Add resume functionality and better logging

[smcguire-cmu]

Adds a logging module which uses python's logging module to write all pipeline outputs to both stdout and a log file which is configurable by CLI arguments. Updates all logs in the pipeline to use python logging instead of print/typer

Adds resume functionality throughout the pipeline, with each stage touching a completed file and skipping each completed stage.

Also adds individual resuming behavior for post-process and nesting, checking for already completed work, and improves the resume functionality in import stage, and makes sure that all stages are resumable.

[codecov]

Codecov Report

❌ Patch coverage is 24.75728% with 155 lines in your changes missing coverage. Please review.
✅ Project coverage is 36.47%. Comparing base (caf1464) to head (5e9d08d).
⚠️ Report is 8 commits behind head on main.

Files with missing lines	Patch %	Lines
src/rubin_dash/stages/nesting.py	11.62%	38 Missing ⚠️
src/rubin_dash/pipeline.py	12.50%	28 Missing ⚠️
src/rubin_dash/stages/postprocess.py	13.33%	26 Missing ⚠️
src/rubin_dash/log.py	25.00%	15 Missing ⚠️
src/rubin_dash/config.py	55.55%	12 Missing ⚠️
src/rubin_dash/cli.py	26.66%	11 Missing ⚠️
src/rubin_dash/stages/collections.py	33.33%	6 Missing ⚠️
src/rubin_dash/stages/crossmatch.py	33.33%	6 Missing ⚠️
src/rubin_dash/stages/butler.py	28.57%	5 Missing ⚠️
src/rubin_dash/stages/raw_sizes.py	33.33%	4 Missing ⚠️
... and 2 more

Additional details and impacted files

@@            Coverage Diff             @@
##             main       #5      +/-   ##
==========================================
- Coverage   37.11%   36.47%   -0.64%     
==========================================
  Files          14       15       +1     
  Lines         741      891     +150     
==========================================
+ Hits          275      325      +50     
- Misses        466      566     +100     

☔ View full report in Codecov by Sentry.
📢 Have feedback on the report? Share it here.

🚀 New features to boost your workflow:

• ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.