2.2 years ago by
Instead of using the Rsync server, consider installing the genome with Data Managers (sourced from the Tool Shed http://usegalaxy.org/toolshed). Install DMs like any other tool using the Admin functions.
You'll need these DMs at a minimum, and execute them in this order first:
- Fasta fetcher. Tthere are two and often both are needed. If the genome is not listed in the builds list in the Upload tool, use the one that creates a "dbkey"
- SAM indexer
- Picard indexer
- 2bit indexer
Then get the DMs that create indexes for the tools you want to use. Run these after the others have completed for the best results.
Thanks, Jen, Galaxy team
Ps: I will check into the Rsych server issues meanwhile. Still, using DMs directly is still the best choice.