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Push generated bioc2023cytoverse
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github-actions committed Jul 19, 2023
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3 changes: 0 additions & 3 deletions generated/bioc2023cytoverse.Dockerfile
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2 changes: 1 addition & 1 deletion generated/bioc2023cytoverse.container
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ghcr.io/bioconductor/workshop-contributions:3.17-5cb5eb3a
ghcr.io/ozettetech/cytoverse-bioc-2023:latest
10 changes: 5 additions & 5 deletions generated/workshop-values-bioc2023cytoverse.yaml
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Expand Up @@ -7,10 +7,10 @@
applyToNginx: true
tpl: false
content: |
<tool id="interactivetool_biocworkshop_bioc2023cytoverse" tool_type="interactive" name="SPEAQeasy" version="0.1">
<description>a Scalable Pipeline for Expression Analysis and Quantification</description>
<tool id="interactivetool_biocworkshop_bioc2023cytoverse" tool_type="interactive" name="Analysis of flow cytometry experiments" version="0.1">
<description>with the cytoverse</description>
<requirements>
<container type="docker">ghcr.io/bioconductor/workshop-contributions:3.17-feab579d</container>
<container type="docker">ghcr.io/ozettetech/cytoverse-bioc-2023:latest</container>
</requirements>
<entry_points>
<entry_point name="bioc2023cytoverse" requires_domain="True">
Expand All @@ -24,12 +24,12 @@
<environment_variable name="GALAXY_URL">$__galaxy_url__</environment_variable>
<environment_variable name="API_KEY" inject="api_key" />
</environment_variables>
<command detect_errors="aggressive">if [ -f '/home/rstudio/SPEAQeasyWorkshop2023/vignettes/SPEAQeasyWorkshop2023.Rmd' ]; then echo '/home/rstudio/SPEAQeasyWorkshop2023/vignettes/SPEAQeasyWorkshop2023.Rmd' > /tmp/startfile; else echo '/home/rstudio/vignettes/SPEAQeasyWorkshop2023.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; chown -R rstudio /home/rstudio/*; rm /tmp/startfile; chown -R rstudio /home/rstudio/.*; /init</command>
<command detect_errors="aggressive">if [ -f '/home/rstudio/cytoverse-bioc-2023/vignettes/Import_fcs.Rmd' ]; then echo '/home/rstudio/cytoverse-bioc-2023/vignettes/Import_fcs.Rmd' > /tmp/startfile; else echo '/home/rstudio/vignettes/Import_fcs.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; 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/LieberInstitute/SPEAQeasyWorkshop2023.</help>
<help>This is an autogenerated Bioconductor workshop wrapper. See the source of this workshop or report issues at https://github.com/OzetteTech/cytoverse-bioc-2023.</help>
</tool>
10 changes: 5 additions & 5 deletions generated/workshop-values.yaml
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Expand Up @@ -8,10 +8,10 @@ extraFileMappings:
applyToNginx: true
tpl: false
content: |
<tool id="interactivetool_biocworkshop_bioc2023cytoverse" tool_type="interactive" name="SPEAQeasy" version="0.1">
<description>a Scalable Pipeline for Expression Analysis and Quantification</description>
<tool id="interactivetool_biocworkshop_bioc2023cytoverse" tool_type="interactive" name="Analysis of flow cytometry experiments" version="0.1">
<description>with the cytoverse</description>
<requirements>
<container type="docker">ghcr.io/bioconductor/workshop-contributions:3.17-feab579d</container>
<container type="docker">ghcr.io/ozettetech/cytoverse-bioc-2023:latest</container>
</requirements>
<entry_points>
<entry_point name="bioc2023cytoverse" requires_domain="True">
Expand All @@ -25,12 +25,12 @@ extraFileMappings:
<environment_variable name="GALAXY_URL">$__galaxy_url__</environment_variable>
<environment_variable name="API_KEY" inject="api_key" />
</environment_variables>
<command detect_errors="aggressive">if [ -f '/home/rstudio/SPEAQeasyWorkshop2023/vignettes/SPEAQeasyWorkshop2023.Rmd' ]; then echo '/home/rstudio/SPEAQeasyWorkshop2023/vignettes/SPEAQeasyWorkshop2023.Rmd' > /tmp/startfile; else echo '/home/rstudio/vignettes/SPEAQeasyWorkshop2023.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; chown -R rstudio /home/rstudio/*; rm /tmp/startfile; chown -R rstudio /home/rstudio/.*; /init</command>
<command detect_errors="aggressive">if [ -f '/home/rstudio/cytoverse-bioc-2023/vignettes/Import_fcs.Rmd' ]; then echo '/home/rstudio/cytoverse-bioc-2023/vignettes/Import_fcs.Rmd' > /tmp/startfile; else echo '/home/rstudio/vignettes/Import_fcs.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; 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/LieberInstitute/SPEAQeasyWorkshop2023.</help>
<help>This is an autogenerated Bioconductor workshop wrapper. See the source of this workshop or report issues at https://github.com/OzetteTech/cytoverse-bioc-2023.</help>
</tool>

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