Are you using system calls within perl? You could direct the stdout to a
file: "*command blah blah *1>> samtools.stdout" ... or direct it to
/dev/null if it absolutely never varies.
~Joe
On Mon, Jul 28, 2014 at 12:49 PM, Sullivan, Catherine <
catherine.sulli...@yale.edu> wrote:
> Hi,
>
>
>
> Sorry new to programming. Just wrote my first perl script, and using
> samtools piped into grep to get an calls at a specific location. However,
> each time it run the script and it runs samtools, I get this in STDOUT:
>
>
>
> [mpileup] 1 samples in 1 input files
>
> <mpileup> Set max per-sample depth to 8000
>
>
>
> Anyway to re-direct this or prevent this, so I just get the output from
> the grep it is piped into? Doing this for multiple locations and want to
> create a file of the results, but have these two lines between each result.
>
>
>
> Thanks,
>
> Catherine Sullivan
>
>
> ------------------------------------------------------------------------------
> Infragistics Professional
> Build stunning WinForms apps today!
> Reboot your WinForms applications with our WinForms controls.
> Build a bridge from your legacy apps to the future.
>
> http://pubads.g.doubleclick.net/gampad/clk?id=153845071&iu=/4140/ostg.clktrk
> _______________________________________________
> Samtools-help mailing list
> Samtools-help@lists.sourceforge.net
> https://lists.sourceforge.net/lists/listinfo/samtools-help
>
>
--
Joseph Fass
Lead Data Analyst
UC Davis Genome Center - Bioinformatics Core
http://bioinformatics.ucdavis.edu/
jnf...@ucdavis.edu
phone ~ 530.752.2698
------------------------------------------------------------------------------
Infragistics Professional
Build stunning WinForms apps today!
Reboot your WinForms applications with our WinForms controls.
Build a bridge from your legacy apps to the future.
http://pubads.g.doubleclick.net/gampad/clk?id=153845071&iu=/4140/ostg.clktrk
_______________________________________________
Samtools-help mailing list
Samtools-help@lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/samtools-help
