Hello David, The main hub for administration tasks is: http://galaxyproject.org/Admin To set up data, please see "Data Integration" and "NGS Local Setup". If this is just your own local instance, you may not need to follow all of the procedures. And you are correct, any log in would be specific to your instance. Hopefully this helps, Best, Jen Galaxy team On 8/29/11 5:01 PM, David Joly wrote:
Thanks! I decided to install a local instance of Galaxy. The installation went fine, but now I'm not sure how to add a custom genome. I found some information in past comments on the user list but I'm not sure I understand everything. All I've got is a fasta file with all my supercontigs and a gtf file with the predicted models. And a somewhat basic question: am I supposed to be able to log in a local instance? It doesn't recognize my username and password, which I guess is normal since it is local, so what should I do? Cheers, David 2011/8/26 Jennifer Jackson <jen@bx.psu.edu <mailto:jen@bx.psu.edu>>
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Hello David,
You are correct, this tool will only function when a database is defined with Galaxy already. This will include databases from UCSC and other sources and it sounds like you have already checked using the "Edit Attributes" form (pencil icon).
Using a custom genome currently would require a local instance where you could add you own genomes to the list of available databases. http://getgalaxy.org <http://getgalaxy.org/>
This may be a requirement that could be changed (ability to leave database as unassigned). I opened a request ticket that you can follow to see the review result for this proposal: https://bitbucket.org/galaxy/__galaxy-central/issue/649/__modify-aachanges-t... <https://bitbucket.org/galaxy/galaxy-central/issue/649/modify-aachanges-tool-to-allow-undefined>
Thanks for sending in the suggestion!
Best,
Jen Galaxy team
On 8/25/11 3:51 PM, David Joly wrote:
Hi everybody, Maybe a dumb question but does someone know if we can use the aaChanges tool on a custom genome? I have my SNP dataset and my gene dataset but I can only assign them to one of the genome build already in UCSC... I am using the web server of galaxy. Do I need to install my own local instance of Galaxy in order to add a custom genome build? Thanks, David
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