LOTS of points in Talos we use parts of the config file.
More importantly I'm locating a subset of the config file based on the dataset/genome vs. exome. That relies on stuff we have in our default configs, but will be a barrier to redeployment elsewhere
Remove as much config as possible, leaving a skinny template
(for us) add a new pipeline stage that takes the CPG default configs and pulls out the relevant parts into a Talos runtime config
write this dataset/seq-type specific config into the output folder, and pass into all jobs
MattWellie
commented
3 months ago
LOTS of points in Talos we use parts of the config file.
More importantly I'm locating a subset of the config file based on the dataset/genome vs. exome. That relies on stuff we have in our default configs, but will be a barrier to redeployment elsewhere