Great news, very glad this worked. I'll add liftOver to our wiki with
more specific instructions and add in the bit about explicit paths to
the .loc file section as well. Should help others going forward.
Thanks for taking the time to report back the solution to the list!
Jen
Galaxy team
On
Hello Kwon,
Most of this sounds correct. The only issue is with compressed files.
Galaxy uses uncompressed liftOver data at our site and this is how we
instruct that it be set up (see
galaxy-central/tool-data/liftOver.loc.sample).
Would you be able to run a test to see if uncompressing
Hi Jen,
Thanks for looking into this. I have unzipped all the .gz files so that the
directory contains all .chain files. The liftover.loc file has also been
modified to refer to all the .chain files instead, as such:
http://pastebin.com/xSKGvUtG
I still run into the same error if I try to run
