Mercurial > repos > computational-metabolomics > mspurity_purityx

diff flagRemove.R @ 1:0f646a3e0a3f draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/computational-metabolomics/mspurity-galaxy commit 20d432cdc6326114d05c26fd51889b872513b57d"
author computational-metabolomics
date Thu, 05 Dec 2019 07:36:31 -0500
parents a141be614e76
children 6b9a83e08467
line wrap: on
line diff
--- a/flagRemove.R	Wed Nov 27 12:41:53 2019 -0500
+++ b/flagRemove.R	Thu Dec 05 07:36:31 2019 -0500
@@ -138,7 +138,7 @@
     chosen_blank <- samplelist_blank[samplelist_blank %in% xset@phenoData$class]
     if (length(chosen_blank)>1){
         print('ERROR: only 1 blank is currently allowed to be used with this tool')
-        exit()
+        quit()
     }
     blank_class <- as.character(chosen_blank)
     print(blank_class)
@@ -171,7 +171,7 @@
     grp_peaklist <- ffrm_out[[2]]
     removed_peaks <- ffrm_out[[3]]
 
-    save.image(file=file.path(opt$out_dir, 'xset_filtered.RData'))
+    save.image(file=file.path(opt$out_dir, 'xset_filtered.RData'), version=2)
 
     # grpid needed for mspurity ID needed for deconrank... (will clean up at some up)
     peak_pth <- file.path(opt$out_dir, 'peaklist_filtered.tsv')