System.Exception: Exception during execution of external process: 229605

[littlenapleon]

My Maxquant analysis runs well then it fails at the Writing tables stage. What could be causing this problem? My fasta file was constructed by myself. Errors are as below,
Configuring
Assemble run info
Finish run info
Testing fasta files
Testing raw files
Feature detection
Deisotoping
MS/MS preparation
Calculating peak properties
Combining apl files for first search
Preparing searches
MS/MS first search
Read search results for recalibration
Mass recalibration
Calculating masses
MS/MS preparation for main search
Combining apl files for main search
MS/MS main search
Preparing combined folder
Correcting errors
Reading search engine results
Preparing reverse hits
Finish search engine results
Filter identifications (MS/MS)
Calculating PEP
Copying identifications
Applying FDR
Assembling second peptide MS/MS
Combining second peptide files
Second peptide search
Reading search engine results (SP)
Finish search engine results (SP)
Filtering identifications (SP)
Applying FDR (SP)
Re-quantification
Reporter quantification
Prepare protein assembly
Assembling proteins
Assembling unidentified peptides
Finish protein assembly
Updating identifications
Estimating complexity
Prepare writing tables
Writing tables

Unhandled Exception:
System.Exception: Exception during execution of external process: 229605
Unhandled Exception:
System.IndexOutOfRangeException: Index was outside the bounds of the array.
at BaseLibS.Ms.RawFileLayer.GetDiaMs2Indices () [0x00037] in <8513301686fe48d39ba1f2bf0804617e>:0
at BaseLibS.Ms.RawFileLayer.GetDiaRanges (System.Double[]& mzMin, System.Double[]& mzMax) [0x00001] in <8513301686fe48d39ba1f2bf0804617e>:0
at MaxQuantLibS.Domains.Peptides.Dia.Data.DiaRangeCombination.GetCount (MaxQuantLibS.Domains.Peptides.Data.Run run) [0x0000f] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Dia.Data.DiaRangeCombination.GetCount (MaxQuantLibS.Domains.Peptides.Data.GenericRun run) [0x00016] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Table.MsScansTable.FillTable (BaseLibS.Table.IDataTable table, System.String rawFile, System.Int32 rawFileIndex, MaxQuantLibS.Domains.Peptides.Basic.GroupParams param, MaxQuantLibS.Domains.Peptides.Basic.MaxQuantParams mqpar, MaxQuantLibS.Domains.Peptides.Data.CombinedData data) [0x00044] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Table.TableUtilsP.FillMsScansTable (System.String filenameTxt, System.String filenameSer, MaxQuantLibS.Domains.Peptides.Basic.MaxQuantParams mqpar, System.Int32 index, System.String combinedFolder) [0x00037] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Table.TableUtilsP.WriteRemainingTables (System.Int32 jobIndex, System.String mqparFile, System.String combinedFolder, System.String txtFolder, System.String serFolder) [0x0021d] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Table.TableUtilsP.WriteTablesImpl (System.String combinedFolder, System.String txtFolder, System.String serFolder, System.String mqparFile, System.Int32 taskIndex) [0x0016b] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Table.TableUtilsP.WriteTables (System.String combinedFolder, System.String mqparFile, System.Int32 taskIndex) [0x00015] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Work.WriteTable.Calculation (System.String[] args, BaseLibS.Util.Responder responder) [0x00036] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Work.MaxQuantWorkDispatcherUtil.PerformTask (System.Int32 taskType, System.String[] args, BaseLibS.Util.Responder responder) [0x00007] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Base.MaxQuantUtils.Run (System.Int32 softwareId, System.Int32 taskType, System.String[] args, BaseLibS.Util.Responder responder) [0x0003e] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantTask.Program.Function (System.String[] args, BaseLibS.Util.Responder responder) [0x0001c] in <7ba895466ed6424bbd152d1a31fcf271>:0
at Utils.Util.ExternalProcess.Run (System.String[] args, System.Boolean debug) [0x00148] in <7b96395895e442fea6f0a41d98060a6c>:0
at MaxQuantTask.Program.Main (System.String[] args) [0x00007] in <7ba895466ed6424bbd152d1a31fcf271>:0
[ERROR] FATAL UNHANDLED EXCEPTION: System.IndexOutOfRangeException: Index was outside the bounds of the array.
at BaseLibS.Ms.RawFileLayer.GetDiaMs2Indices () [0x00037] in <8513301686fe48d39ba1f2bf0804617e>:0
at BaseLibS.Ms.RawFileLayer.GetDiaRanges (System.Double[]& mzMin, System.Double[]& mzMax) [0x00001] in <8513301686fe48d39ba1f2bf0804617e>:0
at MaxQuantLibS.Domains.Peptides.Dia.Data.DiaRangeCombination.GetCount (MaxQuantLibS.Domains.Peptides.Data.Run run) [0x0000f] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Dia.Data.DiaRangeCombination.GetCount (MaxQuantLibS.Domains.Peptides.Data.GenericRun run) [0x00016] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Table.MsScansTable.FillTable (BaseLibS.Table.IDataTable table, System.String rawFile, System.Int32 rawFileIndex, MaxQuantLibS.Domains.Peptides.Basic.GroupParams param, MaxQuantLibS.Domains.Peptides.Basic.MaxQuantParams mqpar, MaxQuantLibS.Domains.Peptides.Data.CombinedData data) [0x00044] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Table.TableUtilsP.FillMsScansTable (System.String filenameTxt, System.String filenameSer, MaxQuantLibS.Domains.Peptides.Basic.MaxQuantParams mqpar, System.Int32 index, System.String combinedFolder) [0x00037] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Table.TableUtilsP.WriteRemainingTables (System.Int32 jobIndex, System.String mqparFile, System.String combinedFolder, System.String txtFolder, System.String serFolder) [0x0021d] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Table.TableUtilsP.WriteTablesImpl (System.String combinedFolder, System.String txtFolder, System.String serFolder, System.String mqparFile, System.Int32 taskIndex) [0x0016b] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Table.TableUtilsP.WriteTables (System.String combinedFolder, System.String mqparFile, System.Int32 taskIndex) [0x00015] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Work.WriteTable.Calculation (System.String[] args, BaseLibS.Util.Responder responder) [0x00036] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Work.MaxQuantWorkDispatcherUtil.PerformTask (System.Int32 taskType, System.String[] args, BaseLibS.Util.Responder responder) [0x00007] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Base.MaxQuantUtils.Run (System.Int32 softwareId, System.Int32 taskType, System.String[] args, BaseLibS.Util.Responder responder) [0x0003e] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantTask.Program.Function (System.String[] args, BaseLibS.Util.Responder responder) [0x0001c] in <7ba895466ed6424bbd152d1a31fcf271>:0
at Utils.Util.ExternalProcess.Run (System.String[] args, System.Boolean debug) [0x00148] in <7b96395895e442fea6f0a41d98060a6c>:0
at MaxQuantTask.Program.Main (System.String[] args) [0x00007] in <7ba895466ed6424bbd152d1a31fcf271>:0

at QueueingSystem.WorkDispatcher.ProcessSingleRunExternalProcess (System.Int32 taskIndex, System.Int32 threadIndex) [0x0009d] in :0
at QueueingSystem.WorkDispatcher.DoWork (System.Int32 taskIndex, System.Int32 threadIndex) [0x0001e] in :0
at QueueingSystem.WorkDispatcher.Work (System.Object threadIndex) [0x00054] in :0
at System.Threading.ThreadHelper.ThreadStart_Context (System.Object state) [0x0002c] in <12b418a7818c4ca0893feeaaf67f1e7f>:0
at System.Threading.ExecutionContext.RunInternal (System.Threading.ExecutionContext executionContext, System.Threading.ContextCallback callback, System.Object state, System.Boolean preserveSyncCtx) [0x0008d] in <12b418a7818c4ca0893feeaaf67f1e7f>:0
at System.Threading.ExecutionContext.Run (System.Threading.ExecutionContext executionContext, System.Threading.ContextCallback callback, System.Object state, System.Boolean preserveSyncCtx) [0x00000] in <12b418a7818c4ca0893feeaaf67f1e7f>:0
at System.Threading.ExecutionContext.Run (System.Threading.ExecutionContext executionContext, System.Threading.ContextCallback callback, System.Object state) [0x00031] in <12b418a7818c4ca0893feeaaf67f1e7f>:0
at System.Threading.ThreadHelper.ThreadStart (System.Object obj) [0x00012] in <12b418a7818c4ca0893feeaaf67f1e7f>:0
[ERROR] FATAL UNHANDLED EXCEPTION: System.Exception: Exception during execution of external process: 229605
Unhandled Exception:
System.IndexOutOfRangeException: Index was outside the bounds of the array.
at BaseLibS.Ms.RawFileLayer.GetDiaMs2Indices () [0x00037] in <8513301686fe48d39ba1f2bf0804617e>:0
at BaseLibS.Ms.RawFileLayer.GetDiaRanges (System.Double[]& mzMin, System.Double[]& mzMax) [0x00001] in <8513301686fe48d39ba1f2bf0804617e>:0
at MaxQuantLibS.Domains.Peptides.Dia.Data.DiaRangeCombination.GetCount (MaxQuantLibS.Domains.Peptides.Data.Run run) [0x0000f] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Dia.Data.DiaRangeCombination.GetCount (MaxQuantLibS.Domains.Peptides.Data.GenericRun run) [0x00016] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Table.MsScansTable.FillTable (BaseLibS.Table.IDataTable table, System.String rawFile, System.Int32 rawFileIndex, MaxQuantLibS.Domains.Peptides.Basic.GroupParams param, MaxQuantLibS.Domains.Peptides.Basic.MaxQuantParams mqpar, MaxQuantLibS.Domains.Peptides.Data.CombinedData data) [0x00044] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Table.TableUtilsP.FillMsScansTable (System.String filenameTxt, System.String filenameSer, MaxQuantLibS.Domains.Peptides.Basic.MaxQuantParams mqpar, System.Int32 index, System.String combinedFolder) [0x00037] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Table.TableUtilsP.WriteRemainingTables (System.Int32 jobIndex, System.String mqparFile, System.String combinedFolder, System.String txtFolder, System.String serFolder) [0x0021d] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Table.TableUtilsP.WriteTablesImpl (System.String combinedFolder, System.String txtFolder, System.String serFolder, System.String mqparFile, System.Int32 taskIndex) [0x0016b] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Table.TableUtilsP.WriteTables (System.String combinedFolder, System.String mqparFile, System.Int32 taskIndex) [0x00015] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Work.WriteTable.Calculation (System.String[] args, BaseLibS.Util.Responder responder) [0x00036] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Work.MaxQuantWorkDispatcherUtil.PerformTask (System.Int32 taskType, System.String[] args, BaseLibS.Util.Responder responder) [0x00007] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Base.MaxQuantUtils.Run (System.Int32 softwareId, System.Int32 taskType, System.String[] args, BaseLibS.Util.Responder responder) [0x0003e] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantTask.Program.Function (System.String[] args, BaseLibS.Util.Responder responder) [0x0001c] in <7ba895466ed6424bbd152d1a31fcf271>:0
at Utils.Util.ExternalProcess.Run (System.String[] args, System.Boolean debug) [0x00148] in <7b96395895e442fea6f0a41d98060a6c>:0
at MaxQuantTask.Program.Main (System.String[] args) [0x00007] in <7ba895466ed6424bbd152d1a31fcf271>:0
[ERROR] FATAL UNHANDLED EXCEPTION: System.IndexOutOfRangeException: Index was outside the bounds of the array.
at BaseLibS.Ms.RawFileLayer.GetDiaMs2Indices () [0x00037] in <8513301686fe48d39ba1f2bf0804617e>:0
at BaseLibS.Ms.RawFileLayer.GetDiaRanges (System.Double[]& mzMin, System.Double[]& mzMax) [0x00001] in <8513301686fe48d39ba1f2bf0804617e>:0
at MaxQuantLibS.Domains.Peptides.Dia.Data.DiaRangeCombination.GetCount (MaxQuantLibS.Domains.Peptides.Data.Run run) [0x0000f] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Dia.Data.DiaRangeCombination.GetCount (MaxQuantLibS.Domains.Peptides.Data.GenericRun run) [0x00016] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Table.MsScansTable.FillTable (BaseLibS.Table.IDataTable table, System.String rawFile, System.Int32 rawFileIndex, MaxQuantLibS.Domains.Peptides.Basic.GroupParams param, MaxQuantLibS.Domains.Peptides.Basic.MaxQuantParams mqpar, MaxQuantLibS.Domains.Peptides.Data.CombinedData data) [0x00044] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Table.TableUtilsP.FillMsScansTable (System.String filenameTxt, System.String filenameSer, MaxQuantLibS.Domains.Peptides.Basic.MaxQuantParams mqpar, System.Int32 index, System.String combinedFolder) [0x00037] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Table.TableUtilsP.WriteRemainingTables (System.Int32 jobIndex, System.String mqparFile, System.String combinedFolder, System.String txtFolder, System.String serFolder) [0x0021d] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Table.TableUtilsP.WriteTablesImpl (System.String combinedFolder, System.String txtFolder, System.String serFolder, System.String mqparFile, System.Int32 taskIndex) [0x0016b] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Table.TableUtilsP.WriteTables (System.String combinedFolder, System.String mqparFile, System.Int32 taskIndex) [0x00015] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Work.WriteTable.Calculation (System.String[] args, BaseLibS.Util.Responder responder) [0x00036] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Domains.Peptides.Work.MaxQuantWorkDispatcherUtil.PerformTask (System.Int32 taskType, System.String[] args, BaseLibS.Util.Responder responder) [0x00007] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantLibS.Base.MaxQuantUtils.Run (System.Int32 softwareId, System.Int32 taskType, System.String[] args, BaseLibS.Util.Responder responder) [0x0003e] in <0192019f238544f0853b98f2f971fe56>:0
at MaxQuantTask.Program.Function (System.String[] args, BaseLibS.Util.Responder responder) [0x0001c] in <7ba895466ed6424bbd152d1a31fcf271>:0
at Utils.Util.ExternalProcess.Run (System.String[] args, System.Boolean debug) [0x00148] in <7b96395895e442fea6f0a41d98060a6c>:0
at MaxQuantTask.Program.Main (System.String[] args) [0x00007] in <7ba895466ed6424bbd152d1a31fcf271>:0

at QueueingSystem.WorkDispatcher.ProcessSingleRunExternalProcess (System.Int32 taskIndex, System.Int32 threadIndex) [0x0009d] in :0
at QueueingSystem.WorkDispatcher.DoWork (System.Int32 taskIndex, System.Int32 threadIndex) [0x0001e] in :0
at QueueingSystem.WorkDispatcher.Work (System.Object threadIndex) [0x00054] in :0
at System.Threading.ThreadHelper.ThreadStart_Context (System.Object state) [0x0002c] in <12b418a7818c4ca0893feeaaf67f1e7f>:0
at System.Threading.ExecutionContext.RunInternal (System.Threading.ExecutionContext executionContext, System.Threading.ContextCallback callback, System.Object state, System.Boolean preserveSyncCtx) [0x0008d] in <12b418a7818c4ca0893feeaaf67f1e7f>:0
at System.Threading.ExecutionContext.Run (System.Threading.ExecutionContext executionContext, System.Threading.ContextCallback callback, System.Object state, System.Boolean preserveSyncCtx) [0x00000] in <12b418a7818c4ca0893feeaaf67f1e7f>:0
at System.Threading.ExecutionContext.Run (System.Threading.ExecutionContext executionContext, System.Threading.ContextCallback callback, System.Object state) [0x00031] in <12b418a7818c4ca0893feeaaf67f1e7f>:0
at System.Threading.ThreadHelper.ThreadStart (System.Object obj) [0x00012] in <12b418a7818c4ca0893feeaaf67f1e7f>:0

[snail123815]

Same here. Error happens after I switch "writeMzTab" on. Using version 2.4.9.0.

[atc3]

Hi,

I'm not familiar with this error. You should ask the official MaxQuant forum. The official help forum is on Google Groups here: https://groups.google.com/g/maxquant-list?pli=1

Albert