Mercurial > repos > metexplore > met4j
diff tools/networkAnalysis/ExtractSubReactionNetwork/ExtractSubReactionNetwork.xml @ 8:1274e2a62479 draft default tip
planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy commit e34acf0f51cafcf6ae7c97b4feb3188a39f17c32
| author | metexplore |
|---|---|
| date | Wed, 26 Jul 2023 15:33:45 +0000 |
| parents | 7a6f2380fc1d |
| children |
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--- a/tools/networkAnalysis/ExtractSubReactionNetwork/ExtractSubReactionNetwork.xml Tue Jul 04 10:21:26 2023 +0000 +++ b/tools/networkAnalysis/ExtractSubReactionNetwork/ExtractSubReactionNetwork.xml Wed Jul 26 15:33:45 2023 +0000 @@ -13,6 +13,9 @@ $asTable -t "$targetPath" -sc "$sideCompoundFile" +#if str($rExclude) != 'None': + -re "$rExclude" +#end if #if str($weightFile) != 'None': -cw "$weightFile" #end if @@ -29,6 +32,7 @@ <param argument="-tab" checked="false" falsevalue="" label="Export in tabulated file instead of .GML" name="asTable" truevalue="-tab" type="boolean" value="false"/> <param argument="-t" format="txt" label="input targets txt file" name="targetPath" optional="false" type="data" value=""/> <param argument="-sc" format="txt" label="a file containing list of side compounds to ignore" name="sideCompoundFile" optional="false" type="data" value=""/> + <param argument="-re" format="txt" label="an optional file containing list of reactions to ignore" name="rExclude" optional="true" type="data" value=""/> <param argument="-cw" format="tsv" label="an optional file containing weights for reactions pairs" name="weightFile" optional="true" type="data" value=""/> <param argument="-k" label="Extract k-shortest paths" name="k" optional="true" type="text" value="1"> <sanitizer invalid_char="_">