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Old 09-13-2011, 09:59 AM   #1
doc.ramses
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Default using snappy java in picard tools

Hey,

I have a problem using picard-tools on large files. It tells me that I don't have snappyjava in java.library.
I'm not so familiar with java. Can anyone please point me on how to fix this.
I've already come across this:

http://sourceforge.net/apps/mediawik...appy_in_Picard

documentation, but don't really get.
I'm on a mac os x 10.6.8

Thank you for your help!
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Old 09-13-2011, 06:29 PM   #2
nilshomer
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A quick fix is to run "java -Dsnappy.disable=true -jar ...", which will disable snappy, making Picard slower. But at least you don't have to run around trying to get snappy installed correctly!
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Old 10-04-2011, 03:34 AM   #3
doc.ramses
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Thanks for the quick fix, that works for me. Although really slow
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Old 10-04-2011, 08:17 AM   #4
Graham Etherington
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Snappy comes distributed with the most recent versions of picard-tools (v1.53 - http://sourceforge.net/projects/picard/files/)
It's in the top-level directory by itself. The remaining picard jar files are in a sub-directory.
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