Mercurial > repos > jankanis > blast2html
comparison tool_dependencies.xml @ 64:b68c04bf6912
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 |
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| 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> |