Mercurial > repos > recetox > msmetaenhancer

diff msmetaenhancer_wrapper.py @ 2:8338640d8676 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/RECETOX/galaxytools/tree/master/tools/msmetaenhancer commit fc4fc95ed79d03b2f8d075d0df27d75eb93c58ea"
author recetox
date Mon, 25 Apr 2022 06:29:43 +0000
parents ce612a11b455
children f387ebd6b734
line wrap: on
line diff
--- a/msmetaenhancer_wrapper.py	Fri Apr 08 06:34:37 2022 +0000
+++ b/msmetaenhancer_wrapper.py	Mon Apr 25 06:29:43 2022 +0000
@@ -2,7 +2,7 @@
 import asyncio
 import sys
 
-
+from matchms import set_matchms_logger_level
 from MSMetaEnhancer import Application
 
 
@@ -16,9 +16,14 @@
 
     app = Application(log_file=args.log_file)
 
+    # set matchms logging level to avoid extensive messages in stdout while reading file
+    set_matchms_logger_level("ERROR")
     # import .msp file
     app.load_spectra(args.input_file, file_format='msp')
 
+    # set matchms logging level back to warning
+    set_matchms_logger_level("WARNING")
+
     # curate given metadata
     app.curate_spectra()