Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Fix code style in outlier detection #9127

Draft
wants to merge 4 commits into
base: main
Choose a base branch
from

Conversation

emolter
Copy link
Collaborator

@emolter emolter commented Jan 31, 2025

Partially Resolves JP-3860

This PR addresses style issues with the outlier detection submodule.

A singular change has been added outside outlier_detection, which is to avoid direct calls to ModelLibrary._on_disk by making the non-underscore-protected on_disk a property.

This PR also makes the following small updates to the pre-commit configuration:

  • adds the --summary option to codespell so it shows what changes it made automatically.
  • adds "D105: missing docstring for magic method" to the ruff ignore list. This rule would require docstrings for __iter__, __len__ and similar, where it's very often obvious what it does and the function itself is a one-liner.

Tasks

  • request a review from someone specific, to avoid making the maintainers review every PR
  • add a build milestone, i.e. Build 11.3 (use the latest build if not sure)
  • Does this PR change user-facing code / API? (if not, label with no-changelog-entry-needed)
    • write news fragment(s) in changes/: echo "changed something" > changes/<PR#>.<changetype>.rst (see below for change types)
    • update or add relevant tests
    • update relevant docstrings and / or docs/ page
    • start a regression test and include a link to the running job (click here for instructions)
      • Do truth files need to be updated ("okified")?
        • after the reviewer has approved these changes, run okify_regtests to update the truth files
  • if a JIRA ticket exists, make sure it is resolved properly
news fragment change types...
  • changes/<PR#>.general.rst: infrastructure or miscellaneous change
  • changes/<PR#>.docs.rst
  • changes/<PR#>.stpipe.rst
  • changes/<PR#>.datamodels.rst
  • changes/<PR#>.scripts.rst
  • changes/<PR#>.set_telescope_pointing.rst
  • changes/<PR#>.pipeline.rst

stage 1

  • changes/<PR#>.group_scale.rst
  • changes/<PR#>.dq_init.rst
  • changes/<PR#>.emicorr.rst
  • changes/<PR#>.saturation.rst
  • changes/<PR#>.ipc.rst
  • changes/<PR#>.firstframe.rst
  • changes/<PR#>.lastframe.rst
  • changes/<PR#>.reset.rst
  • changes/<PR#>.superbias.rst
  • changes/<PR#>.refpix.rst
  • changes/<PR#>.linearity.rst
  • changes/<PR#>.rscd.rst
  • changes/<PR#>.persistence.rst
  • changes/<PR#>.dark_current.rst
  • changes/<PR#>.charge_migration.rst
  • changes/<PR#>.jump.rst
  • changes/<PR#>.clean_flicker_noise.rst
  • changes/<PR#>.ramp_fitting.rst
  • changes/<PR#>.gain_scale.rst

stage 2

  • changes/<PR#>.assign_wcs.rst
  • changes/<PR#>.badpix_selfcal.rst
  • changes/<PR#>.msaflagopen.rst
  • changes/<PR#>.nsclean.rst
  • changes/<PR#>.imprint.rst
  • changes/<PR#>.background.rst
  • changes/<PR#>.extract_2d.rst
  • changes/<PR#>.master_background.rst
  • changes/<PR#>.wavecorr.rst
  • changes/<PR#>.srctype.rst
  • changes/<PR#>.straylight.rst
  • changes/<PR#>.wfss_contam.rst
  • changes/<PR#>.flatfield.rst
  • changes/<PR#>.fringe.rst
  • changes/<PR#>.pathloss.rst
  • changes/<PR#>.barshadow.rst
  • changes/<PR#>.photom.rst
  • changes/<PR#>.pixel_replace.rst
  • changes/<PR#>.resample_spec.rst
  • changes/<PR#>.residual_fringe.rst
  • changes/<PR#>.cube_build.rst
  • changes/<PR#>.extract_1d.rst
  • changes/<PR#>.resample.rst

stage 3

  • changes/<PR#>.assign_mtwcs.rst
  • changes/<PR#>.mrs_imatch.rst
  • changes/<PR#>.tweakreg.rst
  • changes/<PR#>.skymatch.rst
  • changes/<PR#>.exp_to_source.rst
  • changes/<PR#>.outlier_detection.rst
  • changes/<PR#>.tso_photometry.rst
  • changes/<PR#>.stack_refs.rst
  • changes/<PR#>.align_refs.rst
  • changes/<PR#>.klip.rst
  • changes/<PR#>.spectral_leak.rst
  • changes/<PR#>.source_catalog.rst
  • changes/<PR#>.combine_1d.rst
  • changes/<PR#>.ami.rst

other

  • changes/<PR#>.wfs_combine.rst
  • changes/<PR#>.white_light.rst
  • changes/<PR#>.cube_skymatch.rst
  • changes/<PR#>.engdb_tools.rst
  • changes/<PR#>.guider_cds.rst

@emolter
Copy link
Collaborator Author

emolter commented Jan 31, 2025

@emolter emolter added this to the Build 11.3 milestone Jan 31, 2025
Copy link

codecov bot commented Jan 31, 2025

Codecov Report

Attention: Patch coverage is 65.06024% with 29 lines in your changes missing coverage. Please review.

Project coverage is 73.73%. Comparing base (d157184) to head (127506b).
Report is 2 commits behind head on main.

Files with missing lines Patch % Lines
jwst/outlier_detection/ifu.py 3.84% 25 Missing ⚠️
jwst/outlier_detection/outlier_detection_step.py 80.95% 4 Missing ⚠️
Additional details and impacted files
@@           Coverage Diff           @@
##             main    #9127   +/-   ##
=======================================
  Coverage   73.73%   73.73%           
=======================================
  Files         373      373           
  Lines       37272    37275    +3     
=======================================
+ Hits        27482    27485    +3     
  Misses       9790     9790           

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

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Projects
None yet
Development

Successfully merging this pull request may close these issues.

1 participant