Question: fetch genome all fasta tool not found in tool shed
0
mohammedtleis • 0 wrote:
Greetings,
I am looking for the fetch-genome-all-fasta tool to install it on local instance of galaxy; I want to use it to fetch a human genome to be used as a reference genome. But I couldn't happen to find this tool when I search in the toolshed.
I could find it online though and cloned it into a local folder but I have no clue how to include it into Galaxy.
Any suggestions?
Best Regards, M. Tleis
Thanks!
I am still issues using the 'fetch_genome_dbkeys_all_fasta'. After installing , I click on 'Manage Installed Tools' and Click on the button to create a new DBKey or reference genome, But Galaxy got an internal error and a message is supposedly sent to Galaxy team. Now what?
Best Regards, M. Tleis
Use the tool under the Admin > Server > Local data. It will not appear in the regular Tool panel. The tutorial here shows how: https://galaxyproject.org/admin/#data-resources
Dear Jen,
I am still getting internal server error: Snapshot
Best Regards, M. Tleis
Hi - it looks like you changed your prior comment. It is best to post again if you have a new question or change your question.
Your server might be busy. Have you upgraded the database or are you still using the default SQLite?
Do other tools work? Or do you have a screenshot of the settings used with the DM tool? And of the expanded dataset, if loading a fasta from the history? There could be a mix-up in usage there triggering an error.
This tool installed in a brand new v17.09 Galaxy and fetched the sacCer3 from UCSC without any problems. So, I don't think the tool itself is a problem, but rather a load or config issue.