On Mon, Jul 22, 2013 at 10:40 AM, Moritz Juchler <juch...@stud.uni-heidelberg.de> wrote: > Hey, > > now I am having a new problem: Convert SAM to BAM > Tool execution generated the following error message: > > [samopen] SAM header is present: 93 sequences. > Parse error at line 106: sequence and quality are inconsistent > /bin/sh: line 1: 27934 Aborted samtools view -bS > "/home/trr/galaxy-dist/database/files/000/dataset_17.dat" > > "/tmp/tmp-sam_to_bam_converter-ut5Tag/unsorted.bam"
That's bad. > The tool produced the following additional output: > > [bam_header_read] EOF marker is absent. The input is probably truncated. > > (should I make a new post out of this?) Which version of samtools? There is a bug in the currently release where that warning is a false alarm: https://github.com/samtools/samtools/issues/18 Peter ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/