Commit Graph
16 Commits
Author SHA1 Message Date
unzhakov 62042ae92a build: drop bs_exp entry point and root extra, bump version to 0.5.0
The experimental CLI and the PyROOT extra existed only for the
removed analysis packages. Version bump reflects the scope reduction
to theory-only spectrum calculation; calculation logic is unchanged.
2026-10-05 14:52:30 +03:00
unzhakov 2788ea0683 feat(cli): separate-branches rename, short aliases, clean dry-run
- --normalize-to-one renamed to --separate-branches (no alias; the
  name now describes the output choice: total spectrum with
  intensity-normalized branches vs separate branches, each
  normalized to unit area with intensities left to the data user).
  SpectrumConfig.normalize_to_one -> separate_branches, CSV header
  word to_one -> separate.
- every long option gains a single-letter alias: -N -i -s -m -o -p
  -L -d -c -V -S -b (only -v/-q existed before)
- dry-run drops the top-level Transition: line — the per-branch
  list below already reports each branch's transition type
- version bumped to 0.4.1 (pyproject, __version__, CSV semantics
  docstring, TODO roadmap entry)
2026-10-03 01:08:51 +03:00
unzhakov 9bf1e1333e refactor: rename visualize module to output module and separate concerns into core, csv_export, and visualization modules 2026-07-07 12:59:11 +03:00
unzhakov 2fedd03d92 fix: bump __version__ to 0.4.0 to match pyproject.toml 2026-05-22 15:18:09 +03:00
unzhakov 5c2b12c0e6 feat: experimental data calibration pipeline with ROOT I/O
- Fix chi2 calculation bug in calibration.py (remove incorrect
  coeffs[::-1] reversal in np.polyval)
- Fix broken beta_spectrum/cli.py (remove orphaned detector response
  add_argument calls and unused imports)
- Add ExpSpectrum.apply_calibration() and EnergyCalibrator.from_am241_spectrum()
- Add LivetimeDetermination class for pulser-based livetime
- Add SpectrumPipeline orchestration (read→subtract→calibrate→livetime→validate)
- Add ROOT I/O with PyROOT primary + uproot fallback
- Add bs_exp CLI with process, livetime, export subcommands
- Add exp_calibration notebook with pre-calibration visualization
- Add comprehensive tests (73 passing)
- Add bs_exp console script and [root] extra to pyproject.toml
- Remove obsolete detector_response module and unused notebooks
2026-05-21 16:01:25 +03:00
unzhakov 38b44b56e6 feat: v0.4.0 package restructuring — split into 4 modules
Separate monolithic beta_spectrum package into:
  beta_spectrum   — pure theory (components, spectrum, CLI, visualize)
  exp_data        — experimental data handling (spectrum, calibration,
                    fitters, corrections)
  fitter          — analysis framework (model, fit_engine, extractor,
                    result)
  beta_spectrum.visualize — plotting (BetaSpectrumAnalyzer)

Phase 1 — exp_data module:
  ExpSpectrum dataclass with metadata, normalization, serialization
  EnergyCalibrator (linear/quadratic calibration)
  GaussianFitter + PeakFitter for calibration sources
  DeadTimeCorrection, PileUpCorrection, BackgroundSubtractor
  43 new tests, ruff + mypy clean

Phase 2 — fitter module:
  SpectrumModel wraps BetaSpectrum + DetectorResponse with convolution
  SpectrumFitter with χ² minimization, covariance, profile likelihood,
  confidence intervals, robust loss functions
  CWExtractor + GVAExtractor for C(W) and g_V/g_A extraction
  AnalysisResult + FitSummary for physics-specific results
  CurveFitter general-purpose callable model fitter
  34 new tests, ruff + mypy clean

Phase 3 — clean up beta_spectrum:
  Remove cw_extractor.py and fitter.py (moved to fitter/)
  Clean __init__.py to export only theory classes
  Add backward-compat methods to CWExtractor
  Fix BetaSpectrumAnalyzer._get_branch_spectrum returning BetaSpectrum
  objects instead of numpy arrays (plot fix)

Phase 4 — package structure:
  Auto-discovered by setuptools (4 packages)
  All imports updated across 26 source files
  Black formatting applied
  322 tests pass (262 original + 60 new)
  ruff + mypy clean on all source files

Bug fixes:
  - Fix multi-branch spectrum plotting: universal component keys
    (Fermi, Screening, etc.) don't have per-branch prefix; fixed
    fallback lookup.
  - Fix negative phase space beyond endpoint: BetaSpectrum returns
    negative values for W > W0; clamp branch spectra to zero.
2026-05-17 18:58:04 +03:00
unzhakov 745bbae4cd refactor: rename 'analyzer' to 'visualize' — analysis belongs to fitter module 2026-05-17 01:33:13 +03:00
unzhakov f05a2de1b8 refactor: move BetaSpectrumAnalyzer to separate analyzer module 2026-05-16 20:41:58 +03:00
unzhakov ef337073d6 docs: update TODO and README for B3 completion and BranchConfig export
- Cross out B3 in TODO.md with completion details
- Export BranchConfig in __init__.py public API
- Update README to mention per-branch transition types and intensity cutoff
2026-05-08 08:35:01 +03:00
unzhakov 1269244b93 feat: add paceENSDF integration and CLI interface (Track B1)
- Add nuclear_data.py module for paceENSDF integration and JSON input
- Add DecayInfo and BranchInfo dataclasses for parsed nuclear data
- Implement get_decay_info_from_paceENSDF() to retrieve decay parameters
- Implement load_json_input() and json_to_config() for custom JSON input
- Add create_config_from_source() unified interface for both sources
- Add bs_pnpi CLI with --nuclide, --input, --output, --plot, and detector options
- Add 23 comprehensive tests for nuclear_data module
- Add sample JSON input file
- Update __init__.py and pyproject.toml with new exports and entry point
- Add paceENSDF as optional dependency
2026-05-02 22:09:25 +03:00
unzhakov 272841f50d feat: add χ² fitter and C(W) shape factor extraction modules
Add CurveFitter with scipy least_squares, configurable loss functions
(soft_l1, huber, cauchy), profile likelihood, confidence intervals, and
goodness-of-fit metrics. Add CWExtractor for extracting shape factors
from beta spectra via Kurie analysis, parametrization fitting, and
g_V/g_A extraction. Includes 32 new tests (18 fitter + 14 CW extractor).
Bump version to 0.3.0.
2026-05-02 09:40:38 +03:00
unzhakov 5f99566a0e feat(detector): add detector response module, convolution, and integration
- Analytical detector response: gaussian, gaussian_tail, tikhonov models
- Low-energy tail modeling for charge collection effects
- Response matrix convolution via R^T · (Φ·ΔW)
- Declarative API: create_detector_from_config(), convolve_detector()
- BetaSpectrumAnalyzer.convolved_spectrum() for auto-convolution
- Integration tests: TestBetaSpectrumIntegration, TestDeclarativeDetectorResponse
- Documentation: docs/08-detector-response.md
2026-05-01 19:20:59 +03:00
unzhakov bce6e63663 Add pytest test suite (56 tests) for all spectrum components 2026-04-26 23:45:53 +03:00
unzhakov 91f716c851 Version 0.1.2
Implemented all planned corrections:
  - finite-size e/m L0 and U
  - atomic screening and exchange
  - radiative (electron only so far)

Added plotter and csv_export
2026-04-15 18:05:04 +03:00
unzhakov 0c5c53688d MVP Correction Implemented
Add implementation for the basic set of spectrum components:

Primary
-------
- Phase Space
- Fermi Function

Corrections
-----------

- Atomic:
  - Screening
  - Atomic exchange
- E/M and finite size:
  - Finite nucleus size and charge distribution
  - Radiative
2026-04-10 15:32:47 +03:00
unzhakov a5e1962fe2 Initial commit
Base modular structure (phase space, Fermi function)
Initial .gitignore
2026-04-02 15:38:37 +03:00