Hi,

Any ideas how to solve this error for CollectInsertSizeMetrics:

Fatal error: Exit code 1 ()
Picked up _JAVA_OPTIONS: -Xmx2048m -Xms256m
Exception in thread "main" htsjdk.samtools.SAMException: Reference sequence (424) not found in ../../galaxy/tool-data/grch38/seq/grch38.fa

	at htsjdk.samtools.reference.ReferenceSequenceFileWalker.get(ReferenceSequenceFileWalker.java:98)
	at picard.analysis.SinglePassSamProgram.makeItSo(SinglePassSamProgram.java:110)
	at picard.analysis.SinglePassSamProgram.doWork(SinglePassSamProgram.java:53)
	at picard.cmdline.CommandLineProgram.instanceMain(CommandLineProgram.java:206)
	at picard.cmdline.PicardCommandLine.instanceMain(PicardCommandLine.java:95)
	at picard.cmdline.PicardCommandLine.main(PicardCommandLine.java:105)


Cheers.

Amos Raphenya, B.Eng 
Bioinformatics Software Developer
Department of Biochemistry & Biomedical Sciences
McMaster University, MDCL 2317
p: (905) 525-9140
a: 1280 Main St W.,Hamilton, Ontario, Canada L8S 4K1
skype: amos_raphenya



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