Waters Method Export Failure (Masslynx 4.2 SCN986)

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Waters Method Export Failure (Masslynx 4.2 SCN986) Will Thompson  2020-09-23
 

Hi Brian et al

We have recently upgraded two of our Waters TQ-S systems to Windows 10, and purchased licenses for Masslynx 4.2 SCN986 to do this upgrade. When trying to export *.exp methods for the instrument, we are now getting errors that the method cannot be exported. I am pasting in the long text of the method below. Do you have any hints from this text on whether or not it is a masslynx version issue, or something else? We have confirmed the method export is functional on MassLynx 4.2 SCN1007, which runs on the TQ-XS. I have asked Waters if there is a more recent upgrade for the TQ-S, or if we can run SCN1007 on the TQ-S. Maybe there are other questions you guys can ask your Waters contacts?

This would mean that any Waters TQ-S users who upgrade to Windows 10 will not be able to export methods from Skyline any more... :(

Cheers,

Will

Error text below


System.IO.IOException: ERROR: Method not found: 'Boolean CompoundDatabaseClassLibrary.CompoundDatabase.InsertNewIonDetails(Int32, Int32, TransMode, Int32, Int32, Int32, Int32, Int32, Int32)'.

Command-line: Method\Waters\BuildWatersMethod -w 2 -s -m "C:\VerifyETemplate.exp"
Working directory: D:\5633
Standard input:
D:\5633~SKEB17.tmp
D:\5633\5633_TQS_v1.exp
protein.name,peptide.seq,precursor.mz,precursor.retT,product.m_z,collision_energy,cone_voltage,peptide_unmod.seq,ion_name,library_rank
1,C0.[M+],162.1,0.56,85.1,18,32,C0,Ion [85.100549/85.100549],-1
2,d3-C0.[M+],165.2,0.56,85.1,18,32,d3-C0,Ion [85.100549/85.100549],-1
3,C2.[M+],204.1,0.9,85.1,18,26,C2,Ion [85.100549/85.100549],-1
4,d3-C2.[M+],207.1,0.9,85.1,18,26,d3-C2,Ion [85.100549/85.100549],-1
13,C3.[M+],218.1,1.73,85.1,18,28,C3,Ion [85.100549/85.100549],-1
14,d3-C3.[M+],221.1,1.73,85.1,18,28,d3-C3,Ion [85.100549/85.100549],-1
15,iC4.[M+],232.1,2.19,85.1,18,28,iC4,Ion [85.100549/85.100549],-1
16,C4.[M+],232.1,2.29,85.1,18,28,C4,Ion [85.100549/85.100549],-1
12,d3-C4.[M+],235.2,2.27,85.1,18,28,d3-C4,Ion [85.100549/85.100549],-1
21,C5:1.[M+],244.1,2.66,85.1,20,32,C5:1,Ion [85.100549/85.100549],-1
22,C4:1-M.[M+],244.1,2.71,85.1,20,32,C4:1-M,Ion [85.100549/85.100549],-1
23,C5-P.[M+],246.2,2.69,85.1,18,30,C5-P,Ion [85.100549/85.100549],-1
24,C4-2M.[M+],246.2,2.81,85.1,18,30,C4-2M,Ion [85.100549/85.100549],-1
25,iC5.[M+],246.2,2.89,85.1,18,30,iC5,Ion [85.100549/85.100549],-1
26,C5.[M+],246.2,3.01,85.1,18,30,C5,Ion [85.100549/85.100549],-1
5,C3-DC.[M+],248.1,0.8,85.1,21,30,C3-DC,Ion [85.100549/85.100549],-1
6,C4-OH.[M+],248.1,1.25,85.1,21,30,C4-OH,Ion [85.100549/85.100549],-1
19,d9-C5.[M+],255.2,2.86,85.1,18,30,d9-C5,Ion [85.100549/85.100549],-1
20,C6.[M+],260.2,3.56,85.1,18,30,C6,Ion [85.100549/85.100549],-1
7,C4-DC.[M+],262.2,1.2,85.1,21,32,C4-DC,Ion [85.100549/85.100549],-1
8,C3-DC-M.[M+],262.2,1.5,85.1,21,32,C3-DC-M,Ion [85.100549/85.100549],-1
9,C5OH-I.[M+],262.2,1.78,85.1,21,32,C5OH-I,Ion [85.100549/85.100549],-1
29,d3-C6.[M+],263.2,3.55,85.1,18,30,d3-C6,Ion [85.100549/85.100549],-1
10,C5-DC.[M+],276.1,1.71,85.1,20,32,C5-DC,Ion [85.100549/85.100549],-1
11,C6-OH.[M+],276.1,2.53,85.1,20,32,C6-OH,Ion [85.100549/85.100549],-1
31,C8:1.[M+],286.2,4.16,85.1,22,34,C8:1,Ion [85.100549/85.100549],-1
32,C8.[M+],288.2,4.28,85.1,22,34,C8,Ion [85.100549/85.100549],-1
17,C6-DC.[M+],290.2,2.01,85.1,20,34,C6-DC,Ion [85.100549/85.100549],-1
18,C5-M-DC.[M+],290.2,2.08,85.1,20,34,C5-M-DC,Ion [85.100549/85.100549],-1
33,d3-C8.[M+],291.2,4.27,85.1,22,34,d3-C8,Ion [85.100549/85.100549],-1
28,C10:1.[M+],314.2,4.76,85.1,22,37,C10:1,Ion [85.100549/85.100549],-1
34,C10.[M+],316.2,4.86,85.1,22,38,C10,Ion [85.100549/85.100549],-1
27,C8-DC.[M+],318.2,2.94,85.1,22,35,C8-DC,Ion [85.100549/85.100549],-1
35,d3-C10.[M+],318.9,4.85,85.1,22,38,d3-C10,Ion [85.100549/85.100549],-1
37,C12:1.[M+],342.3,5.29,85.1,24,40,C12:1,Ion [85.100549/85.100549],-1
39,C12.[M+],344.2,5.37,85.1,22,38,C12,Ion [85.100549/85.100549],-1
30,C10-DC.[M+],346.2,3.62,85.1,22,36,C10-DC,Ion [85.100549/85.100549],-1
40,d3-C12.[M+],347.2,5.37,85.1,22,38,d3-C12,Ion [85.100549/85.100549],-1
36,C12-OH.[M+],360.3,4.87,85.1,23,38,C12-OH,Ion [85.100549/85.100549],-1
38,C14:2.[M+],368.3,5.33,85.1,23,39,C14:2,Ion [85.100549/85.100549],-1
42,C14:1.[M+],370.2,5.76,85.1,23,39,C14:1,Ion [85.100549/85.100549],-1
43,C14.[M+],372.2,5.85,85.1,24,40,C14,Ion [85.100549/85.100549],-1
44,d3-C14.[M+],375,5.85,85.1,24,40,d3-C14,Ion [85.100549/85.100549],-1
49,cis-9-C16:1.[M+],398.3,5.98,85.1,25,42,cis-9-C16:1,Ion [85.100549/85.100549],-1
50,trans-2-C16:1.[M+],398.3,6.2,85.1,25,42,trans-2-C16:1,Ion [85.100549/85.100549],-1
51,C16.[M+],400.4,6.27,85.1,24,44,C16,Ion [85.100549/85.100549],-1
52,d3-C16.[M+],403.4,6.27,85.1,24,44,d3-C16,Ion [85.100549/85.100549],-1
41,C16:1-OH.[M+],414.3,5.51,85.1,26,44,C16:1-OH,Ion [85.100549/85.100549],-1
45,C16-OH.[M+],416.3,5.85,85.1,26,44,C16-OH,Ion [85.100549/85.100549],-1
48,C18:2.[M+],424.4,6.09,85.1,26,45,C18:2,Ion [85.100549/85.100549],-1
54,C18:1.[M+],426.4,6.34,85.1,27,45,C18:1,Ion [85.100549/85.100549],-1
55,C18.[M+],428.4,6.62,85.1,28,50,C18,Ion [85.100549/85.100549],-1
56,d3-C18.[M+],431.4,6.61,85.1,28,50,d3-C18,Ion [85.100549/85.100549],-1
46,C18:1-OH.[M+],442.4,5.97,85.1,28,46,C18:1-OH,Ion [85.100549/85.100549],-1
53,C18-OH.[M+],444.3,6.27,85.1,28,46,C18-OH,Ion [85.100549/85.100549],-1
47,C20:4.[M+],448.3,6.08,85.1,28,48,C20:4,Ion [85.100549/85.100549],-1
---> System.IO.IOException: ERROR: Method not found: 'Boolean CompoundDatabaseClassLibrary.CompoundDatabase.InsertNewIonDetails(Int32, Int32, TransMode, Int32, Int32, Int32, Int32, Int32, Int32)'.

Command-line: Method\Waters\BuildWatersMethod -w 2 -s -m "C:\VerifyETemplate.exp"
Working directory: D:\5633
Standard input:
D:\5633~SKEB17.tmp
D:\5633\5633_TQS_v1.exp
protein.name,peptide.seq,precursor.mz,precursor.retT,product.m_z,collision_energy,cone_voltage,peptide_unmod.seq,ion_name,library_rank
1,C0.[M+],162.1,0.56,85.1,18,32,C0,Ion [85.100549/85.100549],-1
2,d3-C0.[M+],165.2,0.56,85.1,18,32,d3-C0,Ion [85.100549/85.100549],-1
3,C2.[M+],204.1,0.9,85.1,18,26,C2,Ion [85.100549/85.100549],-1
4,d3-C2.[M+],207.1,0.9,85.1,18,26,d3-C2,Ion [85.100549/85.100549],-1
13,C3.[M+],218.1,1.73,85.1,18,28,C3,Ion [85.100549/85.100549],-1
14,d3-C3.[M+],221.1,1.73,85.1,18,28,d3-C3,Ion [85.100549/85.100549],-1
15,iC4.[M+],232.1,2.19,85.1,18,28,iC4,Ion [85.100549/85.100549],-1
16,C4.[M+],232.1,2.29,85.1,18,28,C4,Ion [85.100549/85.100549],-1
12,d3-C4.[M+],235.2,2.27,85.1,18,28,d3-C4,Ion [85.100549/85.100549],-1
21,C5:1.[M+],244.1,2.66,85.1,20,32,C5:1,Ion [85.100549/85.100549],-1
22,C4:1-M.[M+],244.1,2.71,85.1,20,32,C4:1-M,Ion [85.100549/85.100549],-1
23,C5-P.[M+],246.2,2.69,85.1,18,30,C5-P,Ion [85.100549/85.100549],-1
24,C4-2M.[M+],246.2,2.81,85.1,18,30,C4-2M,Ion [85.100549/85.100549],-1
25,iC5.[M+],246.2,2.89,85.1,18,30,iC5,Ion [85.100549/85.100549],-1
26,C5.[M+],246.2,3.01,85.1,18,30,C5,Ion [85.100549/85.100549],-1
5,C3-DC.[M+],248.1,0.8,85.1,21,30,C3-DC,Ion [85.100549/85.100549],-1
6,C4-OH.[M+],248.1,1.25,85.1,21,30,C4-OH,Ion [85.100549/85.100549],-1
19,d9-C5.[M+],255.2,2.86,85.1,18,30,d9-C5,Ion [85.100549/85.100549],-1
20,C6.[M+],260.2,3.56,85.1,18,30,C6,Ion [85.100549/85.100549],-1
7,C4-DC.[M+],262.2,1.2,85.1,21,32,C4-DC,Ion [85.100549/85.100549],-1
8,C3-DC-M.[M+],262.2,1.5,85.1,21,32,C3-DC-M,Ion [85.100549/85.100549],-1
9,C5OH-I.[M+],262.2,1.78,85.1,21,32,C5OH-I,Ion [85.100549/85.100549],-1
29,d3-C6.[M+],263.2,3.55,85.1,18,30,d3-C6,Ion [85.100549/85.100549],-1
10,C5-DC.[M+],276.1,1.71,85.1,20,32,C5-DC,Ion [85.100549/85.100549],-1
11,C6-OH.[M+],276.1,2.53,85.1,20,32,C6-OH,Ion [85.100549/85.100549],-1
31,C8:1.[M+],286.2,4.16,85.1,22,34,C8:1,Ion [85.100549/85.100549],-1
32,C8.[M+],288.2,4.28,85.1,22,34,C8,Ion [85.100549/85.100549],-1
17,C6-DC.[M+],290.2,2.01,85.1,20,34,C6-DC,Ion [85.100549/85.100549],-1
18,C5-M-DC.[M+],290.2,2.08,85.1,20,34,C5-M-DC,Ion [85.100549/85.100549],-1
33,d3-C8.[M+],291.2,4.27,85.1,22,34,d3-C8,Ion [85.100549/85.100549],-1
28,C10:1.[M+],314.2,4.76,85.1,22,37,C10:1,Ion [85.100549/85.100549],-1
34,C10.[M+],316.2,4.86,85.1,22,38,C10,Ion [85.100549/85.100549],-1
27,C8-DC.[M+],318.2,2.94,85.1,22,35,C8-DC,Ion [85.100549/85.100549],-1
35,d3-C10.[M+],318.9,4.85,85.1,22,38,d3-C10,Ion [85.100549/85.100549],-1
37,C12:1.[M+],342.3,5.29,85.1,24,40,C12:1,Ion [85.100549/85.100549],-1
39,C12.[M+],344.2,5.37,85.1,22,38,C12,Ion [85.100549/85.100549],-1
30,C10-DC.[M+],346.2,3.62,85.1,22,36,C10-DC,Ion [85.100549/85.100549],-1
40,d3-C12.[M+],347.2,5.37,85.1,22,38,d3-C12,Ion [85.100549/85.100549],-1
36,C12-OH.[M+],360.3,4.87,85.1,23,38,C12-OH,Ion [85.100549/85.100549],-1
38,C14:2.[M+],368.3,5.33,85.1,23,39,C14:2,Ion [85.100549/85.100549],-1
42,C14:1.[M+],370.2,5.76,85.1,23,39,C14:1,Ion [85.100549/85.100549],-1
43,C14.[M+],372.2,5.85,85.1,24,40,C14,Ion [85.100549/85.100549],-1
44,d3-C14.[M+],375,5.85,85.1,24,40,d3-C14,Ion [85.100549/85.100549],-1
49,cis-9-C16:1.[M+],398.3,5.98,85.1,25,42,cis-9-C16:1,Ion [85.100549/85.100549],-1
50,trans-2-C16:1.[M+],398.3,6.2,85.1,25,42,trans-2-C16:1,Ion [85.100549/85.100549],-1
51,C16.[M+],400.4,6.27,85.1,24,44,C16,Ion [85.100549/85.100549],-1
52,d3-C16.[M+],403.4,6.27,85.1,24,44,d3-C16,Ion [85.100549/85.100549],-1
41,C16:1-OH.[M+],414.3,5.51,85.1,26,44,C16:1-OH,Ion [85.100549/85.100549],-1
45,C16-OH.[M+],416.3,5.85,85.1,26,44,C16-OH,Ion [85.100549/85.100549],-1
48,C18:2.[M+],424.4,6.09,85.1,26,45,C18:2,Ion [85.100549/85.100549],-1
54,C18:1.[M+],426.4,6.34,85.1,27,45,C18:1,Ion [85.100549/85.100549],-1
55,C18.[M+],428.4,6.62,85.1,28,50,C18,Ion [85.100549/85.100549],-1
56,d3-C18.[M+],431.4,6.61,85.1,28,50,d3-C18,Ion [85.100549/85.100549],-1
46,C18:1-OH.[M+],442.4,5.97,85.1,28,46,C18:1-OH,Ion [85.100549/85.100549],-1
53,C18-OH.[M+],444.3,6.27,85.1,28,46,C18-OH,Ion [85.100549/85.100549],-1
47,C20:4.[M+],448.3,6.08,85.1,28,48,C20:4,Ion [85.100549/85.100549],-1

at pwiz.Common.SystemUtil.ProcessRunner.Run(ProcessStartInfo psi, String stdin, IProgressMonitor progress, IProgressStatus& status, TextWriter writer) in C:\proj\skyline_20_2_x64\pwiz_tools\Shared\Common\SystemUtil\ProcessRunner.cs:line 62
at pwiz.Skyline.Util.Extensions.UtilProcess.RunProcess(ProcessStartInfo psi, String stdin, String messagePrefix, IProgressMonitor progress, IProgressStatus& status) in C:\proj\skyline_20_2_x64\pwiz_tools\Skyline\Util\Extensions\UtilProcess.cs:line 45
at pwiz.Skyline.Model.MethodExporter.ExportMethod(String exeName, List1 argv, String fileName, String templateName, Dictionary2 dictTranLists, IProgressMonitor progressMonitor) in C:\proj\skyline_20_2_x64\pwiz_tools\Skyline\Model\Export.cs:line 4162
at pwiz.Skyline.Model.WatersMethodExporter.ExportMethod(String fileName, String templateName, IProgressMonitor progressMonitor) in C:\proj\skyline_20_2_x64\pwiz_tools\Skyline\Model\Export.cs:line 3959
at pwiz.Skyline.Controls.LongWaitDlg.RunWork(Action1 performWork) in C:\proj\skyline_20_2_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\skyline_20_2_x64\pwiz_tools\Skyline\Util\Util.cs:line 1942 at pwiz.Skyline.Controls.LongWaitDlg.PerformWork(Control parent, Int32 delayMillis, Action1 performWork) in C:\proj\skyline_20_2_x64\pwiz_tools\Skyline\Controls\LongWaitDlg.cs:line 204
at pwiz.Skyline.Controls.LongWaitDlg.PerformWork(Control parent, Int32 delayMillis, Action1 performWork) in C:\proj\skyline_20_2_x64\pwiz_tools\Skyline\Controls\LongWaitDlg.cs:line 140 at pwiz.Skyline.FileUI.ExportDlgProperties.PerformLongExport(Action1 performExport) in C:\proj\skyline_20_2_x64\pwiz_tools\Skyline\FileUI\ExportMethodDlg.cs:line 2095

 
 
Will Thompson responded:  2020-09-23

Hold off...found an old thread https://skyline.ms/announcements/home/support/thread.view?rowId=38266 with potentially some useful information. Will follow that and then see where I can get.

Thanks

W