[BUG] `brainmapper` update needed in light of CLI fails in `cellfinder`

[willGraham01]

https://github.com/brainglobe/cellfinder/pull/394 introduced fail-safes against overwriting package files in the cellfinder package, however in the process changed the content of the source_files.py module so one of the functions that we depend on in this package is no longer available.

As such, both CLIs now fail since workflows is using a too-recent version of cellfinder, and correspondingly cellfinder is incompatible with the current version of brainmapper.

To Fix

• Check this repository for any references to the cellfinder.core.tools.source_files module (or members thereof) and update the imports and names to the new versions in https://github.com/brainglobe/cellfinder/pull/394.
• (If appropriate) pin the latest version of the metapackage, if a release exists that forces a recent enough cellfinder version.
• Release a new version of brainglobe-workflows with these changes.

[adamltyson]

Does this PR fix this? https://github.com/brainglobe/brainglobe-workflows/pull/89

[willGraham01]

It looks like it should, but the CI is failing.

It looks like the either the newer function can't be used to overwrite a config file, or workflows is looking in the wrong folder to begin with.

[alessandrofelder]

@IgorTatarnikov and I are hopefully fixing this on the cellfinder side now (https://github.com/brainglobe/cellfinder/pull/400) which we think combined with #89 should put things in order again.

[alessandrofelder]

Fixed by https://github.com/brainglobe/brainglobe-workflows/releases/tag/v1.1.5