Hi Vipin,
On 8/28/13 1:34 PM, Vipin TS wrote:
Hello,
I am slightly confused with adding a new genome to my local Galaxy
instance, I am using the recent default branch 10411:c42567f43aa7
(following the documentation at
http://wiki.galaxyproject.org/Admin/Data%20Integration)
I have edited the ~/galaxy-dist/tool-data/all_fasta.loc to add new
Arabidopsis genome and updated
~/galaxy-dist/tool-data/shared/ucsc/builds.txt, when I restarted my
local instance, I am not finding the newly added genome in database.
Is it not showing up under the list of databases/genomes when you at
these locations:
1 - Get Data -> Upload File -> Genome: (pull down menu)
or
2 - Click on the pencil icon for any dataset, first page of 'Edit
Attributes' forms "Attributes -> Database/Build"
You mentioned restarting, which is good, because that is necessary. The
next thing to double check is that the names are "exact" and that the
files are tab delimited, not space delimited, and have no trailing or
extra whitespace (this is easy to slip in by accident).
Or do you mean that it is not showing up as a target database/genome for
a particular tool? Tools/groups of tools require additional set up, as
explained on this page (also linked from the one you mention - which
also has information about rsync of the indexes/loc files the public
Main instance uses):
http://wiki.galaxyproject.org/Admin/NGS%20Local%20Setup
If this doesn't help solve the issue, pls send more details, perhaps a
sample of files, and we can help.
Jen
Galaxy team
any idea what is going wrong here ?
thanks,
--/Vipin
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--
Jennifer Hillman-Jackson
http://galaxyproject.org
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