Dear Skyline team

I've been trying out the new DIANN 2.0 (2.2.0 in my case).

I have attached the parquet.skyline.speclib and parquet files required to reproduce the issue and a screen shot of my import wondow.

I get the error MRT_profile_report_library2.parquet does not have a column called Global.Q.Value I've checked the file MRT_profile_report_library2.parquet by importing it into R with arrow. IT does seem to have a column Global.Q.Value.

I would be really greatful if you help me get over this bump. The feature looks really useful for reviewing DIANN data.

Best wishes

Matt

Skyline

ERROR: file MRT_profile_report_library2.parquet does not have a column called Global.Q.Value

Command-line: C:\Users\mbpssmr9.DS\AppData\Local\Apps\2.0\TT108PNJ.HWT\RVTC6LRP.CKL\skyl..tion_9286511f3362df93_0019.0001_31a2f7d2aa6cc5be\BlibBuild -s -A -H -o -c 0.95 -i MRT_400ng_test -S "D:\Repositories\p23_02_09_JAC_VionForProteomics\skyline\MRT_400ng_test.redundant202506170221.stdin.txt" "D:\Repositories\p23_02_09_JAC_VionForProteomics\skyline\MRT_400ng_test.redundant.blib"
Working directory: D:\Repositories\p23_02_09_JAC_VionForProteomics\diann_out\mrt\25_06_11_MRTprofile
Exit code: -2147483645

OK More Info

Skyline (64-bit) 25.1.0.142 (7401c644b4)

System.IO.IOException: ERROR: file MRT_profile_report_library2.parquet does not have a column called Global.Q.Value

Command-line: C:\Users\mbpssmr9.DS\AppData\Local\Apps\2.0\TT108PNJ.HWT\RVTC6LRP.CKL\skyl..tion_9286511f3362df93_0019.0001_31a2f7d2aa6cc5be\BlibBuild -s -A -H -o -c 0.95 -i MRT_400ng_test -S "D:\Repositories\p23_02_09_JAC_VionForProteomics\skyline\MRT_400ng_test.redundant202506170221.stdin.txt" "D:\Repositories\p23_02_09_JAC_VionForProteomics\skyline\MRT_400ng_test.redundant.blib"
Working directory: D:\Repositories\p23_02_09_JAC_VionForProteomics\diann_out\mrt\25_06_11_MRTprofile
Exit code: -2147483645 ---> System.IO.IOException: ERROR: file MRT_profile_report_library2.parquet does not have a column called Global.Q.Value

Command-line: C:\Users\mbpssmr9.DS\AppData\Local\Apps\2.0\TT108PNJ.HWT\RVTC6LRP.CKL\skyl..tion_9286511f3362df93_0019.0001_31a2f7d2aa6cc5be\BlibBuild -s -A -H -o -c 0.95 -i MRT_400ng_test -S "D:\Repositories\p23_02_09_JAC_VionForProteomics\skyline\MRT_400ng_test.redundant202506170221.stdin.txt" "D:\Repositories\p23_02_09_JAC_VionForProteomics\skyline\MRT_400ng_test.redundant.blib"
Working directory: D:\Repositories\p23_02_09_JAC_VionForProteomics\diann_out\mrt\25_06_11_MRTprofile
Exit code: -2147483645

Output:
Reading results from MRT_profile_report_library2.parquet.skyline.speclib.
Read 11930 entries from speclib.
ERROR: file MRT_profile_report_library2.parquet does not have a column called Global.Q.Value

---> System.IO.IOException: ERROR: file MRT_profile_report_library2.parquet does not have a column called Global.Q.Value

Command-line: C:\Users\mbpssmr9.DS\AppData\Local\Apps\2.0\TT108PNJ.HWT\RVTC6LRP.CKL\skyl..tion_9286511f3362df93_0019.0001_31a2f7d2aa6cc5be\BlibBuild -s -A -H -o -c 0.95 -i MRT_400ng_test -S "D:\Repositories\p23_02_09_JAC_VionForProteomics\skyline\MRT_400ng_test.redundant202506170221.stdin.txt" "D:\Repositories\p23_02_09_JAC_VionForProteomics\skyline\MRT_400ng_test.redundant.blib"
Working directory: D:\Repositories\p23_02_09_JAC_VionForProteomics\diann_out\mrt\25_06_11_MRTprofile
Exit code: -2147483645
at pwiz.Common.SystemUtil.ProcessRunner.Run(ProcessStartInfo psi, String stdin, IProgressMonitor progress, IProgressStatus& status, TextWriter writer, ProcessPriorityClass priorityClass, Boolean forceTempfilesCleanup, Func3 outputAndExitCodeAreGoodFunc, Boolean updateProgressPercentage) in C:\proj\skyline_25_1\pwiz_tools\Shared\CommonUtil\SystemUtil\ProcessRunner.cs:line 206 --- End of inner exception stack trace --- --- End of inner exception stack trace --- at pwiz.Common.SystemUtil.ProcessRunner.ThrowExceptionWithOutput(Exception exception, String output) in C:\proj\skyline_25_1\pwiz_tools\Shared\CommonUtil\SystemUtil\ProcessRunner.cs:line 266 at pwiz.Common.SystemUtil.ProcessRunner.Run(ProcessStartInfo psi, String stdin, IProgressMonitor progress, IProgressStatus& status, TextWriter writer, ProcessPriorityClass priorityClass, Boolean forceTempfilesCleanup, Func3 outputAndExitCodeAreGoodFunc, Boolean updateProgressPercentage) in C:\proj\skyline_25_1\pwiz_tools\Shared\CommonUtil\SystemUtil\ProcessRunner.cs:line 248
at pwiz.BiblioSpec.BlibBuild.BuildLibrary(LibraryBuildAction libraryBuildAction, IProgressMonitor progressMonitor, IProgressStatus& status, String& commandArgs, String& messageLog, String[]& ambiguous) in C:\proj\skyline_25_1\pwiz_tools\Shared\BiblioSpec\BlibBuild.cs:line 493
at pwiz.Skyline.Model.Lib.BiblioSpecLiteBuilder.BuildLibrary(IProgressMonitor progress) in C:\proj\skyline_25_1\pwiz_tools\Skyline\Model\Lib\BiblioSpecLiteBuilder.cs:line 152