GeNomad database

usegalaxy.org support
1

Hello,
is it possible to install the database for geNomad? geNomad is installed but the database is missing and it cannot be used. Below in the usage of geNomad it is indicated: “In addition you need to select a reference database that has to be installed by your Galaxy admin.” Here is the link for the installation: Installation - geNomad
Thanks for your help
Best Achim

2

Not an exact answer to your question, but a strange coincidence: we just installed the database today on Galaxy Europe, where it should be available from tomorrow on.

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3

Hello,
yeah I was looking for that. I see that I choose now “version 1.7” for the reference database. I just tried it and I got an error indicating that the db does not exist: "data/db/data_managers/genomad_databases/genomad_db’ does not exist. "
Thanks a lot for your help
Best

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4

You’re correct, thanks for the feedback!

There is an issue with the database install logic, which we will have to fix this week. I’ll post back here when the DB is usable.

5

So we think the issue is fixed and the DB should work now on .eu. Please test and let us know whenever you have time.

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6

It’s running… great and thanks a lot

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7

I would like to run this but don’t see an option the specify the database although it is a required field.
Thanks

8

Welcome @chris221

I’m only seeing the database at the UseGalaxy.eu server for now, and with this version of the tool. I had to accept the licence for it to show up.

  • geNomad identify virus and plasmid genomes from nucleotide sequences(Galaxy Version 1.8.0+galaxy1)

Hope this helps! :slight_smile: