Mercurial > repos > elixir-it > vinyl_optimizer
diff optimizer_genetic.xml @ 3:221db2eb3c8e draft default tip
Uploaded
| author | elixir-it |
|---|---|
| date | Wed, 22 Jul 2020 19:23:14 +0000 |
| parents | 6e4eb4856874 |
| children |
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--- a/optimizer_genetic.xml Wed Jul 22 19:20:30 2020 +0000 +++ b/optimizer_genetic.xml Wed Jul 22 19:23:14 2020 +0000 @@ -6,8 +6,8 @@ <requirement type="package" >r-genalg</requirement> </requirements> <command> <![CDATA[ - ln -s $__tool_directory__/score_complete_alt_M.pl 2>$log && - ln -s $__tool_directory__/GENEO_VINYL.R 2>> $log && + ln -s $__tool_directory__/score_complete_alt_M.pl && + ln -s $__tool_directory__/GENEO_VINYL.R && ln -s $fileR fileR && ln -s $fileC fileC && @@ -85,8 +85,9 @@ ###OUTPUT -ofile $ofile + + 2>>$log - 2>>$log @@ -141,14 +142,23 @@ </inputs> <outputs> + <data format="tsv" name="ofile" label="${tool.name} on ${on_string}: tsv "/> <data format="txt" name="log" label="${tool.name} on ${on_string}: log file "/> - <data format="tsv" name="ofile" label="${tool.name} on ${on_string}: tsv "/> </outputs> <stdio> </stdio> <tests> - <test> - </test> + <test> + <param name="fileR" value="TSI_annotated.vcf" ftype="vcf" /> + <param name="fileC" value="sorrentino_annotated.vcf" ftype="vcf" /> + <param name="lgenes" value="DCM_genes.tabular" ftype="tabular" /> + <param name="qfile" value="qfile.txt" ftype="txt" /> + <param name="kfile" value="kfile.txt" ftype="txt" /> + <param name="efile" value="efile.txt" ftype="txt" /> + <param name="sfile" value="sfile.txt" ftype="txt" /> + <output name="ofile" file="output_optimizer.tsv" ftype="tsv" /> + <output name="log" file="log.txt" ftype="txt" /> + </test> </tests> <help> **What it does**