Mercurial > repos > galaxyp > openms_openswathfilesplitter
diff OpenSwathFileSplitter.xml @ 15:3b7a5393b033 draft
"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f5fcdd54599554099fb00b1973cc91a766ad246a"
author | galaxyp |
---|---|
date | Wed, 23 Sep 2020 14:11:22 +0000 |
parents | b45a21325d16 |
children | a86191c455d9 |
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--- a/OpenSwathFileSplitter.xml Thu Aug 27 23:07:34 2020 +0000 +++ b/OpenSwathFileSplitter.xml Wed Sep 23 14:11:22 2020 +0000 @@ -18,7 +18,7 @@ ## Preprocessing mkdir in && ln -s '$in' 'in/${re.sub("[^\w\-_]", "_", $in.element_identifier)}.$gxy2omsext($in.ext)' && -mkdir adv_opts_cond.outputDirectory && +mkdir outputDirectory && #if "out_qc_FLAG" in str($OPTIONAL_OUTPUTS).split(',') mkdir out_qc && #end if @@ -32,7 +32,7 @@ -in 'in/${re.sub("[^\w\-_]", "_", $in.element_identifier)}.$gxy2omsext($in.ext)' -outputDirectory -adv_opts_cond.outputDirectory/ +outputDirectory/ #if "out_qc_FLAG" in str($OPTIONAL_OUTPUTS).split(',') -out_qc 'out_qc/output.${gxy2omsext("json")}' @@ -66,8 +66,8 @@ </param> </inputs> <outputs> - <collection type="list" name="adv_opts_cond.outputDirectory" label="${tool.name} on ${on_string}: outputDirectory"> - <discover_datasets directory="adv_opts_cond.outputDirectory" format="mzml" pattern="_?(?P<designation>.*)\.[^.]*"/> + <collection type="list" name="outputDirectory" label="${tool.name} on ${on_string}: outputDirectory"> + <discover_datasets directory="outputDirectory" format="mzml" pattern="_?(?P<designation>.*)\.[^.]*"/> </collection> <data name="out_qc" label="${tool.name} on ${on_string}: out_qc" format="json"> <filter>OPTIONAL_OUTPUTS is not None and "out_qc_FLAG" in OPTIONAL_OUTPUTS</filter>