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The previous scalar remapping disagreed with current Fortran from step 2. Six focused eager/JIT checks pass, covering column independence, conserved mass and derivatives. Both regressions detect the retained pre-fix adapters; full case comparisons are in progress. 2026-10-20 02:35:51 -05007fc8280d9ce3fe0ec51bf5e7f3cfd3a0e7c8838aAlign JAX microphysics with per-column Fortran inputseditclubb_jax/src/Microphys/pdf_hydromet_microphys_wrapper.pyeditclubb_jax/src/CLUBB_core/fill_holes.pyaddclubb_jax/pytests/auto_llm_generated_pytests/test_multicolumn_microphys_adapters.pytests/run_jax_vs_fortran_cases.py05e5a9ebe39c01681f423a7dc09ef62a4222b1d01792481763000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduKeep the legacy DYCOMS comparison below its roundoff-sensitive interval Reduce the dycoms2_rf02_ds curated limit from 240 to the requested 230 steps. Historical Jenkins runs first fail the cumulative comparison at step 236; matched local runs fail at 242. 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jax fortran oracle tests (#1404) Restored clubb_jax vs clubb_f2py fortran bindings tests that compare the outputs of clubb_jax functions directly to their compiled fortran counterparts. clubb_jax changes are minimal: Use hardcoded pi that matches the pi used in fortran instead of jnp.pi remove the clubb_release hardcoded path from the gases_ckd_data.py parser. 2026-10-20 14:57:07 -0500bb08268b3348ef71f7eec35eb0fb5ee4eb10197dRestore jax fortran oracle tests (#1404)addclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_diagnose_xp3_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_grid_operators_vs_fortran.pyeditclubb_jax/README.mdaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_w_up_in_cloud_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_new_pdf_main_vs_fortran.pyeditclubb_python_api/clubb_f2py.pyfaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_luhar_params_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_sponge_damp_xp23_vs_fortran.pyeditclubb_python_api/f2py_fortran_wrappers/skx_module_wrapper.F90edit.agents/skills/clubb-pytests/SKILL.mdaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_compute_sigma_sqd_w_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_solver_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_diffusion_vs_fortran.pyeditclubb_python_api/clubb_python/clubb_api.pyeditjenkins_tests/clubb_jax/Jenkinsfileaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_coefs_semiimpl_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_sunray_sw_vs_fortran.pyaddclubb_python_api/f2py_fortran_wrappers/cloud_sed_module_wrapper.F90addclubb_jax/pytests/f2py_unit_test_helpers.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_calculate_w_responder_params_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_new_tsdadg_pdf_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_interpolation_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_clip_skewness_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_luhar_3d_driver_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_calc_ddzt_umvm_sqd_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_param_names_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_diagnose_upxp_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_xpyp_term_ta_pdf_vs_fortran.pyeditclubb_python_api/clubb_python/CLUBB_core/interpolation.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_clip_covar_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_limits_f_x_responder_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_Nc_Ncn_eqns_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_skx_func_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_pvertinterp_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_cholesky_corr_mtx_approx_vs_fortran.pyaddclubb_python_api/clubb_python/microphys.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_saturation_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_spurious_source_vs_fortran.pyeditclubb_jax/src/Radiation/BUGSrad/gases_ckd_data.pyedittests/README.mdaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_clip_variance_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_compute_gamma_skw_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_adg2_driver_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_calendar_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_mirror_lower_triangular_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_binormal_moments_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_cos_solar_zen_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_xpyp_term_ta_godunov_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/conftest.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_fill_holes_mean_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_sfc_varnce_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_cholesky_factor_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_calculate_thvm_vs_fortran.pyeditclubb_jax/src/CLUBB_core/advance_helper_module.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_close_luhar_pdf_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_new_hybrid_pdf_main_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_pos_definite_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_calc_comp_corrs_binormal_vs_fortran.pyaddclubb_jax/pytests/auto_llm_generated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Hueblerhuebler@uwm.eduRequire completed validation before branch finalization Treat urgency as approval to proceed without routine review pauses while preserving the stop for substantive unaccepted issues. Require reviewed test results, including relevant Jenkins jobs, before completion, with a narrow trivial-prose exception and owner checks where no Jenkins job applies. Both skill validators and relative-link checks pass. 2026-10-20 20:24:27 -0500ca84407de0b4dff85f5da42c649e537c764c7dcbRequire completed validation before branch finalizationedit.agents/skills/clubb-testing-and-reporting/SKILL.mdedit.agents/skills/clubb-finalization/SKILL.mdclubb_jax/src/CLUBB_core/fill_holes.py.agents/skills/clubb-documentation/language/SKILL.mdclubb_jax/pytests/auto_llm_generated_pytests/test_multicolumn_microphys_adapters.pyclubb_jax/src/Microphys/pdf_hydromet_microphys_wrapper.py.agents/skills/clubb-documentation/change-messages/SKILL.md82c8fdb39580f015d26f9cb021b8376696d96b7f1792549343000https://carson.math.uwm.edu/jenkins/user/noreplynoreplynoreply@github.comFix per-column inputs in JAX microphysics (#1407) * Align JAX microphysics with per-column Fortran inputs Pass each column’s parameters into PDF preparation and its own grid spacing into hydrometeor hole filling after the master multi-column fix. The previous scalar remapping disagreed with current Fortran from step 2. Six focused eager/JIT checks pass, covering column independence, conserved mass and derivatives. Both regressions detect the retained pre-fix adapters; full case comparisons are in progress. (cherry picked from commit 7fc8280d9ce3fe0ec51bf5e7f3cfd3a0e7c8838a) * Explain PR problems before describing their solutions Change-first PR openings make their motivation harder to follow. Use Motivation and Change to describe the problem first, then its cause and the proposed solution; align the language guidance with that order. Both documentation skills validate, and relative-link checks pass. 2026-10-20 21:22:23 -050082c8fdb39580f015d26f9cb021b8376696d96b7fFix per-column inputs in JAX microphysics (#1407)edit.agents/skills/clubb-documentation/change-messages/SKILL.mdaddclubb_jax/pytests/auto_llm_generated_pytests/test_multicolumn_microphys_adapters.pyeditclubb_jax/src/Microphys/pdf_hydromet_microphys_wrapper.pyeditclubb_jax/src/CLUBB_core/fill_holes.pyedit.agents/skills/clubb-documentation/language/SKILL.mdsrc/CLUBB_core/parameters_tunable.F90doc/coherence_mixing_length.mdutilities/clubb_settings_validation.pyutilities/pytests/test_settings_rules.pytests/run_clubb_settings_validation_test.pyclubb_jax/src/CLUBB_core/parameters_tunable.pysrc/CLUBB_core/mixing_length.F9068d2474118daf0de3fd3d002a1e8944713757bc81792568162000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduRequire positive launch-energy scaling and clarify parcel averaging Reject zero Lscale_tke_multiplier consistently in Fortran, JAX and the settings validator. Remove redundant nonnegative-TKE handling from the coherent parcel calculation and retain the reviewed explanatory cleanup. The settings-rule checks (19 tests), native/Python bounds parity and public native/JAX startup checks pass, including zero and negative inputs. Full Jenkins branch validation follows the master merge. 2026-10-21 02:36:02 -050068d2474118daf0de3fd3d002a1e8944713757bc8Require positive launch-energy scaling and clarify parcel averagingeditutilities/clubb_settings_validation.pyeditsrc/CLUBB_core/parameters_tunable.F90editclubb_jax/src/CLUBB_core/parameters_tunable.pyeditdoc/coherence_mixing_length.mdeditutilities/pytests/test_settings_rules.pyeditsrc/CLUBB_core/mixing_length.F90edittests/run_clubb_settings_validation_test.pygithttps://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhueblerhttps://carson.math.uwm.edu/jenkins/user/noreplynoreplynoreplyfalseBRANCHorigin/mixing_length_fix_2INCLUDE_GENERATED_PYTESTSfalseStarted by user 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Use the current parameter index, initialized parameter count and explicit legacy method selector. Keep the sampled states and comparison tolerance. This is a validation checkpoint for the Jenkins rerun; no physics changes. 2026-10-21 02:42:31 -05009773149413191463435fa778c5c2c5abe2296bb7Update restored legacy mixing-length reference callseditclubb_jax/pytests/auto_llm_generated_pytests/f2py_unit_tests/test_mixing_length_vs_fortran.pyclubb_python_api/pytests/auto_llm_generated_pytests/test_init_sequence.pyclubb_python_api/pytests/auto_llm_generated_pytests/test_call_tree_mixing_length.py5c831d1c5350e111a1cd16fdfbb6a8999bc1fdb81792568751000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduAlign API multiplier tests with positive bounds Use a valid positive launch multiplier in the reach comparison and expect the strictly positive hard bound. Startup validation retains explicit rejection coverage for zero. 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#5555false5511095FAILURE1792476749404https://carson.math.uwm.edu/jenkins/view/clubb_branch_tests/job/clubb_branch_python/55/src/generalized_grid_test.F90src/CLUBB_core/setup_clubb_pdf_params.F90src/CLUBB_core/fill_holes.F90clubb_python_api/clubb_f2py.pyfclubb_python_api/pytests/auto_llm_generated_pytests/test_call_tree_precipitation_fraction.pysrc/G_unit_test_types/mu_sigma_hm_tests.F90clubb_python_api/f2py_fortran_wrappers/precipitation_fraction_wrapper.F90clubb_python_api/clubb_python/CLUBB_core/precipitation_fraction.pysrc/Microphys/pdf_hydromet_microphys_wrapper.F90src/CLUBB_core/precipitation_fraction.F908369512fcc6487603491e12ac13376de2aec2a0b1792463005000https://carson.math.uwm.edu/jenkins/user/noreplynoreplynoreply@github.comClubb params 1d to 2d fix (#1392) * Fix: clubb params is a shape (ngrdcol,nparams) that is passed into subroutines that expect a 1d array Also fixed dependent other places in code and changed the python api. This is BIT_CHANGING for multicol. If a 2d array is passed into a function that expects the arr to be 1d fortran just passes the first col of the arr. Therefore the changes dont affect single col runs. For multicol runs other indexing is needed * fill_holes_vertical_api expects the passed gr%dzt to have shape(ngrdcol,nz) but the code passes the whole gr%dzt array although each column is traversed one by one. So ngrdcol=1 is passed each time. No effect on single col, as with ngrdcol = 1, gr%dzt and gr%dzt(1:1,:) are the same. Affects multicol if l_hole_fill = .true. and the hydrometeor is a mixing ratio (name starts with r) and some value is actually negative Therefore BIT_CHANGING 2026-10-19 21:23:25 -05008369512fcc6487603491e12ac13376de2aec2a0bClubb params 1d to 2d fix (#1392)editsrc/CLUBB_core/fill_holes.F90editsrc/CLUBB_core/setup_clubb_pdf_params.F90editclubb_python_api/pytests/auto_llm_generated_pytests/test_call_tree_precipitation_fraction.pyeditclubb_python_api/clubb_f2py.pyfeditclubb_python_api/clubb_python/CLUBB_core/precipitation_fraction.pyeditsrc/generalized_grid_test.F90editsrc/G_unit_test_types/mu_sigma_hm_tests.F90editsrc/CLUBB_core/precipitation_fraction.F90editsrc/Microphys/pdf_hydromet_microphys_wrapper.F90editclubb_python_api/f2py_fortran_wrappers/precipitation_fraction_wrapper.F90githttps://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhttps://carson.math.uwm.edu/jenkins/user/noreplynoreplyfalse56https://carson.math.uwm.edu/jenkins/view/clubb_branch_tests/job/clubb_branch_python/56/54https://carson.math.uwm.edu/jenkins/view/clubb_branch_tests/job/clubb_branch_python/54/