Michael b23a27d4e3 fix: cross-tool audit findings + alignment with format standardizer
Closes 12 bugs and 8 gaps surfaced by parallel audits across all core
modules, plus aligns the dedup-side normalizers with the new
format_standardize behavior where they had silently diverged.

Bugs (data integrity / correctness):
- dedup: NaN/None values matched as duplicates because str(None)='None'.
  Two rows with missing email silently merged.
- dedup: removed_df had 0 columns when nothing was removed; downstream
  code expecting matching schema broke. Now preserves column shape.
- dedup: ColumnMatchStrategy threshold accepted any value; out-of-range
  silently broke matching. Validated to [0, 100] in __post_init__.
- dedup: strategy referencing a missing column was silently skipped.
  Now raises ValueError listing available columns.
- fixes: replace_null_sentinels crashed on non-string sentinels (int/None
  from JSON payload). Coerced to str.
- fixes: _vectorized_regex_sub raised raw re.error on bad patterns. Now
  wraps as ValueError with clear message.
- io: detect_header_row mis-identified all-empty and metadata-only rows
  as headers (all([]) is True). Now requires ≥2 non-empty cells.
- config: from_dict crashed when JSON had unknown fields, breaking
  forward compat. Now filters to known fields.
- analyze: mixed-case email detector flagged all-None columns because
  str(None)='None' contains both N and one. Now drops NaN before stringify.

New features and gap closures:
- io: _detect_excel_header_row mirrors detect_header_row for Excel via
  openpyxl read-only; _read_excel uses it when header_row=None.
- io: write_file gains delimiter + encoding params; .tsv extension
  defaults to tab.
- normalizers: normalize_phone preserves extensions as ;ext=N suffix.
- normalizers: normalize_address folds spelled-out US state names to
  2-letter codes (California ≡ CA).
- normalizers: normalize_name drops surname particles (van, de, von)
  so "Charles de Gaulle" ≡ "Charles Gaulle" for matching.
- analyze: new _detect_inconsistent_date_format detector flags columns
  with mixed ISO/US/EU date shapes; routes to format standardizer.
- analyze: _NULL_LIKE recognizes "<na>" (pd.NA repr).
- analyze: duplicate-row finding renamed count → n_extra (rows that
  would actually be removed) with clarified description.
- dedup: group_confidence no longer falsely 100.0 when transitive group
  members lack a recorded direct pair; falls back to 100.0 only when
  truly no pairs were observed.
- dedup: MatchResult / DeduplicationResult docstrings clarify that
  row_indices refer to the input frame's positional index (output index
  is reset).
- text_clean: visualize_hidden_html(None) now returns None (matches
  visualize_hidden_text); strip_bom strips at most one BOM per call;
  sentence_case dead elif branch removed.

Tests:
- tests/test_audit_fixes.py — 28 regression tests, one or more per
  numbered finding, named after BUG/GAP/NIT tags so future readers
  can trace each test back to its audit.
- tests/test_fixes_unit.py — 26 isolated unit tests for previously
  integration-only fix functions (trim_whitespace, strip_nbsp,
  strip_zero_width, normalize_line_endings, clean_headers,
  repair_mojibake — last skipped if ftfy unavailable).
- tests/test_io.py — adds CSV / TSV / semicolon / UTF-8-BOM round-trip
  tests + Excel auto-header-detection tests.
- tests/test_normalizers.py — adds 8 tests for the alignment work
  above (phone extension, state names, particles).

Adds .claude/ to .gitignore (agent worktrees + local settings).

Full project suite: 1197 passed, 4 skipped, 17 xfailed.

Co-Authored-By: Claude Opus 4.7 (1M context) <noreply@anthropic.com>
2026-05-01 02:11:57 +00:00

DataTools

A bundle of Python data-cleaning tools for CSV and Excel files. Two scripts ship today; more are in build.

# Tool What it does
01 Deduplicator Find and remove duplicate rows with exact + fuzzy matching, smart normalization, and interactive review.
02 Text Cleaner Trim whitespace, fold smart quotes, strip invisible / control characters, normalize Unicode, normalize line endings, optional case conversion.

Deduplicator

Features

  • Zero-config start — auto-detects encoding, delimiters, headers, and match columns
  • Fuzzy matching — Jaro-Winkler, Levenshtein, and token set ratio algorithms
  • 5 built-in normalizers — email (Gmail dot/plus), phone (E.164), name (titles/suffixes), address (USPS), string (whitespace/case)
  • Merge mode — fill missing fields in the surviving row from removed duplicates
  • 4 survivor rules — keep first, last, most complete, or most recent row per group
  • Interactive review — inspect match groups with inline checkboxes and column dropdowns, cherry-pick values, preview surviving rows live
  • Config profiles — save and reload your settings as JSON for repeatable runs
  • Dual interface — full CLI for automation, Streamlit GUI for visual review
  • Dry-run by default — preview what would change before writing anything
  • Audit trail — every run produces a match groups report and timestamped log

Quick Start

Install

pip install -r requirements.txt

CLI

# Preview duplicates (dry run — no files written)
python -m src.cli customers.csv

# Remove duplicates and save the result
python -m src.cli customers.csv --apply

# Fuzzy-match names at 80% similarity, merge missing fields
python -m src.cli customers.csv --fuzzy name --threshold 80 --merge --apply

# Interactively review each match group
python -m src.cli customers.csv --review --apply

GUI

streamlit run src/gui/app.py

Upload a file, click Find Duplicates, review match groups side-by-side, then download the cleaned result.

CLI Usage Summary

python -m src.cli INPUT_FILE [OPTIONS]

Options:
  --apply                  Write output files (default: preview only)
  --output, -o PATH        Output file path
  --subset, -s COLS        Columns to match on (comma-separated)
  --key, -k COLS           Strong-key columns for exact matching
  --fuzzy COLS             Columns to fuzzy-match
  --algorithm, -a ALG      levenshtein | jaro_winkler | token_set_ratio
  --threshold, -t N        Similarity threshold 0-100 (default: 85)
  --normalize COL:TYPE     Per-column normalizers (e.g., email:email,phone:phone)
  --survivor RULE          first | last | most-complete | most-recent
  --merge                  Fill missing fields from removed duplicates
  --review                 Interactively review each match group
  --config PATH            Load settings from a JSON config file
  --save-config PATH       Save current settings to JSON
  --sheet NAME             Excel sheet name or 0-based index
  --encoding ENC           Override auto-detected encoding
  --header-row N           0-based header row index
  --help                   Show full help

Sample Output

$ python -m src.cli samples/messy_sales.csv

Reading messy_sales.csv...
  50 rows, 8 columns
Finding duplicates...

──────────────────────────────────────────────────
  File:      messy_sales.csv
  Rows in:   50
  Rows out:  28
  Removed:   22
  Groups:    22
──────────────────────────────────────────────────

Match groups:
  Group 1: rows [1, 2] → keep row 1 (confidence: 100.0%, matched on: email)
  Group 2: rows [3, 4] → keep row 3 (confidence: 92.3%, matched on: name, phone)
  ...

This was a preview. Add --apply to write the output files.

Output Files

When --apply is used, three files are produced:

File Contents
{input}_deduplicated.csv Cleaned data with duplicates removed
{input}_removed.csv Rows that were removed
{input}_match_groups.csv Audit trail: group ID, confidence, matched columns, survivor flag

Text Cleaner

Character-level hygiene for messy CSV / Excel input. Solves the dirty-data failure modes that silently break VLOOKUPs, dedup runs, and downstream imports:

  • Trailing / leading whitespace and tabs in cells
  • Non-breaking spaces (U+00A0) hiding inside text where regular spaces should be
  • Smart quotes pasted from Word (" " ' '" " ' ')
  • Em / en dashes, ellipsis, other typographic Unicode
  • Zero-width and bidi-mark characters (U+200B, U+200C, U+200D, etc.)
  • BOMs from Excel "Save As CSV UTF-8"
  • Mixed line endings (\r\n, bare \r) inside multi-line cells
  • Control characters (U+0000-U+001F minus \t \n \r)
  • Optional Unicode NFC / NFKC normalization
  • Optional per-column case conversion (UPPER / lower / smart Title / Sentence)
# Preview what would change (dry-run)
python -m src.cli_text_clean samples/messy_text.csv

# Apply the safe defaults
python -m src.cli_text_clean samples/messy_text.csv --apply

# Title-case the name column, upper-case the SKU column
python -m src.cli_text_clean products.csv --case title:name,upper:sku --apply

# Just trim and collapse — nothing fancy
python -m src.cli_text_clean messy.csv --preset minimal --apply

Three presets: minimal (trim + collapse only), excel-hygiene (default; everything safe ON), paranoid (adds lossy NFKC fold).

Outputs {input}_cleaned.csv plus a per-cell {input}_changes.csv audit (row, column, old, new, ops applied).

See docs/CLI-REFERENCE.md for every flag.

Review & Normalize gate

Every uploaded file passes through a CSV-normalization gate before any tool page sees it. The analyzer scans for ~15 issue types — whitespace pollution, NBSP / zero-width chars, mixed line endings, BOM artifacts, encoding misdetections, smart punctuation, dirty headers, null sentinels, mojibake, and more — and tags each finding by confidence (high / medium / low) and fix action (the algorithm in src/core/fixes.py that resolves it).

In the GUI, the Review & Normalize page renders one expandable card per finding with a decision control (Auto-fix / Skip / Customize), a live before-and-after preview, an encoding-override picker for misdetected codepages, and an Advanced output options block (encoding, delimiter, line terminator) for the download. Tool pages refuse to load until the gate passes.

See docs/USER-GUIDE.md §3.3 for the user-facing walkthrough and docs/TECHNICAL.md §10.2.110.2.4 for the developer-facing API.

Documentation

  • Requirements — short-form numbered list: file size, codepages, delimiters, detectors, performance targets
  • User Guide — installation, GUI workflow, the Review & Normalize gate
  • CLI Reference — every flag with examples and recipe sections
  • Technical — architecture, gate internals, finding schema, fix registry
  • Developer Guide — extending the bundle, adding fixes / detectors

Requirements

  • Python 3.10+
  • Dependencies: pandas, openpyxl, rapidfuzz, typer, phonenumbers, loguru, tqdm, charset-normalizer

License

Proprietary. All rights reserved.

Description
Data tools development
Readme 7.7 MiB
Languages
Python 87.3%
HTML 10%
CSS 1.8%
Shell 0.4%
JavaScript 0.2%
Other 0.2%