From: Kathleen T. <kti...@br...> - 2010-06-22 16:39:08
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The R scripts have been updated in the public Picard repository. Please let me know if there are any additional issues. Kathleen On Jun 22, 2010, at 9:49 AM, Kathleen Tibbetts wrote: > Sorry! The R scripts were inadvertently left behind when moving these > tools to the public Picard repository. I'm working on moving and > testing them now, and will send a note to the list when that is done. > > Kathleen Tibbetts > > On Jun 21, 2010, at 5:33 PM, Tadigotla, Vasisht wrote: > >> Hi, >> >> I'm trying to run CollectGcBiasMetrics and I'm getting the error >> below with picard release 1.23. Are there any other files that I >> need apart from the zip archive on sourceforge to get this to work. >> >> Thanks, >> Vasisht >> >> [Mon Jun 21 16:56:43 EDT 2010] >> net.sf.picard.analysis.CollectGcBiasMetrics done. >> Runtime.totalMemory()=1530593280 >> Exception in thread "main" java.lang.IllegalArgumentException: >> Script [edu/mit/broad/picard/sam/gcBias.R] not found in classpath >> at >> net.sf.picard.util.RExecutor.writeScriptFile(RExecutor.java:85) >> at >> net.sf.picard.util.RExecutor.executeFromClasspath(RExecutor.java:54) >> at >> net >> .sf >> .picard >> .analysis.CollectGcBiasMetrics.doWork(CollectGcBiasMetrics.java:212) >> at >> net >> .sf >> .picard >> .cmdline.CommandLineProgram.instanceMain(CommandLineProgram.java:150) >> at >> net >> .sf >> .picard.analysis.CollectGcBiasMetrics.main(CollectGcBiasMetrics.java: >> 91) >> >> >> ------------------------------------------------------------------------------ >> ThinkGeek and WIRED's GeekDad team up for the Ultimate >> GeekDad Father's Day Giveaway. ONE MASSIVE PRIZE to the >> lucky parental unit. See the prize list and enter to win: >> http://p.sf.net/sfu/thinkgeek-promo >> _______________________________________________ >> Samtools-help mailing list >> Sam...@li... >> https://lists.sourceforge.net/lists/listinfo/samtools-help > > > ------------------------------------------------------------------------------ > ThinkGeek and WIRED's GeekDad team up for the Ultimate > GeekDad Father's Day Giveaway. ONE MASSIVE PRIZE to the > lucky parental unit. See the prize list and enter to win: > http://p.sf.net/sfu/thinkgeek-promo > _______________________________________________ > Samtools-help mailing list > Sam...@li... > https://lists.sourceforge.net/lists/listinfo/samtools-help |