We've moved!
This site is now read-only. You can find our new documentation site and support forum for posting questions here.
Be sure to read our welcome blog!

problem locating program

I downloaded GenomeAnalyserTK-2.3-9-ge53bf34 onto my computer and it works with java. The problem is that it can't find the walker with the name RealignerTargetCreator when I use the command.
bash-3.2$ java -jar /usr/bin/GenomeAnalysisTK.jar -T RealalignerTargetCreator -R reference.fasta -o output.interval -I test_sorted.bam

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

I noticed that the resource file only contained CountLoci.java, CountReads.java, Depth of Coverage.java,Pileup.java,PrintReads.java and ValidatingPileup.java.
Could someone help me with this problem?

Answers

Sign In or Register to comment.