Hans-Rudolf,
First off, thanks for the response.
On Friday 07 June 2013 03:00:40 Hans-Rudolf Hotz wrote:
b) make sure two edit ~/tool-data/shared/ucsc/ucsc_build_sites.txt by listing all genomes you are interested to use for the display, eg:
main http://genome.ucsc.edu/cgi-bin/hgTracks? mm7,mm8,mm9 The database attribute of your dataset (ie history item) has to be set to either mm7 or mm8 or mm9. You will not get the the display option if the database is set to mm10 or hg18
That's it! The test dataset I've been given is part of the "hg19" database, but that isn't included in:
[galaxy@login002 galaxy-dist]$ grep main tool-data/shared/ucsc/ucsc_build_sites.txt main http://genome.ucsc.edu/cgi-bin/hgTracks? priPac1,danRer4,mm9,mm8,droAna1,mm5,caeRem2,mm7,mm6,panTro1,dm3,panTro2,anoCar1,ce4,galGal3,galGal2,ce1,rn3,rn2,droMoj1,droMoj2,rn4,droYak1,droYak2,dp3,dp2,dm1,canFam1,danRer5,canFam2,danRer3,danRer2,ornAna1,ci2,ci1,tetNig1,bosTau1,bosTau3,bosTau2,equCab1,oryLat1,droAna2,droEre1,ponAbe2,rheMac2,sacCer1,droPer1,droSim1,monDom1,cb1,dm2,droSec1,strPur1,droVir2,droVir1,strPur2,sc1,xenTro1,droGri1,xenTro2,cb3,gasAcu1,caePb1,anoGam1,fr2,fr1,hg15,hg16,hg17,hg18,felCat3,apiMel2,monDom4,apiMel1,ce2
When I uploaded the same dataset to the "Main" galaxy server: https://main.g2.bx.psu.edu/, it did give me the "display at UCSC" option, so they must have updated their database list.
Thanks again, Malcolm