Hi Eugenie,
Picard does all its logging to standard error, so typically on a unix system
you would capture the log output via one of the redirection operators, e.g. the
stuff in bold below:
java -jar SortSam.jar input=foo.bam output=foo.sorted.bam 2> sort.log
-Alec
On Jun 23, 2014, at 10:25 AM, Eugenie Denisova <eugenie.dup...@gmail.com> wrote:
> Dear all,
>
> Please can you help me.
>
> If Picard has an option to write log to a file?
> (I run it as a step of pipeline and search for a way to get run report)
>
> Thank you for your time!
>
> Best,
>
> Eugenie
> ------------------------------------------------------------------------------
> HPCC Systems Open Source Big Data Platform from LexisNexis Risk Solutions
> Find What Matters Most in Your Big Data with HPCC Systems
> Open Source. Fast. Scalable. Simple. Ideal for Dirty Data.
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------------------------------------------------------------------------------
HPCC Systems Open Source Big Data Platform from LexisNexis Risk Solutions
Find What Matters Most in Your Big Data with HPCC Systems
Open Source. Fast. Scalable. Simple. Ideal for Dirty Data.
Leverages Graph Analysis for Fast Processing & Easy Data Exploration
http://p.sf.net/sfu/hpccsystems
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