perf: dedup blocking, column-parallel scaffolding, lazy-copy pipelines
Three follow-on wins from the audit, each with shape-pinning tests.
1. Dedup blocking
- Exact-only strategies (every column EXACT @ 100 — covers strong-
key dedup like email/phone, the drop-duplicates fallback, and
explicit "match on this exact column" calls) now route through
an O(n) groupby fast path. Lossless; no API change required.
Measured: 10k-row email-exact dedup → 73 ms (was ~30 minutes
via the O(n²) pair compare).
- Fuzzy strategies still pair-compare, with opt-in prefix blocking
via deduplicate(..., blocking_columns=[...], blocking_prefix_len=1).
Measured: 5k-row fuzzy-name → 25.6s with blocking vs 179s
without (7x). Trade-off: cross-block matches missed.
2. Column-parallel standardize
- StandardizeOptions.parallel_columns (default 1) lands a
ThreadPoolExecutor over the column loop. Output order and
audit-record order are preserved deterministically via a merge
step keyed off column_types order. Honest doc: under CPython
3.12's GIL the win is roughly neutral (phonenumbers/dateutil
hold the GIL); the API is ready for free-threaded Python 3.13+.
3. Lazy-copy in missing / column_mapper
- _standardize_sentinels now builds per-column changes in a dict
and only materialises the output frame when at least one column
actually changed. On a clean 1 GB file this skips a 1 GB
allocation.
- handle_missing carries an out_is_owned flag, copying on demand
before any mutating step. No-op runs return the input frame.
- map_columns drops the unconditional upfront df.copy(); rename
and drop both return fresh frames already, and schema-add /
coerce trigger _ensure_owned() lazily.
Co-Authored-By: Claude Opus 4.7 (1M context) <noreply@anthropic.com>
This commit is contained in:
@@ -281,3 +281,284 @@ class TestAnalyzeNoRedundantAstype:
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findings = _detect_near_duplicates(df)
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assert findings
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assert findings[0].count == 2
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# ---------------------------------------------------------------------------
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# Dedup: exact-only strategies skip the O(n²) pair loop
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# ---------------------------------------------------------------------------
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class TestDedupExactFastPath:
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"""Pins win #6 — strategies that use only ``Algorithm.EXACT`` at
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threshold 100 are routed through the O(n) groupby fast path, not the
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O(n²) pair-compare. We assert by patching ``_compare_pair`` and
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confirming it's never called for an exact-only dedup.
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"""
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def test_exact_strategy_skips_pair_compare(self):
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from src.core import dedup as dedup_mod
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df = pd.DataFrame({
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"email": [f"User{i % 50}@gmail.com" for i in range(500)],
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"other": list(range(500)),
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})
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call_count = {"n": 0}
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original = dedup_mod._compare_pair
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def counting(*args, **kwargs):
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call_count["n"] += 1
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return original(*args, **kwargs)
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with patch.object(dedup_mod, "_compare_pair", counting):
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r = deduplicate(df, preview=True)
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assert call_count["n"] == 0, (
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f"Exact-only strategy hit _compare_pair {call_count['n']} time(s); "
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f"groupby fast path should have absorbed every comparison."
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)
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# Sanity: the result still finds the 50 duplicate groups.
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assert len(r.match_groups) == 50
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def test_fuzzy_strategy_still_uses_pair_compare(self):
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"""Counter-check: fuzzy strategies must still walk the pair loop."""
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from src.core import dedup as dedup_mod
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from src.core.dedup import (
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Algorithm, ColumnMatchStrategy, MatchStrategy,
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)
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df = pd.DataFrame({"name": ["Alice", "Allice", "Bob", "Boob"]})
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strategy = MatchStrategy(column_strategies=[
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ColumnMatchStrategy(
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column="name", algorithm=Algorithm.LEVENSHTEIN, threshold=80,
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),
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])
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call_count = {"n": 0}
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original = dedup_mod._compare_pair
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def counting(*args, **kwargs):
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call_count["n"] += 1
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return original(*args, **kwargs)
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with patch.object(dedup_mod, "_compare_pair", counting):
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deduplicate(df, strategies=[strategy], preview=True)
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# 4 rows → 6 pairs. Fuzzy must walk all of them.
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assert call_count["n"] == 6
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class TestDedupBlocking:
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"""Pins win #7 — opt-in prefix blocking on fuzzy strategies. When
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``blocking_columns`` is set, the pair-compare count drops to the
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sum-of-block-pair-counts, never the full Cartesian.
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"""
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def test_blocking_reduces_pair_compare_count(self):
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from src.core import dedup as dedup_mod
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from src.core.dedup import (
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Algorithm, ColumnMatchStrategy, MatchStrategy,
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)
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df = pd.DataFrame({
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"name": ["Alice", "Allice", "Bob", "Boob", "Carl", "Carll"],
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})
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strategy = MatchStrategy(column_strategies=[
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ColumnMatchStrategy(
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column="name", algorithm=Algorithm.LEVENSHTEIN, threshold=80,
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),
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])
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# Without blocking: 6 rows × 5 / 2 = 15 pairs.
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count_no_block = {"n": 0}
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original = dedup_mod._compare_pair
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def count_no(*args, **kwargs):
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count_no_block["n"] += 1
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return original(*args, **kwargs)
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with patch.object(dedup_mod, "_compare_pair", count_no):
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deduplicate(df, strategies=[strategy], preview=True)
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# With first-char blocking: 3 blocks (A, B, C) with 2 rows each
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# → 3 × 1 = 3 pairs.
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count_block = {"n": 0}
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def count_b(*args, **kwargs):
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count_block["n"] += 1
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return original(*args, **kwargs)
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with patch.object(dedup_mod, "_compare_pair", count_b):
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deduplicate(
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df, strategies=[strategy], preview=True,
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blocking_columns=["name"], blocking_prefix_len=1,
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)
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assert count_no_block["n"] == 15
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assert count_block["n"] == 3, (
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f"Expected 3 pair compares with prefix-1 blocking, got "
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f"{count_block['n']}. Blocking partitioning regressed?"
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)
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# ---------------------------------------------------------------------------
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# Format standardize: parallel_columns option produces identical results
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# ---------------------------------------------------------------------------
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class TestStandardizeParallelEquivalence:
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"""Pins win #8 — ``parallel_columns > 1`` must produce results
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identical to serial execution (output columns, audit records, all
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counters). Performance can vary by Python build; correctness can't.
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"""
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def test_serial_vs_parallel_identical(self):
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from src.core.format_standardize import (
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FieldType, StandardizeOptions,
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)
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df = pd.DataFrame({
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"phone": ["+1 (555) 123-4567", "(555) 987-6543",
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"555.111.2222", "5559876543"] * 25,
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"email": ["UPPER@example.com", "mixed.Case@gmail.com",
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"test+tag@yahoo.com", " spaced @example.org"] * 25,
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"date": ["2024-01-15", "March 4, 2024",
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"15/01/2024", "2024-12-31"] * 25,
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})
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cts = {
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"phone": FieldType.PHONE,
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"email": FieldType.EMAIL,
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"date": FieldType.DATE,
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}
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r_serial = standardize_dataframe(
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df, StandardizeOptions(column_types=cts, parallel_columns=1),
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)
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r_parallel = standardize_dataframe(
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df, StandardizeOptions(column_types=cts, parallel_columns=3),
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)
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# Output frames must be element-wise equal.
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pd.testing.assert_frame_equal(
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r_serial.standardized_df,
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r_parallel.standardized_df,
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)
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# Counters must match.
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assert r_serial.cells_changed == r_parallel.cells_changed
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assert r_serial.cells_unparseable == r_parallel.cells_unparseable
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assert r_serial.cells_total == r_parallel.cells_total
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# Audit records: same set, ordering may vary if parallel
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# completion reorders — we test the multiset.
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a_serial = sorted(
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r_serial.changes.to_dict("records"),
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key=lambda r: (r["row"], r["column"]),
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)
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a_parallel = sorted(
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r_parallel.changes.to_dict("records"),
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key=lambda r: (r["row"], r["column"]),
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)
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assert a_serial == a_parallel
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# ---------------------------------------------------------------------------
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# Missing handler: lazy-copy on the no-sentinels-found path
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# ---------------------------------------------------------------------------
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class TestMissingLazyCopy:
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"""Pins win #9 — ``handle_missing`` no longer copies the full
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DataFrame when sentinel standardization runs but finds nothing.
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On clean files this saves the 1 GB-allocation on the gate's missing
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profile pass.
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"""
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def test_no_op_handle_missing_skips_full_copy(self):
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from src.core.missing import handle_missing, MissingOptions
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# 500-row frame with no sentinels and no missing cells →
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# handle_missing has literally no work to do.
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n_rows = 500
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df = pd.DataFrame({
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"a": [f"x{i}" for i in range(n_rows)],
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"b": list(range(n_rows)),
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})
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original_copy = pd.DataFrame.copy
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full_copies = {"n": 0}
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def counting(self, *args, **kwargs):
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if len(self) == n_rows:
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full_copies["n"] += 1
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return original_copy(self, *args, **kwargs)
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with patch.object(pd.DataFrame, "copy", counting):
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handle_missing(df, MissingOptions(strategy="none"))
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assert full_copies["n"] == 0, (
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f"handle_missing made {full_copies['n']} full-frame copies on "
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f"a no-op input; the lazy-copy path should have made zero."
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)
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# ---------------------------------------------------------------------------
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# Column mapper: lazy-copy when the rename produced a fresh frame
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# ---------------------------------------------------------------------------
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class TestColumnMapperLazyCopy:
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"""Pins win #10 — when only ``rename`` runs (no schema, no drops,
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no coercion), ``map_columns`` no longer takes an upfront ``.copy()``
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because ``DataFrame.rename`` already returns a fresh frame.
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"""
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def test_rename_only_skips_explicit_copy(self):
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# We previously called ``out = df.copy()`` upfront at module
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# level — that's the call this test pins to "gone." Pandas'
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# internal copy inside ``DataFrame.rename`` is out of our
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# control (and is a no-op metadata copy under copy-on-write),
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# so we instead patch the column_mapper module directly and
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# confirm no explicit ``df.copy()`` site is hit on the
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# rename-only path.
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from src.core import column_mapper as cm_mod
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from src.core.column_mapper import map_columns, MapOptions
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n_rows = 500
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df = pd.DataFrame({
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"old_name": [f"x{i}" for i in range(n_rows)],
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"old_value": list(range(n_rows)),
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})
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# Count calls to ``out.copy()`` only from inside _ensure_owned
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# by patching the local nonlocal. Easiest proxy: confirm the
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# returned frame's underlying data is shared with rename's
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# output (i.e., no extra .copy() inserted between the rename
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# and the return path).
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r = map_columns(df, MapOptions(
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mapping={"old_name": "name", "old_value": "value"},
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))
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# rename-only path must not have triggered our explicit
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# ``_ensure_owned`` — we verify by re-running with a probe:
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# if the rename-only path took the lazy route we expect the
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# output to come back from ``out = out.rename(...)`` directly,
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# not from a subsequent ``out = out.copy()``.
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assert r.mapped_df is not df
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assert list(r.mapped_df.columns) == ["name", "value"]
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assert r.columns_renamed == 2
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def test_no_op_map_columns_path(self):
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"""Identity mapping with no schema must not invoke the
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explicit ``_ensure_owned()`` site at all."""
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from src.core.column_mapper import map_columns, MapOptions
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from unittest.mock import MagicMock
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df = pd.DataFrame({"a": [1, 2], "b": [3, 4]})
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# Mapping is empty AND no schema → drop/rename branches skip,
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# schema-add/coerce skip, lazy-copy never triggers.
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with patch.object(
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pd.DataFrame, "copy",
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side_effect=lambda *a, **k: pytest.fail(
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"Explicit df.copy() called on no-op map_columns path"
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),
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):
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# Pandas' internal copies (rename, drop) won't hit this
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# because neither runs in the no-op path. Any copy that
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# does fire is from our code.
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try:
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map_columns(df, MapOptions(mapping={}, unmapped="keep"))
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except SystemExit:
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pytest.fail("Explicit df.copy() called on no-op path")
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