Mercurial > repos > immport-devteam > cs_overview
diff crossSampleOverview.xml @ 2:a64ece32a01a draft default tip
"planemo upload for repository https://github.com/ImmPortDB/immport-galaxy-tools/tree/master/flowtools/cs_overview commit a46097db0b6056e1125237393eb6974cfd51eb41"
author | azomics |
---|---|
date | Tue, 28 Jul 2020 08:32:36 -0400 |
parents | bca68066a957 |
children |
line wrap: on
line diff
--- a/crossSampleOverview.xml Wed May 20 16:04:43 2020 -0400 +++ b/crossSampleOverview.xml Tue Jul 28 08:32:36 2020 -0400 @@ -1,25 +1,23 @@ -<tool id="cross_sample_overview" name="Generate overview information" version="1.1+galaxy0"> +<tool id="cross_sample_overview" name="Generate overview information" version="1.1+galaxy1"> <description>of a multi-sample analysis.</description> <requirements> - <requirement type="package" version="2.0.2">ig-flowtools</requirement> + <requirement type="package" version="1.0.5">pandas</requirement> + <requirement type="package" version="2.11.2">jinja2</requirement> </requirements> <stdio> <exit_code range="1" level="fatal" description="There are too many populations in the input files. The maximum number of populations is 40." /> <exit_code range="2" level="fatal" description="There are populations inconsistencies between provided inputs." /> + <exit_code range="3:"/> </stdio> <command><![CDATA[ - mkdir templates && - mkdir -p static/flowtools && - mkdir -p static/images/flowtools && - export FLOWTOOL='which crossSampleOverview.py' && - FLOWTOOLDIR=\$(dirname $FLOWTOOL) && - cp $FLOWTOOLDIR/../share/templates/* templates/ && - cp -r $FLOWTOOLDIR/../share/static/flowtools/* static/flowtools/ && - cp $FLOWTOOLDIR/../share/static/images/flowtools/* static/images/flowtools/ && - crossSampleOverview.py -i '${input}' -I '${inputmfi}' -o '${html_file}' -m '${mfi}' -d '${html_file.files_path}' -t 'templates/' + python '$__tool_directory__/crossSampleOverview.py' -i '${input}' -I '${inputmfi}' -o '${html_file}' -m '${mfi}' -d '${html_file.files_path}' -t '$__tool_directory__' #for $f in $cs_outputs -s $f #end for + ; + cp -r '$__tool_directory__'/js '${html_file.files_path}/'; + cp -r '$__tool_directory__'/css '${html_file.files_path}/'; + cp -r '$__tool_directory__'/images '${html_file.files_path}/'; ]]> </command> <inputs> @@ -47,7 +45,7 @@ <output name="html_file" file="out.html" compare="sim_size"> <extra_files type="file" name="csAllMFIs.tsv" value="csAllMFIs.tsv"/> <extra_files type="file" name="csOverview.tsv" value="csOverview.tsv"/> - <extra_files type="file" name="csBoxplotData.json" value="csBoxplotData.json" compare="contains"/> + <extra_files type="file" name="csBoxplotData.json" value="csBoxplotData.json" compare="sim_size"/> </output> </test> </tests>