Revise configuration files
Revise configuration files
In response to my own usage, I find the existing fmrib.cfg
overly broad and involves too many different types of processes:
- Default processing of UKB tables using FMRIB expertise/experience/decisions
- Selection of a large set of variables for output
- Individual preferences; some, including high verbosity and use of extensive logging/documentation, will come down to a user's preference; some, are site-level decisions (e.g. default value for
num_jobs
)
In this PR I propose splitting in fmrib.cfg
in the following files
-
fmrib.cfg
- A paired down file that just has recommended variable processing, and defines FMRIB categories (but doesn't select categories to process) -
fmrib_cats.cfg
- The FMRIB categories that were previously always selected with use offmrib.cfg
-
fmrib_logs.cfg
- Contains all options infmrib.cfg
, but adds maximal verbosity, logging and documentation file output. -
local.cfg
- The local (maybe should besite.cfg
?) that are global preferences that a local maintainer may wish to change.
This PR is really a WIP because to make use of these we really need two other modifications to funpack
described in #13 (closed) and #14 (closed).
Edited by Paul McCarthy