Harald Barsnes

Aha, I see. Forgot that we implemented this option directly in SearchGUI. :) And yes, MS-GF+ does accept both mzml and mgf. I have no issues loading the shared mzid...

I've uploaded a beta version here with a quick fix that should allow you to process and open the given data: https://filesender.uninett.no/?s=download&token=0cb4f3b0-20e9-48c8-9d88-530c5e22d362. I will still need to locate and properly...

Thanks for sharing the mgf file. It is however identical do mine. Hence I still have no problems loading your mzid file... Can you delete the file called 220202_MBH_538.cms that...

@carolinelennartsson I'm not sure if this is the same issue after all. Perhaps best of you set up a new issue and share the PeptideShaker log file there?

Hi. Can you please share the SearchGUI log file? You'll find it via the Bug Report option on the Help menu.

It seems like you are running out of memory. Please check how much memory you are allowing SearchGUI to use, try to increase it and then run SearchGUI again. You...

It seems like it is struggling to find the following file: C:\Users\Jai\Desktop\uniprot-bovine.fmi\uniprot-bovine_concatenated_target_decoy.fmi. Does this file and (the uniprot-bovine.fmi folder) exist?

> right now after searchGUI output when i am trying to open a project in peptide shaker and load file as searchguioutput.zip file it always shows project was not found,...

You can first try using the New Project option when loading the SearchGUI zip file in PeptideShaker. If you still get the same error, then you can try rerunning the...

It seems like you have run into a known issue with the database backend in which the only known solution is to increase the amount of memory provided to PeptideShaker....