Extract Genomic DNA versions 3.x+ do not link with built-in genome indexes

[jennaj]

Workaround for end-users:

Please use bedtools GetFastaBed instead. It performs the same basic function plus has more options.

Tool: Extract Genomic DNA using coordinates from assembled/unassembled genomes (Galaxy Version 3.0.3)

History:

• Version 2.x (devteam original) was removed due to Python 3 incompatibilities
• Version 3.x (iuc update) does not link-up with the proper data tables as structured at usegalaxy.org. We adjusted this for version 2.x a few years ago. Maybe the same can be done again?
• Or, perhaps all versions of the tool should be removed from the server (hidden in tool panel) -- there is a very good alternative.

cc @natefoo @mvdbeek

Related tickets:

• All https://github.com/search?q=org%3Agalaxyproject+Extract+Genomic+DNA&type=Issues
• Most recent https://github.com/galaxyproject/galaxy/issues/9396