Mercurial > repos > jankanis > blast2html
comparison tool_dependencies.xml @ 58:39df29f647e8
set other environment variables as well
| author | Jan Kanis <jan.code@jankanis.nl> |
|---|---|
| date | Tue, 27 May 2014 12:45:50 +0200 |
| parents | 159989f6bfa6 |
| children | cd31e2fb5f22 |
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| 57:159989f6bfa6 | 58:39df29f647e8 |
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| 37 # Unset any saved environment settings from parent virtual | 37 # Unset any saved environment settings from parent virtual |
| 38 # environments, e.g. for python 2 or if Galaxy itself is running | 38 # environments, e.g. for python 2 or if Galaxy itself is running |
| 39 # from within a virtual environment. | 39 # from within a virtual environment. |
| 40 unset _OLD_VIRTUAL_PATH; unset _OLD_VIRTUAL_PYTHONHOME | 40 unset _OLD_VIRTUAL_PATH; unset _OLD_VIRTUAL_PYTHONHOME |
| 41 pyvenv blast2html_venv | 41 pyvenv blast2html_venv |
| 42 . blast2html_venv/bin/activate | 42 blast2html_venv/bin/pip3 install lxml jinja2 |
| 43 pip3 install lxml jinja2 | |
| 44 </action> | 43 </action> |
| 45 | 44 |
| 46 <action type="set_environment"> | 45 <action type="set_environment"> |
| 47 <environment_variable name="PYTHONPATH" action="prepend_to">$INSTALL_DIR/lib/python3.4/site-packages</environment_variable> | 46 <!-- Remove any incoming PYTHONPATH elements from Galaxy's own environment --> |
| 47 <environment_variable name="PYTHONPATH" action="set_to">$INSTALL_DIR/blast2html_venv/lib/python3.4/site-packages</environment_variable> | |
| 48 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/blast2html_venv/bin</environment_variable> | |
| 49 <environment_variable name="PYTHONHOME" action="set_to"></environment_variable> | |
| 50 <!-- To find shared libraries such as libssl or libxml2 --> | |
| 48 <environment_variable name="LD_LIBRARY_PATH" action="prepend_to">$ENV[LD_LIBRARY_PATH]</environment_variable> | 51 <environment_variable name="LD_LIBRARY_PATH" action="prepend_to">$ENV[LD_LIBRARY_PATH]</environment_variable> |
| 49 </action> | 52 </action> |
| 50 </actions> | 53 </actions> |
| 51 </install> | 54 </install> |
| 52 <readme>A Python 3 virtual environment that includes the python packages blast2html depends on, which are lxml and jinja2.</readme> | 55 <readme>A Python 3 virtual environment that includes the python packages blast2html depends on, which are lxml and jinja2.</readme> |