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ghcr.io/vjcitn/ontoprocws:latest |
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/galaxy/server/tools/interactive/biocworkshop_vjcontobioc2024.xml: | ||
useSecret: false | ||
applyToJob: true | ||
applyToSetupJob: true | ||
applyToWeb: true | ||
applyToWorkflow: true | ||
applyToNginx: true | ||
tpl: false | ||
content: | | ||
<tool id="interactivetool_biocworkshop_vjcontobioc2024" tool_type="interactive" name="Package Demo: ontoProc" version="0.1"> | ||
<description>Support harvesting of diverse bioinformatic ontologies, making particular use of the ontologyIndex package on CRAN</description> | ||
<requirements> | ||
<container type="docker">ghcr.io/vjcitn/ontoprocws:latest</container> | ||
</requirements> | ||
<entry_points> | ||
<entry_point name="vjcontobioc2024" requires_domain="True"> | ||
<port>8787</port> | ||
</entry_point> | ||
</entry_points> | ||
<environment_variables> | ||
<environment_variable name="DISABLE_AUTH">true</environment_variable> | ||
<environment_variable name="HISTORY_ID">$__history_id__</environment_variable> | ||
<environment_variable name="REMOTE_HOST">$__galaxy_url__</environment_variable> | ||
<environment_variable name="GALAXY_URL">$__galaxy_url__</environment_variable> | ||
<environment_variable name="API_KEY" inject="api_key" /> | ||
</environment_variables> | ||
<command detect_errors="aggressive">export TEMP=/tmp TMP=/tmp TMPDIR=/tmp TEMPDIR=/tmp; if [ -f '/home/rstudio/ontoProcWS/vignettes/owlents.Rmd' ]; then echo '/home/rstudio/ontoProcWS/vignettes/owlents.Rmd' > /tmp/startfile; else echo '/home/rstudio/vignettes/owlents.Rmd' > /tmp/startfile; fi ; echo "{ 'visual_markdown_editing_is_default': true }" > /etc/rstudio/rstudio-prefs.json ; echo "setwd('/home/rstudio'); setHook('rstudio.sessionInit', function(newSession) { if (newSession) rstudioapi::filesPaneNavigate('\$(dirname \$(cat /tmp/startfile))'); rstudioapi::navigateToFile('\$(cat /tmp/startfile)') }, action = 'append')" > /home/rstudio/.Rprofile; export TEMP=/tmp TMP=/tmp TMPDIR=/tmp TEMPDIR=/tmp; chown -R rstudio /home/rstudio/*; rm /tmp/startfile; chown -R rstudio /home/rstudio/.*; /init</command> | ||
<inputs> | ||
</inputs> | ||
<outputs> | ||
</outputs> | ||
<tests> | ||
</tests> | ||
<help>This is an autogenerated Bioconductor workshop wrapper. See the source of this workshop or report issues at https://github.com/vjcitn/ontoProcWS.</help> | ||
</tool> |
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