yannickwurm/sequenceserver — Issue #79: If sequenceserver is downloaded as a zip, then bin/sequenceserver does not respect the config file in sequenceserver/config.yml not respect the config 
Author: wwood
Created: 2012-02-07 04:42:09+00:00
State: open

this was the previous behaviour, if memory serves. I'm guessing it tries to find only the default ~/.sequenceserver.conf ?

You can workaround by specifiying the config file as a flag, like so:

sequenceserver$ bin/sequenceserver --config config.yml format-databases

to format databases, or

sequenceserver$ bin/sequenceserver --config config.yml format-databases

to run the server.

I think seqserv should try to find both files, and use config.yml in preference. It should also log which config file it is reading from, I think.