Basic tutorial

[mzouink]

@pattonw
Adds a simple tutorial start-to-finish tutorial for DaCapo.
Still a few things left to resolve before its ready for merging:

• Loss behaving strangely after the first validation (temporary solution involves giving an extra singleton dimension to the provided data)
• Validation fails (we want to show validation loss/scores, validation outputs across iterations, and how to finally take the best iteration and apply it with the post processing to a volume manually)
• stdout too verbose
• plotting functions should be built into DaCapo (there are plotting functions, not sure how to include bokeh plots so I didn't dive too deep into this)

[mzouink]

i added few changes.
The current example is working with distance task because i am not using BlockwisseTask here

dacapo/dacapo/experiments/tasks/post_processors/threshold_post_processor.py

Lines 136 to 149 in 689a5a8

	task = daisy.Task(
	f"threshold_{output_array.dataset}",
	total_roi=self.prediction_array.roi,
	read_roi=read_roi,
	write_roi=read_roi,
	process_function=process_block,
	check_function=None,
	read_write_conflict=False,
	fit="overhang",
	max_retries=0,
	timeout=None,
	)
	return daisy.run_blockwise([task], multiprocessing=False)

changed to just daisy local
but affinity is failing because watershed_postprocess is using segment_blockwise

dacapo/dacapo/experiments/tasks/post_processors/watershed_post_processor.py

Lines 134 to 149 in 689a5a8

	segment_blockwise(
	segment_function_file=str(
	Path(Path(dacapo.blockwise.__file__).parent, "watershed_function.py")
	),
	context=parameters.context,
	total_roi=self.prediction_array.roi,
	read_roi=read_roi.grow(parameters.context, parameters.context),
	write_roi=read_roi,
	num_workers=num_workers,
	max_retries=2, # TODO: make this an option
	timeout=None, # TODO: make this an option
	######
	input_array_identifier=self.prediction_array_identifier,
	output_array_identifier=output_array_identifier,
	parameters=pars,
	)

I don't know which is the better solution. i recommend using the old code of watershed for now.
Validation are failing because of BlockwiseTask too

@pattonw @rhoadesScholar