Mercurial > repos > recetox > msmetaenhancer
changeset 2:8338640d8676 draft
"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 | b50c2e941cae |
| children | f387ebd6b734 |
| files | msmetaenhancer.xml msmetaenhancer_wrapper.py |
| diffstat | 2 files changed, 7 insertions(+), 2 deletions(-) [+] |
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--- a/msmetaenhancer.xml Fri Apr 08 06:34:37 2022 +0000 +++ b/msmetaenhancer.xml Mon Apr 25 06:29:43 2022 +0000 @@ -1,4 +1,4 @@ -<tool id="msmetaenhancer" name="MSMetaEnhancer" version="@TOOL_VERSION@+galaxy0"> +<tool id="msmetaenhancer" name="MSMetaEnhancer" version="@TOOL_VERSION@+galaxy1"> <description>annotate MS data</description> <macros>
--- 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()