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Published 20 hours ago • verified publisher icon Illumina

Gemini error - v5.2.10.49

Open saty89 opened this issue 5 years ago • 5 comments

Hi,

I encountered another issue in the new version with Gemini with the following error. (This is when the sample was re-run again. First time, it warned for Gemini_3, Gemini_5 and Gemini_9 processes)

21/03/19 10:57 pm 1 WARNING: Processing failed for Gemini_5. See error log for details. 21/03/19 10:57 pm 1 Exception reported: System.Exception: Application failed: 1 tasks failed. at GeminiMulti.GeminiMultiProcessor.Execute(ICliTaskManager cliTaskManager, Dictionary2 chromRefIds, List1 cmdLineList, ISamtoolsWrapper samtoolsWrapper) at GeminiMulti.Program.ProgramExecution() at CommandLine.Application.BaseApplication`1.Execute().

ERROR: Application failed: 1 tasks failed.

Stack trace: at GeminiMulti.GeminiMultiProcessor.Execute(ICliTaskManager cliTaskManager, Dictionary2 chromRefIds, List1 cmdLineList, ISamtoolsWrapper samtoolsWrapper) at GeminiMulti.Program.ProgramExecution() at CommandLine.Application.BaseApplication`1.Execute() 21/03/19 10:57 pm 1 ******************** Ending *********************

I attached the log for Gemini step for the tested sample. Any help appreciated!

Gemini_error.txt

Thanks, Satwica

saty89 avatar Mar 22 '19 01:03 saty89

Thanks Satwica!

We'll keep you posted re issue 32 and 33.

tamsen avatar Apr 01 '19 21:04 tamsen

Thanks Tamsen. Meanwhile, I will use the previous version as that was working well without any problems. Hopefully these new issues get resolved soon!

saty89 avatar Apr 04 '19 03:04 saty89

Hi @saty89 , unfortunately I can't really tell what's going wrong here based on this error (and I know you said the BAMs can't be shared)... but if you can hang tight for about another week we will have an updated version that will hopefully work for you!

gwennberry avatar Apr 05 '19 02:04 gwennberry

Great, thanks!

saty89 avatar Apr 05 '19 03:04 saty89

Hi, Issue #46 I encountered an issue in the 5.2.10.49 version with Gemini with the following error. Gemini gave me following error for 3 folders: GL000220, GL000199, GL000216.

/5/19 8:08 PM 1 Exception reported:
System.Exception: Application failed: 3 tasks failed. at GeminiMulti.GeminiMultiProcessor.Execute(ICliTaskManager cliTaskManager, Dictionary2 chromRefIds, List1 cmdLineList, ISamtoolsWrapper samtoolsWrapper) at GeminiMulti.Program.ProgramExecution() at CommandLine.Application.BaseApplication`1.Execute().

ERROR: Application failed: 3 tasks failed.

Stack trace: at GeminiMulti.GeminiMultiProcessor.Execute(ICliTaskManager cliTaskManager, Dictionary2 chromRefIds, List1 cmdLineList, ISamtoolsWrapper samtoolsWrapper) at GeminiMulti.Program.ProgramExecution() at CommandLine.Application.BaseApplication`1.Execute() 9/5/19 8:08 PM 1 ******************** Ending *********************

Any thoughts what might be going on? Best, Varuna

Varunachander avatar Sep 06 '19 19:09 Varunachander