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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)editclubb_python_api/f2py_fortran_wrappers/precipitation_fraction_wrapper.F90editsrc/generalized_grid_test.F90editsrc/CLUBB_core/fill_holes.F90editsrc/CLUBB_core/precipitation_fraction.F90editsrc/CLUBB_core/setup_clubb_pdf_params.F90editsrc/Microphys/pdf_hydromet_microphys_wrapper.F90editclubb_python_api/clubb_python/CLUBB_core/precipitation_fraction.pyeditsrc/G_unit_test_types/mu_sigma_hm_tests.F90editclubb_python_api/clubb_f2py.pyfeditclubb_python_api/pytests/auto_llm_generated_pytests/test_call_tree_precipitation_fraction.pygithttps://carson.math.uwm.edu/jenkins/user/noreplynoreplyhttps://carson.math.uwm.edu/jenkins/user/hueblerGunther 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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/precipitation_fraction.F90editclubb_python_api/clubb_f2py.pyfeditclubb_python_api/pytests/auto_llm_generated_pytests/test_call_tree_precipitation_fraction.pyeditsrc/generalized_grid_test.F90editsrc/G_unit_test_types/mu_sigma_hm_tests.F90editclubb_python_api/clubb_python/CLUBB_core/precipitation_fraction.pyeditsrc/CLUBB_core/fill_holes.F90editsrc/Microphys/pdf_hydromet_microphys_wrapper.F90editsrc/CLUBB_core/setup_clubb_pdf_params.F90editclubb_python_api/f2py_fortran_wrappers/precipitation_fraction_wrapper.F90clubb_jax/tests/run_jax_timestep_gradient_test.pyclubb_python_api/pytests/auto_llm_generated_pytests/test_python_port_api_coverage.pyclubb_jax/README.mddoc/coherence_mixing_length.mdbd81f6f13451574e5b21cbd0a94d682e599b97b61792476385000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduUse configured mixing length in driver derivative checks Remove method overrides from the general timestep autodiff check and keep run instructions out of the scientific method note. Exclude the native mixing-length routine's internal timers from Python API-export requirements. BOMEX and ATEX default-method gradient, JVP, finite-difference and eager/JIT checks pass. The focused cross-module API audit passes with its other expectations retained. 2026-10-20 01:06:25 -0500bd81f6f13451574e5b21cbd0a94d682e599b97b6Use configured mixing length in driver derivative checkseditclubb_python_api/pytests/auto_llm_generated_pytests/test_python_port_api_coverage.pyeditclubb_jax/README.mdeditclubb_jax/tests/run_jax_timestep_gradient_test.pyeditdoc/coherence_mixing_length.mdgithttps://carson.math.uwm.edu/jenkins/user/noreplynoreplyhttps://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerfalse55https://carson.math.uwm.edu/jenkins/view/clubb_branch_tests/job/clubb_branch_python/55/53https://carson.math.uwm.edu/jenkins/view/clubb_branch_tests/job/clubb_branch_python/53/BRANCHorigin/mixing_length_fix_2INCLUDE_GENERATED_PYTESTStrueStarted by user 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All 11 Tune preset checks pass with the restored default. 2026-10-18 18:40:10 -0500ecdac82cee52828df6a231d60b8edb4ad471d4aaRestore legacy mixing length as the defaulteditinput/parameter_and_flag_configs/default/configurable_model_flags.ingithttps://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerfalse54https://carson.math.uwm.edu/jenkins/view/clubb_branch_tests/job/clubb_branch_python/54/52https://carson.math.uwm.edu/jenkins/view/clubb_branch_tests/job/clubb_branch_python/52/BRANCHorigin/masterINCLUDE_GENERATED_PYTESTStrueStarted by user 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#5050false5010828SUCCESS1792262128215https://carson.math.uwm.edu/jenkins/view/clubb_branch_tests/job/clubb_branch_python/50/run_scripts/run_scm_loss.pyutilities/time_clubb.pyclubb_jax/pytests/auto_llm_generated_pytests/test_device_selection.pyclubb_jax/pytests/auto_llm_generated_pytests/test_jax_cli_options.pytests/pytests/auto_llm_generated_pytests/test_scm_jax_driver_test.pyutilities/timing_profiles.pyrun_scripts/run_tuner_job.pyutilities/pytests/test_create_case_namelist.pyutilities/pytests/test_time_clubb.pyca95e8ec8301f3e6088664879410da55291165b21792202474000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduComplete case-runner procedure descriptions Describe the remaining changed CLI, test and profile routines under the current documentation standards. Executable Python ASTs are unchanged from f66ccf2ff, the revision running in Jenkins; existing validation still applies. 2026-10-16 21:01:14 -0500ca95e8ec8301f3e6088664879410da55291165b2Complete case-runner procedure descriptionseditrun_scripts/run_scm_loss.pyeditutilities/time_clubb.pyeditrun_scripts/run_tuner_job.pyeditutilities/pytests/test_create_case_namelist.pyeditutilities/pytests/test_time_clubb.pyedittests/pytests/auto_llm_generated_pytests/test_scm_jax_driver_test.pyeditutilities/timing_profiles.pyeditclubb_jax/pytests/auto_llm_generated_pytests/test_device_selection.pyeditclubb_jax/pytests/auto_llm_generated_pytests/test_jax_cli_options.pyclubb_jax/src/CLUBB_core/code_timer_module.pyclubb_jax/src/clubb_case_initalization.pyclubb_jax/src/clubb_standalone.pyutilities/README.mdutilities/time_clubb.pyclubb_jax/pytests/auto_llm_generated_pytests/test_code_timer_module.pyclubb_jax/src/advance_clubb_to_end.pyclubb_jax/README.md607c58bdb517fa6677567b5015cb1db2a55549151792207323000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduSeparate JAX timing from case runner changes Keep runtime selection and process reuse independent so the case runner can merge into master before JAX timing. Shared runner/CLI/timing checks pass (445 tests, including provisional coverage). 2026-10-16 22:22:03 -0500607c58bdb517fa6677567b5015cb1db2a5554915Separate JAX timing from case runner changeseditutilities/time_clubb.pydeleteclubb_jax/src/CLUBB_core/code_timer_module.pyeditclubb_jax/README.mdeditclubb_jax/src/clubb_standalone.pyeditutilities/README.mdeditclubb_jax/src/advance_clubb_to_end.pyeditclubb_jax/src/clubb_case_initalization.pydeleteclubb_jax/pytests/auto_llm_generated_pytests/test_code_timer_module.pyclubb_jax/src/clubb_standalone.pyutilities/README.mdutilities/pytests/auto_llm_generated_pytests/test_timing_workers.pyrun_scripts/README.mdutilities/pytests/auto_llm_generated_pytests/test_loss_cli.pyutilities/clubb_case_runner.pyrun_scripts/run_scm.pyclubb_python_driver/clubb_standalone.pysrc/clubb_standalone.F90run_scripts/run_scm_loss.pyutilities/tests/run_case_runner_test.pyutilities/time_clubb.pyclubb_jax/src/Microphys/microphys_init_cleanup.pyutilities/create_case_namelist.pyutilities/pytests/auto_llm_generated_pytests/test_clubb_case_runner.py2c4fa0aa2e5c816571ac586013f9ad27e80671a81792208789000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduDocument case runner lifecycle and timing Clarify process reuse, model cleanup, runner status and timing boundaries. Improve procedure descriptions and runnable examples without changing logic. Shared checks pass (445); JAX reuse and native timing README examples pass. 2026-10-16 22:46:29 -05002c4fa0aa2e5c816571ac586013f9ad27e80671a8Document case runner lifecycle and timingeditutilities/pytests/auto_llm_generated_pytests/test_clubb_case_runner.pyeditclubb_python_driver/clubb_standalone.pyeditutilities/create_case_namelist.pyeditrun_scripts/run_scm_loss.pyeditclubb_jax/src/clubb_standalone.pyeditclubb_jax/src/Microphys/microphys_init_cleanup.pyeditrun_scripts/README.mdeditutilities/pytests/auto_llm_generated_pytests/test_loss_cli.pyeditsrc/clubb_standalone.F90editutilities/tests/run_case_runner_test.pyeditutilities/README.mdeditutilities/clubb_case_runner.pyeditutilities/time_clubb.pyeditrun_scripts/run_scm.pyeditutilities/pytests/auto_llm_generated_pytests/test_timing_workers.pysrc/Microphys/microphys_init_cleanup.F90d9e8b9588ff7b16679ca79b67fcf5382bcc723c41792209029000https://carson.math.uwm.edu/jenkins/user/noreplynoreplynoreply@github.comReset microphysics defaults when initializing another case (#1398) Restore module and saved-local namelist defaults before reading a new case. This prevents omitted settings from inheriting the previous case's values. This isn't an issue for any way that clubb is currently run in the codebase, but would potentially cause an issue for a future use case (this is foreshadowing). 2026-10-16 22:50:29 -0500d9e8b9588ff7b16679ca79b67fcf5382bcc723c4Reset microphysics defaults when initializing another case (#1398)editsrc/Microphys/microphys_init_cleanup.F90.agents/skills/clubb-fortran-format/SKILL.md.agents/skills/clubb-fortran-port/SKILL.md3baa924b39a5ad3627f7ba2b6bc34e509fb167731792211462000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduDocument Fortran whitespace conventions Separate control flow and continued statements, and align small groups of related one-liners. Prefer recently maintained examples and share the guidance with the porting workflow. Both skills pass validation. 2026-10-16 23:31:02 -05003baa924b39a5ad3627f7ba2b6bc34e509fb16773Document Fortran whitespace conventionsedit.agents/skills/clubb-fortran-format/SKILL.mdedit.agents/skills/clubb-fortran-port/SKILL.mdclubb_jax/src/CLUBB_core/sfc_varnce_module.pyclubb_jax/src/CLUBB_core/model_flags.pyclubb_jax/src/CLUBB_core/new_hybrid_pdf_main.pyclubb_jax/src/CLUBB_core/adg1_adg2_3d_luhar_pdf.pyclubb_jax/src/CLUBB_core/advance_wp2_wp3_module.pyclubb_jax/src/CLUBB_core/parameters_tunable.pyclubb_jax/src/CLUBB_core/interpolation.pyclubb_jax/src/CLUBB_core/precipitation_fraction.pyclubb_jax/src/CLUBB_core/setup_clubb_pdf_params.pyclubb_jax/src/CLUBB_core/advance_windm_edsclrm_module.pyclubb_jax/src/CLUBB_core/jax_stats.pyclubb_jax/src/CLUBB_core/file_functions.pyclubb_jax/src/CLUBB_core/advance_clubb_core_module.pyclubb_jax/src/CLUBB_core/grid_class.pyclubb_jax/src/CLUBB_core/advance_xm_wpxp_module.pyclubb_jax/src/CLUBB_core/advance_xp2_xpyp_module.pyclubb_jax/src/CLUBB_core/mono_flux_limiter.pyclubb_jax/src/CLUBB_core/fill_holes.pyclubb_jax/src/CLUBB_core/stats_netcdf.pyclubb_jax/src/CLUBB_core/clip_explicit.pyclubb_jax/src/CLUBB_core/mixing_length.pyclubb_jax/src/CLUBB_core/err_info.pyclubb_jax/pytests/auto_llm_generated_pytests/test_sfc_varnce_diagnostics.pyclubb_jax/src/CLUBB_core/pdf_params.pyclubb_jax/pytests/auto_llm_generated_pytests/test_core_diagnostics.pyclubb_jax/src/CLUBB_core/remapping_module.pyclubb_jax/src/CLUBB_core/sponge_layer_damping.pyclubb_jax/src/CLUBB_core/new_pdf.pyclubb_jax/src/CLUBB_core/matrix_operations.pyclubb_jax/src/CLUBB_core/pdf_closure_module.pyclubb_jax/src/CLUBB_core/pos_definite_module.pyclubb_jax/src/CLUBB_core/numerical_check.pyclubb_jax/src/CLUBB_core/matrix_solver_wrapper.pyclubb_jax/src/CLUBB_core/new_tsdadg_pdf.pyclubb_jax/src/CLUBB_core/corr_varnce_module.pyc47faf30cea562966e64eedc259a5074c6cf89b11792221315000https://carson.math.uwm.edu/jenkins/user/noreplynoreplynoreply@github.comRestore missing debug printouts in JAX core (#1390) * Restore missing debug printouts in JAX core The port kept many failure checks but omitted their Fortran messages, making failed columns and solvers difficult to diagnose. Restore runtime messages, column headers and available field dumps with the source debug gates. Record diagnostics needing unported machinery in the skip report. BFB is not established by the available comparisons. All 23 curated CPU JAX/Fortran cases matched within default tolerances: absolute 1e-7 and percentage 1e-7%, or 0.001% for the curated Morrison cases. Runs used four columns, standard statistics and existing durations/caps. Separately, 24 starting-tree kernel comparisons found exactly equal result/state values. The CPU JAX suite passed 787 tests, including compiled diagnostic checks; the focused rerun passed 14. Source/diff review and git diff --check passed. * Remove diagnostic restoration report Remove the standalone report on intentionally skipped diagnostics. Observed Fortran differences remain documented in the affected JAX modules. This removes documentation only, so model/output BFB is not applicable. Diff review, a tracked-file reference search and git diff --check passed. Runtime tests were not rerun for this deletion. * Identify scalar fields in solver diagnostics The separate scalar solves all printed the same generic field label. Restore the Fortran names sclrp2, sclrprtp and sclrpthlp so a failure identifies which variance or covariance solve failed. Source comparison confirms the three labels match their Fortran call sites. Python syntax and whitespace checks passed. Jenkins validation will exercise the published revision. 2026-10-17 02:15:15 -0500c47faf30cea562966e64eedc259a5074c6cf89b1Restore missing debug printouts in JAX core (#1390)editclubb_jax/src/CLUBB_core/err_info.pyeditclubb_jax/src/CLUBB_core/new_tsdadg_pdf.pyeditclubb_jax/src/CLUBB_core/clip_explicit.pyeditclubb_jax/src/CLUBB_core/corr_varnce_module.pyeditclubb_jax/src/CLUBB_core/advance_wp2_wp3_module.pyeditclubb_jax/src/CLUBB_core/file_functions.pyeditclubb_jax/src/CLUBB_core/numerical_check.pyeditclubb_jax/src/CLUBB_core/parameters_tunable.pyeditclubb_jax/src/CLUBB_core/mono_flux_limiter.pyeditclubb_jax/src/CLUBB_core/pdf_closure_module.pyeditclubb_jax/src/CLUBB_core/interpolation.pyeditclubb_jax/src/CLUBB_core/new_pdf.pyeditclubb_jax/src/CLUBB_core/matrix_operations.pyeditclubb_jax/src/CLUBB_core/sponge_layer_damping.pyeditclubb_jax/src/CLUBB_core/mixing_length.pyeditclubb_jax/src/CLUBB_core/pdf_params.pyeditclubb_jax/src/CLUBB_core/advance_xm_wpxp_module.pyeditclubb_jax/src/CLUBB_core/model_flags.pyeditclubb_jax/src/CLUBB_core/matrix_solver_wrapper.pyeditclubb_jax/src/CLUBB_core/precipitation_fraction.pyeditclubb_jax/src/CLUBB_core/pos_definite_module.pyaddclubb_jax/pytests/auto_llm_generated_pytests/test_sfc_varnce_diagnostics.pyeditclubb_jax/src/CLUBB_core/fill_holes.pyeditclubb_jax/src/CLUBB_core/sfc_varnce_module.pyeditclubb_jax/src/CLUBB_core/advance_clubb_core_module.pyeditclubb_jax/src/CLUBB_core/setup_clubb_pdf_params.pyeditclubb_jax/src/CLUBB_core/remapping_module.pyeditclubb_jax/src/CLUBB_core/advance_windm_edsclrm_module.pyeditclubb_jax/src/CLUBB_core/jax_stats.pyeditclubb_jax/src/CLUBB_core/adg1_adg2_3d_luhar_pdf.pyaddclubb_jax/pytests/auto_llm_generated_pytests/test_core_diagnostics.pyeditclubb_jax/src/CLUBB_core/advance_xp2_xpyp_module.pyeditclubb_jax/src/CLUBB_core/stats_netcdf.pyeditclubb_jax/src/CLUBB_core/grid_class.pyeditclubb_jax/src/CLUBB_core/new_hybrid_pdf_main.pyclubb_jax/pytests/auto_llm_generated_pytests/test_windm_edsclrm_scalar_indices.pyclubb_jax/pytests/auto_llm_generated_pytests/test_radiation_error_diagnostics.pyclubb_jax/src/CLUBB_core/advance_windm_edsclrm_module.pyclubb_jax/pytests/auto_llm_generated_pytests/test_xp2_error_diagnostics.pyclubb_jax/src/CLUBB_core/err_info.pyclubb_jax/pytests/auto_llm_generated_pytests/test_jit_compile.pyclubb_jax/src/CLUBB_core/__init__.pyclubb_jax/src/advance_clubb_to_end.pyclubb_jax/src/CLUBB_core/numerical_check.pyclubb_jax/src/CLUBB_core/err_info_codes.pyclubb_python_api/JAX_INTEROPERABILITY_PROPOSAL.mdclubb_jax/src/CLUBB_core/advance_xp2_xpyp_module.pyclubb_jax/src/Radiation/radiation_module.pyaa8c2aa4037dda69d686ca97bcbbe1a8208401fd1792259885000https://carson.math.uwm.edu/jenkins/user/noreplynoreplynoreply@github.comRemove the JAX error-message code registry (#1401) * Remove the JAX error-message code registry Print failure details at the runtime checks that detect them. Remove the extra reason_code field and its setters, decoder, initialization/reset handling and exports; retain the normal per-column fatal-error status. Update the scalar-guard assertions and add cached-call diagnostic checks. Local CPU checks passed for the ErrInfo pytree, diagnostic output, driver debug gates and state reset/batching behavior (65 cases across five modules). * Correct the multiple-LHS diagnostic test's wp3 grid Allocate synthetic wp3 on thermodynamic levels, as required by calc_wp3_on_wp2, so the test reaches the multiple-LHS guard during tracing. The 21 selected CPU diagnostic checks pass, covering cached-call output, per-column fatal status and preservation of fields on the unsupported path. * Restore the C2 explanation in the multiple-LHS diagnostic Name C2rt, C2thl and C2rtthl when their unequal values prevent a single-LHS solve. Keep the direct runtime print and existing fatal-status handling. The focused CPU cached-call test passes, including the restored explanation, quiet valid calls and preservation of incoming fields on failure. * Revert "Restore the C2 explanation in the multiple-LHS diagnostic" This reverts commit 170a13e2bc7af24e92d8d8bc9de9d9db601921ed. * List single-LHS requirements in the JAX diagnostic Print the approved static requirements after the unsupported multiple-LHS message: explicit turbulent advection or ADG1, plus per-column equivalence of C2thl and C2rtthl to C2rt within the relative epsilon tolerance. The focused CPU cached-call test passes, checking the listed requirements, quiet valid calls and preservation of incoming fields and fatal status. 2026-10-17 12:58:05 -0500aa8c2aa4037dda69d686ca97bcbbe1a8208401fdRemove the JAX error-message code registry (#1401)addclubb_jax/pytests/auto_llm_generated_pytests/test_radiation_error_diagnostics.pyeditclubb_jax/src/advance_clubb_to_end.pydeleteclubb_jax/src/CLUBB_core/err_info_codes.pyeditclubb_python_api/JAX_INTEROPERABILITY_PROPOSAL.mdeditclubb_jax/pytests/auto_llm_generated_pytests/test_jit_compile.pyeditclubb_jax/src/CLUBB_core/advance_xp2_xpyp_module.pyeditclubb_jax/src/CLUBB_core/advance_windm_edsclrm_module.pyeditclubb_jax/src/Radiation/radiation_module.pyeditclubb_jax/src/CLUBB_core/__init__.pyaddclubb_jax/pytests/auto_llm_generated_pytests/test_xp2_error_diagnostics.pyeditclubb_jax/pytests/auto_llm_generated_pytests/test_windm_edsclrm_scalar_indices.pyeditclubb_jax/src/CLUBB_core/numerical_check.pyeditclubb_jax/src/CLUBB_core/err_info.py.agents/skills/clubb-jax-port/SKILL.md.agents/skills/clubb-testing-and-reporting/SKILL.md.agents/skills/clubb-documentation/change-messages/SKILL.md6e48f97c2a96bc78fb498c82f1ed0bb6902353491792260807000https://carson.math.uwm.edu/jenkins/user/noreplynoreplynoreply@github.comRestrict BIT_CHANGING guidance to Fortran result changes (#1399) Keep JAX numerical acceptance focused on agreement with the corresponding Fortran implementation rather than preserving earlier JAX output. Clarify the reporting rule and link it from the JAX porting workflow. All 21 skill schemas, 112 local links and 7 heading anchors pass, along with diff formatting. Only three skill Markdown files change. 2026-10-17 13:13:27 -05006e48f97c2a96bc78fb498c82f1ed0bb690235349Restrict BIT_CHANGING guidance to Fortran result changes (#1399)edit.agents/skills/clubb-testing-and-reporting/SKILL.mdedit.agents/skills/clubb-jax-port/SKILL.mdedit.agents/skills/clubb-documentation/change-messages/SKILL.mdjenkins_tests/clubb_driver/Jenkinsfiletests/README.mdutilities/README.mdtests/case_runner_lifecycle_test.pyutilities/tests/run_case_runner_test.py167076807d2a8cfe95c58da710eaee8f53994d001792261464000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduRun case runner lifecycle checks in the driver pipeline Move the workflow to tests/case_runner_lifecycle_test.py and run native, Python and CPU JAX checks before the existing driver comparisons. Keep the case sequence and exact comparison assertions unchanged. Native/Python lifecycle checks and 445 shared checks pass. Jenkins validates the pipeline syntax; branch execution follows the push. 2026-10-17 13:24:24 -0500167076807d2a8cfe95c58da710eaee8f53994d00Run case runner lifecycle checks in the driver pipelineedittests/README.mdeditjenkins_tests/clubb_driver/Jenkinsfiledeleteutilities/tests/run_case_runner_test.pyeditutilities/README.mdaddtests/case_runner_lifecycle_test.pysrc/clubb_standalone.F900c985605a47a651c813c6697e3c3c4e32365f9c71792262101000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduClarify standalone worker flow 2026-10-17 13:35:01 -05000c985605a47a651c813c6697e3c3c4e32365f9c7Clarify standalone worker floweditsrc/clubb_standalone.F90githttps://carson.math.uwm.edu/jenkins/user/noreplynoreplyhttps://carson.math.uwm.edu/jenkins/user/hueblerGunther 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-050053e40d747c3bbee9d067136b700534b58969059dApply pytest review revisions and consolidate JAX 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silhs (#1372) Adding silhs to jax. To avoid randomness issues I added a silhs flag, l_lh_deterministic_test, that causes samples and random numbers to be generated in a deterministic order that is pretty basic but seems like a fine enough sampling method for a test that only matters for comparing jax to fortran matching. This required changing the fortran to have this deterministic test sample generation. I added 3 new silhs tests: rico_silhs with a 60s timestep matches up to 360 timestpes (6 hours) lba_kk_silhs (lba with kk microphys instead of defauly morrison) passes up to 270ish steps, I set test to 240 steps lba_silhs (with morrison) passes <80, from past exploration this seems mainly due to morrison being in single precision * Port SILHS sampling and microphysics coupling to JAX Add native JAX Latin-hypercube sampling with explicit persistent permutation state and case-owned initialization. Couple sampled states to KK and Morrison microphysics in interactive and diagnostic modes, with weighted statistics, substep averaging, and fatal-path/configuration guards. Preserve Fortran routine structure, argument grouping, and source comments throughout SILHS and the microphysics interface layer. Leave Fortran, MT95, and the KK/Morrison numerical cores unchanged. Validation: 103 focused sampling/interface/error-path checks and eight real SILHS driver checks pass. Earlier interface/support validation and the 20-pair disabled-SILHS JAX/Fortran comparison also pass. Enabled SILHS random stream parity is deferred to a future common-random-input comparison. * Add deterministic SILHS comparisons and initialize JAX output grids Add a default-off l_lh_deterministic_test flag to Fortran and JAX. Use ordered strata and a shared four-value, binary-exact draw cycle in the high-level LHS and overlap-pool routines, preserving sequence reuse and leaving the native random generators unchanged. Reject independent importance sampling and random starts in this comparison mode. Add interactive RICO, LBA KK and native LBA Morrison configurations to the JAX/Fortran comparison suite without relaxing the existing tolerances. Initialize SILHS host statistics from JAX case setup so reduced statistics files also contain Fortran's lh_zt and lh_sample_number coordinates. Validation: Fortran build and source checks pass; 581 raw sampling values match exactly; 59 sampler/contract/forwarding checks and 46 output/support checks pass. RICO matches through 360 steps at 60s with standard statistics and with reduced statistics at debug 0. Document the remaining comparison limits: LBA KK's repeating-cycle Nrp2 difference starts at saved prefix 274, while its configured cap remains 275. Native Morrison's selected scope was verified with midpoint inputs; the repeating-cycle comparison was not rerun after the requested stop. * Match Fortran SILHS sampling precision and overlap Preserve default-real rounding in inverse-normal coefficients before promotion to the sample dtype. Apply vertical overlap to starting-level straight Monte Carlo samples and retain source sampling failure status. Add a live Fortran inverse-normal oracle and regressions for overlap and the source sample-count check. Keep comparison limits and tolerances. * Restore SILHS diagnostics and microphysics host error guards Carry weight-limiter and Kessler diagnostic failures through compiled returns and ErrInfo. Preserve Fortran debug guards at the host boundaries so negative-debug tracing can retain per-column failure status. Write ordered microphysics/SILHS settings and approximate correlations from initialization into the standalone setup file. Keep report lifetime and output-name resolution outside the timestep driver. Add focused failure/report regressions and update the port notes with repeating-input comparisons and the native Morrison compiler sensitivity. * Document deterministic SILHS comparison patterns Explain the ordered permutation, repeating within-stratum offsets and overlap pool at every Fortran deterministic randomness override. Mirror the explanation in JAX, including index phases, sequence reuse and independence from RNG state. Executable statements are unchanged in both implementations; source/AST checks confirm these changes only add comments. * Use definition decorators for microphysics JIT boundaries Move the existing PDF preparation, scheme tendency and hydrometeor transport JIT boundaries onto their routine definitions with @partial(jax.jit, ...). Keep the static arguments unchanged and call the source-named routines directly from the standalone driver. Update host injection and source-order checks for the canonical routine names. Lightweight error/feedback fixtures still check eager and compiled routine bodies; real standalone runs exercise the decorated entry points. Validation: 140 focused tests; 28 passed, 2435 warnings in 453.39s (0:07:33); unchanged RICO360/LBAKK275 strict comparisons; supported whole-driver and reverse-mode tracing. * Simplify deterministic SILHS sampling comments Describe the repeatable-testing branches directly, with their base values and index offsets. Show the first twelve pool entries for four columns, grouped by sample, and use the same concise descriptions in the Fortran and JAX mirrors. Only comments and argument documentation change; executable code is unchanged. * Exclude E3SM from host compatibility updates Keep the exclusion visible in shortcut discovery and the host workflow. Treat sys_admin mappings as synchronization metadata, not the active host list. * Shortening tests timesteps a bit and adding a space for niceness 2026-10-04 19:01:28 -0500f51ab963e7cde71123d3afd8f77d077a35cf211fJax silhs 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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/f2py_fortran_wrappers/precipitation_fraction_wrapper.F90src/G_unit_test_types/mu_sigma_hm_tests.F90clubb_python_api/pytests/auto_llm_generated_pytests/test_call_tree_precipitation_fraction.pysrc/Microphys/pdf_hydromet_microphys_wrapper.F90clubb_python_api/clubb_python/CLUBB_core/precipitation_fraction.pysrc/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)editclubb_python_api/f2py_fortran_wrappers/precipitation_fraction_wrapper.F90editsrc/generalized_grid_test.F90editsrc/CLUBB_core/fill_holes.F90editsrc/CLUBB_core/precipitation_fraction.F90editsrc/CLUBB_core/setup_clubb_pdf_params.F90editsrc/Microphys/pdf_hydromet_microphys_wrapper.F90editclubb_python_api/clubb_python/CLUBB_core/precipitation_fraction.pyeditsrc/G_unit_test_types/mu_sigma_hm_tests.F90editclubb_python_api/clubb_f2py.pyfeditclubb_python_api/pytests/auto_llm_generated_pytests/test_call_tree_precipitation_fraction.pygithttps://carson.math.uwm.edu/jenkins/user/noreplynoreplyhttps://carson.math.uwm.edu/jenkins/user/hueblerGunther 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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/f2py_fortran_wrappers/precipitation_fraction_wrapper.F90src/G_unit_test_types/mu_sigma_hm_tests.F90clubb_python_api/pytests/auto_llm_generated_pytests/test_call_tree_precipitation_fraction.pysrc/Microphys/pdf_hydromet_microphys_wrapper.F90clubb_python_api/clubb_python/CLUBB_core/precipitation_fraction.pysrc/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. 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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/f2py_fortran_wrappers/precipitation_fraction_wrapper.F90src/G_unit_test_types/mu_sigma_hm_tests.F90clubb_python_api/pytests/auto_llm_generated_pytests/test_call_tree_precipitation_fraction.pysrc/Microphys/pdf_hydromet_microphys_wrapper.F90clubb_python_api/clubb_python/CLUBB_core/precipitation_fraction.pysrc/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. 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#5050false5010828SUCCESS1792262128215https://carson.math.uwm.edu/jenkins/view/clubb_branch_tests/job/clubb_branch_python/50/run_scripts/run_scm_loss.pyutilities/time_clubb.pyclubb_jax/pytests/auto_llm_generated_pytests/test_device_selection.pyclubb_jax/pytests/auto_llm_generated_pytests/test_jax_cli_options.pytests/pytests/auto_llm_generated_pytests/test_scm_jax_driver_test.pyutilities/timing_profiles.pyrun_scripts/run_tuner_job.pyutilities/pytests/test_create_case_namelist.pyutilities/pytests/test_time_clubb.pyca95e8ec8301f3e6088664879410da55291165b21792202474000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduComplete case-runner procedure descriptions Describe the remaining changed CLI, test and profile routines under the current documentation standards. Executable Python ASTs are unchanged from f66ccf2ff, the revision running in Jenkins; existing validation still applies. 2026-10-16 21:01:14 -0500ca95e8ec8301f3e6088664879410da55291165b2Complete case-runner procedure descriptionseditrun_scripts/run_scm_loss.pyeditutilities/time_clubb.pyeditrun_scripts/run_tuner_job.pyeditutilities/pytests/test_create_case_namelist.pyeditutilities/pytests/test_time_clubb.pyedittests/pytests/auto_llm_generated_pytests/test_scm_jax_driver_test.pyeditutilities/timing_profiles.pyeditclubb_jax/pytests/auto_llm_generated_pytests/test_device_selection.pyeditclubb_jax/pytests/auto_llm_generated_pytests/test_jax_cli_options.pyclubb_jax/src/CLUBB_core/code_timer_module.pyclubb_jax/src/clubb_case_initalization.pyclubb_jax/src/clubb_standalone.pyutilities/README.mdutilities/time_clubb.pyclubb_jax/pytests/auto_llm_generated_pytests/test_code_timer_module.pyclubb_jax/src/advance_clubb_to_end.pyclubb_jax/README.md607c58bdb517fa6677567b5015cb1db2a55549151792207323000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduSeparate JAX timing from case runner changes Keep runtime selection and process reuse independent so the case runner can merge into master before JAX timing. Shared runner/CLI/timing checks pass (445 tests, including provisional coverage). 2026-10-16 22:22:03 -0500607c58bdb517fa6677567b5015cb1db2a5554915Separate JAX timing from case runner changeseditutilities/time_clubb.pydeleteclubb_jax/src/CLUBB_core/code_timer_module.pyeditclubb_jax/README.mdeditclubb_jax/src/clubb_standalone.pyeditutilities/README.mdeditclubb_jax/src/advance_clubb_to_end.pyeditclubb_jax/src/clubb_case_initalization.pydeleteclubb_jax/pytests/auto_llm_generated_pytests/test_code_timer_module.pyclubb_jax/src/clubb_standalone.pyutilities/README.mdutilities/pytests/auto_llm_generated_pytests/test_timing_workers.pyrun_scripts/README.mdutilities/pytests/auto_llm_generated_pytests/test_loss_cli.pyutilities/clubb_case_runner.pyrun_scripts/run_scm.pyclubb_python_driver/clubb_standalone.pysrc/clubb_standalone.F90run_scripts/run_scm_loss.pyutilities/tests/run_case_runner_test.pyutilities/time_clubb.pyclubb_jax/src/Microphys/microphys_init_cleanup.pyutilities/create_case_namelist.pyutilities/pytests/auto_llm_generated_pytests/test_clubb_case_runner.py2c4fa0aa2e5c816571ac586013f9ad27e80671a81792208789000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduDocument case runner lifecycle and timing Clarify process reuse, model cleanup, runner status and timing boundaries. Improve procedure descriptions and runnable examples without changing logic. Shared checks pass (445); JAX reuse and native timing README examples pass. 2026-10-16 22:46:29 -05002c4fa0aa2e5c816571ac586013f9ad27e80671a8Document case runner lifecycle and timingeditutilities/pytests/auto_llm_generated_pytests/test_clubb_case_runner.pyeditclubb_python_driver/clubb_standalone.pyeditutilities/create_case_namelist.pyeditrun_scripts/run_scm_loss.pyeditclubb_jax/src/clubb_standalone.pyeditclubb_jax/src/Microphys/microphys_init_cleanup.pyeditrun_scripts/README.mdeditutilities/pytests/auto_llm_generated_pytests/test_loss_cli.pyeditsrc/clubb_standalone.F90editutilities/tests/run_case_runner_test.pyeditutilities/README.mdeditutilities/clubb_case_runner.pyeditutilities/time_clubb.pyeditrun_scripts/run_scm.pyeditutilities/pytests/auto_llm_generated_pytests/test_timing_workers.pysrc/Microphys/microphys_init_cleanup.F90d9e8b9588ff7b16679ca79b67fcf5382bcc723c41792209029000https://carson.math.uwm.edu/jenkins/user/noreplynoreplynoreply@github.comReset microphysics defaults when initializing another case (#1398) Restore module and saved-local namelist defaults before reading a new case. This prevents omitted settings from inheriting the previous case's values. This isn't an issue for any way that clubb is currently run in the codebase, but would potentially cause an issue for a future use case (this is foreshadowing). 2026-10-16 22:50:29 -0500d9e8b9588ff7b16679ca79b67fcf5382bcc723c4Reset microphysics defaults when initializing another case (#1398)editsrc/Microphys/microphys_init_cleanup.F90.agents/skills/clubb-fortran-format/SKILL.md.agents/skills/clubb-fortran-port/SKILL.md3baa924b39a5ad3627f7ba2b6bc34e509fb167731792211462000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduDocument Fortran whitespace conventions Separate control flow and continued statements, and align small groups of related one-liners. Prefer recently maintained examples and share the guidance with the porting workflow. Both skills pass validation. 2026-10-16 23:31:02 -05003baa924b39a5ad3627f7ba2b6bc34e509fb16773Document Fortran whitespace conventionsedit.agents/skills/clubb-fortran-format/SKILL.mdedit.agents/skills/clubb-fortran-port/SKILL.mdclubb_jax/src/CLUBB_core/sfc_varnce_module.pyclubb_jax/src/CLUBB_core/model_flags.pyclubb_jax/src/CLUBB_core/new_hybrid_pdf_main.pyclubb_jax/src/CLUBB_core/adg1_adg2_3d_luhar_pdf.pyclubb_jax/src/CLUBB_core/advance_wp2_wp3_module.pyclubb_jax/src/CLUBB_core/parameters_tunable.pyclubb_jax/src/CLUBB_core/interpolation.pyclubb_jax/src/CLUBB_core/precipitation_fraction.pyclubb_jax/src/CLUBB_core/setup_clubb_pdf_params.pyclubb_jax/src/CLUBB_core/advance_windm_edsclrm_module.pyclubb_jax/src/CLUBB_core/jax_stats.pyclubb_jax/src/CLUBB_core/file_functions.pyclubb_jax/src/CLUBB_core/advance_clubb_core_module.pyclubb_jax/src/CLUBB_core/grid_class.pyclubb_jax/src/CLUBB_core/advance_xm_wpxp_module.pyclubb_jax/src/CLUBB_core/advance_xp2_xpyp_module.pyclubb_jax/src/CLUBB_core/mono_flux_limiter.pyclubb_jax/src/CLUBB_core/fill_holes.pyclubb_jax/src/CLUBB_core/stats_netcdf.pyclubb_jax/src/CLUBB_core/clip_explicit.pyclubb_jax/src/CLUBB_core/mixing_length.pyclubb_jax/src/CLUBB_core/err_info.pyclubb_jax/pytests/auto_llm_generated_pytests/test_sfc_varnce_diagnostics.pyclubb_jax/src/CLUBB_core/pdf_params.pyclubb_jax/pytests/auto_llm_generated_pytests/test_core_diagnostics.pyclubb_jax/src/CLUBB_core/remapping_module.pyclubb_jax/src/CLUBB_core/sponge_layer_damping.pyclubb_jax/src/CLUBB_core/new_pdf.pyclubb_jax/src/CLUBB_core/matrix_operations.pyclubb_jax/src/CLUBB_core/pdf_closure_module.pyclubb_jax/src/CLUBB_core/pos_definite_module.pyclubb_jax/src/CLUBB_core/numerical_check.pyclubb_jax/src/CLUBB_core/matrix_solver_wrapper.pyclubb_jax/src/CLUBB_core/new_tsdadg_pdf.pyclubb_jax/src/CLUBB_core/corr_varnce_module.pyc47faf30cea562966e64eedc259a5074c6cf89b11792221315000https://carson.math.uwm.edu/jenkins/user/noreplynoreplynoreply@github.comRestore missing debug printouts in JAX core (#1390) * Restore missing debug printouts in JAX core The port kept many failure checks but omitted their Fortran messages, making failed columns and solvers difficult to diagnose. Restore runtime messages, column headers and available field dumps with the source debug gates. Record diagnostics needing unported machinery in the skip report. BFB is not established by the available comparisons. All 23 curated CPU JAX/Fortran cases matched within default tolerances: absolute 1e-7 and percentage 1e-7%, or 0.001% for the curated Morrison cases. Runs used four columns, standard statistics and existing durations/caps. Separately, 24 starting-tree kernel comparisons found exactly equal result/state values. The CPU JAX suite passed 787 tests, including compiled diagnostic checks; the focused rerun passed 14. Source/diff review and git diff --check passed. * Remove diagnostic restoration report Remove the standalone report on intentionally skipped diagnostics. Observed Fortran differences remain documented in the affected JAX modules. This removes documentation only, so model/output BFB is not applicable. Diff review, a tracked-file reference search and git diff --check passed. Runtime tests were not rerun for this deletion. * Identify scalar fields in solver diagnostics The separate scalar solves all printed the same generic field label. Restore the Fortran names sclrp2, sclrprtp and sclrpthlp so a failure identifies which variance or covariance solve failed. Source comparison confirms the three labels match their Fortran call sites. Python syntax and whitespace checks passed. Jenkins validation will exercise the published revision. 2026-10-17 02:15:15 -0500c47faf30cea562966e64eedc259a5074c6cf89b1Restore missing debug printouts in JAX core (#1390)editclubb_jax/src/CLUBB_core/err_info.pyeditclubb_jax/src/CLUBB_core/new_tsdadg_pdf.pyeditclubb_jax/src/CLUBB_core/clip_explicit.pyeditclubb_jax/src/CLUBB_core/corr_varnce_module.pyeditclubb_jax/src/CLUBB_core/advance_wp2_wp3_module.pyeditclubb_jax/src/CLUBB_core/file_functions.pyeditclubb_jax/src/CLUBB_core/numerical_check.pyeditclubb_jax/src/CLUBB_core/parameters_tunable.pyeditclubb_jax/src/CLUBB_core/mono_flux_limiter.pyeditclubb_jax/src/CLUBB_core/pdf_closure_module.pyeditclubb_jax/src/CLUBB_core/interpolation.pyeditclubb_jax/src/CLUBB_core/new_pdf.pyeditclubb_jax/src/CLUBB_core/matrix_operations.pyeditclubb_jax/src/CLUBB_core/sponge_layer_damping.pyeditclubb_jax/src/CLUBB_core/mixing_length.pyeditclubb_jax/src/CLUBB_core/pdf_params.pyeditclubb_jax/src/CLUBB_core/advance_xm_wpxp_module.pyeditclubb_jax/src/CLUBB_core/model_flags.pyeditclubb_jax/src/CLUBB_core/matrix_solver_wrapper.pyeditclubb_jax/src/CLUBB_core/precipitation_fraction.pyeditclubb_jax/src/CLUBB_core/pos_definite_module.pyaddclubb_jax/pytests/auto_llm_generated_pytests/test_sfc_varnce_diagnostics.pyeditclubb_jax/src/CLUBB_core/fill_holes.pyeditclubb_jax/src/CLUBB_core/sfc_varnce_module.pyeditclubb_jax/src/CLUBB_core/advance_clubb_core_module.pyeditclubb_jax/src/CLUBB_core/setup_clubb_pdf_params.pyeditclubb_jax/src/CLUBB_core/remapping_module.pyeditclubb_jax/src/CLUBB_core/advance_windm_edsclrm_module.pyeditclubb_jax/src/CLUBB_core/jax_stats.pyeditclubb_jax/src/CLUBB_core/adg1_adg2_3d_luhar_pdf.pyaddclubb_jax/pytests/auto_llm_generated_pytests/test_core_diagnostics.pyeditclubb_jax/src/CLUBB_core/advance_xp2_xpyp_module.pyeditclubb_jax/src/CLUBB_core/stats_netcdf.pyeditclubb_jax/src/CLUBB_core/grid_class.pyeditclubb_jax/src/CLUBB_core/new_hybrid_pdf_main.pyclubb_jax/pytests/auto_llm_generated_pytests/test_windm_edsclrm_scalar_indices.pyclubb_jax/pytests/auto_llm_generated_pytests/test_radiation_error_diagnostics.pyclubb_jax/src/CLUBB_core/advance_windm_edsclrm_module.pyclubb_jax/pytests/auto_llm_generated_pytests/test_xp2_error_diagnostics.pyclubb_jax/src/CLUBB_core/err_info.pyclubb_jax/pytests/auto_llm_generated_pytests/test_jit_compile.pyclubb_jax/src/CLUBB_core/__init__.pyclubb_jax/src/advance_clubb_to_end.pyclubb_jax/src/CLUBB_core/numerical_check.pyclubb_jax/src/CLUBB_core/err_info_codes.pyclubb_python_api/JAX_INTEROPERABILITY_PROPOSAL.mdclubb_jax/src/CLUBB_core/advance_xp2_xpyp_module.pyclubb_jax/src/Radiation/radiation_module.pyaa8c2aa4037dda69d686ca97bcbbe1a8208401fd1792259885000https://carson.math.uwm.edu/jenkins/user/noreplynoreplynoreply@github.comRemove the JAX error-message code registry (#1401) * Remove the JAX error-message code registry Print failure details at the runtime checks that detect them. Remove the extra reason_code field and its setters, decoder, initialization/reset handling and exports; retain the normal per-column fatal-error status. Update the scalar-guard assertions and add cached-call diagnostic checks. Local CPU checks passed for the ErrInfo pytree, diagnostic output, driver debug gates and state reset/batching behavior (65 cases across five modules). * Correct the multiple-LHS diagnostic test's wp3 grid Allocate synthetic wp3 on thermodynamic levels, as required by calc_wp3_on_wp2, so the test reaches the multiple-LHS guard during tracing. The 21 selected CPU diagnostic checks pass, covering cached-call output, per-column fatal status and preservation of fields on the unsupported path. * Restore the C2 explanation in the multiple-LHS diagnostic Name C2rt, C2thl and C2rtthl when their unequal values prevent a single-LHS solve. Keep the direct runtime print and existing fatal-status handling. The focused CPU cached-call test passes, including the restored explanation, quiet valid calls and preservation of incoming fields on failure. * Revert "Restore the C2 explanation in the multiple-LHS diagnostic" This reverts commit 170a13e2bc7af24e92d8d8bc9de9d9db601921ed. * List single-LHS requirements in the JAX diagnostic Print the approved static requirements after the unsupported multiple-LHS message: explicit turbulent advection or ADG1, plus per-column equivalence of C2thl and C2rtthl to C2rt within the relative epsilon tolerance. The focused CPU cached-call test passes, checking the listed requirements, quiet valid calls and preservation of incoming fields and fatal status. 2026-10-17 12:58:05 -0500aa8c2aa4037dda69d686ca97bcbbe1a8208401fdRemove the JAX error-message code registry (#1401)addclubb_jax/pytests/auto_llm_generated_pytests/test_radiation_error_diagnostics.pyeditclubb_jax/src/advance_clubb_to_end.pydeleteclubb_jax/src/CLUBB_core/err_info_codes.pyeditclubb_python_api/JAX_INTEROPERABILITY_PROPOSAL.mdeditclubb_jax/pytests/auto_llm_generated_pytests/test_jit_compile.pyeditclubb_jax/src/CLUBB_core/advance_xp2_xpyp_module.pyeditclubb_jax/src/CLUBB_core/advance_windm_edsclrm_module.pyeditclubb_jax/src/Radiation/radiation_module.pyeditclubb_jax/src/CLUBB_core/__init__.pyaddclubb_jax/pytests/auto_llm_generated_pytests/test_xp2_error_diagnostics.pyeditclubb_jax/pytests/auto_llm_generated_pytests/test_windm_edsclrm_scalar_indices.pyeditclubb_jax/src/CLUBB_core/numerical_check.pyeditclubb_jax/src/CLUBB_core/err_info.py.agents/skills/clubb-jax-port/SKILL.md.agents/skills/clubb-testing-and-reporting/SKILL.md.agents/skills/clubb-documentation/change-messages/SKILL.md6e48f97c2a96bc78fb498c82f1ed0bb6902353491792260807000https://carson.math.uwm.edu/jenkins/user/noreplynoreplynoreply@github.comRestrict BIT_CHANGING guidance to Fortran result changes (#1399) Keep JAX numerical acceptance focused on agreement with the corresponding Fortran implementation rather than preserving earlier JAX output. Clarify the reporting rule and link it from the JAX porting workflow. All 21 skill schemas, 112 local links and 7 heading anchors pass, along with diff formatting. Only three skill Markdown files change. 2026-10-17 13:13:27 -05006e48f97c2a96bc78fb498c82f1ed0bb690235349Restrict BIT_CHANGING guidance to Fortran result changes (#1399)edit.agents/skills/clubb-testing-and-reporting/SKILL.mdedit.agents/skills/clubb-jax-port/SKILL.mdedit.agents/skills/clubb-documentation/change-messages/SKILL.mdjenkins_tests/clubb_driver/Jenkinsfiletests/README.mdutilities/README.mdtests/case_runner_lifecycle_test.pyutilities/tests/run_case_runner_test.py167076807d2a8cfe95c58da710eaee8f53994d001792261464000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduRun case runner lifecycle checks in the driver pipeline Move the workflow to tests/case_runner_lifecycle_test.py and run native, Python and CPU JAX checks before the existing driver comparisons. Keep the case sequence and exact comparison assertions unchanged. Native/Python lifecycle checks and 445 shared checks pass. Jenkins validates the pipeline syntax; branch execution follows the push. 2026-10-17 13:24:24 -0500167076807d2a8cfe95c58da710eaee8f53994d00Run case runner lifecycle checks in the driver pipelineedittests/README.mdeditjenkins_tests/clubb_driver/Jenkinsfiledeleteutilities/tests/run_case_runner_test.pyeditutilities/README.mdaddtests/case_runner_lifecycle_test.pysrc/clubb_standalone.F900c985605a47a651c813c6697e3c3c4e32365f9c71792262101000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduClarify standalone worker flow 2026-10-17 13:35:01 -05000c985605a47a651c813c6697e3c3c4e32365f9c7Clarify standalone worker floweditsrc/clubb_standalone.F90githttps://carson.math.uwm.edu/jenkins/user/noreplynoreplyhttps://carson.math.uwm.edu/jenkins/user/hueblerGunther 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#5050false5010828SUCCESS1792262128215https://carson.math.uwm.edu/jenkins/view/clubb_branch_tests/job/clubb_branch_python/50/run_scripts/run_scm_loss.pyutilities/time_clubb.pyclubb_jax/pytests/auto_llm_generated_pytests/test_device_selection.pyclubb_jax/pytests/auto_llm_generated_pytests/test_jax_cli_options.pytests/pytests/auto_llm_generated_pytests/test_scm_jax_driver_test.pyutilities/timing_profiles.pyrun_scripts/run_tuner_job.pyutilities/pytests/test_create_case_namelist.pyutilities/pytests/test_time_clubb.pyca95e8ec8301f3e6088664879410da55291165b21792202474000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduComplete case-runner procedure descriptions Describe the remaining changed CLI, test and profile routines under the current documentation standards. Executable Python ASTs are unchanged from f66ccf2ff, the revision running in Jenkins; existing validation still applies. 2026-10-16 21:01:14 -0500ca95e8ec8301f3e6088664879410da55291165b2Complete case-runner procedure descriptionseditrun_scripts/run_scm_loss.pyeditutilities/time_clubb.pyeditrun_scripts/run_tuner_job.pyeditutilities/pytests/test_create_case_namelist.pyeditutilities/pytests/test_time_clubb.pyedittests/pytests/auto_llm_generated_pytests/test_scm_jax_driver_test.pyeditutilities/timing_profiles.pyeditclubb_jax/pytests/auto_llm_generated_pytests/test_device_selection.pyeditclubb_jax/pytests/auto_llm_generated_pytests/test_jax_cli_options.pyclubb_jax/src/CLUBB_core/code_timer_module.pyclubb_jax/src/clubb_case_initalization.pyclubb_jax/src/clubb_standalone.pyutilities/README.mdutilities/time_clubb.pyclubb_jax/pytests/auto_llm_generated_pytests/test_code_timer_module.pyclubb_jax/src/advance_clubb_to_end.pyclubb_jax/README.md607c58bdb517fa6677567b5015cb1db2a55549151792207323000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduSeparate JAX timing from case runner changes Keep runtime selection and process reuse independent so the case runner can merge into master before JAX timing. Shared runner/CLI/timing checks pass (445 tests, including provisional coverage). 2026-10-16 22:22:03 -0500607c58bdb517fa6677567b5015cb1db2a5554915Separate JAX timing from case runner changeseditutilities/time_clubb.pydeleteclubb_jax/src/CLUBB_core/code_timer_module.pyeditclubb_jax/README.mdeditclubb_jax/src/clubb_standalone.pyeditutilities/README.mdeditclubb_jax/src/advance_clubb_to_end.pyeditclubb_jax/src/clubb_case_initalization.pydeleteclubb_jax/pytests/auto_llm_generated_pytests/test_code_timer_module.pyclubb_jax/src/clubb_standalone.pyutilities/README.mdutilities/pytests/auto_llm_generated_pytests/test_timing_workers.pyrun_scripts/README.mdutilities/pytests/auto_llm_generated_pytests/test_loss_cli.pyutilities/clubb_case_runner.pyrun_scripts/run_scm.pyclubb_python_driver/clubb_standalone.pysrc/clubb_standalone.F90run_scripts/run_scm_loss.pyutilities/tests/run_case_runner_test.pyutilities/time_clubb.pyclubb_jax/src/Microphys/microphys_init_cleanup.pyutilities/create_case_namelist.pyutilities/pytests/auto_llm_generated_pytests/test_clubb_case_runner.py2c4fa0aa2e5c816571ac586013f9ad27e80671a81792208789000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduDocument case runner lifecycle and timing Clarify process reuse, model cleanup, runner status and timing boundaries. Improve procedure descriptions and runnable examples without changing logic. Shared checks pass (445); JAX reuse and native timing README examples pass. 2026-10-16 22:46:29 -05002c4fa0aa2e5c816571ac586013f9ad27e80671a8Document case runner lifecycle and timingeditutilities/pytests/auto_llm_generated_pytests/test_clubb_case_runner.pyeditclubb_python_driver/clubb_standalone.pyeditutilities/create_case_namelist.pyeditrun_scripts/run_scm_loss.pyeditclubb_jax/src/clubb_standalone.pyeditclubb_jax/src/Microphys/microphys_init_cleanup.pyeditrun_scripts/README.mdeditutilities/pytests/auto_llm_generated_pytests/test_loss_cli.pyeditsrc/clubb_standalone.F90editutilities/tests/run_case_runner_test.pyeditutilities/README.mdeditutilities/clubb_case_runner.pyeditutilities/time_clubb.pyeditrun_scripts/run_scm.pyeditutilities/pytests/auto_llm_generated_pytests/test_timing_workers.pysrc/Microphys/microphys_init_cleanup.F90d9e8b9588ff7b16679ca79b67fcf5382bcc723c41792209029000https://carson.math.uwm.edu/jenkins/user/noreplynoreplynoreply@github.comReset microphysics defaults when initializing another case (#1398) Restore module and saved-local namelist defaults before reading a new case. This prevents omitted settings from inheriting the previous case's values. This isn't an issue for any way that clubb is currently run in the codebase, but would potentially cause an issue for a future use case (this is foreshadowing). 2026-10-16 22:50:29 -0500d9e8b9588ff7b16679ca79b67fcf5382bcc723c4Reset microphysics defaults when initializing another case (#1398)editsrc/Microphys/microphys_init_cleanup.F90.agents/skills/clubb-fortran-format/SKILL.md.agents/skills/clubb-fortran-port/SKILL.md3baa924b39a5ad3627f7ba2b6bc34e509fb167731792211462000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduDocument Fortran whitespace conventions Separate control flow and continued statements, and align small groups of related one-liners. Prefer recently maintained examples and share the guidance with the porting workflow. Both skills pass validation. 2026-10-16 23:31:02 -05003baa924b39a5ad3627f7ba2b6bc34e509fb16773Document Fortran whitespace conventionsedit.agents/skills/clubb-fortran-format/SKILL.mdedit.agents/skills/clubb-fortran-port/SKILL.mdclubb_jax/src/CLUBB_core/sfc_varnce_module.pyclubb_jax/src/CLUBB_core/model_flags.pyclubb_jax/src/CLUBB_core/new_hybrid_pdf_main.pyclubb_jax/src/CLUBB_core/adg1_adg2_3d_luhar_pdf.pyclubb_jax/src/CLUBB_core/advance_wp2_wp3_module.pyclubb_jax/src/CLUBB_core/parameters_tunable.pyclubb_jax/src/CLUBB_core/interpolation.pyclubb_jax/src/CLUBB_core/precipitation_fraction.pyclubb_jax/src/CLUBB_core/setup_clubb_pdf_params.pyclubb_jax/src/CLUBB_core/advance_windm_edsclrm_module.pyclubb_jax/src/CLUBB_core/jax_stats.pyclubb_jax/src/CLUBB_core/file_functions.pyclubb_jax/src/CLUBB_core/advance_clubb_core_module.pyclubb_jax/src/CLUBB_core/grid_class.pyclubb_jax/src/CLUBB_core/advance_xm_wpxp_module.pyclubb_jax/src/CLUBB_core/advance_xp2_xpyp_module.pyclubb_jax/src/CLUBB_core/mono_flux_limiter.pyclubb_jax/src/CLUBB_core/fill_holes.pyclubb_jax/src/CLUBB_core/stats_netcdf.pyclubb_jax/src/CLUBB_core/clip_explicit.pyclubb_jax/src/CLUBB_core/mixing_length.pyclubb_jax/src/CLUBB_core/err_info.pyclubb_jax/pytests/auto_llm_generated_pytests/test_sfc_varnce_diagnostics.pyclubb_jax/src/CLUBB_core/pdf_params.pyclubb_jax/pytests/auto_llm_generated_pytests/test_core_diagnostics.pyclubb_jax/src/CLUBB_core/remapping_module.pyclubb_jax/src/CLUBB_core/sponge_layer_damping.pyclubb_jax/src/CLUBB_core/new_pdf.pyclubb_jax/src/CLUBB_core/matrix_operations.pyclubb_jax/src/CLUBB_core/pdf_closure_module.pyclubb_jax/src/CLUBB_core/pos_definite_module.pyclubb_jax/src/CLUBB_core/numerical_check.pyclubb_jax/src/CLUBB_core/matrix_solver_wrapper.pyclubb_jax/src/CLUBB_core/new_tsdadg_pdf.pyclubb_jax/src/CLUBB_core/corr_varnce_module.pyc47faf30cea562966e64eedc259a5074c6cf89b11792221315000https://carson.math.uwm.edu/jenkins/user/noreplynoreplynoreply@github.comRestore missing debug printouts in JAX core (#1390) * Restore missing debug printouts in JAX core The port kept many failure checks but omitted their Fortran messages, making failed columns and solvers difficult to diagnose. Restore runtime messages, column headers and available field dumps with the source debug gates. Record diagnostics needing unported machinery in the skip report. BFB is not established by the available comparisons. All 23 curated CPU JAX/Fortran cases matched within default tolerances: absolute 1e-7 and percentage 1e-7%, or 0.001% for the curated Morrison cases. Runs used four columns, standard statistics and existing durations/caps. Separately, 24 starting-tree kernel comparisons found exactly equal result/state values. The CPU JAX suite passed 787 tests, including compiled diagnostic checks; the focused rerun passed 14. Source/diff review and git diff --check passed. * Remove diagnostic restoration report Remove the standalone report on intentionally skipped diagnostics. Observed Fortran differences remain documented in the affected JAX modules. This removes documentation only, so model/output BFB is not applicable. Diff review, a tracked-file reference search and git diff --check passed. Runtime tests were not rerun for this deletion. * Identify scalar fields in solver diagnostics The separate scalar solves all printed the same generic field label. Restore the Fortran names sclrp2, sclrprtp and sclrpthlp so a failure identifies which variance or covariance solve failed. Source comparison confirms the three labels match their Fortran call sites. Python syntax and whitespace checks passed. Jenkins validation will exercise the published revision. 2026-10-17 02:15:15 -0500c47faf30cea562966e64eedc259a5074c6cf89b1Restore missing debug printouts in JAX core (#1390)editclubb_jax/src/CLUBB_core/err_info.pyeditclubb_jax/src/CLUBB_core/new_tsdadg_pdf.pyeditclubb_jax/src/CLUBB_core/clip_explicit.pyeditclubb_jax/src/CLUBB_core/corr_varnce_module.pyeditclubb_jax/src/CLUBB_core/advance_wp2_wp3_module.pyeditclubb_jax/src/CLUBB_core/file_functions.pyeditclubb_jax/src/CLUBB_core/numerical_check.pyeditclubb_jax/src/CLUBB_core/parameters_tunable.pyeditclubb_jax/src/CLUBB_core/mono_flux_limiter.pyeditclubb_jax/src/CLUBB_core/pdf_closure_module.pyeditclubb_jax/src/CLUBB_core/interpolation.pyeditclubb_jax/src/CLUBB_core/new_pdf.pyeditclubb_jax/src/CLUBB_core/matrix_operations.pyeditclubb_jax/src/CLUBB_core/sponge_layer_damping.pyeditclubb_jax/src/CLUBB_core/mixing_length.pyeditclubb_jax/src/CLUBB_core/pdf_params.pyeditclubb_jax/src/CLUBB_core/advance_xm_wpxp_module.pyeditclubb_jax/src/CLUBB_core/model_flags.pyeditclubb_jax/src/CLUBB_core/matrix_solver_wrapper.pyeditclubb_jax/src/CLUBB_core/precipitation_fraction.pyeditclubb_jax/src/CLUBB_core/pos_definite_module.pyaddclubb_jax/pytests/auto_llm_generated_pytests/test_sfc_varnce_diagnostics.pyeditclubb_jax/src/CLUBB_core/fill_holes.pyeditclubb_jax/src/CLUBB_core/sfc_varnce_module.pyeditclubb_jax/src/CLUBB_core/advance_clubb_core_module.pyeditclubb_jax/src/CLUBB_core/setup_clubb_pdf_params.pyeditclubb_jax/src/CLUBB_core/remapping_module.pyeditclubb_jax/src/CLUBB_core/advance_windm_edsclrm_module.pyeditclubb_jax/src/CLUBB_core/jax_stats.pyeditclubb_jax/src/CLUBB_core/adg1_adg2_3d_luhar_pdf.pyaddclubb_jax/pytests/auto_llm_generated_pytests/test_core_diagnostics.pyeditclubb_jax/src/CLUBB_core/advance_xp2_xpyp_module.pyeditclubb_jax/src/CLUBB_core/stats_netcdf.pyeditclubb_jax/src/CLUBB_core/grid_class.pyeditclubb_jax/src/CLUBB_core/new_hybrid_pdf_main.pyclubb_jax/pytests/auto_llm_generated_pytests/test_windm_edsclrm_scalar_indices.pyclubb_jax/pytests/auto_llm_generated_pytests/test_radiation_error_diagnostics.pyclubb_jax/src/CLUBB_core/advance_windm_edsclrm_module.pyclubb_jax/pytests/auto_llm_generated_pytests/test_xp2_error_diagnostics.pyclubb_jax/src/CLUBB_core/err_info.pyclubb_jax/pytests/auto_llm_generated_pytests/test_jit_compile.pyclubb_jax/src/CLUBB_core/__init__.pyclubb_jax/src/advance_clubb_to_end.pyclubb_jax/src/CLUBB_core/numerical_check.pyclubb_jax/src/CLUBB_core/err_info_codes.pyclubb_python_api/JAX_INTEROPERABILITY_PROPOSAL.mdclubb_jax/src/CLUBB_core/advance_xp2_xpyp_module.pyclubb_jax/src/Radiation/radiation_module.pyaa8c2aa4037dda69d686ca97bcbbe1a8208401fd1792259885000https://carson.math.uwm.edu/jenkins/user/noreplynoreplynoreply@github.comRemove the JAX error-message code registry (#1401) * Remove the JAX error-message code registry Print failure details at the runtime checks that detect them. Remove the extra reason_code field and its setters, decoder, initialization/reset handling and exports; retain the normal per-column fatal-error status. Update the scalar-guard assertions and add cached-call diagnostic checks. Local CPU checks passed for the ErrInfo pytree, diagnostic output, driver debug gates and state reset/batching behavior (65 cases across five modules). * Correct the multiple-LHS diagnostic test's wp3 grid Allocate synthetic wp3 on thermodynamic levels, as required by calc_wp3_on_wp2, so the test reaches the multiple-LHS guard during tracing. The 21 selected CPU diagnostic checks pass, covering cached-call output, per-column fatal status and preservation of fields on the unsupported path. * Restore the C2 explanation in the multiple-LHS diagnostic Name C2rt, C2thl and C2rtthl when their unequal values prevent a single-LHS solve. Keep the direct runtime print and existing fatal-status handling. The focused CPU cached-call test passes, including the restored explanation, quiet valid calls and preservation of incoming fields on failure. * Revert "Restore the C2 explanation in the multiple-LHS diagnostic" This reverts commit 170a13e2bc7af24e92d8d8bc9de9d9db601921ed. * List single-LHS requirements in the JAX diagnostic Print the approved static requirements after the unsupported multiple-LHS message: explicit turbulent advection or ADG1, plus per-column equivalence of C2thl and C2rtthl to C2rt within the relative epsilon tolerance. The focused CPU cached-call test passes, checking the listed requirements, quiet valid calls and preservation of incoming fields and fatal status. 2026-10-17 12:58:05 -0500aa8c2aa4037dda69d686ca97bcbbe1a8208401fdRemove the JAX error-message code registry (#1401)addclubb_jax/pytests/auto_llm_generated_pytests/test_radiation_error_diagnostics.pyeditclubb_jax/src/advance_clubb_to_end.pydeleteclubb_jax/src/CLUBB_core/err_info_codes.pyeditclubb_python_api/JAX_INTEROPERABILITY_PROPOSAL.mdeditclubb_jax/pytests/auto_llm_generated_pytests/test_jit_compile.pyeditclubb_jax/src/CLUBB_core/advance_xp2_xpyp_module.pyeditclubb_jax/src/CLUBB_core/advance_windm_edsclrm_module.pyeditclubb_jax/src/Radiation/radiation_module.pyeditclubb_jax/src/CLUBB_core/__init__.pyaddclubb_jax/pytests/auto_llm_generated_pytests/test_xp2_error_diagnostics.pyeditclubb_jax/pytests/auto_llm_generated_pytests/test_windm_edsclrm_scalar_indices.pyeditclubb_jax/src/CLUBB_core/numerical_check.pyeditclubb_jax/src/CLUBB_core/err_info.py.agents/skills/clubb-jax-port/SKILL.md.agents/skills/clubb-testing-and-reporting/SKILL.md.agents/skills/clubb-documentation/change-messages/SKILL.md6e48f97c2a96bc78fb498c82f1ed0bb6902353491792260807000https://carson.math.uwm.edu/jenkins/user/noreplynoreplynoreply@github.comRestrict BIT_CHANGING guidance to Fortran result changes (#1399) Keep JAX numerical acceptance focused on agreement with the corresponding Fortran implementation rather than preserving earlier JAX output. Clarify the reporting rule and link it from the JAX porting workflow. All 21 skill schemas, 112 local links and 7 heading anchors pass, along with diff formatting. Only three skill Markdown files change. 2026-10-17 13:13:27 -05006e48f97c2a96bc78fb498c82f1ed0bb690235349Restrict BIT_CHANGING guidance to Fortran result changes (#1399)edit.agents/skills/clubb-testing-and-reporting/SKILL.mdedit.agents/skills/clubb-jax-port/SKILL.mdedit.agents/skills/clubb-documentation/change-messages/SKILL.mdjenkins_tests/clubb_driver/Jenkinsfiletests/README.mdutilities/README.mdtests/case_runner_lifecycle_test.pyutilities/tests/run_case_runner_test.py167076807d2a8cfe95c58da710eaee8f53994d001792261464000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduRun case runner lifecycle checks in the driver pipeline Move the workflow to tests/case_runner_lifecycle_test.py and run native, Python and CPU JAX checks before the existing driver comparisons. Keep the case sequence and exact comparison assertions unchanged. Native/Python lifecycle checks and 445 shared checks pass. Jenkins validates the pipeline syntax; branch execution follows the push. 2026-10-17 13:24:24 -0500167076807d2a8cfe95c58da710eaee8f53994d00Run case runner lifecycle checks in the driver pipelineedittests/README.mdeditjenkins_tests/clubb_driver/Jenkinsfiledeleteutilities/tests/run_case_runner_test.pyeditutilities/README.mdaddtests/case_runner_lifecycle_test.pysrc/clubb_standalone.F900c985605a47a651c813c6697e3c3c4e32365f9c71792262101000https://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerhuebler@uwm.eduClarify standalone worker flow 2026-10-17 13:35:01 -05000c985605a47a651c813c6697e3c3c4e32365f9c7Clarify standalone worker floweditsrc/clubb_standalone.F90githttps://carson.math.uwm.edu/jenkins/user/noreplynoreplyhttps://carson.math.uwm.edu/jenkins/user/hueblerGunther 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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/f2py_fortran_wrappers/precipitation_fraction_wrapper.F90src/G_unit_test_types/mu_sigma_hm_tests.F90clubb_python_api/pytests/auto_llm_generated_pytests/test_call_tree_precipitation_fraction.pysrc/Microphys/pdf_hydromet_microphys_wrapper.F90clubb_python_api/clubb_python/CLUBB_core/precipitation_fraction.pysrc/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)editclubb_python_api/f2py_fortran_wrappers/precipitation_fraction_wrapper.F90editsrc/generalized_grid_test.F90editsrc/CLUBB_core/fill_holes.F90editsrc/CLUBB_core/precipitation_fraction.F90editsrc/CLUBB_core/setup_clubb_pdf_params.F90editsrc/Microphys/pdf_hydromet_microphys_wrapper.F90editclubb_python_api/clubb_python/CLUBB_core/precipitation_fraction.pyeditsrc/G_unit_test_types/mu_sigma_hm_tests.F90editclubb_python_api/clubb_f2py.pyfeditclubb_python_api/pytests/auto_llm_generated_pytests/test_call_tree_precipitation_fraction.pygithttps://carson.math.uwm.edu/jenkins/user/noreplynoreplyhttps://carson.math.uwm.edu/jenkins/user/hueblerGunther Hueblerfalse54https://carson.math.uwm.edu/jenkins/view/clubb_branch_tests/job/clubb_branch_python/54/56INCLUDE_GENERATED_PYTESTSfalseInclude provisional agent-written pytests for human review; this does not promote them.INCLUDE_GENERATED_PYTESTSBooleanParameterDefinitiontruefalsefalsefalse