Hi, What type of data are you trying to add? For NGS references, see https://bitbucket.org/galaxy/galaxy-central/wiki/NGSLocalSetup . Let us know if that isn't enough info. Regards, Kelly On Feb 2, 2011, at 3:58 PM, Geoff Jentry wrote:
Hello ...
I've installed a Galaxy server on one of our local machines (X86_64 linux running CentOS 5). When I go to modules that have a "Select a reference genome:" option, the dropboxes are empty.
I did find this thread: http://lists.bx.psu.edu/pipermail/galaxy-dev/2010-August/003138.html
But it's still not making sense to me. To test things out, I've downloaded the chr*.fa.gz files for hg18 from UCSC. Based on the advice in this thread, I've used faToTwoBit on each of the .fa files. These files are all sitting in /home/galaxy/local/galaxy/ genomes/hg18/
This poster says to add the location to tool-data/alignseq.loc, but this file's comments says that it uses axt files for alignment data and nib files for seqs - these are clearly neither.
I added the following entry to my faseq.loc file: hg18 /home/galaxy/local/genomes/hg18
and to my twobit.loc: hg18 /home/galaxy/local/galaxy/genomes/hg18
But even after restarting the server hg18 isn't showing up in the reference genome. Clearly I'm doing something very wrong here, can anyone help me out here?
Thanks -J _______________________________________________ galaxy-dev mailing list galaxy-dev@lists.bx.psu.edu http://lists.bx.psu.edu/listinfo/galaxy-dev