Unable to finish importing chromatograms because the retention time predictor linear regression failed.

support
Unable to finish importing chromatograms because the retention time predictor linear regression failed. paga  2021-11-04
 

Good evening,

I've been struggling with a diaPASEF (Bruker) analysis on Skyline. The experiment's goal is to find a set of 30 heavy labeled peptides on one DIA-file. I've produced a Skyline library using PEAKS but after loading the single DIA file it keeps failing. I've been guiding the setting parameters based on the "Analysis of diaPASEF data in Skyline" document but including precursors as it is immunopeptidomics.

When specifying the use of Biognosys C-11 iRT peptides, I got the following error.

Skyline version: 21.1.0.278-fe50e66f2 (64-bit)
Installation ID: 5bc1d5e0-0694-49c2-87b5-7e376a14cafe
Exception type: InvalidDataException
Error message: Found invalid data while decoding.

System.IO.InvalidDataException: Found invalid data while decoding.
at pwiz.Skyline.Model.ImportPeptideSearchManager.LoadBackground(IDocumentContainer container, SrmDocument document, SrmDocument docCurrent) in C:\proj\skyline_21_1_x64\pwiz_tools\Skyline\Model\ImportPeptideSearch.cs:line 602
at pwiz.Skyline.Model.BackgroundLoader.OnLoadBackground(IDocumentContainer container, SrmDocument document) in C:\proj\skyline_21_1_x64\pwiz_tools\Skyline\Model\BackgroundLoader.cs:line 130
Exception caught at:
at pwiz.Skyline.Model.BackgroundLoader.OnLoadBackground(IDocumentContainer container, SrmDocument document) in C:\proj\skyline_21_1_x64\pwiz_tools\Skyline\Model\BackgroundLoader.cs:line 130
at System.Threading.ExecutionContext.RunInternal(ExecutionContext executionContext, ContextCallback callback, Object state, Boolean preserveSyncCtx)
at System.Threading.ExecutionContext.Run(ExecutionContext executionContext, ContextCallback callback, Object state, Boolean preserveSyncCtx)
at System.Threading.ExecutionContext.Run(ExecutionContext executionContext, ContextCallback callback, Object state)
at System.Threading.ThreadHelper.ThreadStart()

After trying with the "Automatic" determination of iRT peptides, I got the following error

Failed importing results file 'D:\DIA-PASEF_optimisation_2021\202109_Sr_DIAPSEF_EVAXheavy_RawData\10-7-2021_DIA_100ms_Im1.7_Evax_hela400_2sec_22-01-15_Slot1-10_3097.d'.
The calculator From_scratch_Automatic-iRT requires all of its standard peptides in order to determine a regression.

I will attached some of these file after the failed attempt.