Exporting prm-PASEF method

support
Exporting prm-PASEF method meth  2021-04-16
 
Hi, im getting following error when trying to export a prm-PASEF method.
What am i missing out?

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Skyline-daily
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An error occurred attempting to export.
Query result unexpectedly empty: SELECT Value FROM PrmGlobalMethodInfo WHERE Key='SchemaType'
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OK More Info
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System.Reflection.TargetInvocationException: Query result unexpectedly empty: SELECT Value FROM PrmGlobalMethodInfo WHERE Key='SchemaType' ---> System.Exception: Query result unexpectedly empty: SELECT Value FROM PrmGlobalMethodInfo WHERE Key='SchemaType'
   at pwiz.CLI.Bruker.PrmScheduling.Scheduler..ctor(String scheduling_file_name)
   at pwiz.Skyline.Model.BrukerTimsTofMethodExporter.ExportMethod(String fileName, String templateName, IProgressMonitor progressMonitor, TimeSegmentList& timeSegments, SchedulingEntryList& schedulingEntries, Boolean getMetrics) in C:\proj\pwiz_x64\pwiz_tools\Skyline\Model\Export.cs:line 3259
   at pwiz.Skyline.Model.ExportProperties.<>c__DisplayClass131_0.<ExportBrukerTimsTofMethod>b__0(IProgressMonitor m) in C:\proj\pwiz_x64\pwiz_tools\Skyline\Model\Export.cs:line 613
   at pwiz.Skyline.Controls.LongWaitDlg.RunWork(Action`1 performWork) in C:\proj\pwiz_x64\pwiz_tools\Skyline\Controls\LongWaitDlg.cs:line 254
   --- End of inner exception stack trace ---
   at pwiz.Skyline.Util.Helpers.WrapAndThrowException(Exception x) in C:\proj\pwiz_x64\pwiz_tools\Skyline\Util\Util.cs:line 1940
   at pwiz.Skyline.Controls.LongWaitDlg.PerformWork(Control parent, Int32 delayMillis, Action`1 performWork) in C:\proj\pwiz_x64\pwiz_tools\Skyline\Controls\LongWaitDlg.cs:line 204
   at pwiz.Skyline.Controls.LongWaitDlg.PerformWork(Control parent, Int32 delayMillis, Action`1 performWork) in C:\proj\pwiz_x64\pwiz_tools\Skyline\Controls\LongWaitDlg.cs:line 140
   at pwiz.Skyline.FileUI.ExportDlgProperties.PerformLongExport(Action`1 performExport) in C:\proj\pwiz_x64\pwiz_tools\Skyline\FileUI\ExportMethodDlg.cs:line 2111
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Kind regards,
Mikkel Thomsen
 
 
Kaipo responded:  2021-04-16

It looks like Skyline is having trouble with the .prmsqlite template file. Would you mind attaching it to this request or uploading it to https://skyline.ms/files.url so I can look into it further?

Thanks,
Kaipo

 
meth responded:  2021-04-16

Hi Kaipo,

Yes, here you go

 
Kaipo responded:  2021-04-16

Hi Mikkel,
The template file seems to be corrupted. When trying to view the contents of the template file (a SQLite database), I get this error: "database disk image is malformed". Can you try with a different template file?

Thanks,
Kaipo

 
meth responded:  2021-04-20

Oh, I didn't see your quick reply, This could explain things.
This is a new .prmsqlite uploaded straight from the instrument PC, to rule out any mistakes done by transfers.
I still get the same error from Skyline, when using this as template.

Thanks,
Mikkel

 
Kaipo responded:  2021-04-20

Hi Mikkel,
The new template file looks okay to me and I was able to use it to export a method with no problems. That error should not happen anymore either, as the SchemaType value is in the new template file (while it wasn't in the first). Is the entire error message the same or is it possibly a slightly different one?

Thanks,
Kaipo

 
meth responded:  2021-04-20

Hi Kaipo,

I just tried with a with a new copy of the .prmsqlite again, and it went through.

Thank you for your help and time, it is highly appreciated!

  • Mikkel