Mercurial > repos > galaxyp > openms
changeset 4:60a33af52042 draft default tip
Uploaded
author | galaxyp |
---|---|
date | Wed, 13 May 2015 21:19:44 -0400 |
parents | 75537a09e9fa |
children | |
files | OpenSwathWorkflow.xml |
diffstat | 1 files changed, 13 insertions(+), 13 deletions(-) [+] |
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line diff
--- a/OpenSwathWorkflow.xml Wed May 13 18:33:49 2015 -0400 +++ b/OpenSwathWorkflow.xml Wed May 13 21:19:44 2015 -0400 @@ -27,11 +27,10 @@ #if $param_tr_irt: -tr_irt $param_tr_irt #end if -#if $param_out_features: - -out_features $param_out_features -#end if -#if $param_out_tsv: - -out_tsv "$param_out_tsv" +#if $output_fmt == 'tsv': + -out_tsv "$out_tsv" +#else: + -out_features "$out_features" #end if #if $param_out_chrom: -out_chrom $param_out_chrom @@ -239,13 +238,9 @@ <option value="csv">csv</option> </param> <param name="param_tr_irt" type="data" format="traml" optional="True" label="transition file ('TraML')" help="(-tr_irt) "/> - <param name="param_out_tsv" type="text" size="30" label="TSV output file (mProphet compatible)" help="(-out_tsv) "> - <sanitizer> - <valid initial="string.printable"> - <remove value="'"/> - <remove value="""/> - </valid> - </sanitizer> + <param name="output_fmt" type="select" label="Select feature list output format"> + <option value="featurexml">FeatureXML</option> + <option value="tsv">TSV output file (mProphet compatible)</option> </param> <param name="param_rt_extraction_window" type="float" value="600.0" label="Only extract RT around this value (-1 means extract over the whole range, a value of 600 means to extract around +/- 300 s of the expected elution)" help="(-rt_extraction_window) "/> <param name="param_mz_extraction_window" type="float" min="0.0" optional="True" value="0.05" label="Extraction window used (in Thomson, to use ppm see -ppm flag)" help="(-mz_extraction_window) "/> @@ -345,7 +340,12 @@ </expand> </inputs> <outputs> - <data name="param_out_features" format="featurexml"/> + <data name="out_features" format="featurexml"> + <filter>output_fmt == 'featurexml'</filter> + </data> + <data name="out_tsv" format="tabular"> + <filter>output_fmt == 'tsv'</filter> + </data> <data name="param_out_chrom" format="mzml"/> </outputs> <help>**What it does**