Mercurial > repos > sblanck > mpagenomics
diff selectionExtracted.R @ 4:3fcbb8030fcc draft
"planemo upload for repository https://github.com/sblanck/MPAgenomics4Galaxy/tree/master/mpagenomics_wrappers commit 40eda5ea3551e8b3bae32d0a8f405fe90ef22646-dirty"
| author | sblanck |
|---|---|
| date | Mon, 12 Apr 2021 14:47:09 +0000 |
| parents | 4d539083cf7f |
| children |
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--- a/selectionExtracted.R Tue Jun 16 04:34:09 2020 -0400 +++ b/selectionExtracted.R Mon Apr 12 14:47:09 2021 +0000 @@ -50,7 +50,9 @@ #output=args[6] library(MPAgenomics) -workdir=file.path(tmp_dir, "mpagenomics") +workdir=file.path(tmp_dir) +if (!dir.exists(workdir)) + dir.create(workdir, showWarnings = TRUE, recursive = TRUE) setwd(workdir) if (outputlog){ @@ -70,7 +72,7 @@ index = match(listOfFile,rownames(CNsignalMatrix)) responseValueOrder=responseValue[index] -result=variableSelection(CNsignalMatrix,responseValueOrder,nbFolds=nbFolds,loss=loss,plot=TRUE) +result=variableSelection(CNsignalMatrix,responseValueOrder,nbFolds=nbFolds,loss=loss,plot=FALSE) CNsignalResult=CN[result$markers.index,(names(CN)%in% drops)]