Thanks for reporting this, sounds like an older, incorrect, config file
is in place. And this can be fixed.
I will be going into the genomes area and re-verifying current builds
and other built-in data/indexes shortly.
On 10/10/13 1:56 PM, Court, Michael wrote:
I minor annoyance that I had found with the current implementation of
"Tophat for Illumina (version 1.5.0)" in the public usegalaxy.org
When you submit sequences for alignment, the dropdown list of
available genomes gives 2 dog genome choices -- BUT both are labeled
the same -- "Dog(Canis lupus familiaris): canFam2".
After trial and error I found that the second (lower on the list)
choice is actually "Dog(Canis lupus familiaris): canFam3.1".
Hopefully this can be corrected at some point -- maybe when the next
release comes out from the Broad.
*Michael H. Court, BVSc, PhD, Diplomate ACVA*
*Professor and William R. Jones Endowed Chair*
*Individualized Medicine Program*
*Department of Veterinary Clinical Sciences*
*College of Veterinary Medicine, Washington State University*
*100 Grimes Way, Pullman, WA 99164-6610***
*Office: 509-335-0817 Cell: 774-287-7082 Fax: 509-335-0880*
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