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The pod restarted spontaneously mid-search (no liveness probe is set, so it was the kernel OOM-killer against the 1Gi limit). Cause: search_bot built its work queue with maxsize 35_500_000. The producers stream the WHOLE DOI database (tens of millions of lines across chunks) into it while a few consumers drain, so the queue could buffer gigabytes of lines - blowing the 1Gi container and taking the whole in-flight search with it. Bound the queue (default 100k lines, env CONJURER_LIBRARIAN_WORKQ_SIZE), so producers backpressure to consumers and RAM stays in the low MB. Because a bounded queue means a producer can now block on a FULL queue, make the producer's put timeout-poll the TERM sentinel, so a full queue whose consumers have already finished (all DOIs found) can never deadlock it. New test pins that: tiny queue + target on line 1 + thousands of trailing decoys still terminates and finds the target. Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>
153 lines
6.7 KiB
Python
153 lines
6.7 KiB
Python
"""Unit tests for the librarian DOI search - specifically that it always
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terminates.
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The producer/consumer search used to hang whenever the number of chunk files it
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was told to read (MAXTHREADS) did not exactly match the files on disk: too few
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and it silently skipped trailing chunks, too many and a producer pointed at a
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missing file crashed before emitting its sentinel, starving the consumers'
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termination count forever. These tests pin down the fix: chunk files are
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auto-discovered, the sentinel threshold equals the number of producers actually
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started, and every producer emits its sentinel even on error.
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"""
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import logging
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import threading
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import search_bot
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_LOG = logging.getLogger("test-search-bot")
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_LOG.addHandler(logging.NullHandler())
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def _write_chunks(directory, count, target=None, target_index=None):
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"""Create <n>_chunk.txt files; optionally drop `target` into one of them."""
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for n in range(count):
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lines = [f"10.0000/decoy-{n}-a\n", f"10.0000/decoy-{n}-b\n"]
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if target is not None and n == target_index:
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lines.append(target + "\n")
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(directory / f"{n}_chunk.txt").write_text("".join(lines), encoding="utf-8")
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def _run_bounded(dois, timeout=20):
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"""Run search_for_doi in a thread; return (finished_in_time, result)."""
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box = {}
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live = []
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worker = threading.Thread(
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target=lambda: box.update(result=search_bot.search_for_doi(dois, live, _LOG)),
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daemon=True,
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)
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worker.start()
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worker.join(timeout)
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return (not worker.is_alive()), box.get("result")
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def test_finds_doi_in_trailing_chunk(tmp_path, monkeypatch):
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# Target lives in the LAST chunk - the one the old MAXTHREADS=N-too-low would
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# never have read. Auto-discovery must read every chunk present.
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monkeypatch.setattr(search_bot, "DATABASE_PATH", str(tmp_path) + "/")
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target = "10.1234/target.in.trailing.chunk"
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_write_chunks(tmp_path, count=6, target=target, target_index=5)
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finished, result = _run_bounded([(target, "DATA"), ("10.9999/absent", "DATA")])
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assert finished, "search hung instead of terminating"
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hit = [r for r in result if r["DOI"] == target and r["exists"]]
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assert hit, "DOI in the trailing chunk was not found"
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def test_terminates_when_a_chunk_is_unreadable(tmp_path, monkeypatch):
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# A chunk that exists at discovery time but cannot be opened (here: it is a
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# directory) makes its producer raise. The finally-sentinel must still fire
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# so the consumers' count completes and the search does not deadlock.
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monkeypatch.setattr(search_bot, "DATABASE_PATH", str(tmp_path) + "/")
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_write_chunks(tmp_path, count=3)
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(tmp_path / "9_chunk.txt").mkdir() # discovered as a chunk, un-openable
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finished, _ = _run_bounded([("10.0000/decoy-0-a", "DATA")])
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assert finished, "an unreadable chunk deadlocked the search"
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def test_no_chunks_returns_immediately(tmp_path, monkeypatch):
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# Empty database dir: return an (all-not-found) result at once, never hang.
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monkeypatch.setattr(search_bot, "DATABASE_PATH", str(tmp_path) + "/")
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finished, result = _run_bounded([("10.0/x", "DATA")], timeout=10)
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assert finished
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assert result == [{"DOI": "10.0/x", "exists": False, "data": "DATA"}]
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def test_survives_invalid_utf8_byte_and_still_finds_later_doi(tmp_path, monkeypatch):
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# A chunk with a stray non-UTF-8 byte (0x96, the one from the field report)
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# must not crash the producer or abort the file mid-read: DOIs AFTER the bad
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# byte still have to be found.
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monkeypatch.setattr(search_bot, "DATABASE_PATH", str(tmp_path) + "/")
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target = "10.1234/after.the.bad.byte"
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(tmp_path / "0_chunk.txt").write_bytes(
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b"10.0000/before\n" + b"\x96 broken \x96 line \x96\n" + target.encode() + b"\n"
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)
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finished, result = _run_bounded([(target, "DATA")])
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assert finished, "an invalid UTF-8 byte hung or crashed the search"
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hit = [r for r in result if r["DOI"] == target and r["exists"]]
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assert hit, "DOI after the bad byte was not found - the file was aborted mid-read"
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def test_doi_match_is_exact_not_substring(tmp_path, monkeypatch):
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# A DB line "10.1/12" must NOT satisfy a search for "10.1/1" (the old
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# `doi in line` substring test did). The exact DOI must still be found.
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monkeypatch.setattr(search_bot, "DATABASE_PATH", str(tmp_path) + "/")
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(tmp_path / "0_chunk.txt").write_text(
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"10.1/12\n10.1/1\n10.2/999\n", encoding="utf-8"
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)
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finished, result = _run_bounded([("10.1/1", "DATA"), ("10.9/absent", "DATA")])
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assert finished
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by_doi = {r["DOI"]: r["exists"] for r in result}
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assert by_doi["10.1/1"] is True # exact line present -> found
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assert by_doi["10.9/absent"] is False
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def test_doi_match_handles_line_with_trailing_metadata(tmp_path, monkeypatch):
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# Lines of the form "<DOI>\t<metadata>" still match on the first token.
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monkeypatch.setattr(search_bot, "DATABASE_PATH", str(tmp_path) + "/")
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(tmp_path / "0_chunk.txt").write_text("10.5/abc\tsome title here\n", encoding="utf-8")
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finished, result = _run_bounded([("10.5/abc", "DATA")])
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assert finished
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assert result[0]["exists"] is True
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def test_discover_chunk_files_sorted_numerically(tmp_path, monkeypatch):
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monkeypatch.setattr(search_bot, "DATABASE_PATH", str(tmp_path) + "/")
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for n in (0, 2, 10, 1):
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(tmp_path / f"{n}_chunk.txt").write_text("x\n", encoding="utf-8")
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(tmp_path / "notes.txt").write_text("ignore me\n", encoding="utf-8")
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found = search_bot.discover_chunk_files(_LOG)
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# Numeric order (10 after 2, not lexicographic), and non-chunk files ignored.
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assert found == ["0_chunk.txt", "1_chunk.txt", "2_chunk.txt", "10_chunk.txt"]
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def test_bounded_queue_does_not_deadlock_on_early_termination(tmp_path, monkeypatch):
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# The OOM fix bounds the work queue. That means a producer can block on a
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# FULL queue - and if the consumers have already finished (all DOIs found)
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# it must notice the TERM sentinel instead of hanging forever. Tiny queue +
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# target on the first line + thousands of trailing decoys the producer still
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# holds is exactly that situation.
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monkeypatch.setattr(search_bot, "DATABASE_PATH", str(tmp_path) + "/")
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monkeypatch.setattr(search_bot, "WORK_Q_SIZE", 3) # force the producer to block
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target = "10.1234/found.on.line.one"
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lines = [target + "\n"] + [f"10.0000/decoy-{i}\n" for i in range(5000)]
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(tmp_path / "0_chunk.txt").write_text("".join(lines), encoding="utf-8")
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finished, result = _run_bounded([(target, "DATA")], timeout=20)
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assert finished, "a full bounded queue deadlocked the producer on early termination"
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hit = [r for r in result if r["DOI"] == target and r["exists"]]
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assert hit, "the target on the first line should have been found"
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