Hello Yuri, You are correct, new genomes can be specified by modifing the $ {GALAXY_ROOT}/tool-data/shared/ucsc/builds.txt. This file is generated using a script found at ${GALAXY_ROOT}/cron/updateucsc.sh. If this script is executed on a normal basis, it will be useful to instead add the required information to ${GALAXY_ROOT}/tool-data/ shared/ucsc/manual_builds.txt before running the script (otherwise each time the script is run, the changes to build.txt will be lost). See ${GALAXY_ROOT}/cron/README.txt for more information as well as the headers of each data file. On Dec 2, 2009, at 9:54 PM, Yuri Bendana wrote:

I recently installed Galaxy and am pleasantly surprised how easy it is to get up and running. The screencasts and wiki are very helpful. One thing I can't figure out is how to add a Medicago genome to the Database/Build dropdown that appears when I try to edit my query attributes (it looks like the same builds appear in the Genome dropdown on the Get Data->Upload page). I thought adding the genome directory to the tools-data/faseq.loc file might work but doesn't seem to. I noticed that the build list displayed is stored in tool-data/shared/ucsc/builds.txt and it looks like it gets updated by a cron script. I would like to use the Fetch Sequences -> Extract Genomic DNA tool on my local genomes.

thanks,

yuri _______________________________________________ galaxy-dev mailing list galaxy-dev@lists.bx.psu.edu http://lists.bx.psu.edu/listinfo/galaxy-dev

Greg Von Kuster Galaxy Development Team greg@bx.psu.edu