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Old 08-13-2010, 04:29 AM   #1
memo
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Location: Oslo, Norway

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Default scripture trouble

Hi!

I'm trying to use scripture to assemble RNAseq reads, and when preprocessing the data I use this command:

java -Xmx4000m -jar scripture.jar -task makePairedFile -pair1 spm31/good_hits.sorted.sam -pair2 spm32/good_hits.sorted.sam -out lane3.paired.sam -sorted

This gives me the message "Invalid task makePairedFile" in return.

Anyone here who has used scripture and knows what goes wrong?

Have a nice day!
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Old 08-13-2010, 05:20 AM   #2
adamdeluca
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looks like you need the beta version for the makePairedFile task
http://www.broadinstitute.org/softwa...re/?q=download
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