# HG changeset patch # User lecorguille # Date 1488460917 18000 # Node ID beda2d981b9dd212bfee58c698d31548bed7e542 # Parent a79d839d625f85c4d879bb789a1759a33b2554db planemo upload for repository https://github.com/workflow4metabolomics/xcms commit e1f22c9b6d39de7aabc6bb625f65aa5ba6a91312 diff -r a79d839d625f -r beda2d981b9d xcms.r --- a/xcms.r Wed Mar 01 16:56:48 2017 -0500 +++ b/xcms.r Thu Mar 02 08:21:57 2017 -0500 @@ -161,6 +161,11 @@ cat("\t\tCOMPUTE\n") xset = do.call(thefunction, listArguments) +# check if there are no peaks +if (nrow(peaks(xset)) == 0) { + stop("No peaks were detected. You should review your settings") +} + cat("\n\n") @@ -170,7 +175,6 @@ #transform the files absolute pathways into relative pathways xset@filepaths<-sub(paste(getwd(),"/",sep="") ,"", xset@filepaths) - print(zipfile) if(exists("zipfile") && !is.null(zipfile) && (zipfile!="")) { #Modify the samples names (erase the path)