Mercurial > repos > computational-metabolomics > mspurity_createdatabase

diff createDatabase.R @ 4:3d36a391612c draft
"planemo upload for repository https://github.com/computational-metabolomics/mspurity-galaxy commit cbbd708ea1e93b1b1643f6bf6da72af65ffd9950"
author: computational-metabolomics
date: Mon, 10 Aug 2020 08:41:22 -0400
parents: a11892cb997d
children: 2f71b3495221
--- a/createDatabase.R	Thu Apr 09 14:26:52 2020 -0400
+++ b/createDatabase.R	Mon Aug 10 08:41:22 2020 -0400
@@ -94,7 +94,11 @@
 
 print(pa@fileList)
 
-
+# Missing list element causes failures (should be updated
+# in msPurity R package for future releases)
+if (!exists('allfrag', where=pa@filter_frag_params)){
+    pa@filter_frag_params$allfrag <- FALSE
+}
 
 if (opt$xcms_camera_option=='xcms'){
author	computational-metabolomics
date	Mon, 10 Aug 2020 08:41:22 -0400
parents	a11892cb997d
children	2f71b3495221