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Problem creating library using PD3.1 results.

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Problem creating library using PD3.1 results. davidl  2025-06-06 11:23
 
Hello,
Finally upgraded to using PD 3.1 instead of PD 1.4 to import my Sequest search results from DDA runs into Skyline to create spectral libraries. I'm getting the error reported by others in earlier posts when creating spectral libraries using PD3.1(no such table: MassSpectrumItems). I've tried the newest Skyline Daily (Skyline (64-bit) 25.1.0.142 (7401c644b4)) without success. Any suggestions? I've attached the error details.
Thank you for the help,
Larry David
 
 
Brendan MacLean responded:  2025-06-20 11:16
Hi Larry,
Can you upload one of these pdResult files to our file drop page?

https://skyline.ms/files.url

We have not yet had a report of the pdResult format changing, but we would be happy to take a look, and fix Skyline if the problem is on our side.

Thanks for posting to the Skyline support board.

--Brendan
 
Nick Shulman responded:  2025-06-20 12:08
Do you have a .pdResultDetails file in addition to the .pdResult file?
In order for BiblioSpec to recognize that a file is PD 3.1, the .pdResultDetails file needs to be present in addition to the .pdResult file.
If the .pdResultDetails file is not present, then you get the error about "MassSpectrumItems" because BiblioSpec acts like it's the older format.

We should probably fix this so that BiblioSpec gives you an error message about not finding .pdResultDetails.
-- Nick