-- bx_python
26 This is cribbed from devteam's 'package_bx_python_0_7' in the main
27 toolshed:
28 https://toolshed.g2.bx.psu.edu/view/devteam/package_bx_python_0_7
29 -->
30 <package name="bx_python" version="0.7.1">
31 <install version="1.0">
32 <actions>
33 <action type="setup_virtualenv">
34 numpy==1.7.1
35 bx-python==0.7.1
36 </action>
37 <action type="set_environment">
38 <environment_variable action="set_to" name="BX_PYTHON_PATH">$INSTALL_DIR</environment_variable>
39 </action>
40 </actions>
41 </install>
42 <readme>
43 Installation of bx-python 0.7.1 along with numpy 1.7.1. The installation can be
44 accessed via BX_PYTHON_PATH.
45 </readme>
46 </package> 28 </package>
47 <!-- cistrome_ceas 29 <!-- cistrome_ceas
48 Installs the version of CEAS package found in the Cistrome 30 Installs the version of CEAS package found in the Cistrome
49 distribution: 31 distribution:
50 https://bitbucket.org/cistrome/cistrome-applications-harvard/overview 32 https://bitbucket.org/cistrome/cistrome-applications-harvard/overview