Add Miniscope-DAQ-V4 and CaImAn trigger

[kabilar]

• Combine imaging and scan modules into one miniscope module
• Move readers to element-interface
• Add support for Miniscope-DAQ-V4
• Add support to trigger CaImAn
• Remove support for MiniscopeAnalysis (since this package is not currently supported).
• Add GitHub Issue templates
• Move background.md to elements.datajoint.org
• Add changelog
• Add Docker and Compose files
• Update README
• Update diagram
• Also see: Update pipeline declaration, ingestion script, and notebooks workflow-miniscope#18

[kabilar]

Hi @tdincer, this pull request is ready for review. Let's try to merge by Friday, April 29. Thanks!

[CBroz1]

I'm seeing an error here, related to caiman's fit_file:

TypeError: fit_file() got an unexpected keyword argument 'output_dir'

[kabilar]

Ah yes, this feature is currently being evaluated in this pull request.

[CBroz1]

Assuming a release this week, how should we document the current functionality to a potential user who sees the tutorial video next week?

[CBroz1]

I suggest optional insert of processing method in parent table. Suggestion below would also require an edit to the parent table insert

I think we also need a docstring here, especially if we're headed in the direction of documentation via site rendering of docstrings.

Suggested change

	paramset_desc: str, params: dict):
	paramset_desc: str, params: dict,
	processing_method_desc: str=''):

[CBroz1]

To put these within the schema is a departure from convention elsewhere. Do we want this in the schema or in a workflow process.py script?

If in the workflow, I would also allow move the reserve_jobs and suppress_errors to the arguments with the same defaults.

Suggested change

	def populate_all(display_progress=True):
	populate_settings = {'display_progress': display_progress,
	'reserve_jobs': False,
	'suppress_errors': False}
	def populate_all(display_progress=True, reserve_jobs=False, suppress_errors=False):
	populate_settings = {'display_progress': display_progress,
	'reserve_jobs': reserve_jobs,
	'suppress_errors': suppress_errors}

[kabilar]

Thanks @CBroz1. I would suggest moving this function to the element so that it is not duplicated across each users' workflows. And if you agree, we can then make this update across the other element and workflow repositories.

Good point regarding the arguments. I have committed your suggestion.

[CBroz1]

Noted in datajoint-elements issue 98