Mercurial > repos > vmarcon > package_repet_2_5
comparison tool_dependencies.xml @ 0:f3b6009634b1 draft default tip
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| author | vmarcon |
|---|---|
| date | Mon, 06 Feb 2017 13:05:10 -0500 |
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| -1:000000000000 | 0:f3b6009634b1 |
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| 1 <?xml version="1.0"?> | |
| 2 <tool_dependency version="1.0"> | |
| 3 <package name="repet" version="2.5"> | |
| 4 <install version="1.0"> | |
| 5 <actions> | |
| 6 <action type="set_environment"> | |
| 7 <environment_variable name="REPET_HOST" action="set_to">bdd_server</environment_variable> | |
| 8 <environment_variable name="REPET_USER" action="set_to">orepet_galaxy</environment_variable> | |
| 9 <environment_variable name="REPET_PW" action="set_to">"blabla"</environment_variable> | |
| 10 <environment_variable name="REPET_DB" action="set_to">repet_galaxy</environment_variable> | |
| 11 <environment_variable name="REPET_PORT" action="set_to">3615</environment_variable> | |
| 12 <environment_variable name="REPET_PATH" action="set_to">~/tools/repet_pipe</environment_variable> | |
| 13 <environment_variable name="REPET_JOB_MANAGER" action="set_to">SGE</environment_variable> | |
| 14 <environment_variable name="REPET_QUEUE" action="set_to">SGE</environment_variable> | |
| 15 <environment_variable name="REPET_JOBS" action="set_to">MySQL</environment_variable> | |
| 16 <environment_variable name="REPET_TMP_DIR" action="set_to">/tmp</environment_variable> | |
| 17 <environment_variable name="PYTHONPATH" action="set_to">$REPET_PATH</environment_variable> | |
| 18 <environment_variable name="PATH" action="prepend_to">$REPET_PATH/bin</environment_variable> | |
| 19 <environment_variable name="REPET_NUCL_BANK" action="set_to">/path/to/nucl/bank</environment_variable> | |
| 20 <environment_variable name="REPET_PROT_BANK" action="set_to">/path/to/prot/bank</environment_variable> | |
| 21 <environment_variable name="REPET_HMM_PROFILES" action="set_to">/path/to/hmm_profiles/bank</environment_variable> | |
| 22 <environment_variable name="REPET_RDNA_BANK" action="set_to">/path/to/rdna/bank</environment_variable> | |
| 23 <environment_variable name="LIB_GCC4_8_2" action="set_to"></environment_variable> | |
| 24 <environment_variable name="LD_LIBRARY_PATH" action="set_to"></environment_variable> | |
| 25 </action> | |
| 26 </actions> | |
| 27 </install> | |
| 28 <readme> Please verify if environment variables match to your configuration : galaxy_dist/tool_dependency_dir/repet/2.5/.../env.sh</readme> | |
| 29 </package> | |
| 30 </tool_dependency> |