Error Raw #194
Description
Is there any way how to find out more details what exactly went wrong? I ran
mono ThermoRawFileParser1.4.5/ThermoRawFileParser.exe -i=20220830_JL-4884_Forster_Ecoli_DMSO_rep2_EG-2.raw -f=2 -o=./ --logging=1
2025-04-07 15:31:12 INFO Started parsing 20220830_JL-4884_Forster_Ecoli_DMSO_rep2_EG-2.raw
2025-04-07 15:31:12 ERROR RAW file cannot be processed because of an error - ThermoFisher.CommonCore.RawFileReader.Facade.RawFileLoader
2025-04-07 15:31:12 INFO Processing completed 1 errors, 0 warningsI tried both using the quantms docker container as well as locally (above).
Dataset: https://ftp.pride.ebi.ac.uk/pride/data/archive/2023/07/PXD040621/
Activity
caetera commentedon Apr 7, 2025
Hi @enryH,
this error usually means that the file is corrupted. The file size is about two times smaller compared to other replicates in the dataset - I guess, it was broken during transfer or acquisition.
I tried to use MSConvert on it with no success - I am afraid there is nothing to do here.
We will need to look into more human-understandable error reporting, though
enryH commentedon Apr 8, 2025
Thanks for looking into it Vladimir! I just got confirmation from Caroline that she also could not open the first two raw files, exactly the ones I tested... Remindes me to be more random in selecting my test data...
Should we close for now?
caetera commentedon Apr 9, 2025
I pushed a commit for the upcoming release #193 which should provide cleaner error messages for such cases.