Hi Greg, That does look quite similar, but the workarounds presented are not solving the issue for us. If you can offer any additional strategies, I would truly appreciate it.
Best, Scott On Fri, Apr 15, 2016 at 10:56 AM, Von Kuster, Greg <g...@psu.edu> wrote: > Hi Scott, > > I’m not positive, but this behavior may be related to this issue: > > https://github.com/galaxyproject/galaxy/issues/1881 > > Greg Von Kuster > > On Apr 15, 2016, at 10:52 AM, Scott Szakonyi <scott.b.szakony...@nd.edu > <mailto:scott.b.szakony...@nd.edu>> wrote: > > Hello all, > > We have indexed a genome using the appropriate data manager, for GATK, and > our reference is showing up and working for individual walkers in GATK > 2.8. When designing a workflow, however, the reference genome is not > appearing as an option for many walkers, including indel realigner and > realigner target creator. It is appearing for haplotype caller. Again > outside of the workflow environment the indexed references show up for all > walkers. > > Any thoughts on this issue? > > Thanks! > > -- > Scott B. Szakonyi > Research Programmer > > Center for Research Computing > 107 Information Technology Center > Notre Dame, IN 46556 > http://crc.nd.edu<http://crc.nd.edu/> > ___________________________________________________________ > 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: > https://lists.galaxyproject.org/ > > To search Galaxy mailing lists use the unified search at: > http://galaxyproject.org/search/mailinglists/ > > -- Scott B. Szakonyi Research Programmer *Center for Research Computing* 107 Information Technology Center Notre Dame, IN 46556 http://crc.nd.edu
___________________________________________________________ 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: https://lists.galaxyproject.org/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
