Hi Devon, Thanks for your quick response. I did not use "-h inh.sam". The test is attached. The header looks good.
Thanks for your help. Yifeng > Hi Yifeng, > > Can you post one of the headers (preferably the one from the first file > that you specified in the merge command)? Am I correct in assuming that > you > didn't use the "-h inh.sam" option? > > In general, this error means that there's something about the header file > that samtools is trying to write to the merged file that it can't quite > parse correctly. > > Best, > Devon > > -- > Devon Ryan, Ph.D. > Email: dpr...@dpryan.com > Laboratory for Molecular and Cellular Cognition > German Centre for Neurodegenerative Diseases (DZNE) > Ludwig-Erhard-Allee 2 > 53175 Bonn > Germany > <devon.r...@dzne.de> > > On Fri, Nov 28, 2014 at 2:43 AM, <yif...@cmmt.ubc.ca> wrote: > >> Hi, >> >> I can successfully merge two bam files (replicates from ENCODE) using >> samtools version 0.1.19, but got an invalid header error with version >> 1.1. >> Is there anything I need to do with the parameters of v1.1, in order to >> be >> consistent with v0.1.19? >> >> Thanks, >> >> Yifeng >> >> >> >> ------------------------------------------------------------------------------ >> Download BIRT iHub F-Type - The Free Enterprise-Grade BIRT Server >> from Actuate! Instantly Supercharge Your Business Reports and Dashboards >> with Interactivity, Sharing, Native Excel Exports, App Integration & >> more >> Get technology previously reserved for billion-dollar corporations, FREE >> >> http://pubads.g.doubleclick.net/gampad/clk?id=157005751&iu=/4140/ostg.clktrk >> _______________________________________________ >> Samtools-help mailing list >> Samtools-help@lists.sourceforge.net >> https://lists.sourceforge.net/lists/listinfo/samtools-help >> >
example.out
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