Mercurial > repos > jfb > kinamine
changeset 10:5a526c2ad031 draft
Uploaded
| author | jfb |
|---|---|
| date | Thu, 22 Feb 2018 12:38:11 -0500 |
| parents | 185be058851e |
| children | e0fa918f22c7 |
| files | zippable Kinamine/Kinamine.xml |
| diffstat | 1 files changed, 5 insertions(+), 6 deletions(-) [+] |
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--- a/zippable Kinamine/Kinamine.xml Wed Feb 21 17:33:34 2018 -0500 +++ b/zippable Kinamine/Kinamine.xml Thu Feb 22 12:38:11 2018 -0500 @@ -6,10 +6,9 @@ <!-- java -Djava.awt.headless=true -cp KinaMine.jar KinaMine.KinaMine FDRreport.txt reference.fasta test-data 1 mkdir -p output && - '$__tool_directory__/ --> <command><![CDATA[ - java -Djava.awt.headless=true -cp Kinamine.jar KinaMine.KinaMine $FDRreport $reference output $fdr + java -Djava.awt.headless=true -cp '$__tool_directory__/Kinamine.jar' KinaMine.KinaMine $FDRreport $reference output $fdr ]]></command> <inputs> <param format="txt" name="FDRreport" type="data" label="Distinct Peptide Report"/> @@ -25,10 +24,10 @@ <test> <param name="FDRreport" ftype="txt" value="FDRreport.csv"/> <param name="reference" ftype="fasta" value="reference.fasta"/> - <param name="SBF" ftype="csv" value="SBF.csv"/> - <output name="SDtable" file="SDtable.csv"/> - <output name="EPM" file="EPM.csv"/> - <output name="Characterization" file="Characterization.csv"/> + <param name="fdr" ftype="integer" value="1"/> + <param name="outGroup" ftype="text" value="kinase"/> + <output name="SBF" file="outputoutput_Substrate Background Frequency.csv"/> + <output name="Substrates" file="outputoutput_Substrates.csv"/> </test> </tests>