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comparison tool_dependencies.xml @ 60:cd31e2fb5f22

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depend on latest python3, add $ENV[PYTHONPATH] to PYTHONPATH
author Jan Kanis <jan.code@jankanis.nl>
date Wed, 28 May 2014 11:39:36 +0200
parents 39df29f647e8
children b90441d0fe7d
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59:f611cf649c90 60:cd31e2fb5f22
10 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="039b04adcfee" /> 10 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="039b04adcfee" />
11 </package> 11 </package>
12 12
13 <package name="python3" version="3.4.1"> 13 <package name="python3" version="3.4.1">
14 <repository name="package_python3_4" owner="jankanis" prior_installation_required="True" 14 <repository name="package_python3_4" owner="jankanis" prior_installation_required="True"
15 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="59b33d253163" /> 15 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="7719329e5b98" />
16 </package> 16 </package>
17 17
18 <package name="blast2html_venv" version="0.1"> 18 <package name="blast2html_venv" version="0.1">
19 <install version="1.0"> 19 <install version="1.0">
20 <actions> 20 <actions>
26 <repository name="package_libxslt_1_1_28" owner="devteam" 26 <repository name="package_libxslt_1_1_28" owner="devteam"
27 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="039b04adcfee"> 27 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="039b04adcfee">
28 <package name="libxslt" version="1.1.28" /> 28 <package name="libxslt" version="1.1.28" />
29 </repository> 29 </repository>
30 <repository name="package_python3_4" owner="jankanis" 30 <repository name="package_python3_4" owner="jankanis"
31 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="59b33d253163"> 31 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="7719329e5b98">
32 <package name="python3" version="3.4.1" /> 32 <package name="python3" version="3.4.1" />
33 </repository> 33 </repository>
34 </action> 34 </action>
35 35
36 <action type="shell_command"> 36 <action type="shell_command">
42 blast2html_venv/bin/pip3 install lxml jinja2 42 blast2html_venv/bin/pip3 install lxml jinja2
43 </action> 43 </action>
44 44
45 <action type="set_environment"> 45 <action type="set_environment">
46 <!-- Remove any incoming PYTHONPATH elements from Galaxy's own environment --> 46 <!-- Remove any incoming PYTHONPATH elements from Galaxy's own environment -->
47 <environment_variable name="PYTHONPATH" action="set_to">$INSTALL_DIR/blast2html_venv/lib/python3.4/site-packages</environment_variable> 47 <environment_variable name="PYTHONPATH" action="set_to">$INSTALL_DIR/blast2html_venv/lib/python3.4/site-packages:$ENV[PYTHONPATH]</environment_variable>
48 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/blast2html_venv/bin</environment_variable> 48 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/blast2html_venv/bin</environment_variable>
49 <environment_variable name="PYTHONHOME" action="set_to"></environment_variable> 49 <environment_variable name="PYTHONHOME" action="set_to"></environment_variable>
50 <!-- To find shared libraries such as libssl or libxml2 --> 50 <!-- To find shared libraries such as libssl or libxml2 -->
51 <environment_variable name="LD_LIBRARY_PATH" action="prepend_to">$ENV[LD_LIBRARY_PATH]</environment_variable> 51 <environment_variable name="LD_LIBRARY_PATH" action="prepend_to">$ENV[LD_LIBRARY_PATH]</environment_variable>
52 </action> 52 </action>