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Prepec modification error: Multiple modifications per site not supported in Peptide Record format. #108
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Hi Nicolas, Apologies in the delay in getting back to you. Your issue seems to be a combination of 2 problems:
Let me know if it works or not. Best, |
It works but i get another error
This time i dont have any clue where to start looking |
Picking up on this issue again. Apologies for the long delay. @RobbinBouwmeester, any ideas? @NicolasProvencher, could you check if updating DeepLC fixes the issue ( |
Hi, ralph First, since I was testing your windows installation to make a protocol for a gui user, things like pip are not used. Now, I just tried reinstalling the .exe file for version 3.0.3 and the program wont open after the installation for me to retest everything and give you more info if i scroll at the end i see Click to expand
If youd like me to open a different issue for this particuliar issue, just ask If testing and fixing the windows gui version isnt a priority right now I am ok to wait until it is Thanks a lot |
Thanks for reporting! I opened a new issue here: #145 Best, |
Hi, I am following up on error given while trying to run deeplc using the windows interface. we redid a run to see if the updates that happened since the original posting fixed the problem. It seems like it did not, I included the traceback we get when it crashes. Collapsible Section Title
If the windows version of ms2rescore isnt a priority right now feel free to bump down the importance of this issues since we are not actively trying to use it right now. Best |
Hi,
I am trying to use ms2Rescore to rescore the output i get from a searchGUi / peptideshaker analysis
here is the log of ms2rescore in debug mode
On searchGUI i used the thermofisherrawparser to parse my raw file, X!Tandem and MS-GF+ as search algorithms and used peptideshaker
In peptideshaker, i used the export->peptideshaker project as -> mzldentML to produce the mzid im using in ms2rescore (including protein sequences)
modification used are Carbomidomethyl of C as fixed, and Oxidation , Acetylation for variables
percolator was used but i dont think it got to its step
I parsed the peptides in the mzid file to make sure that for the same peptide, all the modification had a different location
here is a link to a google drive folder containing the mzid and mzml and the fasta i used
https://drive.google.com/drive/folders/1DUUn7fyeJR2rgIze2dQQ3r4ikcyfwiLI?usp=sharing
here is the line in the config.json file generated by ms2rescore
after all that i am wondering if I am doing anything wrong, with my settings
Thanks in advance
Nicolas
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