I am familiar with Galaxy, but only now have I started setting it up on our local computer (no server, just a well-built computer running in UNIX). I have succeeded to install it, set admin accounts, download reference files (i.e. reference genomes) and install new packages.
My problem now is, how can I set directories to store data (i.e. reference files, output files, and temp job files, if possible)? Moreover, how to set them to a location on another disk volume, other than the one galaxy was installed?
For one thing, I believe the
galaxy.ini file has been replaced by
galaxy.yml file. Is that correct?
If so, I found some lines similar to what is referenced on the official link, and did the following changes:
On line 178, it reads:
# on any cluster nodes that will run Galaxy jobs, unless using Pulsar. file_path: /media/mol/hdmol/galaxy/database/files # Where temporary files are stored. It must accessible at the same # path on any cluster nodes that will run Galaxy jobs, unless using # Pulsar. new_file_path: /media/mol/hdmol/galaxy/database/tmp
/media/mol/hdmol is the path to the other disk volume. And all sub-directories from galaxy were copied to that location. Hence, I as using the exact same sub-directories, and changing only the volume (to /media/mol/hdmol/).
Any help is very much appreciated.