Mercurial > repos > jankanis > blast2html

comparison tool_dependencies.xml @ 64:b68c04bf6912

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work around missing ld library path for libxml
author Jan Kanis <jan.code@jankanis.nl>
date Tue, 03 Jun 2014 16:12:50 +0200
parents fb823a59918f
children c546e759bf2a
comparison
equal deleted inserted replaced
63:fb823a59918f 64:b68c04bf6912
41 pyvenv blast2html_venv 41 pyvenv blast2html_venv
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</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 <!-- libxml2 doesn't actually export its own LD_LIBRARY_PATH -->
53 <environment_variable name="LD_LIBRARY_PATH" action="prepend_to">$ENV[LIBXML_ROOT_PATH]/lib</environment_variable>
52 </action> 54 </action>
53 </actions> 55 </actions>
54 </install> 56 </install>
55 <readme>A Python 3 virtual environment that includes the python packages blast2html depends on, which are lxml and jinja2.</readme> 57 <readme>A Python 3 virtual environment that includes the python packages blast2html depends on, which are lxml and jinja2.</readme>
56 </package> 58 </package>