# Progress

## Current State
- Project direction is defined as a Korean FEM surrogate tutorial using NumPy/SciPy 2D Euler-Bernoulli beam/frame analysis and scikit-learn surrogate models.
- Documentation files have been populated for PRD, architecture, ADR, and model-specific theory.
- `BeamExamples/CantileverBeam.txt` and `BeamExamples/CantileverBeam_Displacements.txt` are designated as canonical solver verification fixtures.
- Implementation work is active on branch `codex/harness-implementation`.

## Completed
- Replaced template project instructions in `AGENTS.md`.
- Removed UI-oriented documentation from the planned scope.
- Added theory document structure under `docs/theory/`.
- Updated PRD and architecture to require BeamExamples-based solver regression verification.
- Added `PROGRESS.md` and `WORKNOTES.md` as mandatory handoff files and documented their workflow in `AGENTS.md`.
- Created Harness phase files under `phases/`.
- Completed phase `0-project-foundation` step 0: `pyproject.toml`, package skeleton, artifact directories, and lint configuration.
- Completed phase `0-project-foundation` step 1 with TDD: package import smoke tests and `femsurrogate.__version__`.
- Completed phase `1-beam2d-solver` step 0 with TDD: BeamExamples input and displacement parser.
- Completed phase `1-beam2d-solver` step 1 with TDD: frame local stiffness and transformation matrix.
- Completed phase `1-beam2d-solver` step 2 with TDD: sparse global assembly, constrained DOF handling, load vector assembly, and linear static solve.
- Completed phase `1-beam2d-solver` step 3 with TDD: BeamExamples displacement regression and analytical cantilever tip check.
- Completed phase `2-dataset-and-surrogates` step 0 with TDD: LHS sampling, dataset schema, Beam2D case runner, and dataset builder.
- Completed phase `2-dataset-and-surrogates` step 1 with TDD: common split/evaluate utilities, metrics, timings, and prediction table.
- Completed phase `2-dataset-and-surrogates` step 2 with TDD: scikit-learn model builders and registry for RSM, GPR, Random Forest, Gradient Boosting, and MLP.
- Completed phase `2-dataset-and-surrogates` step 3 with TDD: plotting diagnostics and metric comparison helpers.
- Completed phase `3-notebooks-and-final-verification` step 0: dataset notebook, reference CSV, and metadata JSON.
- Completed phase `3-notebooks-and-final-verification` step 1: five surrogate model notebooks with metrics, predictions, and diagnostic figures.
- Completed phase `3-notebooks-and-final-verification` step 2: comparison notebook and model comparison outputs.
- Completed phase `3-notebooks-and-final-verification` step 3: full pytest, ruff, and all notebook execution checks.

## In Progress
- None.

## Blockers
- None recorded.

## Verification
- Documentation checks were run manually with PowerShell/`rg` to confirm required BeamExamples references and absence of stale template terms.
- Verified that `AGENTS.md` references `PROGRESS.md` and `WORKNOTES.md`, both files exist, and stale template terms are absent.
- `uv sync` passed.
- `uv run python -c "import femsurrogate; print(femsurrogate.__name__)"` printed `femsurrogate`.
- `uv run ruff check .` passed after excluding existing local harness infrastructure from ruff scope.
- RED: `uv run pytest tests/test_project_structure.py -q` failed because `femsurrogate.__version__` was missing.
- GREEN: `uv run pytest tests/test_project_structure.py -q` passed with 2 tests.
- `uv run ruff check .` passed.
- RED: `uv run pytest tests/test_beamexamples_io.py -q` failed because `femsurrogate.fea.io` did not exist.
- GREEN: `uv run pytest tests/test_beamexamples_io.py tests/test_project_structure.py -q` passed with 4 tests.
- `uv run ruff check .` passed.
- RED: `uv run pytest tests/test_frame_element.py -q` failed because `femsurrogate.fea.element` did not exist.
- GREEN: `uv run pytest tests/test_frame_element.py tests/test_beamexamples_io.py tests/test_project_structure.py -q` passed with 8 tests.
- `uv run ruff check .` passed.
- RED: `uv run pytest tests/test_beam_solver.py -q` failed because `femsurrogate.fea.assembly` did not exist.
- GREEN: `uv run pytest tests/test_beam_solver.py tests/test_frame_element.py tests/test_beamexamples_io.py -q` passed with 9 tests.
- `uv run ruff check .` passed after solver import formatting was corrected.
- RED: `uv run pytest tests/test_cantilever_fixture_regression.py -q` failed because `femsurrogate.fea.benchmark` did not exist.
- Regression discovery: fixture comparison then exposed an `Rz` sign convention mismatch; the element convention was aligned to BeamExamples clockwise-positive `Rz`.
- GREEN: `uv run pytest tests/test_cantilever_fixture_regression.py tests/test_beam_solver.py tests/test_frame_element.py tests/test_beamexamples_io.py -q` passed with 11 tests.
- `uv run ruff check .` passed.
- GREEN: `uv run pytest -q` passed with 13 tests after completing phase 1.
- RED: `uv run pytest tests/test_sampling.py tests/test_dataset_builder.py -q` failed because `femsurrogate.data.bounds` did not exist.
- GREEN: `uv run pytest tests/test_sampling.py tests/test_dataset_builder.py -q` passed with 4 tests.
- `uv run ruff check .` passed.
- GREEN: `uv run pytest -q` passed with 17 tests after completing dataset builder work.
- RED: `uv run pytest tests/test_surrogate_common.py -q` failed because `femsurrogate.surrogates.common` did not exist.
- GREEN: `uv run pytest tests/test_surrogate_common.py -q` passed with 2 tests.
- `uv run ruff check .` passed.
- GREEN: `uv run pytest -q` passed with 19 tests after completing surrogate common utilities.
- RED: `uv run pytest tests/test_surrogate_models.py -q` failed because `femsurrogate.surrogates.registry` did not exist.
- GREEN: `uv run pytest tests/test_surrogate_models.py -q` passed with 2 tests.
- `uv run ruff check .` passed.
- GREEN: `uv run pytest -q` passed with 21 tests after completing surrogate model builders.
- RED: `uv run pytest tests/test_plotting_and_results.py -q` failed because `femsurrogate.plotting.comparison` did not exist.
- GREEN: `uv run pytest tests/test_plotting_and_results.py -q` passed with 2 tests.
- `uv run ruff check .` passed.
- Initial `uv run jupyter nbconvert --to notebook --execute notebooks/00_beam2d_fea_dataset.ipynb` failed because nbconvert executed with `notebooks/` as the working directory; notebooks now locate the repository root by checking for `pyproject.toml`.
- `uv run jupyter nbconvert --to notebook --execute notebooks/00_beam2d_fea_dataset.ipynb` passed.
- `uv run jupyter nbconvert --to notebook --execute` passed for notebooks 01 through 05.
- `uv run jupyter nbconvert --to notebook --execute notebooks/06_compare_surrogate_models.ipynb` exited 0 and wrote comparison output; Windows/Jupyter emitted a transient zmq connection-reset message after execution.
- `uv run ruff check .` passed after notebook cell style fixes.
- FINAL: `uv run pytest` passed with 23 tests.
- FINAL: `uv run ruff check .` passed.
- FINAL: `uv run jupyter nbconvert --to notebook --execute notebooks/00_beam2d_fea_dataset.ipynb` passed.
- FINAL: `uv run jupyter nbconvert --to notebook --execute notebooks/01_response_surface_surrogate.ipynb` passed.
- FINAL: `uv run jupyter nbconvert --to notebook --execute notebooks/02_gaussian_process_kriging_surrogate.ipynb` passed.
- FINAL: `uv run jupyter nbconvert --to notebook --execute notebooks/03_random_forest_surrogate.ipynb` passed.
- FINAL: `uv run jupyter nbconvert --to notebook --execute notebooks/04_gradient_boosting_surrogate.ipynb` passed.
- FINAL: `uv run jupyter nbconvert --to notebook --execute notebooks/05_mlp_surrogate.ipynb` passed.
- FINAL: `uv run jupyter nbconvert --to notebook --execute notebooks/06_compare_surrogate_models.ipynb` passed and `reports/results/model_comparison.csv` exists.

## Next Actions
- Review generated tutorial outputs and continue with documentation polish or additional explanatory notebook text if desired.