JWST Calibration Pipeline

What's Changed

• include residual fringe test files in package data by @braingram in https://github.com/spacetelescope/jwst/pull/9316
• Update suggested milestone in PR template by @pllim in https://github.com/spacetelescope/jwst/pull/9318
• JP-3858-tso_photometry by @penaguerrero in https://github.com/spacetelescope/jwst/pull/9294
• JP-3946: Exorcise DeprecationWarning in test suite by @pllim in https://github.com/spacetelescope/jwst/pull/9317
• Move change log instructions to readme by @pllim in https://github.com/spacetelescope/jwst/pull/9321
• JP-3861: Code style changes for extract_2d step by @stscirij in https://github.com/spacetelescope/jwst/pull/9305
• JP-3686: Test using source catalog output as tweakreg abs_refcat by @emolter in https://github.com/spacetelescope/jwst/pull/9301
• JP-3858-wfs_combine by @penaguerrero in https://github.com/spacetelescope/jwst/pull/9307
• JP-3909: Apply fringe flat and MRS IFU time-dependent correction to VAR arrays by @pllim in https://github.com/spacetelescope/jwst/pull/9320
• JP-3872: Remove deprecated resample utilities by @emolter in https://github.com/spacetelescope/jwst/pull/9322
• JP-3937: Use isinstance instead of model_type for type checking datamodels by @emolter in https://github.com/spacetelescope/jwst/pull/9327
• JP-3903: Updating Jump Step Documentation to Include Keyword Information by @kmacdonald-stsci in https://github.com/spacetelescope/jwst/pull/9293
• update verify_install to not use pytest by @braingram in https://github.com/spacetelescope/jwst/pull/9297
• JP-3953: Extrapolate barshadow correction to cover wavelength gaps by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9326
• Revise phrasing for specific reviews in PR task list by @pllim in https://github.com/spacetelescope/jwst/pull/9328
• Fix inadvertent removal of all by @stscirij in https://github.com/spacetelescope/jwst/pull/9338
• Remove reference to ERR in ramp docs by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9343
• JP-3947 Fix MIRI LRS Flux error by @jemorrison in https://github.com/spacetelescope/jwst/pull/9337
• Clarify when to use closes in PR template by @pllim in https://github.com/spacetelescope/jwst/pull/9345
• Bump actions/setup-python from 5.4.0 to 5.5.0 by @dependabot[bot] in https://github.com/spacetelescope/jwst/pull/9351
• JP-3795: Target group association fixes by @melanieclarke in https://github.com/spacetelescope/jwst/pull/8943
• JP-3630: Add slit-specific processing metadata by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9254
• JP-3857 rscd code style updates by @jemorrison in https://github.com/spacetelescope/jwst/pull/9275
• Small update to outlier_detection docs by @ianyuwong in https://github.com/spacetelescope/jwst/pull/9355
• JP-3871 and JP-3676: Removes "OLS" and "GLS" Code from Ramp Fitting by @kmacdonald-stsci in https://github.com/spacetelescope/jwst/pull/9332
• JP-3978: Allow unequal number of target and psf exposures in calwebb_ami3 by @tapastro in https://github.com/spacetelescope/jwst/pull/9361
• TST: Delete unused jwst/lib/tests/stp_v1.py by @pllim in https://github.com/spacetelescope/jwst/pull/9366
• JP-3958: Provide subarray to WFSS spec2 association for image member name generation by @tapastro in https://github.com/spacetelescope/jwst/pull/9334
• Revert addition of G004 from PR 9276 by @pllim in https://github.com/spacetelescope/jwst/pull/9367
• JP-3912: Modify some tests for steps that are skipped by default by @stscirij in https://github.com/spacetelescope/jwst/pull/9364
• update readme for new regtests by @braingram in https://github.com/spacetelescope/jwst/pull/9370
• JP-3912: Fix imatch test by @stscirij in https://github.com/spacetelescope/jwst/pull/9373
• JP-3775: Test ci_watson resource_tracker implementation by @tapastro in https://github.com/spacetelescope/jwst/pull/9357
• JP-3982: numpy 2.3.0 accommodation by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9376
• JP-3917: Apply code style rules to lib by @pllim in https://github.com/spacetelescope/jwst/pull/9283
• MNT: Forward-port of PR 9374 and PR 9379 (Metadata release 1.18.0) by @pllim in https://github.com/spacetelescope/jwst/pull/9382
• remove requirements-sdp.txt by @zacharyburnett in https://github.com/spacetelescope/jwst/pull/9386
• BUG: Fix is_nrs_msaspec_flatlamp and remove redundant if-else in gs_position_acq by @pllim in https://github.com/spacetelescope/jwst/pull/9389
• JP-3982: Ignore fitsdiffs for atoca spectra by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9388
• JP-3923: Localize test warnings (try 2), fix test data packaging, misc test clean-ups by @pllim in https://github.com/spacetelescope/jwst/pull/9381
• TST: Enable CI for backport PR by @pllim in https://github.com/spacetelescope/jwst/pull/9392
• JP-3857 Code Style changes for linearity step by @jemorrison in https://github.com/spacetelescope/jwst/pull/9368
• JP-3956: Fix error propagation for inverse steps (photom, flatfield) by @pllim in https://github.com/spacetelescope/jwst/pull/9356
• JP-3858 background by @penaguerrero in https://github.com/spacetelescope/jwst/pull/9359
• JP-3905 add option to save shower model in straylight step for MIRI MRS data by @jemorrison in https://github.com/spacetelescope/jwst/pull/9378
• JP-3855 Update code style for spectral_leak step by @jemorrison in https://github.com/spacetelescope/jwst/pull/9395
• JP-3916: Accounting for bias in group 2 saturation flagging by @hayescr in https://github.com/spacetelescope/jwst/pull/9302
• Update docs to reflect correct definition for pixel scale ratio by @mcara in https://github.com/spacetelescope/jwst/pull/9403
• JP-3952: Fix log message for assign_wcs get_open_slits by @emolter in https://github.com/spacetelescope/jwst/pull/9410
• Setting wavelength extension for LRS slit in assign_wcs by @taylorbell57 in https://github.com/spacetelescope/jwst/pull/9372
• JP-3857 cube build code style changes by @jemorrison in https://github.com/spacetelescope/jwst/pull/9347
• JP-3857 Saturation code style changes by @jemorrison in https://github.com/spacetelescope/jwst/pull/9405
• JP-3857_straylight_code_style by @jemorrison in https://github.com/spacetelescope/jwst/pull/9407
• JP-3989 cube build bug by @jemorrison in https://github.com/spacetelescope/jwst/pull/9416
• Bump actions/setup-python from 5.5.0 to 5.6.0 by @dependabot[bot] in https://github.com/spacetelescope/jwst/pull/9420
• [SCSB-205] project.license.file -> project.license-files by @zacharyburnett in https://github.com/spacetelescope/jwst/pull/9422
• Set stpipe dependence to github main by @stscirij in https://github.com/spacetelescope/jwst/pull/9421
• Fix logging message in NIRSpec assign_wcs and turn all invalid interval warning into error by @pllim in https://github.com/spacetelescope/jwst/pull/9412
• JP-3858-scripts by @penaguerrero in https://github.com/spacetelescope/jwst/pull/9290
• JP-3862: Associations code style by @tapastro in https://github.com/spacetelescope/jwst/pull/9393
• Shared utilities for saving multiple spectra in a flat format by @emolter in https://github.com/spacetelescope/jwst/pull/9418
• JP-3862: Fix Path methods issue found by sonarscan by @tapastro in https://github.com/spacetelescope/jwst/pull/9427
• JP-3899: Remove cube_skymatch by @emolter in https://github.com/spacetelescope/jwst/pull/9426
• MNT: Delete test notebooks by @pllim in https://github.com/spacetelescope/jwst/pull/9428
• Follow up of JP-3917: Apply code style rules to lib by @pllim in https://github.com/spacetelescope/jwst/pull/9423
• DOC: Fix association doc references, general doc updates by @pllim in https://github.com/spacetelescope/jwst/pull/9408
• JP-3810: Add tests, fix bugs, remove unused code for AMI module by @emolter in https://github.com/spacetelescope/jwst/pull/9263
• JP-3988: Enhance the table reports for STFITSDiff by @penaguerrero in https://github.com/spacetelescope/jwst/pull/9413
• JP-3986 - Add tests for persistence step by @stscirij in https://github.com/spacetelescope/jwst/pull/9419
• JP-3810: Patch AMI bugs by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9434
• JP-3861: Persistence style updates by @stscirij in https://github.com/spacetelescope/jwst/pull/9390
• JP-3941: Refactor white_light to get correct time stamps and spectral orders for NIRISS by @emolter in https://github.com/spacetelescope/jwst/pull/9431
• JP-3775: Expand usage of resource_tracker for benchmarking by @tapastro in https://github.com/spacetelescope/jwst/pull/9433
• JP-3908: Incorporate stfitsdiff into regression tests by @penaguerrero in https://github.com/spacetelescope/jwst/pull/9414
• Minor clean up by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9444
• JP-3776: Improve AmiAnalyze memory usage by @emolter in https://github.com/spacetelescope/jwst/pull/9442
• JP-3949: Subclass CRDS to take advantage of lazy-loading of metadata by @emolter in https://github.com/spacetelescope/jwst/pull/9429
• JP-3861: Style formats for the coron package by @stscirij in https://github.com/spacetelescope/jwst/pull/9432
• JP-3939: Add BJD_TDB to white light output table by @emolter in https://github.com/spacetelescope/jwst/pull/9445
• TST: xpass is now a failure by @pllim in https://github.com/spacetelescope/jwst/pull/9458
• Separate nsclean tests from standard runs by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9453
• Fix style in dark_current by @nden in https://github.com/spacetelescope/jwst/pull/9457
• JP-3810 followup: small clean-up tasks in AMI module by @emolter in https://github.com/spacetelescope/jwst/pull/9441
• JP-3859: Style updates for flat_field by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9464
• Fix refpix log messages by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9478
• JP-3917: Style fix for mrs_imatch by @pllim in https://github.com/spacetelescope/jwst/pull/9474
• Photom style by @stscirij in https://github.com/spacetelescope/jwst/pull/9466
• adding missing argument irs2_mean_subtraction to refpix documentation by @penaguerrero in https://github.com/spacetelescope/jwst/pull/9477
• adding max and min values for files a and b in table comparison by @penaguerrero in https://github.com/spacetelescope/jwst/pull/9473
• JP-3857 Fringe Step code style changes by @jemorrison in https://github.com/spacetelescope/jwst/pull/9476
• JP-3906: Support extrapolation of dark files to match arbitrary science input size by @tapastro in https://github.com/spacetelescope/jwst/pull/9468
• Added ATOCA description to extract1d RtD page by @hover2pi in https://github.com/spacetelescope/jwst/pull/9484
• JP-3895: Adding support for BUNIT!=MJy/sr to tso_photometry by @taylorbell57 in https://github.com/spacetelescope/jwst/pull/9299
• Atoca utils test should use numpy isclose by @emolter in https://github.com/spacetelescope/jwst/pull/9492
• JP-1028: Propagate slit name through NIRSpec WCS by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9404
• Replace mentions of WebbPSF with STPSF by @emolter in https://github.com/spacetelescope/jwst/pull/9497
• TST: Refactor test_associations_sdp_pools by @pllim in https://github.com/spacetelescope/jwst/pull/9470
• JP-4016: Fix crashes when max grid size is reached by ATOCA by @emolter in https://github.com/spacetelescope/jwst/pull/9491
• Remove handling for deprecation warnings by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9498
• JP-3841: Flat spectral table for TSO by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9430
• JP-3837: Allow NIRCam image to match subarray in photom table by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9485
• Test msaflagopen with custom assign_wcs ref file by @nden in https://github.com/spacetelescope/jwst/pull/9495
• coverage: omit config[-3].py files by @jhunkeler in https://github.com/spacetelescope/jwst/pull/9512
• stfitsdiff bug in comparison of header keywords and comments by @penaguerrero in https://github.com/spacetelescope/jwst/pull/9500
• JP-3940: Change EMIcorr default algorithm by @drlaw1558 in https://github.com/spacetelescope/jwst/pull/9510
• Ignore custom ref files in fitsdiff by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9513
• JP-3923: Hide benign runtime warnings by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9490
• JP-4021: Fix a bug where insufficient valid background pixels case was not caught for WFSS background step by @emolter in https://github.com/spacetelescope/jwst/pull/9507
• JP-3765: Add regression tests for likelihood algorithm by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9509
• JP-3873: Expand hard-coded NIRSpec wavelength range by @hayescr in https://github.com/spacetelescope/jwst/pull/9314
• JP-3116: Use duplication checking to prevent undesirable associations in DMS operations by @tapastro in https://github.com/spacetelescope/jwst/pull/9501
• Ignore WCS computation warning in regtest by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9518
• TST: Move association pool regtest truth to somewhere more intuitive (for real) by @pllim in https://github.com/spacetelescope/jwst/pull/9521
• TST: New sdp_pool_copy okify_op just for SDP pools regtests by @pllim in https://github.com/spacetelescope/jwst/pull/9524
• Catch divide by zero warning by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9525
• JP-3795: Use dash instead of underscore to include NRS FS target ID by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9511
• JP-3995: Make background step able to run with asn files as well by @penaguerrero in https://github.com/spacetelescope/jwst/pull/9451
• Bump OpenAstronomy/github-actions-workflows from 1.16.0 to 1.17.0 by @dependabot[bot] in https://github.com/spacetelescope/jwst/pull/9530
• JP-3922: Add a slice map to NRS IFU model and WCS by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9452
• JP-3707: Expose options to disable var and context computation in resample by @emolter in https://github.com/spacetelescope/jwst/pull/9517
• JP-3825: Implement background subtraction from reference file for NIS_SOSS by @tapastro in https://github.com/spacetelescope/jwst/pull/9523
• JP-3931: Save x1d, c1d in single-file flat format for wfss modes by @emolter in https://github.com/spacetelescope/jwst/pull/9402
• TST: Exorcise t_path and TemporaryDirectory from test suite by @pllim in https://github.com/spacetelescope/jwst/pull/9538
• JP-4024: Set negative NIRSpec flat fields to NaN and DNU by @hayescr in https://github.com/spacetelescope/jwst/pull/9522
• Give pixfrac and kernel parameters limits for outlier detection by @emolter in https://github.com/spacetelescope/jwst/pull/9534
• JP-4004: Convolve data with Gaussian for tweakreg segmentation starfinder by @emolter in https://github.com/spacetelescope/jwst/pull/9463
• JP-4029: fix conflicting aliases for the background step by @penaguerrero in https://github.com/spacetelescope/jwst/pull/9533
• Fix importing fixtures across subfolders by @emolter in https://github.com/spacetelescope/jwst/pull/9545
• resolve bug in build.yml, and bump OpenAstronomy/github-actions-workflows to 2.0.0 by @zacharyburnett in https://github.com/spacetelescope/jwst/pull/9549
• Follow up on using custom reference files by @nden in https://github.com/spacetelescope/jwst/pull/9551
• Bump OpenAstronomy/github-actions-workflows from 1.17.0 to 2.0.0 by @dependabot[bot] in https://github.com/spacetelescope/jwst/pull/9556
• MNT: Update CODEOWNERS for Dependabot by @pllim in https://github.com/spacetelescope/jwst/pull/9557
• JP-3490: Remove deprecated call method by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9548
• JP-3929 Use Absolute imports by @jemorrison in https://github.com/spacetelescope/jwst/pull/9540
• Add unit tests for the ipc package by @stscirij in https://github.com/spacetelescope/jwst/pull/9531
• Update README to reflect 1.18.1 patch release by @tapastro in https://github.com/spacetelescope/jwst/pull/9536
• remove description of non-working logging configuration by @braingram in https://github.com/spacetelescope/jwst/pull/9565
• Move AMI pointing info out of .ami and into .guidestar by @emolter in https://github.com/spacetelescope/jwst/pull/9560
• Prevent prints in tests by @emolter in https://github.com/spacetelescope/jwst/pull/9564
• JP-3904 Using new nirspec dark model by @jemorrison in https://github.com/spacetelescope/jwst/pull/9493
• JP-3898: Move pub server deprecation to historical footnote by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9563
• JP-4003: Fix crash in assign_moving_target_wcs (try 2) by @pllim in https://github.com/spacetelescope/jwst/pull/9552
• Revert to FITSDiff for regtest comparisons by @melanieclarke in https://github.com/spacetelescope/jwst/pull/9573
• JP-3861: IPC style updates by @stscirij in https://github.com/spacetelescope/jwst/pull/9569
• Consolidate group_id creation and use read_metadata to make group_id in ModelLibrary by @emolter in https://github.com/spacetelescope/jwst/pull/9567
• Update resample unit tests by @mcara in https://github.com/spacetelescope/jwst/pull/9278
• Update minimum supported version of asdf-astropy by @tapastro in https://github.com/spacetelescope/jwst/pull/9583
• Temporary python upper pin to avoid logging failures by @tapastro in https://github.com/spacetelescope/jwst/pull/9582
• add upper pin to drizzle by @braingram in https://github.com/spacetelescope/jwst/pull/9595
• a few more CI fixes for 3.13 pin by @braingram in https://github.com/spacetelescope/jwst/pull/9592
• release metadata for 1.19.0 by @zacharyburnett in https://github.com/spacetelescope/jwst/pull/9604
• Backport PR #9550 on branch release/1.19.x (TST: Remove pyargs from toxenv) by @meeseeksmachine in https://github.com/spacetelescope/jwst/pull/9628
• Backport PR #9606 on branch release/1.19.x (Fix for slice width calculation) by @meeseeksmachine in https://github.com/spacetelescope/jwst/pull/9629
• Backport PR #9609 on branch release/1.19.x (CRDS 12.0 Build: Check shape of wavelengthrange entry for indexing; update SOSS RT for bkg use) by @meeseeksmachine in https://github.com/spacetelescope/jwst/pull/9630
• Backport PR #9616 on branch release/1.19.x (Update logging unit test) by @meeseeksmachine in https://github.com/spacetelescope/jwst/pull/9631
• Backport PR #9614 on branch release/1.19.x (Use actual target id instead of placeholder for WFSS level 3 associations) by @meeseeksmachine in https://github.com/spacetelescope/jwst/pull/9632
• Backport PR #9593 on branch release/1.19.x (Remove attempted handling of memmap in container) by @meeseeksmachine in https://github.com/spacetelescope/jwst/pull/9633
• Backport PR #9602 on branch release/1.19.x (JP-4047: Update regtests for niriss and nircam wfss) by @meeseeksmachine in https://github.com/spacetelescope/jwst/pull/9634
• Backport PR #9568 on branch release/1.19.x (JP-3919: Background step documentation needs updates) by @meeseeksmachine in https://github.com/spacetelescope/jwst/pull/9635
• Backport PR #9603 on branch release/1.19.x (JP-4043: Handle subarray data in background step for wfss data) by @meeseeksmachine in https://github.com/spacetelescope/jwst/pull/9636
• Backport PR #9626 on branch release/1.19.x (Remove python upper pin) by @tapastro in https://github.com/spacetelescope/jwst/pull/9637
• Backport PR #9584 on branch release/1.19.x (JP-3864: Move to unified bkg reftype for wfss) by @meeseeksmachine in https://github.com/spacetelescope/jwst/pull/9638
• Backport PR #9625 on branch release/1.19.x (JP-4052: Fix extract_1d and combine_1d failures from all-NaN slit) by @meeseeksmachine in https://github.com/spacetelescope/jwst/pull/9639
• Backport PR #9621 on branch release/1.19.x (JP-3992: Generate convex hull S_REGION for Level 3 WFSS spectral products) by @meeseeksmachine in https://github.com/spacetelescope/jwst/pull/9640
• Backport PR #9615 on branch release/1.19.x (Readme updates for B12.0 CRDS merge and DMS installation clarity) by @meeseeksmachine in https://github.com/spacetelescope/jwst/pull/9641

New Contributors

• @taylorbell57 made their first contribution in https://github.com/spacetelescope/jwst/pull/9372

Full Changelog: https://github.com/spacetelescope/jwst/compare/1.18.1...1.19.0