Remove the intermediate readings/ subdirectory level — dataset naming
(synthetic_YYYYMMDD, manual_YYYYMMDD) already encodes what the data is.
Update all path references across scripts and docs accordingly.
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
The web/ directory (bicorder-classifier.js, .d.ts, test-classifier.mjs)
was a prototype superseded by bicorder-app/src/bicorder-classifier.ts.
The only integration point between this analysis directory and the app is
bicorder_model.json, which Vite reads at build time.
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
- Move all scripts to scripts/, web assets to web/, analysis results
into self-contained data/readings/<type>_<YYYYMMDD>/ directories
- Add data/readings/manual_20260320/ with 32 JSON readings from
git.medlab.host/ntnsndr/protocol-bicorder-data
- Add scripts/json_to_csv.py to convert bicorder JSON files to CSV
- Add scripts/sync_readings.sh for one-command sync + re-analysis of
any dataset backed by a .sync_source config file
- Add scripts/classify_readings.py to apply the LDA classifier to all
readings and save per-reading cluster assignments
- Add --min-coverage flag to multivariate_analysis.py for sparse/shortform
datasets; also applies in lda_visualization.py
- Fix lda_visualization.py NaN handling and 0-d array annotation bug
- Update README.md and WORKFLOW.md to document datasets, sync workflow,
shortform handling, and new scripts
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
Both export_model_for_js.py and bicorder_classifier.py now read
DIMENSIONS and KEY_DIMENSIONS directly from bicorder.json at runtime,
so the model stays in sync whenever gradient terms are renamed or
added. A COLUMN_RENAMES dict handles historical CSV column name
changes. The model now includes bicorder_version so the app's version
check works correctly.
Regenerated bicorder_model.json against bicorder.json v1.2.6 with
correct dimension names, 9 key dimensions from shortform flags, and
updated thresholds.
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
