glyco-N-DIA

[lbeer272]

Hi,

Trying to start a glyco-N-DIA search with DDA and DIA files. When I try to change the Data type for all of the DIA files to "DIA-quant", it intermittently changes some files correctly, while others remain DIA, and some of the DDA files are changed to "DIA-quant". I am unable to change those files back to DDA. Seems like a bug? (I am running Fragpipe v22.0)

Thanks.

[fcyu]

Can you restart FragPipe to see if you can reproduce it?

Thanks,

Fengchao

[lbeer272]

I am able to reproduce it after restarting Fragpipe several times. However, I don't have a log since I'm not submitting the search.

…

________________________________ From: Fengchao ***@***.***> Sent: Monday, September 16, 2024 1:01 PM To: Nesvilab/FragPipe ***@***.***> Cc: Lynn Beer ***@***.***>; Author ***@***.***> Subject: [EXT] Re: [Nesvilab/FragPipe] glyco-N-DIA (Issue #1782) Can you restart FragPipe to see if you can reproduce it? Thanks, Fengchao — Reply to this email directly, view it on GitHub<#1782 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/A6CCY5S7I4657DRW6FKWUH3ZW4FIJAVCNFSM6AAAAABOJXAMVCVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDGNJTGQ2TINZRGQ>. You are receiving this because you authored the thread. NOTICE: The contents of this e-mail message and any attachments are intended solely for the addressee(s) and may contain confidential and/or legally privileged information. If you are not the intended recipient of this message or if this message has been addressed to you in error, please immediately alert the sender by reply e-mail and then delete this message and any attachments. If you are not the intended recipient, you are notified that any use, dissemination, distribution, copying, or storage of this message or any attachment is strictly prohibited.

[fcyu]

Thank you for the prompt test and response. Could you send some screenshots to show me how to reproduce it? Otherwise, it is hard for me to troubleshoot.

Thanks,

Fengchao

[lbeer272]

Sure, can I email you offline?

[fcyu]

Sure. My email address is yufeATumich.edu (replace AT with @). I am also happy to have a Zoom call if it is easier to troubleshoot.

Thanks,

Fengchao

[lbeer272]

As an update- The problem seems to occur when I sort by Data type. If I import the Raw Files and don't sort, the files are correctly assigned.

[fcyu]

Thanks for the testing and update. I will investigate.

Best,

Fengchao

[lbeer272]

Hi, this is a separate issue but related to the N-glyco-DIA search. I received the attached error log, seemingly related to the spectral library.

Errorlog_2024-09-20_10-03-45.txt

[dpolasky]

Hi,
I think we have fixed this in our development version - can you try updating your easypqp using the following commands in a terminal:
pip uninstall easypqp
pip install git+https://github.com/nesvilab/easypqp.git

Best,
Dan