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Published 20 hours ago • verified publisher icon ngs-fzb

GATK doesn't work on Java 1.9

Open tseemann opened this issue 6 years ago • 4 comments

I was getting this error:

##### ERROR MESSAGE: Invalid command line: Malformed walker argument: Could not find walker with name: RealignerTargetCreator

Tracked it down to here:

https://gatkforums.broadinstitute.org/gatk/discussion/10464/invalid-command-line-malformed-walker-argument

it seems it needs older Java 1.8 :-(

PS. picard seems to be ok

tseemann avatar Aug 17 '18 06:08 tseemann