Mercurial > repos > immport-devteam > extract_fcs_keywords
diff extractKeywords.xml @ 1:1d5e530c8a5e draft default tip
"planemo upload for repository https://github.com/ImmPortDB/immport-galaxy-tools/tree/master/flowtools/extract_fcs_keywords commit f0a40d58aec0a657b60df338c79dc1ee8e510aa0"
author | azomics |
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date | Mon, 22 Jun 2020 17:22:21 -0400 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/extractKeywords.xml Mon Jun 22 17:22:21 2020 -0400 @@ -0,0 +1,69 @@ +<tool id="extract_fcs_keywords" name="Extract keywords" version="1.0+galaxy1"> + <description>from FCS files</description> + <requirements> + <requirement type="package" version="1.42.0">bioconductor-flowcore</requirement> + </requirements> + <stdio> + <exit_code range="1:" /> + </stdio> + <command><![CDATA[ + Rscript $__tool_directory__/FCSKeyword.R '${input}' '${keyword_file}' + ]]> + </command> + <inputs> + <param format="fcs" name="input" type="data" label="FCS file"/> + </inputs> + <outputs> + <data format="tabular" name="keyword_file" label="Extract Keywords on ${input.name}"/> + </outputs> + <tests> + <test> + <param name="input" value="testfcs1.fcs"/> + <output name="keyword_file" file="out.tabular" lines_diff="2"/> + </test> + </tests> + <help><![CDATA[ + This tool extracts the Keywords from a FCS file. + +----- + +**Input files** + +This tool uses FCS files as input. + +**Output file** + +The list of FCS file headers is output. + +----- + +**Example** + +FCSversion=2 + +$BYTEORD=4,3,2,1 + +$DATATYPE=I + +$NEXTDATA=0 + +$SYS=Macintosh System Software 9.2.2 + +CREATOR=CELLQuest 3.3 + +$TOT=20000 + +$MODE=L + +$PAR=6 + +$P1N=FSC-H + +. + +.. + +... + ]]> + </help> +</tool>