Hi Peter, Apologies, I should have mentioned that in my last email. It was samtools 1.0
Thanks Mark > On 5 Nov 2014, at 17:34, Peter Cock <p.j.a.c...@googlemail.com> wrote: > > Hi Mark, > > Which version of samtools was this? > > Peter > > On Wed, Nov 5, 2014 at 3:44 AM, Mark Ravinet <mravi...@nig.ac.jp> wrote: >> Hello all, >> >> When running samtools sort to sort a large number of bam files using the >> following line: >> >> samtools sort -T sorting -O bam -o $outfile $infile >> >> >> I get the following error messages printed to the screen: >> >> [bam_sort_core] merging from 2 files... >> [bam_translate] PG tag "A" on read "1_1101_10360_49339_1" encountered with >> no corresponding entry in header, tag lost >> >> >> The number of reads appears to remain the same between the sorted/unsorted >> bams. Can anyone give any insight into what this means? >> >> Many thanks >> >> Mark >> ------------------------------------------------ >> Mark Ravinet >> Postdoctoral Research Fellow >> Ecological Genetics Laboratory >> National Institute of Genetics >> Yata 1111, Mishima, Shizuoka >> 411-8540, Japan >> Email: mravi...@nig.ac.jp >> Skype: mark.ravinet >> +44 (0) 7841 67 58 63 (UK) >> +81 (0) 90 7211 3590 (Japan) >> ------------------------------------------------ >> >> >> ------------------------------------------------------------------------------ >> >> _______________________________________________ >> Samtools-help mailing list >> Samtools-help@lists.sourceforge.net >> https://lists.sourceforge.net/lists/listinfo/samtools-help >> ------------------------------------------------------------------------------ _______________________________________________ Samtools-help mailing list Samtools-help@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/samtools-help
