On Sun, Jan 27, 2013 at 10:04 AM, Jeremy Goecks jeremy.goecks@emory.edu wrote:
Actually, there an easier way to fix this without patching your Galaxy installation. Builds will show up in the library dbkey box if there's a chromosome length file associated with the build. Chromosome length files are used in some format converters (e.g. wig/bedgraph-to-bigwig) and for visualization.
You can download len files by doing the following:
(1) Uncomment/add len_file_path to your universe.wsgi.ini file, e.g.:
len_file_path = tool-data/shared/ucsc/chrom
(2) Run these commands from your Galaxy install to download len files from UCSC:
mkdir ./tool-data/shared/ucsc/chrom/ python ./cron/build_chrom_db.py ./tool-data/shared/ucsc/chrom/
(3) Restart Galaxy.
Thanks Jeremy, I will try this and report back.