MetaMorpheus crashed during task 3, the GlycoSearch task. I was trying to run a series of tasks including: calibrate, GPTMD, GlycoSearch, and finally a search.
**Reproducing the error**
Protein database
uniprotkb_proteome_UP000005640_AND_revi_2024_10_04
Contaminants\MetaMorpheusContaminants.xml Downloaded on: 09/16/2024 19:14:14
Mass spectrometry file types
Thermo QE .raw files
There were a total of 9 raw files 3 bio reps with each having 3 tech reps
Settings
For Task 1 - Calibrate: The following calibration settings were used: protease = trypsin; maximum missed cleavages = 2; minimum peptide length = 7; maximum peptide length = unspecified; initiator methionine behavior = Variable; fixed modifications = Carbamidomethyl on C, Carbamidomethyl on U; variable modifications = Oxidation on M; max mods per peptide = 2; max modification isoforms = 1024; precursor mass tolerance = ±15.0000 PPM; product mass tolerance = ±3.0000 Absolute. The combined search database contained 20676 non-decoy protein entries including 528 contaminant sequences.
For Task 2 - GPTMD: The following G-PTM-D settings were used: protease = trypsin; maximum missed cleavages = 2; minimum peptide length = 7; maximum peptide length = unspecified; initiator methionine behavior = Variable; max modification isoforms = 1024; fixed modifications = Carbamidomethyl on C, Carbamidomethyl on U; variable modifications = Oxidation on M; G-PTM-D modifications count = 87; precursor mass tolerance(s) = {±10.0000 PPM around -18.010564684, -17.026549101, -16.042533, -2.015649999999999, -1.0316339999999986, 0, 0.984015583, 1.968032, 4.955394000000002, 14.015650064, 14.999666000000001, 15.99491462, 16.978931, 21.969391633, 21.98194425, 22.965959, 27.99491462, 28.031300129, 28.990163592, 31.98983, 37.946940799, 37.955881454, 37.976858, 42.010564684, 42.046950193, 42.994581, 43.005813656, 43.963886, 43.989829239, 44.985078211, 52.911461233, 53.919286266, 61.913491946, 61.921772688, 63.992508, 68.026214748, 70.041864813, 79.956815033, 79.966330889, 86.000393923, 86.036779433, 100.016043988, 101.948274, 114.031694052, 146.057908801, 159.932662, 162.05282342, 176.032087975, 203.079372521, 229.014009359, 349.137281322, 365.132195941, 406.158745043, 541.06110975, 672.22252707, 730.264391883, 876.322300683, 947.323028959, 963.317943579, 1038.375124104, 1216.422862143 Da}; product mass tolerance = ±0.2000 Absolute. The combined search database contained 20676 non-decoy protein entries including 528 contaminant sequences.
For Task 3 - GlycoSearch: MetaMorpheus: version 1.0.6
Data files were processed on a computer running Microsoft Windows 10.0.22631 with a 64-bit Intel(R) Xeon(R) Silver 4215 CPU @ 2.50GHz processor with 16 threads and 64GB installed RAM.
.NET version: .NET 8.0.8
e: System.AggregateException: One or more errors occurred. (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.)
---> System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.
at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>cDisplayClass43_02.<PartitionerForEachWorker>b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion) at System.Threading.Tasks.TaskReplicator.Replica.Execute() --- End of inner exception stack trace --- at System.Threading.Tasks.TaskReplicator.Run[TState](ReplicatableUserAction1 action, ParallelOptions options, Boolean stopOnFirstFailure)
at System.Threading.Tasks.Parallel.PartitionerForEachWorker[TSource,TLocal](Partitioner1 source, ParallelOptions parallelOptions, Action1 simpleBody, Action2 bodyWithState, Action3 bodyWithStateAndIndex, Func4 bodyWithStateAndLocal, Func5 bodyWithEverything, Func1 localInit, Action1 localFinally)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.PartitionerForEachWorker[TSource,TLocal](Partitioner1 source, ParallelOptions parallelOptions, Action1 simpleBody, Action2 bodyWithState, Action3 bodyWithStateAndIndex, Func4 bodyWithStateAndLocal, Func5 bodyWithEverything, Func1 localInit, Action1 localFinally)
at System.Threading.Tasks.Parallel.ForEach[TSource](Partitioner1 source, ParallelOptions parallelOptions, Action2 body)
at EngineLayer.ProteinParsimonyEngine.RunProteinParsimonyEngine() in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 119
at EngineLayer.ProteinParsimonyEngine.RunSpecific() in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 70
at EngineLayer.MetaMorpheusEngine.Run() in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\MetaMorpheusEngine.cs:line 282
at TaskLayer.PostGlycoSearchAnalysisTask.GlycoProteinAnalysis(List1 gsms, String outputFolder, String individualFileFolder, MyTaskResults myTaskResults) in C:\projects\metamorpheus\MetaMorpheus\TaskLayer\GlycoSearchTask\PostGlycoSearchAnalysisTask.cs:line 294 at TaskLayer.PostGlycoSearchAnalysisTask.Run(String OutputFolder, List1 dbFilenameList, List1 currentRawFileList, String taskId, FileSpecificParameters[] fileSettingsList, List1 allPsms, CommonParameters commonParameters, GlycoSearchParameters glycoSearchParameters, List1 proteinList, List1 variableModifications, List1 fixedModifications, List1 localizeableModificationTypes, MyTaskResults MyTaskResults) in C:\projects\metamorpheus\MetaMorpheus\TaskLayer\GlycoSearchTask\PostGlycoSearchAnalysisTask.cs:line 149
at TaskLayer.GlycoSearchTask.RunSpecific(String OutputFolder, List1 dbFilenameList, List1 currentRawFileList, String taskId, FileSpecificParameters[] fileSettingsList) in C:\projects\metamorpheus\MetaMorpheus\TaskLayer\GlycoSearchTask\GlycoSearchTask.cs:line 227
at TaskLayer.MetaMorpheusTask.RunTask(String output_folder, List1 currentProteinDbFilenameList, List1 currentRawDataFilepathList, String displayName) in C:\projects\metamorpheus\MetaMorpheus\TaskLayer\MetaMorpheusTask.cs:line 539
---> (Inner Exception #1) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.
at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_02.<PartitionerForEachWorker>b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion) --- End of stack trace from previous location --- at System.Threading.Tasks.Parallel.<>c__DisplayClass43_02.b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
---> (Inner Exception #2) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.
at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>c__DisplayClass43_0`2.b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
---> (Inner Exception #3) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.
at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>c__DisplayClass43_0`2.b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
---> (Inner Exception #4) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.
at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>c__DisplayClass43_0`2.b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
---> (Inner Exception #5) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.
at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>c__DisplayClass43_0`2.b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
---> (Inner Exception #6) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.
at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>c__DisplayClass43_0`2.b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
---> (Inner Exception #7) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.
at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>c__DisplayClass43_0`2.b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
---> (Inner Exception #8) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.
at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>c__DisplayClass43_0`2.b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
---> (Inner Exception #9) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.
at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>c__DisplayClass43_0`2.b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
---> (Inner Exception #10) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.
at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>c__DisplayClass43_0`2.b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
---> (Inner Exception #11) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.
at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
e.Message: One or more errors occurred. (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.)e.InnerException: System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.
at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186 at System.Threading.Tasks.Parallel.<>c__DisplayClass43_02.b1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>cDisplayClass43_02.<PartitionerForEachWorker>b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion) at System.Threading.Tasks.TaskReplicator.Replica.Execute()e.Source: System.Threading.Tasks.Parallele.StackTrace: at System.Threading.Tasks.TaskReplicator.Run[TState](ReplicatableUserAction1 action, ParallelOptions options, Boolean stopOnFirstFailure)
at System.Threading.Tasks.Parallel.PartitionerForEachWorker[TSource,TLocal](Partitioner1 source, ParallelOptions parallelOptions, Action1 simpleBody, Action2 bodyWithState, Action3 bodyWithStateAndIndex, Func4 bodyWithStateAndLocal, Func5 bodyWithEverything, Func1 localInit, Action1 localFinally)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.PartitionerForEachWorker[TSource,TLocal](Partitioner1 source, ParallelOptions parallelOptions, Action1 simpleBody, Action2 bodyWithState, Action3 bodyWithStateAndIndex, Func4 bodyWithStateAndLocal, Func5 bodyWithEverything, Func1 localInit, Action1 localFinally)
at System.Threading.Tasks.Parallel.ForEach[TSource](Partitioner1 source, ParallelOptions parallelOptions, Action2 body)
at EngineLayer.ProteinParsimonyEngine.RunProteinParsimonyEngine() in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 119
at EngineLayer.ProteinParsimonyEngine.RunSpecific() in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 70
at EngineLayer.MetaMorpheusEngine.Run() in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\MetaMorpheusEngine.cs:line 282
at TaskLayer.PostGlycoSearchAnalysisTask.GlycoProteinAnalysis(List1 gsms, String outputFolder, String individualFileFolder, MyTaskResults myTaskResults) in C:\projects\metamorpheus\MetaMorpheus\TaskLayer\GlycoSearchTask\PostGlycoSearchAnalysisTask.cs:line 294 at TaskLayer.PostGlycoSearchAnalysisTask.Run(String OutputFolder, List1 dbFilenameList, List1 currentRawFileList, String taskId, FileSpecificParameters[] fileSettingsList, List1 allPsms, CommonParameters commonParameters, GlycoSearchParameters glycoSearchParameters, List1 proteinList, List1 variableModifications, List1 fixedModifications, List1 localizeableModificationTypes, MyTaskResults MyTaskResults) in C:\projects\metamorpheus\MetaMorpheus\TaskLayer\GlycoSearchTask\PostGlycoSearchAnalysisTask.cs:line 149
at TaskLayer.GlycoSearchTask.RunSpecific(String OutputFolder, List1 dbFilenameList, List1 currentRawFileList, String taskId, FileSpecificParameters[] fileSettingsList) in C:\projects\metamorpheus\MetaMorpheus\TaskLayer\GlycoSearchTask\GlycoSearchTask.cs:line 227
at TaskLayer.MetaMorpheusTask.RunTask(String output_folder, List1 currentProteinDbFilenameList, List1 currentRawDataFilepathList, String displayName) in C:\projects\metamorpheus\MetaMorpheus\TaskLayer\MetaMorpheusTask.cs:line 539e.TargetSite: Void Run[TState](ReplicatableUserAction`1, System.Threading.Tasks.ParallelOptions, Boolean)
Task 4 - Search Task: The default search task, but I changed precursor to 10 ppm and fragment to 0.2 Da. All other defaults were left on.
Example datafiles
I put the data files on my folder on Bison. They are in the folder "Metamorpheous Failed Samples"
I've also included the results from the search and the database I used.
Expected behavior for GUI
Screenshots
Desktop information
Data files were processed on a computer running Microsoft Windows 10.0.22631 with a 64-bit Intel(R) Xeon(R) Silver 4215 CPU @ 2.50GHz processor with 16 threads and 64GB installed RAM.
**Additional context**
Describing the issue
MetaMorpheus crashed during task 3, the GlycoSearch task. I was trying to run a series of tasks including: calibrate, GPTMD, GlycoSearch, and finally a search. **Reproducing the error**Protein database
uniprotkb_proteome_UP000005640_AND_revi_2024_10_04 Contaminants\MetaMorpheusContaminants.xml Downloaded on: 09/16/2024 19:14:14Mass spectrometry file types
Thermo QE .raw files There were a total of 9 raw files 3 bio reps with each having 3 tech repsSettings
For Task 1 - Calibrate: The following calibration settings were used: protease = trypsin; maximum missed cleavages = 2; minimum peptide length = 7; maximum peptide length = unspecified; initiator methionine behavior = Variable; fixed modifications = Carbamidomethyl on C, Carbamidomethyl on U; variable modifications = Oxidation on M; max mods per peptide = 2; max modification isoforms = 1024; precursor mass tolerance = ±15.0000 PPM; product mass tolerance = ±3.0000 Absolute. The combined search database contained 20676 non-decoy protein entries including 528 contaminant sequences.
For Task 2 - GPTMD: The following G-PTM-D settings were used: protease = trypsin; maximum missed cleavages = 2; minimum peptide length = 7; maximum peptide length = unspecified; initiator methionine behavior = Variable; max modification isoforms = 1024; fixed modifications = Carbamidomethyl on C, Carbamidomethyl on U; variable modifications = Oxidation on M; G-PTM-D modifications count = 87; precursor mass tolerance(s) = {±10.0000 PPM around -18.010564684, -17.026549101, -16.042533, -2.015649999999999, -1.0316339999999986, 0, 0.984015583, 1.968032, 4.955394000000002, 14.015650064, 14.999666000000001, 15.99491462, 16.978931, 21.969391633, 21.98194425, 22.965959, 27.99491462, 28.031300129, 28.990163592, 31.98983, 37.946940799, 37.955881454, 37.976858, 42.010564684, 42.046950193, 42.994581, 43.005813656, 43.963886, 43.989829239, 44.985078211, 52.911461233, 53.919286266, 61.913491946, 61.921772688, 63.992508, 68.026214748, 70.041864813, 79.956815033, 79.966330889, 86.000393923, 86.036779433, 100.016043988, 101.948274, 114.031694052, 146.057908801, 159.932662, 162.05282342, 176.032087975, 203.079372521, 229.014009359, 349.137281322, 365.132195941, 406.158745043, 541.06110975, 672.22252707, 730.264391883, 876.322300683, 947.323028959, 963.317943579, 1038.375124104, 1216.422862143 Da}; product mass tolerance = ±0.2000 Absolute. The combined search database contained 20676 non-decoy protein entries including 528 contaminant sequences.
For Task 3 - GlycoSearch: MetaMorpheus: version 1.0.6 Data files were processed on a computer running Microsoft Windows 10.0.22631 with a 64-bit Intel(R) Xeon(R) Silver 4215 CPU @ 2.50GHz processor with 16 threads and 64GB installed RAM. .NET version: .NET 8.0.8 e: System.AggregateException: One or more errors occurred. (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) ---> System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'. at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b 1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
2.<PartitionerForEachWorker>b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion) at System.Threading.Tasks.TaskReplicator.Replica.Execute() --- End of inner exception stack trace --- at System.Threading.Tasks.TaskReplicator.Run[TState](ReplicatableUserAction1 action, ParallelOptions options, Boolean stopOnFirstFailure) at System.Threading.Tasks.Parallel.PartitionerForEachWorker[TSource,TLocal](Partitioner1 source, ParallelOptions parallelOptions, Action1 simpleBody, Action2 bodyWithState, Action3 bodyWithStateAndIndex, Func4 bodyWithStateAndLocal, Func5 bodyWithEverything, Func1 localInit, Action1 localFinally) --- End of stack trace from previous location --- at System.Threading.Tasks.Parallel.PartitionerForEachWorker[TSource,TLocal](Partitioner1 source, ParallelOptions parallelOptions, Action1 simpleBody, Action2 bodyWithState, Action3 bodyWithStateAndIndex, Func4 bodyWithStateAndLocal, Func5 bodyWithEverything, Func1 localInit, Action1 localFinally) at System.Threading.Tasks.Parallel.ForEach[TSource](Partitioner1 source, ParallelOptions parallelOptions, Action2 body) at EngineLayer.ProteinParsimonyEngine.RunProteinParsimonyEngine() in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 119 at EngineLayer.ProteinParsimonyEngine.RunSpecific() in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 70 at EngineLayer.MetaMorpheusEngine.Run() in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\MetaMorpheusEngine.cs:line 282 at TaskLayer.PostGlycoSearchAnalysisTask.GlycoProteinAnalysis(List1 gsms, String outputFolder, String individualFileFolder, MyTaskResults myTaskResults) in C:\projects\metamorpheus\MetaMorpheus\TaskLayer\GlycoSearchTask\PostGlycoSearchAnalysisTask.cs:line 294 at TaskLayer.PostGlycoSearchAnalysisTask.Run(String OutputFolder, List1 dbFilenameList, List1 currentRawFileList, String taskId, FileSpecificParameters[] fileSettingsList, List1 allPsms, CommonParameters commonParameters, GlycoSearchParameters glycoSearchParameters, List1 proteinList, List1 variableModifications, List1 fixedModifications, List1 localizeableModificationTypes, MyTaskResults MyTaskResults) in C:\projects\metamorpheus\MetaMorpheus\TaskLayer\GlycoSearchTask\PostGlycoSearchAnalysisTask.cs:line 149 at TaskLayer.GlycoSearchTask.RunSpecific(String OutputFolder, List1 dbFilenameList, List1 currentRawFileList, String taskId, FileSpecificParameters[] fileSettingsList) in C:\projects\metamorpheus\MetaMorpheus\TaskLayer\GlycoSearchTask\GlycoSearchTask.cs:line 227 at TaskLayer.MetaMorpheusTask.RunTask(String output_folder, List1 currentProteinDbFilenameList, List1 currentRawDataFilepathList, String displayName) in C:\projects\metamorpheus\MetaMorpheus\TaskLayer\MetaMorpheusTask.cs:line 539 ---> (Inner Exception #1) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'. at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.2.<PartitionerForEachWorker>b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion) --- End of stack trace from previous location --- at System.Threading.Tasks.Parallel.<>c__DisplayClass43_02.---> (Inner Exception #2) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'. at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b 1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>c__DisplayClass43_0`2.b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
---> (Inner Exception #3) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'. at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b 1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>c__DisplayClass43_0`2.b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
---> (Inner Exception #4) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'. at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b 1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>c__DisplayClass43_0`2.b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
---> (Inner Exception #5) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'. at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b 1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>c__DisplayClass43_0`2.b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
---> (Inner Exception #6) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'. at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b 1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>c__DisplayClass43_0`2.b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
---> (Inner Exception #7) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'. at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b 1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>c__DisplayClass43_0`2.b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
---> (Inner Exception #8) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'. at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b 1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>c__DisplayClass43_0`2.b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
---> (Inner Exception #9) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'. at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b 1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>c__DisplayClass43_0`2.b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
---> (Inner Exception #10) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'. at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b 1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>c__DisplayClass43_0`2.b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
---> (Inner Exception #11) System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'. at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b2(Tuple`2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b 1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0`2.b1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
at System.Threading.Tasks.TaskReplicator.Replica.Execute()<---
e.Message: One or more errors occurred. (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.) (Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.)e.InnerException: System.InvalidCastException: Unable to cast object of type 'EngineLayer.GlycoSearch.GlycoSpectralMatch' to type 'EngineLayer.PeptideSpectralMatch'.
at EngineLayer.ProteinParsimonyEngine.<>cDisplayClass7_1.b 2(Tupleb1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion)
--- End of stack trace from previous location ---
at System.Threading.Tasks.Parallel.<>cDisplayClass43_0
2 range, ParallelLoopState loopState) in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 186 at System.Threading.Tasks.Parallel.<>c__DisplayClass43_02.2.<PartitionerForEachWorker>b__1(IEnumerator& partitionState, Int64 timeout, Boolean& replicationDelegateYieldedBeforeCompletion) at System.Threading.Tasks.TaskReplicator.Replica.Execute()e.Source: System.Threading.Tasks.Parallele.StackTrace: at System.Threading.Tasks.TaskReplicator.Run[TState](ReplicatableUserAction1 action, ParallelOptions options, Boolean stopOnFirstFailure) at System.Threading.Tasks.Parallel.PartitionerForEachWorker[TSource,TLocal](Partitioner1 source, ParallelOptions parallelOptions, Action1 simpleBody, Action2 bodyWithState, Action3 bodyWithStateAndIndex, Func4 bodyWithStateAndLocal, Func5 bodyWithEverything, Func1 localInit, Action1 localFinally) --- End of stack trace from previous location --- at System.Threading.Tasks.Parallel.PartitionerForEachWorker[TSource,TLocal](Partitioner1 source, ParallelOptions parallelOptions, Action1 simpleBody, Action2 bodyWithState, Action3 bodyWithStateAndIndex, Func4 bodyWithStateAndLocal, Func5 bodyWithEverything, Func1 localInit, Action1 localFinally) at System.Threading.Tasks.Parallel.ForEach[TSource](Partitioner1 source, ParallelOptions parallelOptions, Action2 body) at EngineLayer.ProteinParsimonyEngine.RunProteinParsimonyEngine() in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 119 at EngineLayer.ProteinParsimonyEngine.RunSpecific() in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\ProteinParsimony\ProteinParsimonyEngine.cs:line 70 at EngineLayer.MetaMorpheusEngine.Run() in C:\projects\metamorpheus\MetaMorpheus\EngineLayer\MetaMorpheusEngine.cs:line 282 at TaskLayer.PostGlycoSearchAnalysisTask.GlycoProteinAnalysis(List1 gsms, String outputFolder, String individualFileFolder, MyTaskResults myTaskResults) in C:\projects\metamorpheus\MetaMorpheus\TaskLayer\GlycoSearchTask\PostGlycoSearchAnalysisTask.cs:line 294 at TaskLayer.PostGlycoSearchAnalysisTask.Run(String OutputFolder, List1 dbFilenameList, List1 currentRawFileList, String taskId, FileSpecificParameters[] fileSettingsList, List1 allPsms, CommonParameters commonParameters, GlycoSearchParameters glycoSearchParameters, List1 proteinList, List1 variableModifications, List1 fixedModifications, List1 localizeableModificationTypes, MyTaskResults MyTaskResults) in C:\projects\metamorpheus\MetaMorpheus\TaskLayer\GlycoSearchTask\PostGlycoSearchAnalysisTask.cs:line 149 at TaskLayer.GlycoSearchTask.RunSpecific(String OutputFolder, List1 dbFilenameList, List1 currentRawFileList, String taskId, FileSpecificParameters[] fileSettingsList) in C:\projects\metamorpheus\MetaMorpheus\TaskLayer\GlycoSearchTask\GlycoSearchTask.cs:line 227 at TaskLayer.MetaMorpheusTask.RunTask(String output_folder, List1 currentProteinDbFilenameList, List1 currentRawDataFilepathList, String displayName) in C:\projects\metamorpheus\MetaMorpheus\TaskLayer\MetaMorpheusTask.cs:line 539e.TargetSite: Void Run[TState](ReplicatableUserAction`1, System.Threading.Tasks.ParallelOptions, Boolean)Task 4 - Search Task: The default search task, but I changed precursor to 10 ppm and fragment to 0.2 Da. All other defaults were left on.
I put the data files on my folder on Bison. They are in the folder "Metamorpheous Failed Samples" I've also included the results from the search and the database I used.
Expected behavior for GUI
Screenshots
Desktop information
Data files were processed on a computer running Microsoft Windows 10.0.22631 with a 64-bit Intel(R) Xeon(R) Silver 4215 CPU @ 2.50GHz processor with 16 threads and 64GB installed RAM. **Additional context**