On Fri, Jul 6, 2012 at 3:07 AM, Aarti Desai <[email protected]> wrote: > These show up in the history with the appropriate size. But when I choose > the “Map with BWA for Illumina” option, the two fastq files do not show up > in the FASTQ file drop down.
Hi Aarti, Most tools in galaxy that work with fastq file need specifically fastqsanger input file. Even if your file have the quality values in Sanger format, the auto detect format logic won't be able to determine this. If you know you fastq file are in fact in Sanger format, editing your file metadata and selecting fastqsanger for the format would do the trick. If you aren't sure, you should use Fastq Groomer tool to convert them to Sanger format. I would recommend to watch the several screencast describing mapping analysis in Galaxy. Hope it helps, Carlos ___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
