diff --git a/.evolve/skill-runs.jsonl b/.evolve/skill-runs.jsonl index 21288b50..77255c63 100644 --- a/.evolve/skill-runs.jsonl +++ b/.evolve/skill-runs.jsonl @@ -37,3 +37,6 @@ {"skill":"/critical-audit","ts":"2026-07-29T22:47:03Z","project":"agent-eval-control-integrity","target":"agent-eval PR 487 control-integrity repair, 17 changed paths","operatorPrompt":"","durationMin":null,"verdict":"APPROVE","dispatchedTo":"/verify","operatorOverride":null,"transcriptPath":null,"traceDir":null} {"skill":"/verify","ts":"2026-07-29T22:47:04Z","project":"agent-eval-control-integrity","target":"agent-eval PR 487: 4244 tests, build, packed exports, runtime import","operatorPrompt":"","durationMin":null,"verdict":"PASS","dispatchedTo":"/stop","operatorOverride":null,"transcriptPath":null,"traceDir":null} {"skill":"/simplify","ts":"2026-07-29T22:54:49Z","project":"agent-eval-control-integrity","target":"PR 487 supervisor-run integrity modularization","operatorPrompt":"","durationMin":null,"verdict":"PASS","dispatchedTo":"/stop","operatorOverride":null,"transcriptPath":null,"traceDir":null} +{"skill":"/agent-eval","ts":"2026-07-30T11:07:02Z","project":"agent-eval-analyst-proof-20260730","target":"crash-safe resumable public analyst benchmark command","operatorPrompt":"","durationMin":null,"verdict":"PASS","dispatchedTo":"/verify","operatorOverride":null,"transcriptPath":null,"traceDir":null} +{"skill":"/verify","ts":"2026-07-30T11:07:07Z","project":"agent-eval-analyst-proof-20260730","target":"benchmark command recovery, artifacts, and AgentRx metrics","operatorPrompt":"","durationMin":null,"verdict":"PASS","dispatchedTo":"/stop","operatorOverride":null,"transcriptPath":null,"traceDir":null} +{"skill":"/semgrep","ts":"2026-07-30T15:47:18Z","project":"agent-eval-analyst-proof-20260730","target":"agent-eval public analyst benchmark, 664 files, 492 rules","operatorPrompt":"","durationMin":null,"verdict":"PASS","dispatchedTo":"/stop","operatorOverride":null,"transcriptPath":null,"traceDir":null} diff --git a/CHANGELOG.md b/CHANGELOG.md index bec33abb..bf6a7907 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -4,6 +4,41 @@ All notable changes to `@tangle-network/agent-eval` and its sibling `agent-eval- --- +## Unreleased + +### Added + +- **Breaking:** `AnalystBenchmarkCase` now requires `clusterId` and `labelState`. + A case must identify its independent source unit and state whether labels prove an issue, prove no issue, or leave the outcome unknown. + The benchmark no longer guesses either field from an empty issue list. +- `agent-eval analyst-benchmark` compares an empty baseline with a real-model AgentRx or CodeTraceBench analyst through any OpenAI-compatible endpoint. + It requires an explicit case limit and immutable dataset revision, validates labeled spans before paid work, uses benchmark-specific output adapters, and writes complete JSON plus Markdown results. + CodeTraceBench cases also retain hashed final verification artifacts, parse known upstream result formats, and mark missing outcomes unavailable. + Limited hash samples report source-versus-selected class, agent, model, difficulty, and solved distributions without claiming representativeness. + The published all-row score is retained, while a calibrated view measures solved label-empty trajectories as trusted negatives and keeps failed or unknown label-empty trajectories unlabeled. + Interrupted runs persist hash-chained observations and resume only when public inputs, model settings, local paths, and endpoint still match. + Reports include pooled and per-case step-localization metrics, exact source-quote coverage, final-result availability, and imported runtime duration. + External runner failures retain reported token, cost, duration, and metadata instead of becoming telemetry gaps. + Public model runs use one structured model call over a bounded trace projection. + A durable run-wide cost ledger enforces `--max-cost-usd` across concurrency and resume. + Paid responses are cached under deterministic call ids before settlement, so resume neither loses a completed response nor creates a second reservation after interruption. + Completed results retain a digest of every behavior-defining source file and are read through one strict recursive schema. + The repository includes one pinned 32-case CodeTraceBench input, two complete 64-call GLM-5.2 Agent Eval runs, and a failure-inclusive run of pinned CodeTracer on the same trajectories. + Exact source, input, result, resume, usage, cost, and secret-scan checks are committed with the results. + +### Fixed + +- Canonical `trace:///span/` evidence is classified as span evidence instead of artifact evidence. +- Public model output selects positive integer assistant step ids. + The runner builds canonical trace URIs and exact action excerpts from those spans, and rejects missing, non-assistant, or empty steps. +- Capped concurrent paid calls wait for active reservations to settle when their final spend may still fit. + They fail immediately only when committed spend plus the next enforced maximum exceeds the run limit. +- Releasing a single-run lock now removes its process exit listener instead of leaking one callback per completed campaign. +- Phoenix evaluator tests use OpenTelemetry Core 2.10 instead of the vulnerable 1.x transitive dependency. +- CodeTracer prediction adapters accept the published schema and both flat and grouped step-label outputs emitted by CodeTracer 0.2. +- The CodeTraceBench model prompt now matches the public incorrect-step task by scoring wrong actions that are later recovered, instead of treating final task success as proof that earlier steps were correct. +- JSON-text finding rows reach the existing per-row schema repair instead of failing the entire trace analyst response. + ## [0.137.0] - 2026-07-29 - trace analyst measurement and review integrity ### Added diff --git a/README.md b/README.md index cf8b014a..a0dce60e 100644 --- a/README.md +++ b/README.md @@ -357,6 +357,7 @@ pnpm tsx examples/selfimprove-quickstart/index.ts You do not need a runnable agent to analyze data you already captured. Use `analyzeRuns()` for `RunRecord[]`. For traces, run a registry of built-in or custom analysts, measure it on labeled issues and exact span locations, then turn only reviewed findings into eval data. +For a public quality check, convert CodeTraceBench with `traces import-codetracebench`, then run `agent-eval analyst-benchmark` against the pinned labels and a real model. See [concepts](./docs/concepts.md), [customer paths](./docs/customer-journeys.md), and [trace analysis](./docs/trace-analysis.md). diff --git a/benchmarks/trace-analysis/codetracebench-glm52-20260730/README.md b/benchmarks/trace-analysis/codetracebench-glm52-20260730/README.md new file mode 100644 index 00000000..76b2348f --- /dev/null +++ b/benchmarks/trace-analysis/codetracebench-glm52-20260730/README.md @@ -0,0 +1,145 @@ +# CodeTraceBench GLM-5.2 Run + +This directory records three real-model runs on the same 32 public CodeTraceBench trajectories. + +- [`result.json`](./result.json) is Agent Eval with final test artifacts. +- [`fair-result.json`](./fair-result.json) is Agent Eval with trajectories only. +- [`codetracer-result.json`](./codetracer-result.json) is CodeTracer with trajectories only and memory disabled. +- [`verification.json`](./verification.json) records input, source, result, resume, cost, and secret-scan hashes. + +The result is useful but not strong. +Agent Eval accounted for every provider call and beat this CodeTracer run on the published metric, but all three arms had low precision, weak repeatability, and frequent false positives on solved trajectories. + +## Inputs + +| Field | Value | +| --- | --- | +| Date | 2026-07-30 | +| Dataset | [`NJU-LINK/CodeTraceBench`](https://huggingface.co/datasets/NJU-LINK/CodeTraceBench) | +| Dataset revision | `aa213b84ffb6690fc37ca15766d6ca174ec36d4d` | +| Cases | 16 labeled positive, 8 solved label-empty, 8 failed label-empty | +| Trajectory steps | 935 | +| OTLP spans | 1,897 | +| Analyst model | `glm-5.2` | +| Repetitions | 2 | +| Agent Eval source files | 61 | +| Agent Eval source SHA-256 | `4dba263b6256a30d56c7fdb2d992d3a953c0035d731f359b704db806f68f75ac` | +| Dependency lock SHA-256 | `1e03f2daed356d60316aabefb407ec1e437ac94d408d61eea4ae096e9c6fbb5b` | +| CodeTracer revision | `2d302191dd07e7c0c2da6f7a5e9451c7cbb62d34` | + +The 32 rows are every pinned mini-SWE trajectory supported by CodeTracer's normalizer in this dataset snapshot. +They are not a representative sample of all 1,000 verified CodeTraceBench trajectories. + +## Results + +| Measure | Agent Eval + tests | Agent Eval trajectory only | CodeTracer trajectory only | +| --- | ---: | ---: | ---: | +| Valid runs | 63/64 | 62/64 | 61/64 | +| Published all-row F1 | 13.47% | 15.02% | 11.61% | +| Matched / expected bad steps | 45/110 | 44/110 | 38/110 | +| Predicted steps on scored rows | 165 | 174 | 166 | +| Scored precision / recall / F1 | 27.27% / 40.91% / 32.73% | 25.29% / 40.00% / 30.99% | 22.89% / 34.55% / 27.54% | +| Solved false positives | 14/15 completed | 15/16 | 12/14 completed | +| Failed label-empty predictions | 16/16 | 14/16 | 13/15 completed | +| Repeat prediction agreement | 46.59% | 48.55% | 47.34% | +| Model calls | 64 | 64 | 933 known, 1 run unknown | +| Uncached input tokens | 1,972 | 2,542 | 10,437,890 | +| Cached input tokens | 1,843,200 | 1,766,912 | not reported | +| Output tokens | 46,072 | 45,797 | 458,006 | +| Latency p50 / p95 / max | 11.87 / 19.92 / 27.15 s | 11.22 / 22.68 / 29.68 s | 92.10 / 408.07 / 600.00 s | +| Same-rate estimated cost | $1.208462 | $1.162426 | $7.270347 over 63 known runs | + +CodeTracer also reported $63.6392 using its own model-price configuration. +That estimate is not comparable to the Agent Eval estimates, so the table reprices its reported tokens at the same GLM rates used by Agent Eval. +One CodeTracer timeout has unknown calls, tokens, and cost. + +Final test artifacts did not produce a clear quality gain over the trajectory-only Agent Eval arm. +The arms were separate stochastic runs with two repetitions, so the 1.55 percentage-point F1 difference favoring the trajectory-only arm is not a causal estimate. + +## Reproduce + +Prepare the pinned archives with CodeTracer's own normalizer: + +```bash +uv run \ + --with 'git+https://github.com/NJU-LINK/CodeTracer.git@2d302191dd07e7c0c2da6f7a5e9451c7cbb62d34' \ + benchmarks/trace-analysis/codetracebench-glm52-20260730/prepare.py \ + --labels benchmarks/trace-analysis/codetracebench-glm52-20260730/input-labels.json \ + --out "$PREPARED" +``` + +Convert the native trajectories with the released traces importer: + +```bash +npx --yes @tangle-network/traces@0.9.19 import-codetracebench \ + benchmarks/trace-analysis/codetracebench-glm52-20260730/input-labels.json \ + --trajectory-dir "$PREPARED/normalized" \ + --out "$TRACES" \ + --revision aa213b84ffb6690fc37ca15766d6ca174ec36d4d \ + --concurrency 8 +``` + +Check every trace and final-test artifact before a paid run: + +```bash +node scripts/verify-codetracebench-reference-input.mjs \ + --trace-dir "$TRACES" \ + --artifact-dir "$PREPARED/extracted" +``` + +Run Agent Eval: + +```bash +agent-eval analyst-benchmark \ + --dataset codetracebench \ + --labels benchmarks/trace-analysis/codetracebench-glm52-20260730/input-labels.json \ + --trace-dir "$TRACES" \ + --artifact-dir "$PREPARED/extracted" \ + --out "$OUTPUT" \ + --revision aa213b84ffb6690fc37ca15766d6ca174ec36d4d \ + --split verified-miniswe-normalizer-compatible-32 \ + --base-url "$OPENAI_COMPATIBLE_BASE_URL" \ + --api-key-env MODEL_API_KEY \ + --model glm-5.2 \ + --limit 32 \ + --seed 0 \ + --concurrency 5 \ + --repetitions 2 \ + --max-output-tokens 2048 \ + --timeout-ms 120000 \ + --max-cost-usd 1.5 +``` + +Point `--artifact-dir` at an empty directory for the trajectory-only arm. +Use `--resume` with the same arguments to continue an interrupted run. + +Run the pinned CodeTracer checkout with isolated configuration and memory disabled: + +```bash +export CODETRACER_API_KEY="$MODEL_API_KEY" +export CODETRACER_API_BASE="$OPENAI_COMPATIBLE_BASE_URL" +benchmarks/trace-analysis/codetracebench-glm52-20260730/run-codetracer.sh \ + benchmarks/trace-analysis/codetracebench-glm52-20260730/input-labels.json \ + "$PREPARED/normalized" \ + "$CODETRACER_BIN" \ + "$CODETRACER_OUTPUT" +``` + +Reduce a CodeTracer run through Agent Eval's existing CodeTracer adapter and scoring code: + +```bash +node benchmarks/trace-analysis/codetracebench-glm52-20260730/summarize-codetracer.mjs \ + --labels benchmarks/trace-analysis/codetracebench-glm52-20260730/input-labels.json \ + --run-dir "$CODETRACER_OUTPUT" \ + --revision 2d302191dd07e7c0c2da6f7a5e9451c7cbb62d34 \ + --output "$CODETRACER_RESULT" +``` + +## Limits + +- CodeTraceBench labels incorrect steps, not complete root-cause explanations. +- Failed label-empty rows are unlabeled and excluded from precision. +- Two repetitions expose instability but do not estimate the full output distribution. +- CodeTracer and Agent Eval use different control policies. +- Provider cache telemetry was available for Agent Eval and unavailable for CodeTracer. +- The committed results prove these runs, not general superiority over CodeTracer or other trace-analysis systems. diff --git a/benchmarks/trace-analysis/codetracebench-glm52-20260730/codetracer-no-memory.yaml b/benchmarks/trace-analysis/codetracebench-glm52-20260730/codetracer-no-memory.yaml new file mode 100644 index 00000000..75fb69a9 --- /dev/null +++ b/benchmarks/trace-analysis/codetracebench-glm52-20260730/codetracer-no-memory.yaml @@ -0,0 +1,2 @@ +memory: + enabled: false diff --git a/benchmarks/trace-analysis/codetracebench-glm52-20260730/codetracer-result.json b/benchmarks/trace-analysis/codetracebench-glm52-20260730/codetracer-result.json new file mode 100644 index 00000000..d2801535 --- /dev/null +++ b/benchmarks/trace-analysis/codetracebench-glm52-20260730/codetracer-result.json @@ -0,0 +1,10649 @@ +{ + "kind": "agent-eval/codetracer-benchmark-result", + "source": { + "upstream": "NJU-LINK/CodeTracer", + "upstreamRevision": "2d302191dd07e7c0c2da6f7a5e9451c7cbb62d34", + "model": "glm-5.2", + "memoryEnabled": false, + "labelsSha256": "5d8b4024c3e2114965cbf2f2fa0124bbf59b3fb134824fa06dd6a38ee07e8412", + "runManifestSha256": "7a9956f27625066ed960337d1d07726be8bba07cafb557681eae7c5e17e5e824", + "sourceFiles": 254 + }, + "statusCounts": { + "ok": 62, + "failed": 1, + "invalid-output": 1 + }, + "evaluationStatusCounts": { + "valid": 61, + "failedProcess": 1, + "invalidOutput": 2 + }, + "result": { + "provenance": { + "id": "codetracebench-codetracer", + "dataset": { + "id": "codetracebench", + "revision": "aa213b84ffb6690fc37ca15766d6ca174ec36d4d", + "split": "verified-miniswe-normalizer-compatible-32" + }, + "metadata": { + "upstream": "NJU-LINK/CodeTracer", + "upstreamRevision": "2d302191dd07e7c0c2da6f7a5e9451c7cbb62d34", + "memoryEnabled": false, + "model": "glm-5.2" + }, + "startedAt": "2026-07-30T00:00:00.000Z", + "endedAt": "2026-07-30T00:00:00.000Z", + "caseCount": 32, + "runnerIds": [ + "codetracer" + ], + "repetitions": 2, + "maxConcurrency": 1, + "runnerOrderSeed": 0 + }, + "observations": [ + { + "runnerId": "codetracer", + "caseId": "codetrace:miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-broken-python-05edf5bc", + "clusterId": "codetrace-task:broken-python", + "labelState": "trusted-negative", + "repetition": 0, + "executionIndex": 0, + "latencyMs": 117800, + "latencySource": "runner-reported", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_eb1e503ffbaf95dd3d77", + "produced_at": "2026-07-30T00:00:00.000Z", + "analyst_id": "codetracer", + "area": "incorrect", + "subject": "step-2", + "claim": "CodeTracer labeled step 2 as incorrect.", + "rationale": "Agent misinterpreted Requirement already satisfied output as problem confirmation. Default pip was working fine.", + "severity": "medium", + "confidence": 0.5, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-broken-python-05edf5bc/span/step-2" + } + ], + "metadata": { + "upstream": "CodeTracer", + "stage_id": 1, + "step": 2 + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_cbd11cc82c3d3e6b9960", + "produced_at": "2026-07-30T00:00:00.000Z", + "analyst_id": "codetracer", + "area": "incorrect", + "subject": "step-9", + "claim": "CodeTracer labeled step 9 as incorrect.", + "rationale": "Ran ensurepip on /usr/local/bin/python3.13 unnecessarily - a different Python installation. 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primary path still uses made-up channel names; does not define actual channel classes as required by the task", + "severity": "medium", + "confidence": 0.5, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-22" + } + ], + "metadata": { + "upstream": "CodeTracer", + "stage_id": "full", + "step": 22 + } + } + ], + "score": { + "expectedIssueCount": 2, + "matchedIssueIds": [ + "incorrect:19", + "incorrect:22" + ], + "missedIssueIds": [], + "supportedFindingIndexes": [ + 2, + 3 + ], + "unsupportedFindingIndexes": [ + 0, + 1 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-9" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-13" + } + ], + "issueRecall": 1, + "findingPrecision": 0.5, + "f1": 0.6666666666666666, + "criticalStepAccuracy": null, + "citationCoverage": 1, + "citationExcerptCoverage": 0, + "citationLabelAgreement": 0.5, + "predictionOnLabelEmptyCase": false + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "DeepSeek/DeepSeek-V3.2", + "hard", + "scientific-computing", + "library-conversion" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f", + "taskName": "neuron-to-jaxley-conversion", + "agent": "mini-SWE-agent", + "model": "DeepSeek/DeepSeek-V3.2", + "solved": true, + "stepCount": 25, + "labelSet": "incorrect-only", + "sourceRelpath": "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/neuron-to-jaxley-conversion", + "difficulty": "hard", + "category": "scientific-computing" + }, + "usage": { + "calls": 15, + "tokens": { + "input": 272417, + "output": 3494 + }, + "cost": { + "kind": "estimated", + "usd": 1.4494 + } + }, + "runnerMetadata": { + "upstream": "CodeTracer", + "upstreamState": "ok", + "exitCode": 0, + "repricedCostUsd": 0.17113699999999998 + } + }, + { + "runnerId": "codetracer", + "caseId": "codetrace:miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f", + "clusterId": "codetrace-task:neuron-to-jaxley-conversion", + "labelState": "positive", + "repetition": 1, + "executionIndex": 47, + "latencyMs": 72900, + "latencySource": "runner-reported", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_cbd11cc82c3d3e6b9960", + "produced_at": "2026-07-30T00:00:00.000Z", + "analyst_id": "codetracer", + "area": "incorrect", + "subject": "step-9", + "claim": "CodeTracer labeled step 9 as incorrect.", + "rationale": "First implementation of add_channels() uses completely guessed Jaxley API (get_group, add_channel with channel names like na,k,cad,extracellular,xtra) without any verification. 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Wraps everything in try/except that swallows errors.", + "severity": "medium", + "confidence": 0.5, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-13" + } + ], + "metadata": { + "upstream": "CodeTracer", + "stage_id": 2, + "step": 13 + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_3860e417d1e07a31a688", + "produced_at": "2026-07-30T00:00:00.000Z", + "analyst_id": "codetracer", + "area": "incorrect", + "subject": "step-17", + "claim": "CodeTracer labeled step 17 as incorrect.", + "rationale": "Agent installs numpy instead of jaxley. Jaxley is the core dependency blocking all progress, but the agent only installs numpy to examine a pickle file, losing focus on the actual blocker.", + "severity": "medium", + "confidence": 0.5, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-17" + } + ], + "metadata": { + "upstream": "CodeTracer", + "stage_id": 3, + "step": 17 + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_1262f1562d8eb6870b31", + "produced_at": "2026-07-30T00:00:00.000Z", + "analyst_id": "codetracer", + "area": "incorrect", + "subject": "step-19", + "claim": "CodeTracer labeled step 19 as incorrect.", + "rationale": "Still guessing the Jaxley API. Adds _set_channel_properties_direct with hasattr guards that will never match real Jaxley branch attributes. No actual verification of the API.", + "severity": "medium", + "confidence": 0.5, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-19" + } + ], + "metadata": { + "upstream": "CodeTracer", + "stage_id": 4, + "step": 19 + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_367a96346c309ff7b33a", + "produced_at": "2026-07-30T00:00:00.000Z", + "analyst_id": "codetracer", + "area": "incorrect", + "subject": "step-22", + "claim": "CodeTracer labeled step 22 as incorrect.", + "rationale": "Agent introduces MockCell and MockBranch classes to bypass the missing jaxley module entirely. This is abandonment of the core task requirement - add_channels() will operate on a mock instead of a real Jaxley cell.", + "severity": "medium", + "confidence": 0.5, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-22" + } + ], + "metadata": { + "upstream": "CodeTracer", + "stage_id": 5, + "step": 22 + } + } + ], + "score": { + "expectedIssueCount": 2, + "matchedIssueIds": [ + "incorrect:19", + "incorrect:22" + ], + "missedIssueIds": [], + "supportedFindingIndexes": [ + 3, + 4 + ], + "unsupportedFindingIndexes": [ + 0, + 1, + 2 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-9" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-13" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-17" + } + ], + "issueRecall": 1, + "findingPrecision": 0.4, + "f1": 0.5714285714285715, + "criticalStepAccuracy": null, + "citationCoverage": 1, + "citationExcerptCoverage": 0, + "citationLabelAgreement": 0.4, + "predictionOnLabelEmptyCase": false + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "DeepSeek/DeepSeek-V3.2", + "hard", + "scientific-computing", + "library-conversion" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f", + "taskName": "neuron-to-jaxley-conversion", + "agent": "mini-SWE-agent", + "model": "DeepSeek/DeepSeek-V3.2", + "solved": true, + "stepCount": 25, + "labelSet": "incorrect-only", + "sourceRelpath": "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/neuron-to-jaxley-conversion", + "difficulty": "hard", + "category": "scientific-computing" + }, + "usage": { + "calls": 13, + "tokens": { + "input": 198572, + "output": 3362 + }, + "cost": { + "kind": "estimated", + "usd": 1.0769 + } + }, + "runnerMetadata": { + "upstream": "CodeTracer", + "upstreamState": "ok", + "exitCode": 0, + "repricedCostUsd": 0.1265396 + } + }, + { + "runnerId": "codetracer", + "caseId": "codetrace:miniswe-DeepSeek__DeepSeek-V3.2-path-tracing-710cd772", + "clusterId": "codetrace-task:path-tracing", + "labelState": "unlabeled", + "repetition": 0, + "executionIndex": 48, + "latencyMs": 97210, + "latencySource": "runner-reported", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_ef5feb08925f7c107912", + "produced_at": "2026-07-30T00:00:00.000Z", + "analyst_id": "codetracer", + "area": "incorrect", + "subject": "step-4", + "claim": "CodeTracer labeled step 4 as incorrect.", + "rationale": "First attempt uses simple vertical gradient, missing horizontal variation. 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Agent guesses at patterns without properly analyzing the noise generation algorithm", + "severity": "medium", + "confidence": 0.5, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-path-tracing-710cd772/span/step-16" + } + ], + "metadata": { + "upstream": "CodeTracer", + "stage_id": 3, + "step": 16 + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_1262f1562d8eb6870b31", + "produced_at": "2026-07-30T00:00:00.000Z", + "analyst_id": "codetracer", + "area": "incorrect", + "subject": "step-19", + "claim": "CodeTracer labeled step 19 as incorrect.", + "rationale": "Fourth attempt with more complex checkerboard patterns still gets only 0.767. No improvement over previous attempt, still guessing at patterns", + "severity": "medium", + "confidence": 0.5, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-path-tracing-710cd772/span/step-19" + } + ], + "metadata": { + "upstream": "CodeTracer", + "stage_id": 4, + "step": 19 + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_359072befdabea88b242", + "produced_at": "2026-07-30T00:00:00.000Z", + "analyst_id": "codetracer", + "area": "incorrect", + "subject": "step-21", + "claim": "CodeTracer labeled step 21 as incorrect.", + "rationale": "Fifth attempt introduces pseudo-random noise function, gets even worse (0.703). 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The compress.py script places all 30 files into one shard directory without accounting for the metadata file as an additional output-root entry, violating the max-30-items-per-directory constraint.", + "rationale": "Step 32's observation shows test_30files_compressed/shard_0000 containing 31 items (30 data files plus 1 extra), confirming the script does not enforce the directory entry limit correctly when the metadata file is present in the output root.", + "severity": "high", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301/span/step-9", + "excerpt": "cat <<'EOF' > /app/compress.py\n#!/usr/bin/env python3\n\"\"\"\nScript to reshard dataset according to constraints:\n- Maximum 30 files or folders in each directory\n- Maximum 15MB filesize per file\n\"\"\"\n\nimport os\nimport sys\nimport json\nimport shutil\nfrom pathlib import Path\nimport math\n\ndef split_large_file(file_path, output_dir, max_size_bytes=15 * 1024 * 1024):\n \"\"\"Split a file that exceeds the size limit into chunks.\"\"\"\n file_size = os.path.getsize(file_path)\n if file_size <= max_size_bytes:\n re" + } + ], + "recommended_action": "Adjust the file-grouping logic so no output directory, including the root, exceeds 30 total entries (files + subdirectories + metadata).", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_4191e6bf199c237511f1", + "produced_at": "2026-07-30T15:36:02.104Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-28", + "claim": "Step 28 is incorrect. The shell command uses `for i in {1..30}` brace expansion which did not expand in the execution environment, creating only one file named 'file_{1..30}.txt' instead of 30 files.", + "rationale": "Step 29's observation shows 'Found 1 files to process' and the directory listing in step 29 reveals a single file 'file_{1..30}.txt', confirming the brace expansion was not interpreted by the shell.", + "severity": "low", + "confidence": 0.95, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301/span/step-28", + "excerpt": "cd /app && mkdir test_30files && for i in {1..30}; do echo \"test content $i\" > test_30files/file_$i.txt; done && uv run python compress.py test_30files test_30files_compressed" + } + ], + "recommended_action": "Use `$(seq 1 30)` instead of `{1..30}` for POSIX-compatible iteration, as the agent later did in step 30.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_b46c072fb2aa04f17537", + "produced_at": "2026-07-30T15:36:02.104Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-37", + "claim": "Step 37 is incorrect. The sed replacement to fix the directory-count message is a cosmetic fix that does not address the underlying off-by-one logic causing the script to report '2 directories' while creating only 1.", + "rationale": "The sed inserts `actual_dirs = current_dir_index + 1 if files_in_current_dir > 0 else current_dir_index` which still computes directory count from current_dir_index; the real issue is that the loop increments current_dir_index even when the new directory is not actually used, so the reported count remains misleading.", + "severity": "low", + "confidence": 0.75, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301/span/step-37", + "excerpt": "cd /app && sed -i 's/print(f\"Compression complete. Files organized into {current_dir_index + 1} directories.\")/actual_dirs = current_dir_index + 1 if files_in_current_dir > 0 else current_dir_index\\n print(f\"Compression complete. Files organized into {actual_dirs} directories.\")/' compress.py" + } + ], + "recommended_action": "Rewrite the directory-tracking logic to count actually-created directories rather than using a post-hoc conditional on current_dir_index.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 3, + "matchedIssueIds": [ + "incorrect:5" + ], + "missedIssueIds": [ + "incorrect:6", + "incorrect:7" + ], + "supportedFindingIndexes": [ + 0 + ], + "unsupportedFindingIndexes": [ + 1, + 2, + 3 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301/span/step-9", + "excerpt": "cat <<'EOF' > /app/compress.py\n#!/usr/bin/env python3\n\"\"\"\nScript to reshard dataset according to constraints:\n- Maximum 30 files or folders in each directory\n- Maximum 15MB filesize per file\n\"\"\"\n\nimport os\nimport sys\nimport json\nimport shutil\nfrom pathlib import Path\nimport math\n\ndef split_large_file(file_path, output_dir, max_size_bytes=15 * 1024 * 1024):\n \"\"\"Split a file that exceeds the size limit into chunks.\"\"\"\n file_size = os.path.getsize(file_path)\n if file_size <= max_size_bytes:\n re" + }, + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301/span/step-28", + "excerpt": "cd /app && mkdir test_30files && for i in {1..30}; do echo \"test content $i\" > test_30files/file_$i.txt; done && uv run python compress.py test_30files test_30files_compressed" + }, + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301/span/step-37", + "excerpt": "cd /app && sed -i 's/print(f\"Compression complete. Files organized into {current_dir_index + 1} directories.\")/actual_dirs = current_dir_index + 1 if files_in_current_dir > 0 else current_dir_index\\n print(f\"Compression complete. Files organized into {actual_dirs} directories.\")/' compress.py" + } + ], + "issueRecall": 0.3333333333333333, + "findingPrecision": 0.25, + "f1": 0.28571428571428575, + "criticalStepAccuracy": null, + "citationCoverage": 1, + "citationExcerptCoverage": 1, + "citationLabelAgreement": 0.25, + "predictionOnLabelEmptyCase": false + }, + "evidenceResolution": { + "checked": 4, + "resolved": 4, + "unresolvedEvidence": [], + "errors": [], + "validity": 1 + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "Anthropic/Claude-Sonnet-4-20250514-Thinking", + "medium", + "data-science", + "coding", + "data-processing", + "file-operations" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301", + "taskName": "reshard-c4-data", + "agent": "mini-SWE-agent", + "model": "Anthropic/Claude-Sonnet-4-20250514-Thinking", + "solved": true, + "stepCount": 43, + "labelSet": "incorrect-only", + "sourceRelpath": "miniswe/Anthropic__Claude-Sonnet-4-20250514-Thinking/miniswe-claude/reshard-c4-data/reshard-c4-data.1-of-1.claude-sonnet-4-20250514-thinking", + "difficulty": "medium", + "category": "data-science", + "traceFileRelativePath": "miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301.otlp.jsonl", + "traceFileSha256": "3936bcae8c27d11613a3eab34095f2836531dc4555b7508da7cd0678f704fb6e", + "labelLeakScan": { + "passed": true, + "scannedBytes": 128741, + "scannedValues": 2676 + }, + "verificationArtifacts": { + "traceId": "miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301", + "status": "missing", + "outcome": { + "status": "unavailable", + "reason": "missing-result", + "sources": [], + "passedCheckCount": 0, + "failedCheckCount": 0, + "passedChecks": [], + "failedChecks": [] + }, + "outcomeSpanId": "benchmark-verification-outcome-0ed11299756f5012", + "caseDirectory": "miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301/miniswe/Anthropic__Claude-Sonnet-4-20250514-Thinking/miniswe-claude/reshard-c4-data/reshard-c4-data.1-of-1.claude-sonnet-4-20250514-thinking", + "caseDirectoriesSearched": [ + "miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301/miniswe/Anthropic__Claude-Sonnet-4-20250514-Thinking/miniswe-claude/reshard-c4-data/reshard-c4-data.1-of-1.claude-sonnet-4-20250514-thinking", + "miniswe/Anthropic__Claude-Sonnet-4-20250514-Thinking/miniswe-claude/reshard-c4-data/reshard-c4-data.1-of-1.claude-sonnet-4-20250514-thinking" + ], + "totalBytes": 0, + "maxBytes": 8388608, + "files": [], + "missingRoles": [ + "final-test-output", + "final-result", + "final-metrics" + ], + "searched": { + "final-test-output": [ + "panes/post-test.txt", + "sessions/tests.log", + "test_output.txt" + ], + "final-result": [ + "results.json", + "result.json", + "report.json", + "*_result.json" + ], + "final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 60, + "output": 947, + "reasoning": 0, + "cached": 38656 + }, + "cost": { + "kind": "estimated", + "usd": 0.025313 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "responseSource": "provider", + "report": "The trajectory shows multiple incorrect steps in building the resharding scripts. Step 5 created a pyproject.toml listing 'pathlib' as a dependency, which is a Python built-in; the subsequent `uv sync` (step 6) failed because hatchling could not determine which files to ship (this was caused by step 5's incorrect pyproject.toml configuration). Step 28 used `for i in {1..30}` brace expansion inside a non-interactive shell that did not expand it, creating only one file named 'file_{1..30}.txt' instead of 30 files; the follow-up compress command thus reported 'Found 1 files' instead of 30. Step 37 attempted a sed replacement on compress.py to fix a directory-count message, but the sed pattern targeted the wrong source text (the original line used `current_dir_index + 1` in a `print(f\"Compression complete...\")` call, which the sed tried to match as a full-line literal), producing a misleading cosmetic fix that did not address the underlying logic problem. Most critically, the compress.py script written in step 9 has a core algorithmic defect: it places all 30 files into a single shard directory and reports '2 directories' while only creating 1, violating the max-30-items-per-directory constraint because it does not account for the metadata file as an additional entry in the output root.", + "providerModel": "glm-5.2", + "providerDurationMs": 16210, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.025313, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301", + "clusterId": "codetrace-task:reshard-c4-data", + "labelState": "positive", + "repetition": 1, + "executionIndex": 3, + "latencyMs": 11970.16151, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_0f98ebdb816330b37120", + "produced_at": "2026-07-30T15:35:57.786Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-5", + "claim": "Step 5 is incorrect. Writing pyproject.toml with the unnecessary dependency 'pathlib' and an incompatible hatchling build system caused the subsequent 'uv sync' to fail.", + "rationale": "The pyproject.toml included 'pathlib' in dependencies and a hatchling build backend that requires a package directory; this directly caused the build error in the following step.", + "severity": "medium", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301/span/step-5", + "excerpt": "cat <<'EOF' > pyproject.toml\n[project]\nname = \"dataset-resharding\"\nversion = \"0.1.0\"\ndescription = \"Scripts for resharding datasets with file count and size constraints\"\nrequires-python = \">=3.8\"\ndependencies = [\n \"pathlib\",\n]\n\n[build-system]\nrequires = [\"hatchling\"]\nbuild-backend = \"hatchling.build\"\n\n[tool.uv]\ndev-dependencies = []\nEOF" + } + ], + "recommended_action": "Omit the 'pathlib' dependency (it is a Python standard library module) and remove the build-system section for a script-only project.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_2931c2be822737ed09b3", + "produced_at": "2026-07-30T15:35:57.786Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-9", + "claim": "Step 9 is incorrect. Creating compress.py with a logic bug that reports the wrong number of directories when files divide evenly into 30, as the code increments the directory counter even when no 31st directory is created.", + "rationale": "The step 16 output 'organized into 330 directories' was incorrect as step 17 showed only 18 level1 directories; the step 31 run also showed '2 directories' when only 1 was created (step 35).", + "severity": "medium", + "confidence": 0.85, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301/span/step-9", + "excerpt": "cat <<'EOF' > /app/compress.py\n#!/usr/bin/env python3\n\"\"\"\nScript to reshard dataset according to constraints:\n- Maximum 30 files or folders in each directory\n- Maximum 15MB filesize per file\n\"\"\"\n\nimport os\nimport sys\nimport json\nimport shutil\nfrom pathlib import Path\nimport math\n\ndef split_large_file(file_path, output_dir, max_size_bytes=15 * 1024 * 1024):\n \"\"\"Split a file that exceeds the size limit into chunks.\"\"\"\n file_size = os.path.getsize(file_path)\n if file_size <= max_size_bytes:\n re" + } + ], + "recommended_action": "Fix the directory counting logic so it does not report an extra directory when the file count divides evenly by max_files_per_dir.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_4191e6bf199c237511f1", + "produced_at": "2026-07-30T15:35:57.786Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-28", + "claim": "Step 28 is incorrect. Using brace expansion '{1..30}' directly inside a 'for' loop failed to generate 30 files, creating only a single literal file as observed in the following step.", + "rationale": "The observation at step 29 showed only 3 lines from ls -la (meaning 1 file) and listed 'file_{1..30}.txt' as a literal name, confirming the test setup command was broken.", + "severity": "low", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301/span/step-28", + "excerpt": "cd /app && mkdir test_30files && for i in {1..30}; do echo \"test content $i\" > test_30files/file_$i.txt; done && uv run python compress.py test_30files test_30files_compressed" + } + ], + "recommended_action": "Use '$(seq 1 30)' instead of brace expansion '{1..30}' inside the for loop, as was correctly done in the corrective step 30.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 3, + "matchedIssueIds": [ + "incorrect:5" + ], + "missedIssueIds": [ + "incorrect:6", + "incorrect:7" + ], + "supportedFindingIndexes": [ + 0 + ], + "unsupportedFindingIndexes": [ + 1, + 2 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301/span/step-9", + "excerpt": "cat <<'EOF' > /app/compress.py\n#!/usr/bin/env python3\n\"\"\"\nScript to reshard dataset according to constraints:\n- Maximum 30 files or folders in each directory\n- Maximum 15MB filesize per file\n\"\"\"\n\nimport os\nimport sys\nimport json\nimport shutil\nfrom pathlib import Path\nimport math\n\ndef split_large_file(file_path, output_dir, max_size_bytes=15 * 1024 * 1024):\n \"\"\"Split a file that exceeds the size limit into chunks.\"\"\"\n file_size = os.path.getsize(file_path)\n if file_size <= max_size_bytes:\n re" + }, + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301/span/step-28", + "excerpt": "cd /app && mkdir test_30files && for i in {1..30}; do echo \"test content $i\" > test_30files/file_$i.txt; done && uv run python compress.py test_30files test_30files_compressed" + } + ], + "issueRecall": 0.3333333333333333, + "findingPrecision": 0.3333333333333333, + "f1": 0.3333333333333333, + "criticalStepAccuracy": null, + "citationCoverage": 1, + "citationExcerptCoverage": 1, + "citationLabelAgreement": 0.3333333333333333, + "predictionOnLabelEmptyCase": false + }, + "evidenceResolution": { + "checked": 3, + "resolved": 3, + "unresolvedEvidence": [], + "errors": [], + "validity": 1 + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "Anthropic/Claude-Sonnet-4-20250514-Thinking", + "medium", + "data-science", + "coding", + "data-processing", + "file-operations" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301", + "taskName": "reshard-c4-data", + "agent": "mini-SWE-agent", + "model": "Anthropic/Claude-Sonnet-4-20250514-Thinking", + "solved": true, + "stepCount": 43, + "labelSet": "incorrect-only", + "sourceRelpath": "miniswe/Anthropic__Claude-Sonnet-4-20250514-Thinking/miniswe-claude/reshard-c4-data/reshard-c4-data.1-of-1.claude-sonnet-4-20250514-thinking", + "difficulty": "medium", + "category": "data-science", + "traceFileRelativePath": "miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301.otlp.jsonl", + "traceFileSha256": "3936bcae8c27d11613a3eab34095f2836531dc4555b7508da7cd0678f704fb6e", + "labelLeakScan": { + "passed": true, + "scannedBytes": 128741, + "scannedValues": 2676 + }, + "verificationArtifacts": { + "traceId": "miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301", + "status": "missing", + "outcome": { + "status": "unavailable", + "reason": "missing-result", + "sources": [], + "passedCheckCount": 0, + "failedCheckCount": 0, + "passedChecks": [], + "failedChecks": [] + }, + "outcomeSpanId": "benchmark-verification-outcome-0ed11299756f5012", + "caseDirectory": "miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301/miniswe/Anthropic__Claude-Sonnet-4-20250514-Thinking/miniswe-claude/reshard-c4-data/reshard-c4-data.1-of-1.claude-sonnet-4-20250514-thinking", + "caseDirectoriesSearched": [ + "miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-reshard-c4-data-f4ff7301/miniswe/Anthropic__Claude-Sonnet-4-20250514-Thinking/miniswe-claude/reshard-c4-data/reshard-c4-data.1-of-1.claude-sonnet-4-20250514-thinking", + "miniswe/Anthropic__Claude-Sonnet-4-20250514-Thinking/miniswe-claude/reshard-c4-data/reshard-c4-data.1-of-1.claude-sonnet-4-20250514-thinking" + ], + "totalBytes": 0, + "maxBytes": 8388608, + "files": [], + "missingRoles": [ + "final-test-output", + "final-result", + "final-metrics" + ], + "searched": { + "final-test-output": [ + "panes/post-test.txt", + "sessions/tests.log", + "test_output.txt" + ], + "final-result": [ + "results.json", + "result.json", + "report.json", + "*_result.json" + ], + "final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 60, + "output": 622, + "reasoning": 0, + "cached": 38656 + }, + "cost": { + "kind": "estimated", + "usd": 0.024598 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "responseSource": "provider", + "report": "The trace shows a resharding task where the agent created compress.py and decompress.py. Several incorrect steps were identified by observing the actions and their outcomes: (1) Step 5 introduced an invalid dependency 'pathlib' and an incompatible build-system in pyproject.toml, causing a predictable build failure at step 6. (2) Step 9 created compress.py with a logic bug that produces an incorrect directory count message, discovered when step 16 succeeded with a misleading count. (3) Step 28 used brace expansion '{1..30}' inside a 'for' loop, which failed to create the intended 30 test files (only creating 1 literal file), a hypothesis error exposed by the step 29 observation.", + "providerModel": "glm-5.2", + "providerDurationMs": 11890, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.024598, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-train-fasttext-36447b26", + "clusterId": "codetrace-task:train-fasttext", + "labelState": "unlabeled", + "repetition": 0, + "executionIndex": 4, + "latencyMs": 7724.6736470000005, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_a0dbec6e53594bc756ea", + "produced_at": "2026-07-30T15:35:53.544Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-27", + "claim": "Step 27 is incorrect. The agent copied model2.bin (121MB) to /app/model.bin, exceeding the 150MB limit while achieving only 0.609 accuracy, below the required 0.62.", + "rationale": "The task requires <150MB model size and >=0.62 accuracy. model2.bin is 121MB, which is under 150MB, but accuracy is 0.609 < 0.62. This is a state-changing action producing a non-compliant final artifact.", + "severity": "critical", + "confidence": 0.92, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-train-fasttext-36447b26/span/step-27", + "excerpt": "cp model2.bin /app/model.bin && ls -lh /app/model.bin && echo \"Final model: 121MB, accuracy 0.609\" && echo COMPLETE_TASK_AND_SUBMIT_FINAL_OUTPUT" + } + ], + "recommended_action": "Train a smaller model with higher accuracy, e.g., by tuning hyperparameters like wordNgrams, epoch, lr, and bucket to achieve >=0.62 accuracy within the size limit.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 0, + "matchedIssueIds": [], + "missedIssueIds": [], + "supportedFindingIndexes": [], + "unsupportedFindingIndexes": [ + 0 + ], + "unlabeledEvidence": [], + "issueRecall": 1, + "findingPrecision": 0, + "f1": 0, + "criticalStepAccuracy": null, + "citationCoverage": 1, + "citationExcerptCoverage": 1, + "citationLabelAgreement": null, + "predictionOnLabelEmptyCase": true + }, + "evidenceResolution": { + "checked": 1, + "resolved": 1, + "unresolvedEvidence": [], + "errors": [], + "validity": 1 + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "Anthropic/Claude-Sonnet-4-20250514-Thinking", + "hard", + "model-training", + "data-processing", + "data-science" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-train-fasttext-36447b26", + "taskName": "train-fasttext", + "agent": "mini-SWE-agent", + "model": "Anthropic/Claude-Sonnet-4-20250514-Thinking", + "solved": false, + "stepCount": 28, + "labelSet": "incorrect-only", + "sourceRelpath": "miniswe/Anthropic__Claude-Sonnet-4-20250514-Thinking/miniswe-claude/train-fasttext/train-fasttext.1-of-1.claude-sonnet-4-20250514-thinking", + "difficulty": "hard", + "category": "model-training", + "traceFileRelativePath": "miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-train-fasttext-36447b26.otlp.jsonl", + "traceFileSha256": "210979b5c8b4c73b4ef0ca592429e04cbc55b24247ca676403da68076fe209ab", + "labelLeakScan": { + "passed": true, + "scannedBytes": 82026, + "scannedValues": 1761 + }, + "verificationArtifacts": { + "traceId": "miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-train-fasttext-36447b26", + "status": "missing", + "outcome": { + "status": "unavailable", + "reason": "missing-result", + "sources": [], + "passedCheckCount": 0, + "failedCheckCount": 0, + "passedChecks": [], + "failedChecks": [] + }, + "outcomeSpanId": "benchmark-verification-outcome-e62dfbb33d7f44c7", + "caseDirectory": "miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-train-fasttext-36447b26/miniswe/Anthropic__Claude-Sonnet-4-20250514-Thinking/miniswe-claude/train-fasttext/train-fasttext.1-of-1.claude-sonnet-4-20250514-thinking", + "caseDirectoriesSearched": [ + "miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-train-fasttext-36447b26/miniswe/Anthropic__Claude-Sonnet-4-20250514-Thinking/miniswe-claude/train-fasttext/train-fasttext.1-of-1.claude-sonnet-4-20250514-thinking", + "miniswe/Anthropic__Claude-Sonnet-4-20250514-Thinking/miniswe-claude/train-fasttext/train-fasttext.1-of-1.claude-sonnet-4-20250514-thinking" + ], + "totalBytes": 0, + "maxBytes": 8388608, + "files": [], + "missingRoles": [ + "final-test-output", + "final-result", + "final-metrics" + ], + "searched": { + "final-test-output": [ + "panes/post-test.txt", + "sessions/tests.log", + "test_output.txt" + ], + "final-result": [ + "results.json", + "result.json", + "report.json", + "*_result.json" + ], + "final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 53, + "output": 293, + "reasoning": 0, + "cached": 24576 + }, + "cost": { + "kind": "estimated", + "usd": 0.015422 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "responseSource": "provider", + "report": "The agent's final action (step-27) is a critical state-changing error: it copies model2.bin (121MB) to /app/model.bin, violating the task's 150MB constraint with a model that achieves only 0.609 accuracy, failing the 0.62 requirement. The model was trained with 2-grams and dim=75, resulting in a file size exceeding limits. This is incorrect regardless of the unavailable final verification.", + "providerModel": "glm-5.2", + "providerDurationMs": 7680, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.015422, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-train-fasttext-36447b26", + "clusterId": "codetrace-task:train-fasttext", + "labelState": "unlabeled", + "repetition": 1, + "executionIndex": 7, + "latencyMs": 16175.834901, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_229852829fc5c03b0080", + "produced_at": "2026-07-30T15:36:02.060Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-3", + "claim": "Step 3 is incorrect. The agent attempted to import pandas without first verifying it was installed, causing a ModuleNotFoundError.", + "rationale": "The agent assumed pandas was available without checking; the error is minor as the agent quickly recovered by installing the package.", + "severity": "low", + "confidence": 0.4, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-train-fasttext-36447b26/span/step-3", + "excerpt": "python3 -c \"\nimport pandas as pd\nprint('=== TRAIN DATA ===')\ntrain_df = pd.read_parquet('data/train-00000-of-00001.parquet')\nprint('Shape:', train_df.shape)\nprint('Columns:', train_df.columns.tolist())\nprint('First few rows:')\nprint(train_df.head())\nprint('\\n=== TEST DATA ===')\ntest_df = pd.read_parquet('data/test-00000-of-00001.parquet')\nprint('Shape:', test_df.shape)\nprint('Columns:', test_df.columns.tolist())\nprint('First few rows:')\nprint(test_df.head())\n\"" + } + ], + "recommended_action": "Check available modules or install dependencies before importing.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_2931c2be822737ed09b3", + "produced_at": "2026-07-30T15:36:02.060Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-9", + "claim": "Step 9 is incorrect. The agent installed the Debian fasttext CLI package via apt-get but had just run 'pip install fasttext' in step-7 which apparently failed to provide a usable Python module, creating confusion about which fasttext to use.", + "rationale": "Step-7 'pip install fasttext' output was anomalous and step-6 confirmed fasttext was unavailable; the agent pivoted to apt-get install which provided the CLI tool. This is a reasonable recovery rather than a clear error.", + "severity": "medium", + "confidence": 0.3, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-train-fasttext-36447b26/span/step-9", + "excerpt": "apt-get update && apt-get install -y fasttext" + } + ], + "recommended_action": "Verify pip installation succeeded before switching installation methods.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_c01567478d13043b09e4", + "produced_at": "2026-07-30T15:36:02.060Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-14", + "claim": "Step 14 is incorrect. The first fasttext training command produced a 0-byte model.bin, indicating training was interrupted or failed, and the agent proceeded without investigating the root cause.", + "rationale": "The training command with dim=100, bucket=200000, epoch=10 produced an empty model.bin, suggesting a timeout or resource issue that the agent did not diagnose.", + "severity": "high", + "confidence": 0.6, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-train-fasttext-36447b26/span/step-14", + "excerpt": "fasttext supervised -input train.txt -output model -dim 100 -lr 0.1 -wordNgrams 2 -minCount 1 -bucket 200000 -epoch 10 -verbose 2" + } + ], + "recommended_action": "Investigate why training produced a 0-byte file before retrying with different parameters.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_f464814c4657387b1d7d", + "produced_at": "2026-07-30T15:36:02.060Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-22", + "claim": "Step 22 is incorrect. The training command for model4 produced a 0-byte model4.bin, indicating another interrupted or failed training run.", + "rationale": "The model4.bin file was 0 bytes, showing the training was interrupted or failed, yet the agent moved on without diagnosing the cause.", + "severity": "medium", + "confidence": 0.5, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-train-fasttext-36447b26/span/step-22", + "excerpt": "fasttext supervised -input train.txt -output model4 -dim 60 -lr 0.1 -wordNgrams 2 -minCount 4 -bucket 150000 -epoch 6" + } + ], + "recommended_action": "Check training logs or reduce parameters to prevent timeouts.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_0e122a84ba9bc9488861", + "produced_at": "2026-07-30T15:36:02.060Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-25", + "claim": "Step 25 is incorrect. The agent trained model5 with subword ngrams but never verified its accuracy or size before proceeding to use model2 instead.", + "rationale": "After training model5, the observation did not show its test results, and the agent immediately moved to try another training run without checking model5's performance.", + "severity": "high", + "confidence": 0.5, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-train-fasttext-36447b26/span/step-25", + "excerpt": "fasttext supervised -input train.txt -output model5 -dim 60 -lr 0.1 -wordNgrams 1 -minCount 3 -bucket 100000 -epoch 8 -minn 3 -maxn 6" + } + ], + "recommended_action": "Always evaluate a newly trained model before discarding it.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_a0dbec6e53594bc756ea", + "produced_at": "2026-07-30T15:36:02.060Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-27", + "claim": "Step 27 is incorrect. The agent copied model2.bin (121MB, 0.609 accuracy) to /app/model.bin and declared the task complete, despite the accuracy being below the required 0.62 threshold.", + "rationale": "The agent explicitly knew model2 achieved only 0.609 accuracy from step-24's test results, yet chose it as the final model and submitted, failing the accuracy requirement.", + "severity": "critical", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-train-fasttext-36447b26/span/step-27", + "excerpt": "cp model2.bin /app/model.bin && ls -lh /app/model.bin && echo \"Final model: 121MB, accuracy 0.609\" && echo COMPLETE_TASK_AND_SUBMIT_FINAL_OUTPUT" + } + ], + "recommended_action": "Continue training with better parameters or preprocessing until at least 0.62 accuracy is achieved before submitting.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 0, + "matchedIssueIds": [], + "missedIssueIds": [], + "supportedFindingIndexes": [], + "unsupportedFindingIndexes": [ + 0, + 1, + 2, + 3, + 4, + 5 + ], + "unlabeledEvidence": [], + "issueRecall": 1, + "findingPrecision": 0, + "f1": 0, + "criticalStepAccuracy": null, + "citationCoverage": 1, + "citationExcerptCoverage": 1, + "citationLabelAgreement": null, + "predictionOnLabelEmptyCase": true + }, + "evidenceResolution": { + "checked": 6, + "resolved": 6, + "unresolvedEvidence": [], + "errors": [], + "validity": 1 + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "Anthropic/Claude-Sonnet-4-20250514-Thinking", + "hard", + "model-training", + "data-processing", + "data-science" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-train-fasttext-36447b26", + "taskName": "train-fasttext", + "agent": "mini-SWE-agent", + "model": "Anthropic/Claude-Sonnet-4-20250514-Thinking", + "solved": false, + "stepCount": 28, + "labelSet": "incorrect-only", + "sourceRelpath": "miniswe/Anthropic__Claude-Sonnet-4-20250514-Thinking/miniswe-claude/train-fasttext/train-fasttext.1-of-1.claude-sonnet-4-20250514-thinking", + "difficulty": "hard", + "category": "model-training", + "traceFileRelativePath": "miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-train-fasttext-36447b26.otlp.jsonl", + "traceFileSha256": "210979b5c8b4c73b4ef0ca592429e04cbc55b24247ca676403da68076fe209ab", + "labelLeakScan": { + "passed": true, + "scannedBytes": 82026, + "scannedValues": 1761 + }, + "verificationArtifacts": { + "traceId": "miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-train-fasttext-36447b26", + "status": "missing", + "outcome": { + "status": "unavailable", + "reason": "missing-result", + "sources": [], + "passedCheckCount": 0, + "failedCheckCount": 0, + "passedChecks": [], + "failedChecks": [] + }, + "outcomeSpanId": "benchmark-verification-outcome-e62dfbb33d7f44c7", + "caseDirectory": "miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-train-fasttext-36447b26/miniswe/Anthropic__Claude-Sonnet-4-20250514-Thinking/miniswe-claude/train-fasttext/train-fasttext.1-of-1.claude-sonnet-4-20250514-thinking", + "caseDirectoriesSearched": [ + "miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-train-fasttext-36447b26/miniswe/Anthropic__Claude-Sonnet-4-20250514-Thinking/miniswe-claude/train-fasttext/train-fasttext.1-of-1.claude-sonnet-4-20250514-thinking", + "miniswe/Anthropic__Claude-Sonnet-4-20250514-Thinking/miniswe-claude/train-fasttext/train-fasttext.1-of-1.claude-sonnet-4-20250514-thinking" + ], + "totalBytes": 0, + "maxBytes": 8388608, + "files": [], + "missingRoles": [ + "final-test-output", + "final-result", + "final-metrics" + ], + "searched": { + "final-test-output": [ + "panes/post-test.txt", + "sessions/tests.log", + "test_output.txt" + ], + "final-result": [ + "results.json", + "result.json", + "report.json", + "*_result.json" + ], + "final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 53, + "output": 1007, + "reasoning": 0, + "cached": 24576 + }, + "cost": { + "kind": "estimated", + "usd": 0.0169928 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "responseSource": "provider", + "report": "The agent trains a fasttext model on yelp review data targeting <150MB and >=0.62 accuracy. It produced a 121MB model with 0.609 accuracy, claiming it as final. Step-27 copies model2.bin to /app/model.bin despite knowing it is 121MB and accuracy 0.609, both of which fail or borderline the requirements. Step-25 trained model5 with subword ngrams but results were apparently lost/unobserved, yet agent proceeded to use model2. The most critical incorrect action is step-27: the agent chose model2.bin knowing it was 121MB (under the limit) but with accuracy 0.609 (below the 0.62 threshold), then declared completion. Earlier steps with failed training (step-14 produced 0-byte model.bin, step-22 produced 0-byte model4.bin) were training interruptions or parameter choices that led to failed outputs; however, step-14's output was effectively a timeout/interruption producing a corrupt 0-byte model. Step-22 similarly produced a 0-byte model4.bin, indicating that training run was interrupted or failed. 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The initial listing revealed multiple issues: 'run_pipeline.sh' and 'process_data.sh' lacked execute permissions, 'collect_data.sh' had unusual permissions (--wx--x--x), and '/data/output' had restrictive permissions (d---------). The agent correctly fixed directory permissions, the 'collect_data.sh' execute permissions, and the '#!/bin/nonexistent' shebang in 'generate_report.sh'. After a failed pipeline run due to 'process_data.sh' failing to execute (returning 'required file not found'), the agent correctly diagnosed Windows-style line endings (CRLF) as the root cause and fixed them with 'sed -i 's/\\r$//''. The pipeline then ran successfully to completion. 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At step 6, the agent attempted to fix the shebang in generate_report.sh using sed, but the sed pattern '1s|#!/bin/nonexistent|#!/bin/bash|' did not match because the file already used '#!/bin/bash' as shown by the od output in step 18 (which showed no carriage returns in generate_report.sh, confirming it was already Unix-format with a correct shebang). The generate_report.sh content displayed in step 5 showed '#!/bin/nonexistent' but this was from cat output which may have been from a different state. More critically, the agent at step 18 ran 'od -c generate_report.sh | head -5' which revealed the file already had '#!/bin/bash' with Unix line endings (\\n not \\r\\n), meaning the sed fix in step 6 was based on an incorrect reading or the earlier cat output was misleading. However, examining more carefully: the cat output at step 5 showed '#!/bin/nonexistent' for generate_report.sh, and the sed at step 6 should have fixed it. The od output at step 18 showed '#!/bin/bash' confirming the sed worked. The agent's investigation steps (9-16) were diagnostic probes to discover the CRLF issue in process_data.sh, which is acceptable diagnostic behavior. The step 18 sed on generate_report.sh was redundant but not incorrect since the file had no CRLF issues and the sed would be a no-op. 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The agent attempted to extract the zip with the unpadded integer passcode '819', causing a wrong password error.", + "rationale": "The computed passcode was 819, but the zip required the zero-padded string '00819' (5 digits based on the % 100000 instruction). Using -p819 caused returncode 2 'Wrong password'.", + "severity": "high", + "confidence": 0.95, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-ancient-puzzle-b9a801ee/span/step-11", + "excerpt": "cd artifacts && 7z x final_clue.zip -p819 -aoa" + } + ], + "recommended_action": "Use zero-padded passcode format (e.g., -p00819) to match the 5-digit modulus result.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_af4e5bc2d58e642a39c6", + "produced_at": "2026-07-30T15:36:01.080Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-13", + "claim": "Step 13 is incorrect. The agent changed directory to / and then tried to run debug.py, causing a file-not-found error because debug.py was created in /app.", + "rationale": "The file debug.py was created at the current working directory (/app) in step-12, but the command 'cd / && python3 debug.py' looked for it in /, resulting in returncode 2 'No such file or directory'.", + "severity": "medium", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-ancient-puzzle-b9a801ee/span/step-13", + "excerpt": "cd / && python3 debug.py" + } + ], + "recommended_action": "Use an absolute path for the script (e.g., python3 /app/debug.py) or run it without changing directory incorrectly.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 0, + "matchedIssueIds": [], + "missedIssueIds": [], + "supportedFindingIndexes": [], + "unsupportedFindingIndexes": [ + 0, + 1 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-ancient-puzzle-b9a801ee/span/step-11", + "excerpt": "cd artifacts && 7z x final_clue.zip -p819 -aoa" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-ancient-puzzle-b9a801ee/span/step-13", + "excerpt": "cd / && python3 debug.py" + } + ], + "issueRecall": 1, + "findingPrecision": 0, + "f1": 0, + "criticalStepAccuracy": null, + "citationCoverage": 1, + "citationExcerptCoverage": 1, + "citationLabelAgreement": 0, + "predictionOnLabelEmptyCase": true + }, + "evidenceResolution": { + "checked": 2, + "resolved": 2, + "unresolvedEvidence": [], + "errors": [], + "validity": 1 + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "DeepSeek/DeepSeek-V3.2", + "easy", + "file-operations", + "puzzle", + "data-processing", + "tools", + "binary-execution", + "games" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-DeepSeek__DeepSeek-V3.2-ancient-puzzle-b9a801ee", + "taskName": "ancient-puzzle", + "agent": "mini-SWE-agent", + "model": "DeepSeek/DeepSeek-V3.2", + "solved": true, + "stepCount": 21, + "labelSet": "incorrect-only", + "sourceRelpath": "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/ancient-puzzle", + "difficulty": "easy", + "category": "file-operations", + "traceFileRelativePath": "miniswe-DeepSeek__DeepSeek-V3.2-ancient-puzzle-b9a801ee.otlp.jsonl", + "traceFileSha256": "afe95578ccff249aa364227ecc74688190178cefa7026cc7b61270549abbb297", + "labelLeakScan": { + "passed": true, + "scannedBytes": 46883, + "scannedValues": 1334 + }, + "verificationArtifacts": { + "traceId": "miniswe-DeepSeek__DeepSeek-V3.2-ancient-puzzle-b9a801ee", + "status": "missing", + "outcome": { + "status": "unavailable", + "reason": "missing-result", + "sources": [], + "passedCheckCount": 0, + "failedCheckCount": 0, + "passedChecks": [], + "failedChecks": [] + }, + "outcomeSpanId": "benchmark-verification-outcome-eac158932afdb66a", + "caseDirectory": "miniswe-DeepSeek__DeepSeek-V3.2-ancient-puzzle-b9a801ee/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/ancient-puzzle", + "caseDirectoriesSearched": [ + "miniswe-DeepSeek__DeepSeek-V3.2-ancient-puzzle-b9a801ee/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/ancient-puzzle", + "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/ancient-puzzle" + ], + "totalBytes": 0, + "maxBytes": 8388608, + "files": [], + "missingRoles": [ + "final-test-output", + "final-result", + "final-metrics" + ], + "searched": { + "final-test-output": [ + "panes/post-test.txt", + "sessions/tests.log", + "test_output.txt" + ], + "final-result": [ + "results.json", + "result.json", + "report.json", + "*_result.json" + ], + "final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 42, + "output": 492, + "reasoning": 0, + "cached": 15040 + }, + "cost": { + "kind": "estimated", + "usd": 0.010131600000000001 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "responseSource": "provider", + "report": "The agent explored the artifacts, read the instructions, and implemented the passcode computation correctly. However, at step-11, the agent used the computed integer passcode (819) directly as the zip password (-p819), resulting in a 'Wrong password' error (returncode 2). This was caused by the agent's incorrect implicit assumption that the computed integer was the exact string needed for the zip password. At step-13, the agent ran 'cd / && python3 debug.py' but encountered a 'No such file or directory' error (returncode 2) because the agent created debug.py at /app (via 'cat << EOF > debug.py') but then changed the working directory to /, which is a path/navigation error. The agent later recovered by trying the zero-padded format '00819' at step-16, which succeeded.", + "providerModel": "glm-5.2", + "providerDurationMs": 7499, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.010131600000000001, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-DeepSeek__DeepSeek-V3.2-ancient-puzzle-b9a801ee", + "clusterId": "codetrace-task:ancient-puzzle", + "labelState": "trusted-negative", + "repetition": 1, + "executionIndex": 15, + "latencyMs": 8117.188673000001, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_9cabb1a47c5afcfe9cfe", + "produced_at": "2026-07-30T15:36:05.615Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-11", + "claim": "Step 11 is incorrect. The agent extracted the zip with an incorrect password format '-p819', failing because the archive required a zero-padded 5-digit passcode.", + "rationale": "The instructions state Passcode = sum % 100000, implying a 5-digit result, and the extraction failed with return code 2. The correct passcode was later confirmed to be '00819'.", + "severity": "high", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-ancient-puzzle-b9a801ee/span/step-11", + "excerpt": "cd artifacts && 7z x final_clue.zip -p819 -aoa" + } + ], + "recommended_action": "Use zero-padded format '-p00819' matching the 5-digit modulo specification.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_af4e5bc2d58e642a39c6", + "produced_at": "2026-07-30T15:36:05.615Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-13", + "claim": "Step 13 is incorrect. The agent ran 'cd / && python3 debug.py' causing a 'No such file or directory' error because debug.py was created in /app, not in /.", + "rationale": "The heredoc in step 12 created debug.py relative to the working directory (/app), but 'cd /' changed the execution context to the root directory where the file did not exist.", + "severity": "medium", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-ancient-puzzle-b9a801ee/span/step-13", + "excerpt": "cd / && python3 debug.py" + } + ], + "recommended_action": "Run the script from /app without changing to /, e.g., 'python3 /app/debug.py' or simply 'python3 debug.py' from /app.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 0, + "matchedIssueIds": [], + "missedIssueIds": [], + "supportedFindingIndexes": [], + "unsupportedFindingIndexes": [ + 0, + 1 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-ancient-puzzle-b9a801ee/span/step-11", + "excerpt": "cd artifacts && 7z x final_clue.zip -p819 -aoa" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-ancient-puzzle-b9a801ee/span/step-13", + "excerpt": "cd / && python3 debug.py" + } + ], + "issueRecall": 1, + "findingPrecision": 0, + "f1": 0, + "criticalStepAccuracy": null, + "citationCoverage": 1, + "citationExcerptCoverage": 1, + "citationLabelAgreement": 0, + "predictionOnLabelEmptyCase": true + }, + "evidenceResolution": { + "checked": 2, + "resolved": 2, + "unresolvedEvidence": [], + "errors": [], + "validity": 1 + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "DeepSeek/DeepSeek-V3.2", + "easy", + "file-operations", + "puzzle", + "data-processing", + "tools", + "binary-execution", + "games" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-DeepSeek__DeepSeek-V3.2-ancient-puzzle-b9a801ee", + "taskName": "ancient-puzzle", + "agent": "mini-SWE-agent", + "model": "DeepSeek/DeepSeek-V3.2", + "solved": true, + "stepCount": 21, + "labelSet": "incorrect-only", + "sourceRelpath": "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/ancient-puzzle", + "difficulty": "easy", + "category": "file-operations", + "traceFileRelativePath": "miniswe-DeepSeek__DeepSeek-V3.2-ancient-puzzle-b9a801ee.otlp.jsonl", + "traceFileSha256": "afe95578ccff249aa364227ecc74688190178cefa7026cc7b61270549abbb297", + "labelLeakScan": { + "passed": true, + "scannedBytes": 46883, + "scannedValues": 1334 + }, + "verificationArtifacts": { + "traceId": "miniswe-DeepSeek__DeepSeek-V3.2-ancient-puzzle-b9a801ee", + "status": "missing", + "outcome": { + "status": "unavailable", + "reason": "missing-result", + "sources": [], + "passedCheckCount": 0, + "failedCheckCount": 0, + "passedChecks": [], + "failedChecks": [] + }, + "outcomeSpanId": "benchmark-verification-outcome-eac158932afdb66a", + "caseDirectory": "miniswe-DeepSeek__DeepSeek-V3.2-ancient-puzzle-b9a801ee/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/ancient-puzzle", + "caseDirectoriesSearched": [ + "miniswe-DeepSeek__DeepSeek-V3.2-ancient-puzzle-b9a801ee/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/ancient-puzzle", + "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/ancient-puzzle" + ], + "totalBytes": 0, + "maxBytes": 8388608, + "files": [], + "missingRoles": [ + "final-test-output", + "final-result", + "final-metrics" + ], + "searched": { + "final-test-output": [ + "panes/post-test.txt", + "sessions/tests.log", + "test_output.txt" + ], + "final-result": [ + "results.json", + "result.json", + "report.json", + "*_result.json" + ], + "final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 42, + "output": 485, + "reasoning": 0, + "cached": 15040 + }, + "cost": { + "kind": "estimated", + "usd": 0.0101162 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "responseSource": "provider", + "report": "The trajectory shows the agent solving an ancient puzzle. The agent correctly computed the passcode as 819 using the provided cipher instructions. In step 11, the agent attempted to extract the zip file using the computed passcode '-p819', which failed because the zip archive expected a zero-padded 5-digit passcode ('00819'). This is an incorrect state-changing action driven by the hypothesis that the passcode should be used as-is without padding. In step 13, the agent compounded this with a path error by running 'cd / && python3 debug.py', causing the script to not be found since debug.py was created in /app (relative to the working directory). This was a wrong action caused by a bad hypothesis about the working directory. The agent later correctly recovered by using '-p00819' in step 16, which succeeded.", + "providerModel": "glm-5.2", + "providerDurationMs": 8081, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.0101162, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a", + "clusterId": "codetrace-task:fix-ocaml-gc", + "labelState": "positive", + "repetition": 0, + "executionIndex": 16, + "latencyMs": 13094.764439, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_4191e6bf199c237511f1", + "produced_at": "2026-07-30T15:36:10.890Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-28", + "claim": "Step 28 is incorrect. The agent incorrectly simplified the merge calculation by removing the Wosize_hd(hd) term from the new free header size, causing incorrect free space tracking.", + "rationale": "Original: Wosize_hp(last_free_block) + Wosize_hd(hd) + 1. Agent changed to Wosize_hp(last_free_block) + 1. This omits the current block's size from the merged span, corrupting memory layout.", + "severity": "high", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/span/step-28", + "excerpt": "sed -i '626,627s/Wosize_hp(last_free_block) + Wosize_hd(hd) + 1/Wosize_hp(last_free_block) + 1/' ocaml/runtime/shared_heap.c" + } + ], + "recommended_action": "Restore the correct expression: Wosize_hp(last_free_block) + Wosize_hd(hd) + 1.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_ce5ce2fa720a9369734f", + "produced_at": "2026-07-30T15:36:10.890Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-30", + "claim": "Step 30 is incorrect. The agent further corrupted the merge logic by removing the +1 term from the calculation, leaving an incomplete formula.", + "rationale": "After step 28 left the expression as Wosize_hp + Wosize_hd(hd) + 1, step 30 removed Wosize_hd(hd)+1, leaving just Wosize_hp + 1 which is fundamentally wrong for merging adjacent free blocks.", + "severity": "high", + "confidence": 0.85, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/span/step-30", + "excerpt": "sed -i '627s/Wosize_hd(hd) + 1/1/' ocaml/runtime/shared_heap.c" + } + ], + "recommended_action": "Restore the correct merge expression including both block sizes and the header word.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_defdb30b41c81d5bd9b0", + "produced_at": "2026-07-30T15:36:10.890Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-54", + "claim": "Step 54 is incorrect. The agent inserted an additional else block with 'p += Whsize_hd(hd)' after line 644, corrupting the control flow by creating duplicate/misaligned else branches.", + "rationale": "The sed command appended text after line 644 which created a nested else block that doesn't match the original if-else structure, leading to malformed C code.", + "severity": "high", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/span/step-54", + "excerpt": "sed -i '644a\\ } else {\\n p += Whsize_hd(hd);\\n }' ocaml/runtime/shared_heap.c" + } + ], + "recommended_action": "Undo this insertion and ensure the pointer advancement logic follows the original branch structure.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_eb2ab390d172a3529b69", + "produced_at": "2026-07-30T15:36:10.890Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-60", + "claim": "Step 60 is incorrect. The agent applied a malformed patch that moved 'p += wh * Wosize_hd(hd)' into the wrong else branch and dropped the closing brace for the pool_sweep logic, corrupting the file structure.", + "rationale": "The patch reorganized the branches so that the free-block pointer advance ended up under the live-block else clause, and the resulting structure shown at step 61 has mismatched braces leading to build failures.", + "severity": "high", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/span/step-60", + "excerpt": "# Create a patch to fix the corrupted structure\ncat <<'EOF' > fix_structure.patch\n--- shared_heap.c\n+++ shared_heap.c\n@@ -642,15 +642,12 @@\n \n /* add the free blocks following this block, skipping over them */\n p += wh * Wosize_hd(hd);\n- } else {\n- p += Whsize_hd(hd);\n- }\n } else {\n /* there's still a live block, the pool can't be released to the global\n freelist */\n release_to_global_pool = 0;\n+ p += Whsize_hd(hd);\n }\n- p " + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 6, + "matchedIssueIds": [ + "incorrect:54", + "incorrect:60" + ], + "missedIssueIds": [ + "incorrect:56", + "incorrect:58", + "incorrect:59", + "incorrect:62" + ], + "supportedFindingIndexes": [ + 2, + 3 + ], + "unsupportedFindingIndexes": [ + 0, + 1 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/span/step-28", + "excerpt": "sed -i '626,627s/Wosize_hp(last_free_block) + Wosize_hd(hd) + 1/Wosize_hp(last_free_block) + 1/' ocaml/runtime/shared_heap.c" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/span/step-30", + "excerpt": "sed -i '627s/Wosize_hd(hd) + 1/1/' ocaml/runtime/shared_heap.c" + } + ], + "issueRecall": 0.3333333333333333, + "findingPrecision": 0.5, + "f1": 0.4, + "criticalStepAccuracy": null, + "citationCoverage": 1, + "citationExcerptCoverage": 1, + "citationLabelAgreement": 0.5, + "predictionOnLabelEmptyCase": false + }, + "evidenceResolution": { + "checked": 4, + "resolved": 4, + "unresolvedEvidence": [], + "errors": [], + "validity": 1 + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "DeepSeek/DeepSeek-V3.2", + "hard", + "software-engineering", + "troubleshooting" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a", + "taskName": "fix-ocaml-gc", + "agent": "mini-SWE-agent", + "model": "DeepSeek/DeepSeek-V3.2", + "solved": false, + "stepCount": 72, + "labelSet": "incorrect-only", + "sourceRelpath": "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/fix-ocaml-gc", + "difficulty": "hard", + "category": "software-engineering", + "traceFileRelativePath": "miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a.otlp.jsonl", + "traceFileSha256": "86293c04e8788a98646b52f71f9df90f72eb090203a6ae995673d0d71880c45e", + "labelLeakScan": { + "passed": true, + "scannedBytes": 223833, + "scannedValues": 4445 + }, + "verificationArtifacts": { + "traceId": "miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a", + "status": "missing", + "outcome": { + "status": "unavailable", + "reason": "missing-result", + "sources": [], + "passedCheckCount": 0, + "failedCheckCount": 0, + "passedChecks": [], + "failedChecks": [] + }, + "outcomeSpanId": "benchmark-verification-outcome-bed2984ae4744468", + "caseDirectory": "miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/fix-ocaml-gc", + "caseDirectoriesSearched": [ + "miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/fix-ocaml-gc", + "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/fix-ocaml-gc" + ], + "totalBytes": 0, + "maxBytes": 8388608, + "files": [], + "missingRoles": [ + "final-test-output", + "final-result", + "final-metrics" + ], + "searched": { + "final-test-output": [ + "panes/post-test.txt", + "sessions/tests.log", + "test_output.txt" + ], + "final-result": [ + "results.json", + "result.json", + "report.json", + "*_result.json" + ], + "final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 38, + "output": 775, + "reasoning": 0, + "cached": 47296 + }, + "cost": { + "kind": "estimated", + "usd": 0.0301054 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "responseSource": "provider", + "report": "The agent attempted to fix a bug in the OCaml garbage collector's sweeping code in shared_heap.c. After identifying the pool_sweep function and the free block merging logic, the agent made a series of incorrect state-changing edits. Step 25 corrected an operand order bug but then step 28 and step 30 introduced a new bug by dropping terms from the free block size calculation (Wosize_hp + Wosize_hd + 1 became Wosize_hp + 1), causing a build failure. After reverting those changes in steps 50 and 56-61, the agent mistakenly introduced duplicate else blocks at step 54 (inserting 'else { p += Whsize_hd(hd); }' incorrectly). The patch at step 60 removed the duplicate but corrupted the control flow by placing 'p += wh * Wosize_hd(hd)' in the wrong branch and dropping a brace, leading to persistent build failures (steps 64-65). The agent never recovered from this structural corruption and eventually gave up (step 72).", + "providerModel": "glm-5.2", + "providerDurationMs": 13058, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.0301054, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a", + "clusterId": "codetrace-task:fix-ocaml-gc", + "labelState": "positive", + "repetition": 1, + "executionIndex": 19, + "latencyMs": 19180.197698, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_0e122a84ba9bc9488861", + "produced_at": "2026-07-30T15:36:20.267Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-25", + "claim": "Step 25 is incorrect. The agent applied an algebraically equivalent swap of multiplication operands `(1 + Wosize_hp(last_free_block)) * wh` to `wh * (1 + Wosize_hp(last_free_block))` under the incorrect hypothesis that it would fix the bug.", + "rationale": "The change was semantically meaningless and did not address the actual run-length compression bug.", + "severity": "low", + "confidence": 0.8, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/span/step-25", + "excerpt": "sed -i '624s/last_free_block + (1 + Wosize_hp(last_free_block)) \\* wh == p/last_free_block + wh * (1 + Wosize_hp(last_free_block)) == p/' ocaml/runtime/shared_heap.c" + } + ], + "recommended_action": "Identify the actual root cause of the defect rather than swapping algebraically equivalent terms.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_4191e6bf199c237511f1", + "produced_at": "2026-07-30T15:36:20.267Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-28", + "claim": "Step 28 is incorrect. The agent removed `Wosize_hd(hd)` from the merge size calculation, corrupting the logic that tracks contiguous free blocks.", + "rationale": "When merging a freed block with the previous free block, the new wosize must be the sum of both blocks' sizes plus one for the header. Removing `Wosize_hd(hd)` breaks the run-length count.", + "severity": "critical", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/span/step-28", + "excerpt": "sed -i '626,627s/Wosize_hp(last_free_block) + Wosize_hd(hd) + 1/Wosize_hp(last_free_block) + 1/' ocaml/runtime/shared_heap.c" + } + ], + "recommended_action": "The merge calculation should add the current block's wosize.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_2ae8e94e0f1b0b70a2ca", + "produced_at": "2026-07-30T15:36:20.267Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-42", + "claim": "Step 42 is incorrect. The agent incorrectly changed `POOL_FREE_HEADER(0)` to `POOL_FREE_HEADER(1)` on line 590 based on an unsupported hypothesis.", + "rationale": "This change altered the header size representation of free blocks with no evidence it was the source of the bug; the agent later reverted it.", + "severity": "medium", + "confidence": 0.85, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/span/step-42", + "excerpt": "sed -i '590s/POOL_FREE_HEADER(0)/POOL_FREE_HEADER(1)/' ocaml/runtime/shared_heap.c" + } + ], + "recommended_action": "Avoid speculative edits to constants without understanding the encoding.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_dd2d583f61bfb7488424", + "produced_at": "2026-07-30T15:36:20.267Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-43", + "claim": "Step 43 is incorrect. The agent incorrectly changed `POOL_FREE_HEADER(0)` to `POOL_FREE_HEADER(1)` on line 607 based on an unsupported hypothesis.", + "rationale": "This change was speculative and later reverted in step 50, indicating it was an incorrect action.", + "severity": "medium", + "confidence": 0.85, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/span/step-43", + "excerpt": "sed -i '607s/POOL_FREE_HEADER(0)/POOL_FREE_HEADER(1)/' ocaml/runtime/shared_heap.c" + } + ], + "recommended_action": "Avoid speculative edits to constants without understanding the encoding.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_defdb30b41c81d5bd9b0", + "produced_at": "2026-07-30T15:36:20.267Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-54", + "claim": "Step 54 is incorrect. The agent inserted a malformed `else` clause via sed, corrupting the C control flow structure of the file and causing build failures.", + "rationale": "The observation at step 55 shows duplicate `} else {` blocks, breaking the if/else chain for sweeping logic.", + "severity": "critical", + "confidence": 0.95, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/span/step-54", + "excerpt": "sed -i '644a\\ } else {\\n p += Whsize_hd(hd);\\n }' ocaml/runtime/shared_heap.c" + } + ], + "recommended_action": "Do not use line-number-based sed appends for control flow changes; rewrite the full block correctly.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_21d65485a5baab2434a7", + "produced_at": "2026-07-30T15:36:20.267Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-56", + "claim": "Step 56 is incorrect. The agent created a malformed patch file that failed to apply.", + "rationale": "The patch failed with 'malformed patch at line 25' because the heredoc content was not properly formatted.", + "severity": "medium", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/span/step-56", + "excerpt": "cat <<'EOF' > fix_sweep.patch\n--- shared_heap.c.orig\n+++ shared_heap.c\n@@ -641,16 +641,18 @@\n last_free_block = p;\n }\n \n /* add the free blocks following this block, skipping over them */\n p += wh * Wosize_hd(hd);\n- } else {\n- /* there's still a live block, the pool can't be released to the global\n- freelist */\n- release_to_global_pool = 0;\n }\n- p += Whsize_hd(hd);\n+ } else {\n+ /* there's still a live block, the pool can'" + } + ], + "recommended_action": "Ensure patch context lines and diff syntax are correct.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_eb2ab390d172a3529b69", + "produced_at": "2026-07-30T15:36:20.267Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-60", + "claim": "Step 60 is incorrect. The agent applied a patch that incorrectly restructured the control flow, moving `p += Whsize_hd(hd)` into the free-block branch and separating it from the live-block else branch.", + "rationale": "The observation at step 61 shows `p += Whsize_hd(hd)` now only executes for free blocks, not for all blocks including live ones, which breaks pointer advancement over live blocks.", + "severity": "critical", + "confidence": 0.85, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/span/step-60", + "excerpt": "# Create a patch to fix the corrupted structure\ncat <<'EOF' > fix_structure.patch\n--- shared_heap.c\n+++ shared_heap.c\n@@ -642,15 +642,12 @@\n \n /* add the free blocks following this block, skipping over them */\n p += wh * Wosize_hd(hd);\n- } else {\n- p += Whsize_hd(hd);\n- }\n } else {\n /* there's still a live block, the pool can't be released to the global\n freelist */\n release_to_global_pool = 0;\n+ p += Whsize_hd(hd);\n }\n- p " + } + ], + "recommended_action": "The pointer advancement `p += Whsize_hd(hd)` must remain in the shared code path or be correctly placed in both branches.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_a9f98e21d68aa9bcb0d0", + "produced_at": "2026-07-30T15:36:20.267Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-68", + "claim": "Step 68 is incorrect. The agent attempted to compile a standalone test file from the wrong directory, resulting in a 'No such file' error.", + "rationale": "The heredoc wrote the file in the current directory but the `cd ocaml &&` prefix meant the gcc command ran in ocaml/ where the file was not created.", + "severity": "low", + "confidence": 0.8, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/span/step-68", + "excerpt": "cat <<'EOF' > test_gc.c\n#include \n#include \n#include \"caml/mlvalues.h\"\n#include \"caml/memory.h\"\n#include \"caml/fail.h\"\n#include \"caml/misc.h\"\n#include \"caml/major_gc.h\"\n\nint main() {\n printf(\"Testing GC sweep functionality...\\n\");\n \n // Simple test to see if the basic GC structures compile\n printf(\"Basic GC structures seem OK\\n\");\n \n return 0;\n}\nEOF\n\ncd ocaml && gcc -I runtime/caml -c test_gc.c -o test_gc.o && echo \"Compilation test passed\" || echo \"Compilation test fail" + } + ], + "recommended_action": "Create test files in the directory where compilation will run, or use absolute paths.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 6, + "matchedIssueIds": [ + "incorrect:54", + "incorrect:56", + "incorrect:60" + ], + "missedIssueIds": [ + "incorrect:58", + "incorrect:59", + "incorrect:62" + ], + "supportedFindingIndexes": [ + 4, + 5, + 6 + ], + "unsupportedFindingIndexes": [ + 0, + 1, + 2, + 3, + 7 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/span/step-25", + "excerpt": "sed -i '624s/last_free_block + (1 + Wosize_hp(last_free_block)) \\* wh == p/last_free_block + wh * (1 + Wosize_hp(last_free_block)) == p/' ocaml/runtime/shared_heap.c" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/span/step-28", + "excerpt": "sed -i '626,627s/Wosize_hp(last_free_block) + Wosize_hd(hd) + 1/Wosize_hp(last_free_block) + 1/' ocaml/runtime/shared_heap.c" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/span/step-42", + "excerpt": "sed -i '590s/POOL_FREE_HEADER(0)/POOL_FREE_HEADER(1)/' ocaml/runtime/shared_heap.c" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/span/step-43", + "excerpt": "sed -i '607s/POOL_FREE_HEADER(0)/POOL_FREE_HEADER(1)/' ocaml/runtime/shared_heap.c" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a/span/step-68", + "excerpt": "cat <<'EOF' > test_gc.c\n#include \n#include \n#include \"caml/mlvalues.h\"\n#include \"caml/memory.h\"\n#include \"caml/fail.h\"\n#include \"caml/misc.h\"\n#include \"caml/major_gc.h\"\n\nint main() {\n printf(\"Testing GC sweep functionality...\\n\");\n \n // Simple test to see if the basic GC structures compile\n printf(\"Basic GC structures seem OK\\n\");\n \n return 0;\n}\nEOF\n\ncd ocaml && gcc -I runtime/caml -c test_gc.c -o test_gc.o && echo \"Compilation test passed\" || echo \"Compilation test fail" + } + ], + "issueRecall": 0.5, + "findingPrecision": 0.375, + "f1": 0.42857142857142855, + "criticalStepAccuracy": null, + "citationCoverage": 1, + "citationExcerptCoverage": 1, + "citationLabelAgreement": 0.375, + "predictionOnLabelEmptyCase": false + }, + "evidenceResolution": { + "checked": 8, + "resolved": 8, + "unresolvedEvidence": [], + "errors": [], + "validity": 1 + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "DeepSeek/DeepSeek-V3.2", + "hard", + "software-engineering", + "troubleshooting" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-DeepSeek__DeepSeek-V3.2-fix-ocaml-gc-2299ab4a", + "taskName": "fix-ocaml-gc", + "agent": "mini-SWE-agent", + "model": "DeepSeek/DeepSeek-V3.2", + "solved": false, + "stepCount": 72, + "labelSet": "incorrect-only", + "sourceRelpath": 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"provider", + "report": "The agent attempted to fix a bug in the OCaml garbage collector's `pool_sweep` function within `shared_heap.c` related to run-length compressing free space. The agent hypothesized the bug was in the merge logic (line 624) and changed `(1 + Wosize_hp(last_free_block)) * wh` to `wh * (1 + Wosize_hp(last_free_block))` (step 25, step 62). While algebraically equivalent, this was not the core bug. The agent then incorrectly modified the wosize update during merge (step 28), removing `Wosize_hd(hd) + 1` and leaving only `+ 1` (step 30), which was logically wrong as it dropped the current block's size. The agent next changed `POOL_FREE_HEADER(0)` to `POOL_FREE_HEADER(1)` on lines 590 and 607 (steps 42-43), which was incorrect and later reverted (step 50). The agent then inserted a malformed `else` clause that corrupted the C control structure (step 54), leading to subsequent build failures. The agent attempted to fix this with a malformed patch (step 56) and then a manually crafted patch (step 60) that altered the control flow to separate the pointer advancement `p += Whsize_hd(hd)` from the original shared else block into the free-block branch, which was incorrect relative to the original structure. The agent then re-applied the algebraically equivalent swap on line 624 (step 62). The subsequent build attempts failed. The agent abandoned fixing the actual bootstrap issue and instead attempted to compile a standalone test file (step 68) but ran it from the wrong directory. The agent finally ended the task while tests were still failing.", + "providerModel": "glm-5.2", + "providerDurationMs": 19135, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.0313418, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-DeepSeek__DeepSeek-V3.2-git-workflow-hack-e602a230", + "clusterId": "codetrace-task:git-workflow-hack", + "labelState": "positive", + "repetition": 0, + "executionIndex": 20, + "latencyMs": 6404.7190290000035, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_c01567478d13043b09e4", + "produced_at": "2026-07-30T15:36:08.472Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-14", + "claim": "Step 14 is incorrect. The agent attempted to run npm install without verifying if Node.js/npm was available in the environment.", + "rationale": "The command failed with return code 127 (npm: not found), but the agent successfully recovered by rewriting the build script in Python.", + "severity": "low", + "confidence": 0.7, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-git-workflow-hack-e602a230/span/step-14", + "excerpt": "cd my_website && npm install" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 2, + "matchedIssueIds": [ + "incorrect:14" + ], + "missedIssueIds": [ + "incorrect:13" + ], + "supportedFindingIndexes": [ + 0 + ], + "unsupportedFindingIndexes": [], + "unlabeledEvidence": [], + "issueRecall": 0.5, + "findingPrecision": 1, + "f1": 0.6666666666666666, + "criticalStepAccuracy": null, + "citationCoverage": 1, + "citationExcerptCoverage": 1, + "citationLabelAgreement": 1, + "predictionOnLabelEmptyCase": false + }, + "evidenceResolution": { + "checked": 1, + "resolved": 1, + "unresolvedEvidence": [], + "errors": [], + "validity": 1 + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "DeepSeek/DeepSeek-V3.2", + "easy", + "security", + "security", + "file-operations", + "package-management" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-DeepSeek__DeepSeek-V3.2-git-workflow-hack-e602a230", + "taskName": "git-workflow-hack", + "agent": "mini-SWE-agent", + "model": "DeepSeek/DeepSeek-V3.2", + "solved": true, + "stepCount": 25, + "labelSet": "incorrect-only", + "sourceRelpath": "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/git-workflow-hack", + "difficulty": "easy", + "category": "security", + "traceFileRelativePath": "miniswe-DeepSeek__DeepSeek-V3.2-git-workflow-hack-e602a230.otlp.jsonl", + "traceFileSha256": "4d69abca4521f5e3e1b100db7582e87db10a17e0ae4895481f68736d1a244c64", + "labelLeakScan": { + "passed": true, + "scannedBytes": 68111, + "scannedValues": 1578 + }, + "verificationArtifacts": { + "traceId": "miniswe-DeepSeek__DeepSeek-V3.2-git-workflow-hack-e602a230", + "status": "missing", + "outcome": { + "status": "unavailable", + "reason": "missing-result", + "sources": [], + "passedCheckCount": 0, + "failedCheckCount": 0, + "passedChecks": [], + "failedChecks": [] + }, + "outcomeSpanId": "benchmark-verification-outcome-b277fc762a82ac5a", + "caseDirectory": "miniswe-DeepSeek__DeepSeek-V3.2-git-workflow-hack-e602a230/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/git-workflow-hack", + "caseDirectoriesSearched": [ + "miniswe-DeepSeek__DeepSeek-V3.2-git-workflow-hack-e602a230/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/git-workflow-hack", + "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/git-workflow-hack" + ], + "totalBytes": 0, + "maxBytes": 8388608, + "files": [], + "missingRoles": [ + "final-test-output", + "final-result", + "final-metrics" + ], + "searched": { + "final-test-output": [ + "panes/post-test.txt", + "sessions/tests.log", + "test_output.txt" + ], + "final-result": [ + "results.json", + "result.json", + "report.json", + "*_result.json" + ], + "final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 45, + "output": 234, + "reasoning": 0, + "cached": 19968 + }, + "cost": { + "kind": "estimated", + "usd": 0.0125226 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "responseSource": "provider", + "report": "The agent correctly identified and removed a malicious workflow step that exfiltrated the repository to an external server. However, it introduced a regression by switching from a Node.js build system (npm) to Python without removing the orphaned package. dependency on 'marked' and build.js. Furthermore, the new Python build.py incorrectly replaces all '\\n' with '
', mangling the HTML structure and rendering the generated HTML pages malformed. While npm is not installed in the local environment (resulting in a failed step-14 command), the agent correctly recovered by rewriting the build logic in Python. The workflow file was appropriately updated to use the Python build.", + "providerModel": "glm-5.2", + "providerDurationMs": 6370, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.0125226, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-DeepSeek__DeepSeek-V3.2-git-workflow-hack-e602a230", + "clusterId": "codetrace-task:git-workflow-hack", + "labelState": "positive", + "repetition": 1, + "executionIndex": 23, + "latencyMs": 8243.555668999998, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_c01567478d13043b09e4", + "produced_at": "2026-07-30T15:36:10.359Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-14", + "claim": "Step 14 is incorrect. The agent attempted to run npm install based on the incorrect hypothesis that Node.js was available in the environment, causing a command failure.", + "rationale": "The command `cd my_website && npm install` failed with return code 127 and error '/bin/sh: 1: npm: not found'.", + "severity": "medium", + "confidence": 1, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-git-workflow-hack-e602a230/span/step-14", + "excerpt": "cd my_website && npm install" + } + ], + "recommended_action": "Check for the availability of build tools or use a language known to be available.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_a32fca3d49954785240b", + "produced_at": "2026-07-30T15:36:10.359Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-23", + "claim": "Step 23 is incorrect. The agent attempted to commit changes without configuring git user identity, causing the commit to fail.", + "rationale": "The git commit in step 23 failed with return code 128 because git author identity was unknown.", + "severity": "low", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-git-workflow-hack-e602a230/span/step-23", + "excerpt": "cd my_website && git init && git add . && git commit -m \"Transform repository into personal website with research profile design\\n\\n- Remove suspicious workflow steps for security\\n- Create Python build script to generate HTML pages from info.md\\n- Generate About Me, Blog, and Publications pages\\n- Update GitHub workflow to use Python build process\\n- Add README with project documentation\"" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 2, + "matchedIssueIds": [ + "incorrect:14" + ], + "missedIssueIds": [ + "incorrect:13" + ], + "supportedFindingIndexes": [ + 0 + ], + "unsupportedFindingIndexes": [ + 1 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-git-workflow-hack-e602a230/span/step-23", + "excerpt": "cd my_website && git init && git add . && git commit -m \"Transform repository into personal website with research profile design\\n\\n- Remove suspicious workflow steps for security\\n- Create Python build script to generate HTML pages from info.md\\n- Generate About Me, Blog, and Publications pages\\n- Update GitHub workflow to use Python build process\\n- Add README with project documentation\"" + } + ], + "issueRecall": 0.5, + "findingPrecision": 0.5, + "f1": 0.5, + "criticalStepAccuracy": null, + "citationCoverage": 1, + "citationExcerptCoverage": 1, + "citationLabelAgreement": 0.5, + "predictionOnLabelEmptyCase": false + }, + "evidenceResolution": { + "checked": 2, + "resolved": 2, + "unresolvedEvidence": [], + "errors": [], + "validity": 1 + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "DeepSeek/DeepSeek-V3.2", + "easy", + "security", + "security", + "file-operations", + "package-management" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-DeepSeek__DeepSeek-V3.2-git-workflow-hack-e602a230", + "taskName": "git-workflow-hack", + "agent": "mini-SWE-agent", + "model": "DeepSeek/DeepSeek-V3.2", + "solved": true, + "stepCount": 25, + "labelSet": "incorrect-only", + "sourceRelpath": "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/git-workflow-hack", + "difficulty": "easy", + "category": "security", + "traceFileRelativePath": "miniswe-DeepSeek__DeepSeek-V3.2-git-workflow-hack-e602a230.otlp.jsonl", + "traceFileSha256": "4d69abca4521f5e3e1b100db7582e87db10a17e0ae4895481f68736d1a244c64", + "labelLeakScan": { + "passed": true, + "scannedBytes": 68111, + "scannedValues": 1578 + }, + "verificationArtifacts": { + "traceId": "miniswe-DeepSeek__DeepSeek-V3.2-git-workflow-hack-e602a230", + "status": "missing", + "outcome": { + "status": "unavailable", + "reason": "missing-result", + "sources": [], + "passedCheckCount": 0, + "failedCheckCount": 0, + "passedChecks": [], + "failedChecks": [] + }, + "outcomeSpanId": "benchmark-verification-outcome-b277fc762a82ac5a", + "caseDirectory": "miniswe-DeepSeek__DeepSeek-V3.2-git-workflow-hack-e602a230/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/git-workflow-hack", + "caseDirectoriesSearched": [ + "miniswe-DeepSeek__DeepSeek-V3.2-git-workflow-hack-e602a230/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/git-workflow-hack", + "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/git-workflow-hack" + ], + "totalBytes": 0, + "maxBytes": 8388608, + "files": [], + "missingRoles": [ + "final-test-output", + "final-result", + "final-metrics" + ], + "searched": { + "final-test-output": [ + "panes/post-test.txt", + "sessions/tests.log", + "test_output.txt" + ], + "final-result": [ + "results.json", + "result.json", + "report.json", + "*_result.json" + ], + "final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 45, + "output": 414, + "reasoning": 0, + "cached": 19968 + }, + "cost": { + "kind": "estimated", + "usd": 0.0129186 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "responseSource": "provider", + "report": "The agent successfully identified and removed suspicious activity (a data exfiltration step that uploaded a repo archive to a malicious domain) from the GitHub Actions workflow. However, the initial implementation approach was flawed. The agent created a Node.js project (package. and build.js) with a dependency on an external package and attempted to run `npm install` (step 14), which predictably failed because npm was not available in the environment. The agent then recovered by switching to a Python-based build script, which executed successfully. This Node.js path represents an incorrect hypothesis about the build environment and wasted steps. Additionally, the initial Node.js implementation in build.js (step 13) contained bugs: it assumed all sections from the markdown (including 'skills & tools' and 'contact') existed without validation, and it referenced the 'marked' library without verifying its availability. Finally, in step 23, the agent attempted a git commit without configuring git identity, which failed and required a corrective action in step 24.", + "providerModel": "glm-5.2", + "providerDurationMs": 8210, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.0129186, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181", + "clusterId": "codetrace-task:build-cython-ext", + "labelState": "positive", + "repetition": 0, + "executionIndex": 24, + "latencyMs": 14382.650285, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_5dd7f9b68ad1e9cfbbbf", + "produced_at": "2026-07-30T15:36:19.913Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-8", + "claim": "Step 8 is incorrect. Used pip install with build isolation which prevented Cython compilation, producing a pure Python editable install without compiled extensions.", + "rationale": "The pip install output shows it built an editable py3-none-any wheel with no compiled extensions. Subsequent tests showed the Cython modules could not be imported.", + "severity": "high", + "confidence": 0.95, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181/span/step-8", + "excerpt": "cd /app/pyknotid && pip install -e . --no-deps" + } + ], + "recommended_action": "Use --no-build-isolation flag and ensure Cython is installed in the build environment, or use setup.py build_ext --inplace first.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_98320c3661fe9592efd8", + "produced_at": "2026-07-30T15:36:19.913Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-12", + "claim": "Step 12 is incorrect. Used bash process substitution syntax incompatible with /bin/sh, causing a shell syntax error.", + "rationale": "The command used <(echo ...) which is bash-specific; the default shell /bin/sh does not support it, as shown by the error 'Syntax error: ( unexpected'.", + "severity": "medium", + "confidence": 0.95, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181/span/step-12", + "excerpt": "cd /app/pyknotid && pip install -r <(echo \"numpy==2.3.0\\nnetworkx\\nplanarity\\npeewee\\nvispy\\nsympy\\nappdirs\\nrequests\\ntqdm\") && pip install -e . --no-build-isolation --force-reinstall" + } + ], + "recommended_action": "Create a requirements.txt file first using echo/printf, then run pip install -r requirements.txt.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_af4e5bc2d58e642a39c6", + "produced_at": "2026-07-30T15:36:19.913Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-13", + "claim": "Step 13 is incorrect. Created requirements.txt inside the source directory, which pip interpreted as an editable install path requirement, causing an invalid editable requirement error.", + "rationale": "The error message indicates pip tried to process numpy==2.3.0 from the requirements file as an editable requirement, suggesting pip was invoked in editable mode against the file path.", + "severity": "high", + "confidence": 0.85, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181/span/step-13", + "excerpt": "cd /app/pyknotid && echo -e \"numpy==2.3.0\\nnetworkx\\nplanarity\\npeewee\\nvispy\\nsympy\\nappdirs\\nrequests\\ntqdm\" > requirements.txt && pip install -r requirements.txt" + } + ], + "recommended_action": "Separate the pip install -r requirements.txt command from the editable install command.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_f464814c4657387b1d7d", + "produced_at": "2026-07-30T15:36:19.913Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-22", + "claim": "Step 22 is incorrect. Used find with -o without grouping parentheses, causing sed to only process .pyx files and miss .py files containing n.float.", + "rationale": "The find command 'find /app/pyknotid -name *.py -o -name *.pyx' without parentheses evaluates xargs grep only on .pyx files. The subsequent error in named.py at line 55 shows n.float was not properly fixed in .py files, and a broken replacement from n.float64 to float64 occurred.", + "severity": "high", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181/span/step-22", + "excerpt": "find /app/pyknotid -name \"*.py\" -o -name \"*.pyx\" | xargs grep -l \"n\\.float\" | xargs sed -i 's/n\\.float/float/g'" + } + ], + "recommended_action": "Use 'find /app/pyknotid \\( -name \"*.py\" -o -name \"*.pyx\" \\)' with proper grouping, or use grep -r with include patterns.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_3babfb66ac7736f5eb03", + "produced_at": "2026-07-30T15:36:19.913Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-26", + "claim": "Step 26 is incorrect. Used find with -o without grouping parentheses to replace n.complex, potentially missing .py files containing n.complex.", + "rationale": "The same find syntax issue from step 22 was repeated. Only .pyx files would have been processed by the xargs pipeline, potentially leaving .py files with n.complex unfixed.", + "severity": "medium", + "confidence": 0.8, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181/span/step-26", + "excerpt": "find /app/pyknotid -name \"*.py\" -o -name \"*.pyx\" | xargs grep -l \"n\\.complex\" | xargs sed -i 's/n\\.complex/complex/g'" + } + ], + "recommended_action": "Use 'find /app/pyknotid \\( -name \"*.py\" -o -name \"*.pyx\" \\)' with proper grouping, or use grep -r with include patterns.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 3, + "matchedIssueIds": [ + "incorrect:12", + "incorrect:13" + ], + "missedIssueIds": [ + "incorrect:15" + ], + "supportedFindingIndexes": [ + 1, + 2 + ], + "unsupportedFindingIndexes": [ + 0, + 3, + 4 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181/span/step-8", + "excerpt": "cd /app/pyknotid && pip install -e . --no-deps" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181/span/step-22", + "excerpt": "find /app/pyknotid -name \"*.py\" -o -name \"*.pyx\" | xargs grep -l \"n\\.float\" | xargs sed -i 's/n\\.float/float/g'" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181/span/step-26", + "excerpt": "find /app/pyknotid -name \"*.py\" -o -name \"*.pyx\" | xargs grep -l \"n\\.complex\" | xargs sed -i 's/n\\.complex/complex/g'" + } + ], + "issueRecall": 0.6666666666666666, + "findingPrecision": 0.4, + "f1": 0.5, + "criticalStepAccuracy": null, + "citationCoverage": 1, + "citationExcerptCoverage": 1, + "citationLabelAgreement": 0.4, + "predictionOnLabelEmptyCase": false + }, + "evidenceResolution": { + "checked": 5, + "resolved": 5, + "unresolvedEvidence": [], + "errors": [], + "validity": 1 + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "DeepSeek/DeepSeek-V3.2", + "medium", + "debugging", + "coding", + "dependency", + "compilation" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181", + "taskName": "build-cython-ext", + "agent": "mini-SWE-agent", + "model": "DeepSeek/DeepSeek-V3.2", + "solved": false, + "stepCount": 28, + "labelSet": "incorrect-only", + "sourceRelpath": "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/build-cython-ext", + "difficulty": "medium", + "category": "debugging", + "traceFileRelativePath": "miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181.otlp.jsonl", + "traceFileSha256": "742fcf0ab8c0bddf3f9ef268918df6d37c9a144db208d1b41e588e45355551da", + "labelLeakScan": { + "passed": true, + "scannedBytes": 81299, + "scannedValues": 1761 + }, + "verificationArtifacts": { + "traceId": "miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181", + "status": "missing", + "outcome": { + "status": "unavailable", + "reason": "missing-result", + "sources": [], + "passedCheckCount": 0, + "failedCheckCount": 0, + "passedChecks": [], + "failedChecks": [] + }, + "outcomeSpanId": "benchmark-verification-outcome-becfae6d0b3e8ab5", + "caseDirectory": "miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/build-cython-ext", + "caseDirectoriesSearched": [ + "miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/build-cython-ext", + "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/build-cython-ext" + ], + "totalBytes": 0, + "maxBytes": 8388608, + "files": [], + "missingRoles": [ + "final-test-output", + "final-result", + "final-metrics" + ], + "searched": { + "final-test-output": [ + "panes/post-test.txt", + "sessions/tests.log", + "test_output.txt" + ], + "final-result": [ + "results.json", + "result.json", + "report.json", + "*_result.json" + ], + "final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 31, + "output": 986, + "reasoning": 0, + "cached": 24640 + }, + "cost": { + "kind": "estimated", + "usd": 0.0169718 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "responseSource": "provider", + "report": "The agent built and installed pyknotid from source with Cython extensions for numpy 2.3.0 compatibility. It identified and fixed several numpy deprecation issues (n.float -> float, n.complex -> complex, from fractions import gcd -> from math import gcd). The final README snippet succeeded.\n\nSeveral incorrect steps were found:\n- Step 8 (pip install -e . --no-deps) used build isolation which prevented the Cython extensions from being compiled, resulting in a pure Python editable wheel without the compiled .so files.\n- Step 12 used bash process substitution `<(...)` syntax which failed with a shell syntax error because the default shell is /bin/sh.\n- Step 13 created a requirements.txt file inside the source directory and attempted to use it as an editable install path, resulting in a pip error about an invalid editable requirement.\n- Step 22 ran a sed command to replace n.float with float across the codebase, but the find command lacked grouping parentheses, causing only .pyx files to be searched. This missed .py files containing n.float, leading to a subsequent error. The agent then fixed the resulting breakage with a targeted sed in step 24.\n- Step 26 used the same incorrect find command syntax to replace n.complex with complex, potentially missing .py files containing that pattern.", + "providerModel": "glm-5.2", + "providerDurationMs": 14255, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.0169718, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181", + "clusterId": "codetrace-task:build-cython-ext", + "labelState": "positive", + "repetition": 1, + "executionIndex": 27, + "latencyMs": 12452.789699, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_5dd7f9b68ad1e9cfbbbf", + "produced_at": "2026-07-30T15:36:20.936Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-8", + "claim": "Step 8 is incorrect. Used `pip install -e . --no-deps` which created a Python-only editable wheel without compiling the required Cython extensions.", + "rationale": "The install output shows `pyknotid-0.5.3-0.editable-py3-none-any.whl` was built, indicating no Cython compilation occurred, which is the core task requirement.", + "severity": "medium", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181/span/step-8", + "excerpt": "cd /app/pyknotid && pip install -e . --no-deps" + } + ], + "recommended_action": "Use `pip install -e . --no-build-isolation` or `python setup.py build_ext --inplace` after ensuring Cython is installed.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_98320c3661fe9592efd8", + "produced_at": "2026-07-30T15:36:20.936Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-12", + "claim": "Step 12 is incorrect. Used bash process substitution syntax `<(echo ...)` in a /bin/sh environment which caused a syntax error.", + "severity": "low", + "confidence": 1, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181/span/step-12", + "excerpt": "cd /app/pyknotid && pip install -r <(echo \"numpy==2.3.0\\nnetworkx\\nplanarity\\npeewee\\nvispy\\nsympy\\nappdirs\\nrequests\\ntqdm\") && pip install -e . --no-build-isolation --force-reinstall" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_af4e5bc2d58e642a39c6", + "produced_at": "2026-07-30T15:36:20.936Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-13", + "claim": "Step 13 is incorrect. Running `pip install -r requirements.txt` from the `/app/pyknotid` directory caused pip to interpret `numpy==2.3.0` in the requirements file as an invalid editable requirement.", + "rationale": "The error states `numpy==2.3.0 is not a valid editable requirement`, which occurs when pip is run from a directory containing a Python package and attempts to parse a version-pinned requirement as a local path.", + "severity": "high", + "confidence": 0.85, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181/span/step-13", + "excerpt": "cd /app/pyknotid && echo -e \"numpy==2.3.0\\nnetworkx\\nplanarity\\npeewee\\nvispy\\nsympy\\nappdirs\\nrequests\\ntqdm\" > requirements.txt && pip install -r requirements.txt" + } + ], + "recommended_action": "Change to a different directory like `/app` before running `pip install -r /app/pyknotid/requirements.txt`, or install packages individually.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_f464814c4657387b1d7d", + "produced_at": "2026-07-30T15:36:20.936Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-22", + "claim": "Step 22 is incorrect. Used an overly broad sed replacement changing `n.float` to `float` that incorrectly modified `n.float64` to `float64`, causing a NameError.", + "rationale": "The subsequent test in step 23 failed with `NameError: name 'float64' is not defined` because the blanket replacement of `n.float` included the substring within `n.float64`.", + "severity": "high", + "confidence": 0.95, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181/span/step-22", + "excerpt": "find /app/pyknotid -name \"*.py\" -o -name \"*.pyx\" | xargs grep -l \"n\\.float\" | xargs sed -i 's/n\\.float/float/g'" + } + ], + "recommended_action": "Use a more specific regex like `sed -i 's/n\\.float\\b/float/g'` to avoid modifying `n.float64`.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_3babfb66ac7736f5eb03", + "produced_at": "2026-07-30T15:36:20.936Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-26", + "claim": "Step 26 is incorrect. Used an overly broad sed replacement changing `n.complex` to `complex` that likely incorrectly modified `n.complex128` to `complex128`.", + "rationale": "By analogy to the `n.float` issue in step 22, this blanket replacement would also catch the substring `n.complex` within `n.complex128`, turning it into `complex128` which would cause a NameError if encountered.", + "severity": "high", + "confidence": 0.8, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181/span/step-26", + "excerpt": "find /app/pyknotid -name \"*.py\" -o -name \"*.pyx\" | xargs grep -l \"n\\.complex\" | xargs sed -i 's/n\\.complex/complex/g'" + } + ], + "recommended_action": "Use a more specific regex like `sed -i 's/n\\.complex\\b/complex/g'` to avoid modifying `n.complex128`.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 3, + "matchedIssueIds": [ + "incorrect:12", + "incorrect:13" + ], + "missedIssueIds": [ + "incorrect:15" + ], + "supportedFindingIndexes": [ + 1, + 2 + ], + "unsupportedFindingIndexes": [ + 0, + 3, + 4 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181/span/step-8", + "excerpt": "cd /app/pyknotid && pip install -e . --no-deps" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181/span/step-22", + "excerpt": "find /app/pyknotid -name \"*.py\" -o -name \"*.pyx\" | xargs grep -l \"n\\.float\" | xargs sed -i 's/n\\.float/float/g'" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181/span/step-26", + "excerpt": "find /app/pyknotid -name \"*.py\" -o -name \"*.pyx\" | xargs grep -l \"n\\.complex\" | xargs sed -i 's/n\\.complex/complex/g'" + } + ], + "issueRecall": 0.6666666666666666, + "findingPrecision": 0.4, + "f1": 0.5, + "criticalStepAccuracy": null, + "citationCoverage": 1, + "citationExcerptCoverage": 1, + "citationLabelAgreement": 0.4, + "predictionOnLabelEmptyCase": false + }, + "evidenceResolution": { + "checked": 5, + "resolved": 5, + "unresolvedEvidence": [], + "errors": [], + "validity": 1 + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "DeepSeek/DeepSeek-V3.2", + "medium", + "debugging", + "coding", + "dependency", + "compilation" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181", + "taskName": "build-cython-ext", + "agent": "mini-SWE-agent", + "model": "DeepSeek/DeepSeek-V3.2", + "solved": false, + "stepCount": 28, + "labelSet": "incorrect-only", + "sourceRelpath": "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/build-cython-ext", + "difficulty": "medium", + "category": "debugging", + "traceFileRelativePath": "miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181.otlp.jsonl", + "traceFileSha256": "742fcf0ab8c0bddf3f9ef268918df6d37c9a144db208d1b41e588e45355551da", + "labelLeakScan": { + "passed": true, + "scannedBytes": 81299, + "scannedValues": 1761 + }, + "verificationArtifacts": { + "traceId": "miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181", + "status": "missing", + "outcome": { + "status": "unavailable", + "reason": "missing-result", + "sources": [], + "passedCheckCount": 0, + "failedCheckCount": 0, + "passedChecks": [], + "failedChecks": [] + }, + "outcomeSpanId": "benchmark-verification-outcome-becfae6d0b3e8ab5", + "caseDirectory": "miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/build-cython-ext", + "caseDirectoriesSearched": [ + "miniswe-DeepSeek__DeepSeek-V3.2-build-cython-ext-3334a181/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/build-cython-ext", + "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/build-cython-ext" + ], + "totalBytes": 0, + "maxBytes": 8388608, + "files": [], + "missingRoles": [ + "final-test-output", + "final-result", + "final-metrics" + ], + "searched": { + "final-test-output": [ + "panes/post-test.txt", + "sessions/tests.log", + "test_output.txt" + ], + "final-result": [ + "results.json", + "result.json", + "report.json", + "*_result.json" + ], + "final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 31, + "output": 896, + "reasoning": 0, + "cached": 24640 + }, + "cost": { + "kind": "estimated", + "usd": 0.0167738 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "responseSource": "provider", + "report": "The trajectory involves building Cython extensions for pyknotid with Numpy 2.3.0. Several assistant actions contained technical errors or overly broad hypotheses. Step 8 used `pip install -e .` which created an editable install (py3-none-any) without building Cython extensions, contradicting the task goal. Step 12 used process substitution `<(echo ...)` which failed under /bin/sh. Step 13 failed because it ran `pip install -r requirements.txt` from the `/app/pyknotid` directory, causing pip to interpret the `numpy==2.3.0` line inside requirements.txt as a local editable path requirement. Step 22 used an overly broad `sed` replacing `n.float` with `float`, which changed `n.float64` to `float64`, causing a subsequent NameError. Step 26 used another overly broad `sed` replacing `n.complex` with `complex`, which would incorrectly modify `n.complex128` to `complex128`.", + "providerModel": "glm-5.2", + "providerDurationMs": 12415, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.0167738, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f", + "clusterId": "codetrace-task:neuron-to-jaxley-conversion", + "labelState": "positive", + "repetition": 0, + "executionIndex": 28, + "latencyMs": 13090.137958, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_2931c2be822737ed09b3", + "produced_at": "2026-07-30T15:36:23.448Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-9", + "claim": "Step 9 is incorrect. Wrote add_channels() using fabricated Jaxley API methods like branch.add_channel() which do not exist in Jaxley, making the implementation non-functional.", + "rationale": "The action introduced incorrect code based on an unsupported hypothesis about the Jaxley API.", + "severity": "high", + "confidence": 0.95, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-9", + "excerpt": "cat << 'EOF' > /app/jaxley_conversion.py\nfrom generating_from_swc import generate_cell\n\nclass RGC:\n \"\"\"\n This class creates a Retinal Ganglion Cell in Jaxley\n \"\"\"\n\n def __init__(self):\n self.cell = generate_cell(\"RGC.swc\")\n\n def get_cell(self):\n return self.cell\n\n def add_channels(self):\n \"\"\"\n Add biophysics channels to the RGC cell based on NEURON implementation\n \"\"\"\n # Common parameters for all sections\n cm = 1.0 # μF/cm²\n Ra = 143" + } + ], + "recommended_action": "Consult Jaxley documentation to learn the correct method for inserting channels (typically via defining custom channel classes and using .insert()).", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_af4e5bc2d58e642a39c6", + "produced_at": "2026-07-30T15:36:23.448Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-13", + "claim": "Step 13 is incorrect. Rewrote add_channels() guessing at branch.group and get_group_names APIs without verifying them, continuing to use incorrect method calls.", + "rationale": "The action was driven by an unverified hypothesis and resulted in incorrect code.", + "severity": "high", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-13", + "excerpt": "cat << 'EOF' > /app/jaxley_conversion.py\nfrom generating_from_swc import generate_cell\n\nclass RGC:\n \"\"\"\n This class creates a Retinal Ganglion Cell in Jaxley\n \"\"\"\n\n def __init__(self):\n self.cell = generate_cell(\"RGC.swc\")\n\n def get_cell(self):\n return self.cell\n\n def add_channels(self):\n \"\"\"\n Add biophysics channels to the RGC cell based on NEURON implementation\n \"\"\"\n # Common parameters for all sections\n cm = 1.0 # μF/cm²\n Ra = 143" + } + ], + "recommended_action": "Verify the correct Jaxley API for accessing group assignments and insert channels properly.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_5ed6d55e3a0e6ae4ca20", + "produced_at": "2026-07-30T15:36:23.448Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-19", + "claim": "Step 19 is incorrect. Rewrote add_channels() using sec_lu but still relied on the non-existent branch.add_channel() method and included an unreachable fallback.", + "rationale": "The action persisted in using the incorrect API despite previous issues.", + "severity": "high", + "confidence": 0.95, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-19", + "excerpt": "cat << 'EOF' > /app/jaxley_conversion.py\nfrom generating_from_swc import generate_cell\nimport pickle\nimport numpy as np\n\nclass RGC:\n \"\"\"\n This class creates a Retinal Ganglion Cell in Jaxley\n \"\"\"\n\n def __init__(self):\n self.cell = generate_cell(\"RGC.swc\")\n # Load section lookup for reference\n with open(\"/app/sec_lu.pkl\", \"rb\") as f:\n self.sec_lu = pickle.load(f)\n\n def get_cell(self):\n return self.cell\n\n def add_channels(self):\n \"\"\"\n Add " + } + ], + "recommended_action": "Use the verified, correct Jaxley API for adding channels.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_f464814c4657387b1d7d", + "produced_at": "2026-07-30T15:36:23.448Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-22", + "claim": "Step 22 is incorrect. Introduced a MockCell fallback to suppress import errors, hiding the fact that the code cannot run and add_channels() will not work on a real cell.", + "rationale": "This action intentionally masks a critical failure (missing dependency/import error) making the implementation appear to work when it doesn't.", + "severity": "critical", + "confidence": 0.95, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-22", + "excerpt": "cat << 'EOF' > /app/jaxley_conversion.py\nfrom generating_from_swc import generate_cell\nimport pickle\nimport numpy as np\n\nclass RGC:\n \"\"\"\n This class creates a Retinal Ganglion Cell in Jaxley\n \"\"\"\n\n def __init__(self):\n try:\n self.cell = generate_cell(\"RGC.swc\")\n # Load section lookup for reference\n with open(\"/app/sec_lu.pkl\", \"rb\") as f:\n self.sec_lu = pickle.load(f)\n except Exception as e:\n print(f\"Warning: Could not init" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_a32fca3d49954785240b", + "produced_at": "2026-07-30T15:36:23.448Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-23", + "claim": "Step 23 is incorrect. Created a verification script that only checks for string patterns in the file rather than testing if the code runs, masking functional failure.", + "rationale": "This action established a misleading verification standard that passed despite the implementation being functionally incorrect.", + "severity": "high", + "confidence": 0.95, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-23", + "excerpt": "cat << 'EOF' > /app/verify_implementation.py\n\"\"\"\nVerification script for RGC biophysics implementation\n\"\"\"\nimport sys\nsys.path.append('/app')\n\ndef verify_files():\n \"\"\"Verify that all required files are present\"\"\"\n import os\n \n required_files = [\n '/app/jaxley_conversion.py',\n '/app/generating_from_swc.py', \n '/app/build_in_neuron.py',\n '/app/RGC.swc',\n '/app/sec_lu.pkl'\n ]\n \n print(\"Verifying required files:\")\n for file_path in required_files:\n " + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 2, + "matchedIssueIds": [ + "incorrect:19", + "incorrect:22" + ], + "missedIssueIds": [], + "supportedFindingIndexes": [ + 2, + 3 + ], + "unsupportedFindingIndexes": [ + 0, + 1, + 4 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-9", + "excerpt": "cat << 'EOF' > /app/jaxley_conversion.py\nfrom generating_from_swc import generate_cell\n\nclass RGC:\n \"\"\"\n This class creates a Retinal Ganglion Cell in Jaxley\n \"\"\"\n\n def __init__(self):\n self.cell = generate_cell(\"RGC.swc\")\n\n def get_cell(self):\n return self.cell\n\n def add_channels(self):\n \"\"\"\n Add biophysics channels to the RGC cell based on NEURON implementation\n \"\"\"\n # Common parameters for all sections\n cm = 1.0 # μF/cm²\n Ra = 143" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-13", + "excerpt": "cat << 'EOF' > /app/jaxley_conversion.py\nfrom generating_from_swc import generate_cell\n\nclass RGC:\n \"\"\"\n This class creates a Retinal Ganglion Cell in Jaxley\n \"\"\"\n\n def __init__(self):\n self.cell = generate_cell(\"RGC.swc\")\n\n def get_cell(self):\n return self.cell\n\n def add_channels(self):\n \"\"\"\n Add biophysics channels to the RGC cell based on NEURON implementation\n \"\"\"\n # Common parameters for all sections\n cm = 1.0 # μF/cm²\n Ra = 143" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-23", + "excerpt": "cat << 'EOF' > /app/verify_implementation.py\n\"\"\"\nVerification script for RGC biophysics implementation\n\"\"\"\nimport sys\nsys.path.append('/app')\n\ndef verify_files():\n \"\"\"Verify that all required files are present\"\"\"\n import os\n \n required_files = [\n '/app/jaxley_conversion.py',\n '/app/generating_from_swc.py', \n '/app/build_in_neuron.py',\n '/app/RGC.swc',\n '/app/sec_lu.pkl'\n ]\n \n print(\"Verifying required files:\")\n for file_path in required_files:\n " + } + ], + "issueRecall": 1, + "findingPrecision": 0.4, + "f1": 0.5714285714285715, + "criticalStepAccuracy": null, + "citationCoverage": 1, + "citationExcerptCoverage": 1, + "citationLabelAgreement": 0.4, + "predictionOnLabelEmptyCase": false + }, + "evidenceResolution": { + "checked": 5, + "resolved": 5, + "unresolvedEvidence": [], + "errors": [], + "validity": 1 + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "DeepSeek/DeepSeek-V3.2", + "hard", + "scientific-computing", + "library-conversion" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f", + "taskName": "neuron-to-jaxley-conversion", + "agent": "mini-SWE-agent", + "model": "DeepSeek/DeepSeek-V3.2", + "solved": true, + "stepCount": 25, + "labelSet": "incorrect-only", + "sourceRelpath": "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/neuron-to-jaxley-conversion", + "difficulty": "hard", + "category": "scientific-computing", + "traceFileRelativePath": "miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f.otlp.jsonl", + "traceFileSha256": "e405953723a12b846705fe658c804115e552201216696b51d02fb93f9a128526", + "labelLeakScan": { + "passed": true, + "scannedBytes": 94186, + "scannedValues": 1578 + }, + "verificationArtifacts": { + "traceId": "miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f", + "status": "missing", + "outcome": { + "status": "unavailable", + "reason": "missing-result", + "sources": [], + "passedCheckCount": 0, + "failedCheckCount": 0, + "passedChecks": [], + "failedChecks": [] + }, + "outcomeSpanId": "benchmark-verification-outcome-4952eff7c9bca8fd", + "caseDirectory": "miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/neuron-to-jaxley-conversion", + "caseDirectoriesSearched": [ + "miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/neuron-to-jaxley-conversion", + "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/neuron-to-jaxley-conversion" + ], + "totalBytes": 0, + "maxBytes": 8388608, + "files": [], + "missingRoles": [ + "final-test-output", + "final-result", + "final-metrics" + ], + "searched": { + "final-test-output": [ + "panes/post-test.txt", + "sessions/tests.log", + "test_output.txt" + ], + "final-result": [ + "results.json", + "result.json", + "report.json", + "*_result.json" + ], + "final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 51, + "output": 705, + "reasoning": 0, + "cached": 26176 + }, + "cost": { + "kind": "estimated", + "usd": 0.0172872 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "responseSource": "provider", + "report": "The agent correctly identified the required biophysics parameters from the NEURON model but failed to implement a functionally correct Jaxley conversion. The primary incorrect steps are the code-writing actions (steps 9, 13, 19, and 22) where the agent repeatedly wrote code using fabricated Jaxley API calls (`branch.add_channel`, `branch.set_cm`, `branch.set_Ra`) and incorrect channel names. Jaxley requires defining custom channel classes and inserting them via `.insert()`, not by calling non-existent `add_channel` methods. The agent compounded this by guessing at property access methods and, in step 22, explicitly introduced a mock cell object (`MockCell`) to bypass import errors, fundamentally breaking the implementation's logic. The final verification script (step 23) was also a state-changing incorrect action because it established a custom benchmark that only checked for text patterns, masking the fact that the agent's `add_channels()` function was non-functional.", + "providerModel": "glm-5.2", + "providerDurationMs": 13048, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.0172872, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f", + "clusterId": "codetrace-task:neuron-to-jaxley-conversion", + "labelState": "positive", + "repetition": 1, + "executionIndex": 31, + "latencyMs": 13673.432207000002, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_2931c2be822737ed09b3", + "produced_at": "2026-07-30T15:36:24.571Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-9", + "claim": "Step 9 is incorrect. The agent writes add_channels() using fabricated Jaxley API calls (branch.set_cm, branch.add_channel with gbar=) without any evidence these methods exist.", + "rationale": "Jaxley was confirmed missing (steps 7-8), so the agent could not inspect the API. The generated code uses methods and parameter conventions not found anywhere in the provided files.", + "severity": "high", + "confidence": 0.85, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-9", + "excerpt": "cat << 'EOF' > /app/jaxley_conversion.py\nfrom generating_from_swc import generate_cell\n\nclass RGC:\n \"\"\"\n This class creates a Retinal Ganglion Cell in Jaxley\n \"\"\"\n\n def __init__(self):\n self.cell = generate_cell(\"RGC.swc\")\n\n def get_cell(self):\n return self.cell\n\n def add_channels(self):\n \"\"\"\n Add biophysics channels to the RGC cell based on NEURON implementation\n \"\"\"\n # Common parameters for all sections\n cm = 1.0 # μF/cm²\n Ra = 143" + } + ], + "recommended_action": "Inspect actual Jaxley documentation or source code before writing channel-adding code, or use the documented jx.Channel subclass pattern.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_af4e5bc2d58e642a39c6", + "produced_at": "2026-07-30T15:36:24.571Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-13", + "claim": "Step 13 is incorrect. The agent rewrites jaxley_conversion.py with an overcomplicated branch-group introspection approach while still relying on the unverified branch.add_channel API.", + "rationale": "The rewrite adds hasattr-guarded code paths but the underlying add_channel calls remain unsupported hypotheses; the agent never verified the Jaxley API.", + "severity": "medium", + "confidence": 0.7, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-13", + "excerpt": "cat << 'EOF' > /app/jaxley_conversion.py\nfrom generating_from_swc import generate_cell\n\nclass RGC:\n \"\"\"\n This class creates a Retinal Ganglion Cell in Jaxley\n \"\"\"\n\n def __init__(self):\n self.cell = generate_cell(\"RGC.swc\")\n\n def get_cell(self):\n return self.cell\n\n def add_channels(self):\n \"\"\"\n Add biophysics channels to the RGC cell based on NEURON implementation\n \"\"\"\n # Common parameters for all sections\n cm = 1.0 # μF/cm²\n Ra = 143" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_5ed6d55e3a0e6ae4ca20", + "produced_at": "2026-07-30T15:36:24.571Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-19", + "claim": "Step 19 is incorrect. The agent rewrites jaxley_conversion.py using sec_lu indexing but persists with the same unverified branch.add_channel API pattern that was never validated.", + "rationale": "Switching to sec_lu-based lookup is a correct idea, but the core channel-adding mechanism still relies on fabricated API calls.", + "severity": "high", + "confidence": 0.8, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-19", + "excerpt": "cat << 'EOF' > /app/jaxley_conversion.py\nfrom generating_from_swc import generate_cell\nimport pickle\nimport numpy as np\n\nclass RGC:\n \"\"\"\n This class creates a Retinal Ganglion Cell in Jaxley\n \"\"\"\n\n def __init__(self):\n self.cell = generate_cell(\"RGC.swc\")\n # Load section lookup for reference\n with open(\"/app/sec_lu.pkl\", \"rb\") as f:\n self.sec_lu = pickle.load(f)\n\n def get_cell(self):\n return self.cell\n\n def add_channels(self):\n \"\"\"\n Add " + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_f464814c4657387b1d7d", + "produced_at": "2026-07-30T15:36:24.571Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-22", + "claim": "Step 22 is incorrect. The agent adds a MockCell fallback in __init__ that silently swallows initialization failures and masks all runtime errors in add_channels.", + "rationale": "This regression makes the code appear to work when it cannot, hiding the ModuleNotFoundError for jaxley and any API mismatches in add_channels.", + "severity": "critical", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-22", + "excerpt": "cat << 'EOF' > /app/jaxley_conversion.py\nfrom generating_from_swc import generate_cell\nimport pickle\nimport numpy as np\n\nclass RGC:\n \"\"\"\n This class creates a Retinal Ganglion Cell in Jaxley\n \"\"\"\n\n def __init__(self):\n try:\n self.cell = generate_cell(\"RGC.swc\")\n # Load section lookup for reference\n with open(\"/app/sec_lu.pkl\", \"rb\") as f:\n self.sec_lu = pickle.load(f)\n except Exception as e:\n print(f\"Warning: Could not init" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_a32fca3d49954785240b", + "produced_at": "2026-07-30T15:36:24.571Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-23", + "claim": "Step 23 is incorrect. The agent replaces functional testing with a cosmetic AST/regex verification script that only checks for string patterns, bypassing actual runtime validation.", + "rationale": "The verification script checks that parameter strings like 'cm = 1.0' exist in the source text but never executes add_channels() against the real Jaxley API, creating false confidence.", + "severity": "high", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-23", + "excerpt": "cat << 'EOF' > /app/verify_implementation.py\n\"\"\"\nVerification script for RGC biophysics implementation\n\"\"\"\nimport sys\nsys.path.append('/app')\n\ndef verify_files():\n \"\"\"Verify that all required files are present\"\"\"\n import os\n \n required_files = [\n '/app/jaxley_conversion.py',\n '/app/generating_from_swc.py', \n '/app/build_in_neuron.py',\n '/app/RGC.swc',\n '/app/sec_lu.pkl'\n ]\n \n print(\"Verifying required files:\")\n for file_path in required_files:\n " + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 2, + "matchedIssueIds": [ + "incorrect:19", + "incorrect:22" + ], + "missedIssueIds": [], + "supportedFindingIndexes": [ + 2, + 3 + ], + "unsupportedFindingIndexes": [ + 0, + 1, + 4 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-9", + "excerpt": "cat << 'EOF' > /app/jaxley_conversion.py\nfrom generating_from_swc import generate_cell\n\nclass RGC:\n \"\"\"\n This class creates a Retinal Ganglion Cell in Jaxley\n \"\"\"\n\n def __init__(self):\n self.cell = generate_cell(\"RGC.swc\")\n\n def get_cell(self):\n return self.cell\n\n def add_channels(self):\n \"\"\"\n Add biophysics channels to the RGC cell based on NEURON implementation\n \"\"\"\n # Common parameters for all sections\n cm = 1.0 # μF/cm²\n Ra = 143" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-13", + "excerpt": "cat << 'EOF' > /app/jaxley_conversion.py\nfrom generating_from_swc import generate_cell\n\nclass RGC:\n \"\"\"\n This class creates a Retinal Ganglion Cell in Jaxley\n \"\"\"\n\n def __init__(self):\n self.cell = generate_cell(\"RGC.swc\")\n\n def get_cell(self):\n return self.cell\n\n def add_channels(self):\n \"\"\"\n Add biophysics channels to the RGC cell based on NEURON implementation\n \"\"\"\n # Common parameters for all sections\n cm = 1.0 # μF/cm²\n Ra = 143" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/span/step-23", + "excerpt": "cat << 'EOF' > /app/verify_implementation.py\n\"\"\"\nVerification script for RGC biophysics implementation\n\"\"\"\nimport sys\nsys.path.append('/app')\n\ndef verify_files():\n \"\"\"Verify that all required files are present\"\"\"\n import os\n \n required_files = [\n '/app/jaxley_conversion.py',\n '/app/generating_from_swc.py', \n '/app/build_in_neuron.py',\n '/app/RGC.swc',\n '/app/sec_lu.pkl'\n ]\n \n print(\"Verifying required files:\")\n for file_path in required_files:\n " + } + ], + "issueRecall": 1, + "findingPrecision": 0.4, + "f1": 0.5714285714285715, + "criticalStepAccuracy": null, + "citationCoverage": 1, + "citationExcerptCoverage": 1, + "citationLabelAgreement": 0.4, + "predictionOnLabelEmptyCase": false + }, + "evidenceResolution": { + "checked": 5, + "resolved": 5, + "unresolvedEvidence": [], + "errors": [], + "validity": 1 + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "DeepSeek/DeepSeek-V3.2", + "hard", + "scientific-computing", + "library-conversion" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f", + "taskName": "neuron-to-jaxley-conversion", + "agent": "mini-SWE-agent", + "model": "DeepSeek/DeepSeek-V3.2", + "solved": true, + "stepCount": 25, + "labelSet": "incorrect-only", + "sourceRelpath": "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/neuron-to-jaxley-conversion", + "difficulty": "hard", + "category": "scientific-computing", + "traceFileRelativePath": "miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f.otlp.jsonl", + "traceFileSha256": "e405953723a12b846705fe658c804115e552201216696b51d02fb93f9a128526", + "labelLeakScan": { + "passed": true, + "scannedBytes": 94186, + "scannedValues": 1578 + }, + "verificationArtifacts": { + "traceId": "miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f", + "status": "missing", + "outcome": { + "status": "unavailable", + "reason": "missing-result", + "sources": [], + "passedCheckCount": 0, + "failedCheckCount": 0, + "passedChecks": [], + "failedChecks": [] + }, + "outcomeSpanId": "benchmark-verification-outcome-4952eff7c9bca8fd", + "caseDirectory": "miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/neuron-to-jaxley-conversion", + "caseDirectoriesSearched": [ + "miniswe-DeepSeek__DeepSeek-V3.2-neuron-to-jaxley-conversion-7edc2e4f/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/neuron-to-jaxley-conversion", + "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/neuron-to-jaxley-conversion" + ], + "totalBytes": 0, + "maxBytes": 8388608, + "files": [], + "missingRoles": [ + "final-test-output", + "final-result", + "final-metrics" + ], + "searched": { + "final-test-output": [ + "panes/post-test.txt", + "sessions/tests.log", + "test_output.txt" + ], + "final-result": [ + "results.json", + "result.json", + "report.json", + "*_result.json" + ], + "final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 51, + "output": 757, + "reasoning": 0, + "cached": 26176 + }, + "cost": { + "kind": "estimated", + "usd": 0.0174016 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "responseSource": "provider", + "report": "The agent investigates the NEURON model and Jaxley infrastructure, then writes add_channels(). The core problem: Jaxley is never installed in this environment (confirmed at steps 7-8, 11, 21), so the agent never validates any code against the actual API. Step 9 introduces fabricated Jaxley API calls (branch.set_cm, branch.add_channel with keyword args like 'gbar=') that do not match the Jaxley module imported by generating_from_swc.py. Step 13 repeats this pattern with additional unused introspection helpers. Step 19 repeats the same incorrect API calls after merely switching to sec_lu indexing. Step 22 adds a MockCell fallback that silently masks RGC() initialization failures and hides all runtime defects, creating a false impression of correctness. Step 23 then replaces actual functional testing with a cosmetic AST/regex verification script that only checks for string patterns, which passes despite the add_channels() code never being functionally validated against the real Jaxley library.", + "providerModel": "glm-5.2", + "providerDurationMs": 13634, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.0174016, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b", + "clusterId": "codetrace-task:huggingface__transformers-15795", + "labelState": "positive", + "repetition": 0, + "executionIndex": 32, + "latencyMs": 22675.446014999994, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_eb875edd5b8326a8defb", + "produced_at": "2026-07-30T15:36:42.686Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-4", + "claim": "Step 4 is incorrect. The patch script modified `_add_dataclass_arguments` in a way that passed an unresolved type string to argparse, causing a `ValueError: 'int' is not callable`.", + "rationale": "The observation at step 4's result shows the error occurred immediately upon importing/parsing with the newly written code, indicating the logic modification was incorrect.", + "severity": "high", + "confidence": 0.85, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b/span/step-4", + "excerpt": "python - <<'PY'\nimport re, sys, types, os, io\n\npath = \"src/transformers/hf_argparser.py\"\nwith open(path, \"r\", encoding=\"utf-8\") as f:\n s = f.read()\n\n# Ensure get_type_hints is imported\nif \"get_type_hints\" not in s:\n s = s.replace(\n \"from typing import Any, Iterable, List, NewType, Optional, Tuple, Union\",\n \"from typing import Any, Iterable, List, NewType, Optional, Tuple, Union, get_type_hints\",\n )\n\n# Replace the _add_dataclass_arguments method to support PEP 563\nnew_method = '''\n " + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_2931c2be822737ed09b3", + "produced_at": "2026-07-30T15:36:42.686Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-9", + "claim": "Step 9 is incorrect. The agent attempted to use `applypatch` which is not available in the environment, causing a command-not-found failure.", + "rationale": "The observation shows `bash: line 1: applypatch: command not found`, confirming the chosen tool was unavailable.", + "severity": "low", + "confidence": 0.95, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b/span/step-9", + "excerpt": "applypatch << 'PATCH'\n*** Begin Patch\n*** Update File: src/transformers/hf_argparser.py\n@@\n- elif field_type is bool or field_type == Optional[bool]:\n+ elif field_type is bool or field_type == Optional[bool]:\n # Copy the currect kwargs to use to instantiate a `no_*` complement argument below.\n # We do not init it here because the `no_*` alternative must be instantiated after the real argument\n bool_kwargs = copy(kwargs)\n \n " + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_9cabb1a47c5afcfe9cfe", + "produced_at": "2026-07-30T15:36:42.686Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-11", + "claim": "Step 11 is incorrect. The patch script introduced mis-indented code for the Optional unwrapping block, breaking the class structure and causing a regression where parsers only registered 1 action and the `parse_dict` method was lost.", + "rationale": "The observation shows test failures went from 1 failing test to 7 failing tests, with `len(a._actions) == 1` and missing `parse_dict`, indicating the file structure was corrupted by bad indentation.", + "severity": "high", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b/span/step-11", + "excerpt": "python - <<'PY'\nimport os, re, sys, subprocess, textwrap\n\npath = \"src/transformers/hf_argparser.py\"\nwith open(path, \"r\", encoding=\"utf-8\") as f:\n s = f.read()\n\nstart_marker = \"# Unwrap Optional[T] to T using typing.get_origin/get_args\"\nend_marker = \"# A variable to store kwargs for a boolean field, if needed\"\nstart = s.find(start_marker)\nend = s.find(end_marker, start)\nif start == -1 or end == -1:\n raise SystemExit(\"Could not find the Optional unwrapping block to patch.\")\nblock = s[start:end]\n\nnew_blo" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_f8d07e14d2608584b84e", + "produced_at": "2026-07-30T15:36:42.686Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-15", + "claim": "Step 15 is incorrect. The regex replacement script deleted the `parse_args_into_dataclasses` function signature, introducing a SyntaxError that made the module unimportable.", + "rationale": "The observation shows `SyntaxError: invalid syntax` at the `def parse_args_into_dataclasses` line, indicating the replacement consumed part of the function header.", + "severity": "critical", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b/span/step-15", + "excerpt": "python - <<'PY'\nimport os, sys, re, subprocess, textwrap\n\npath = \"src/transformers/hf_argparser.py\"\nwith open(path, \"r\", encoding=\"utf-8\") as f:\n s = f.read()\n\n# Ensure imports\nif \"import typing\" not in s:\n s = s.replace(\"import sys\", \"import sys\\nimport typing\")\nif \"import builtins\" not in s:\n s = s.replace(\"import typing\", \"import typing\\nimport builtins\")\nif \"get_type_hints\" not in s:\n s = s.replace(\n \"from typing import Any, Iterable, List, NewType, Optional, Tuple, Union\",\n \"f" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_821ddf48ec3b05cdab5a", + "produced_at": "2026-07-30T15:36:42.686Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-16", + "claim": "Step 16 is incorrect. The patch script attempted to fix the broken function header but left the file corrupted with a parameter line lacking its def declaration, causing a continued SyntaxError.", + "rationale": "The observation shows `SyntaxError: invalid syntax. Maybe you meant '==' or ':=' instead of '='?` at the parameter line, meaning the fix did not properly restore the header.", + "severity": "medium", + "confidence": 0.75, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b/span/step-16", + "excerpt": "python - <<'PY'\nimport re, os, sys, subprocess, pathlib\n\np = pathlib.Path(\"src/transformers/hf_argparser.py\")\ns = p.read_text(encoding=\"utf-8\").splitlines()\n# Remove any stray incomplete def line: \"def parse_args_into_dataclasses\" without parentheses\nfixed = []\nfor line in s:\n if re.match(r'^\\s*def\\s+parse_args_into_dataclasses\\s*$', line):\n continue\n fixed.append(line)\np.write_text(\"\\n\".join(fixed) + \"\\n\", encoding=\"utf-8\")\n\nenv = os.environ.copy()\nenv[\"PYTHONPATH\"] = \"src\"\nres = subprocess.ru" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_7880763c0af81ea9b0e2", + "produced_at": "2026-07-30T15:36:42.686Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-17", + "claim": "Step 17 is incorrect. The header repair script failed to produce valid Python, leaving a stray `(` line that caused an `'(' was never closed` SyntaxError.", + "rationale": "The observation shows the error `SyntaxError: '(' was never closed` at line 212, and the subsequent diagnostic output at step 18 confirms a stray `(` line was present, meaning the fix was incorrect.", + "severity": "medium", + "confidence": 0.7, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b/span/step-17", + "excerpt": "python - <<'PY'\nimport os, re, sys, subprocess, pathlib\n\np = pathlib.Path(\"src/transformers/hf_argparser.py\")\ntext = p.read_text(encoding=\"utf-8\").splitlines()\n\n# Fix missing function header for parse_args_into_dataclasses\nfor idx, line in enumerate(text):\n if re.match(r'^\\s*self,\\s*args=None,\\s*return_remaining_strings=False,', line):\n # Check previous non-empty line; if it isn't the def header, insert it\n prev_idx = idx - 1\n prev_line = text[prev_idx] if prev_idx >= 0 else \"\"\n " + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_ec1d01893819bf70a984", + "produced_at": "2026-07-30T15:36:42.686Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-18", + "claim": "Step 18 is incorrect. The header repair script's logic was flawed and did not correctly reconstruct the function signature, leaving the file with a broken `def` line that caused a SyntaxError.", + "rationale": "The observation shows `SyntaxError: invalid syntax` at `def parse_args_into_dataclasses(self, ...)`, and the diagnostic print within the same step reveals a stray `(` on line 212 was still present, indicating the fix logic did not handle the actual file state.", + "severity": "medium", + "confidence": 0.7, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b/span/step-18", + "excerpt": "python - <<'PY'\nimport re, os, sys, subprocess\nfrom pathlib import Path\n\np = Path(\"src/transformers/hf_argparser.py\")\nlines = p.read_text(encoding=\"utf-8\").splitlines()\n\n# Show the surrounding lines to understand the current broken header\nprint(\"==== Current around 200-230 ====\")\nfor i in range(200, min(len(lines), 231)):\n print(f\"{i+1:4d}: {lines[i]}\")\n\n# Attempt to repair the parse_args_into_dataclasses header to a correct signature\n# Find the block where we see a stray \"(\" or broken header and replace" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_5ed6d55e3a0e6ae4ca20", + "produced_at": "2026-07-30T15:36:42.686Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-19", + "claim": "Step 19 is incorrect. The script removed the stray `(` line but did not fix the resulting malformed header, leaving an unmatched `)` token that continued to cause a SyntaxError.", + "rationale": "The observation shows `SyntaxError: unmatched ')'` at line 213, indicating the removal of the stray `(` exposed or created another structural problem not addressed by this step.", + "severity": "medium", + "confidence": 0.7, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b/span/step-19", + "excerpt": "python - <<'PY'\nimport os, re, subprocess, sys\nfrom pathlib import Path\n\np = Path(\"src/transformers/hf_argparser.py\")\nlines = p.read_text(encoding=\"utf-8\").splitlines()\n\n# Remove any stray standalone \"(\" lines that break syntax (introduced by earlier patching)\nfixed = [ln for ln in lines if not re.match(r'^\\s*\\(\\s*$', ln)]\nif len(fixed) != len(lines):\n p.write_text(\"\\n\".join(fixed) + \"\\n\", encoding=\"utf-8\")\n\n# Run the hf_argparser unit tests\nenv = os.environ.copy()\nenv[\"PYTHONPATH\"] = \"src\"\nres = subproc" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_8dac57ce66c204459bda", + "produced_at": "2026-07-30T15:36:42.686Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-20", + "claim": "Step 20 is incorrect. The script intended to reconstruct the function header but failed to replace the broken lines, leaving the file with the same unmatched `)` SyntaxError.", + "rationale": "The observation is identical to step 19's result (`SyntaxError: unmatched ')'`), showing the replacement logic did not match or modify the actual corrupted text in the file.", + "severity": "medium", + "confidence": 0.7, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b/span/step-20", + "excerpt": "python - <<'PY'\nimport os, re, sys, subprocess\nfrom pathlib import Path\n\np = Path(\"src/transformers/hf_argparser.py\")\nlines = p.read_text(encoding=\"utf-8\").splitlines()\n\n# Find the header for parse_args_into_dataclasses and reconstruct it cleanly\ntarget_name = \"parse_args_into_dataclasses\"\nidx = None\nfor i, ln in enumerate(lines):\n if target_name in ln:\n idx = i\n break\n\nif idx is None:\n print(\"Could not locate parse_args_into_dataclasses in file.\", file=sys.stderr)\n sys.exit(1)\n\n# Det" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_96260f513b26fe85937d", + "produced_at": "2026-07-30T15:36:42.686Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-21", + "claim": "Step 21 is incorrect. The attempt to rewrite the entire file using `bash -lc 'cat > ... && ...'` failed due to unescaped sequences in the here-document content breaking bash syntax.", + "rationale": "The observation shows `bash: -c: line 327: syntax error near unexpected token &&`, indicating the heredoc content was not properly delimited for the chosen bash invocation pattern.", + "severity": "high", + "confidence": 0.85, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b/span/step-21", + "excerpt": "bash -lc 'cat > src/transformers/hf_argparser.py << \"PY\"\\n# Copyright 2020 The HuggingFace Team. All rights reserved.\\n#\\n# Licensed under the Apache License, Version 2.0 (the \\\"License\\\");\\n# you may not use this file except in compliance with the License.\\n# You may obtain a copy of the License at\\n#\\n# http://www.apache.org/licenses/LICENSE-2.0\\n#\\n# Unless required by applicable law or agreed to in writing, software\\n# distributed under the License is distributed on an \\\"AS IS\\\" BASIS,\\n# WITHOUT WA" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_f464814c4657387b1d7d", + "produced_at": "2026-07-30T15:36:42.686Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-22", + "claim": "Step 22 is incorrect. The second attempt to rewrite the entire file using `bash -lc 'cat > ... && ...'` failed with the same bash syntax error as the previous attempt.", + "rationale": "The observation shows `bash: -c: line 327: syntax error near unexpected token &&`, indicating the agent repeated the same flawed bash invocation pattern without fixing the underlying quoting issue.", + "severity": "high", + "confidence": 0.85, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b/span/step-22", + "excerpt": "cd /testbed && cat > src/transformers/hf_argparser.py <<'PY'\n# Copyright 2020 The HuggingFace Team. All rights reserved.\n#\n# Licensed under the Apache License, Version 2.0 (the \"License\");\n# you may not use this file except in compliance with the License.\n# You may obtain a copy of the License at\n#\n# http://www.apache.org/licenses/LICENSE-2.0\n#\n# Unless required by applicable law or agreed to in writing, software\n# distributed under the License is distributed on an \"AS IS\" BASIS,\n# WITHOUT WARRANTIES OR" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 12, + "matchedIssueIds": [ + "incorrect:9", + "incorrect:11", + "incorrect:15", + "incorrect:16", + "incorrect:17", + "incorrect:18", + "incorrect:19", + "incorrect:20", + "incorrect:21", + "incorrect:22" + ], + "missedIssueIds": [ + "incorrect:10", + "incorrect:24" + ], + "supportedFindingIndexes": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10 + ], + "unsupportedFindingIndexes": [ + 0 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b/span/step-4", + "excerpt": "python - <<'PY'\nimport re, sys, types, os, io\n\npath = \"src/transformers/hf_argparser.py\"\nwith open(path, \"r\", encoding=\"utf-8\") as f:\n s = f.read()\n\n# Ensure get_type_hints is imported\nif \"get_type_hints\" not in s:\n s = s.replace(\n \"from typing import Any, Iterable, List, NewType, Optional, Tuple, Union\",\n \"from typing import Any, Iterable, List, NewType, Optional, Tuple, Union, get_type_hints\",\n )\n\n# Replace the _add_dataclass_arguments method to support PEP 563\nnew_method = '''\n " + } + ], + "issueRecall": 0.8333333333333334, + "findingPrecision": 0.9090909090909091, + "f1": 0.8695652173913043, + "criticalStepAccuracy": null, + "citationCoverage": 1, + "citationExcerptCoverage": 1, + "citationLabelAgreement": 0.9090909090909091, + "predictionOnLabelEmptyCase": false + }, + "evidenceResolution": { + "checked": 11, + "resolved": 11, + "unresolvedEvidence": [], + "errors": [], + "validity": 1 + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "OpenAI/GPT-5", + "medium", + "software-engineering" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b", + "taskName": "huggingface__transformers-15795", + "agent": "mini-SWE-agent", + "model": "OpenAI/GPT-5", + "solved": true, + "stepCount": 25, + "labelSet": "incorrect-only", + "sourceRelpath": "swe_raw/mini_swe_agent__poly/huggingface__transformers-15795", + "difficulty": "medium", + "category": "software-engineering", + "traceFileRelativePath": "miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b.otlp.jsonl", + "traceFileSha256": "659dd65a8b92290b18434ef47726204f863771e2aa0b04a630e6e883a22c133b", + "labelLeakScan": { + "passed": true, + "scannedBytes": 190082, + "scannedValues": 1551 + }, + "verificationArtifacts": { + "traceId": "miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b", + "status": "missing", + "outcome": { + "status": "unavailable", + "reason": "missing-result", + "sources": [], + "passedCheckCount": 0, + "failedCheckCount": 0, + "passedChecks": [], + "failedChecks": [] + }, + "outcomeSpanId": "benchmark-verification-outcome-42a265ed5f15b222", + "caseDirectory": "miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b/swe_raw/mini_swe_agent__poly/huggingface__transformers-15795", + "caseDirectoriesSearched": [ + "miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b/swe_raw/mini_swe_agent__poly/huggingface__transformers-15795", + "swe_raw/mini_swe_agent__poly/huggingface__transformers-15795" + ], + "totalBytes": 0, + "maxBytes": 8388608, + "files": [], + "missingRoles": [ + "final-test-output", + "final-result", + "final-metrics" + ], + "searched": { + "final-test-output": [ + "panes/post-test.txt", + "sessions/tests.log", + "test_output.txt" + ], + "final-result": [ + "results.json", + "result.json", + "report.json", + "*_result.json" + ], + "final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 27, + "output": 1536, + "reasoning": 0, + "cached": 40064 + }, + "cost": { + "kind": "estimated", + "usd": 0.027433799999999998 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "responseSource": "provider", + "report": "The trajectory shows multiple incorrect state-changing actions. Step 4: The initial Python patch attempt produced a `ValueError: 'int' is not callable` because the modification to `_add_dataclass_arguments` passed an unresolvable type string to argparse. Step 9: Attempted to use `applypatch` which does not exist in the environment, causing a command not found failure. Step 11: A patch script introduced mis-indented code into the Optional unwrapping block (flush-left lines) which broke the class structure, causing a regression where only 1 action was registered per parser and `parse_dict` was deleted; this was a wrong action that caused a critical regression. Step 15: A regex replacement script deleted the `parse_args_into_dataclasses` function header/signature, introducing a SyntaxError. Steps 16 and 17: The patch scripts attempted to fix the broken header but left the file in a corrupted state with a stray `(` line causing continued SyntaxErrors. Steps 18 and 19: Further patch attempts failed to restore the correct header, with step 19 leaving an unmatched `)` token. Step 20: A patch script to reconstruct the header failed to actually replace the broken lines, leaving the file with an unmatched `)` SyntaxError. Steps 21 and 22: Attempted to rewrite the entire file using `bash -lc 'cat > ... && ...'`, but the here-document content contained unescaped sequences that broke bash syntax (`syntax error near unexpected token &&`), causing the command to fail without writing the file. The agent eventually recovered at step 23 by using a Python-based full file rewrite which passed all tests.", + "providerModel": "glm-5.2", + "providerDurationMs": 22638, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.027433799999999998, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b", + "clusterId": "codetrace-task:huggingface__transformers-15795", + "labelState": "positive", + "repetition": 1, + "executionIndex": 35, + "latencyMs": 29676.429971000005, + "latencySource": "benchmark-clock", + "findings": [], + "score": { + "expectedIssueCount": 12, + "matchedIssueIds": [], + "missedIssueIds": [ + "incorrect:9", + "incorrect:10", + "incorrect:11", + "incorrect:15", + "incorrect:16", + "incorrect:17", + "incorrect:18", + "incorrect:19", + "incorrect:20", + "incorrect:21", + "incorrect:22", + "incorrect:24" + ], + "supportedFindingIndexes": [], + "unsupportedFindingIndexes": [], + "unlabeledEvidence": [], + "issueRecall": 0, + "findingPrecision": 0, + "f1": 0, + "criticalStepAccuracy": null, + "citationCoverage": null, + "citationExcerptCoverage": null, + "citationLabelAgreement": null, + "predictionOnLabelEmptyCase": false + }, + "evidenceResolution": { + "checked": 0, + "resolved": 0, + "unresolvedEvidence": [], + "errors": [], + "validity": null + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "OpenAI/GPT-5", + "medium", + "software-engineering" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b", + "taskName": "huggingface__transformers-15795", + "agent": "mini-SWE-agent", + "model": "OpenAI/GPT-5", + "solved": true, + "stepCount": 25, + "labelSet": "incorrect-only", + "sourceRelpath": "swe_raw/mini_swe_agent__poly/huggingface__transformers-15795", + "difficulty": "medium", + "category": "software-engineering", + "traceFileRelativePath": "miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b.otlp.jsonl", + "traceFileSha256": "659dd65a8b92290b18434ef47726204f863771e2aa0b04a630e6e883a22c133b", + "labelLeakScan": { + "passed": true, + "scannedBytes": 190082, + "scannedValues": 1551 + }, + "verificationArtifacts": { + "traceId": "miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b", + "status": "missing", + "outcome": { + "status": "unavailable", + "reason": "missing-result", + "sources": [], + "passedCheckCount": 0, + "failedCheckCount": 0, + "passedChecks": [], + "failedChecks": [] + }, + "outcomeSpanId": "benchmark-verification-outcome-42a265ed5f15b222", + "caseDirectory": "miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b/swe_raw/mini_swe_agent__poly/huggingface__transformers-15795", + "caseDirectoriesSearched": [ + "miniswe-OpenAI__GPT-5-huggingface__transformers-15795-e799e83b/swe_raw/mini_swe_agent__poly/huggingface__transformers-15795", + "swe_raw/mini_swe_agent__poly/huggingface__transformers-15795" + ], + "totalBytes": 0, + "maxBytes": 8388608, + "files": [], + "missingRoles": [ + "final-test-output", + "final-result", + "final-metrics" + ], + "searched": { + "final-test-output": [ + "panes/post-test.txt", + "sessions/tests.log", + "test_output.txt" + ], + "final-result": [ + "results.json", + "result.json", + "report.json", + "*_result.json" + ], + "final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 27, + "output": 2048, + "reasoning": 0, + "cached": 40064 + }, + "cost": { + "kind": "estimated", + "usd": 0.0285602 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "rawPredictions": [], + "acceptedFindings": [] + }, + "error": { + "class": "LlmResponseError", + "code": "judge", + "message": "Provider response did not satisfy the structured output contract." + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93", + "clusterId": "codetrace-task:parallelize-graph", + "labelState": "positive", + "repetition": 0, + "executionIndex": 36, + "latencyMs": 15753.495330999998, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_0f98ebdb816330b37120", + "produced_at": "2026-07-30T15:36:36.696Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-5", + "claim": "Step 5 is incorrect. The configure command for Berkeley UPC failed with return code 100 because it triggered apt-get to install a non-existent package instead of configuring the downloaded source.", + "rationale": "The observation for step 5 shows 'E: Unable to locate package berkeley-upc' indicating the configure script failed due to missing dependencies and attempted an unsupported package installation.", + "severity": "high", + "confidence": 0.85, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93/span/step-5", + "excerpt": "cd /tmp/berkeley_upc-2022.10.0 && ./configure --prefix=/usr/local --disable-mpi --enable-smp --disable-ibv --disable-shmem --disable-ofi --disable-ucx" + } + ], + "recommended_action": "Investigate configure output for missing build dependencies (e.g., flex, bison, gcc-g++) and install them individually before re-running configure.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_6a2c8f9ee5f4c5e0fbe9", + "produced_at": "2026-07-30T15:36:36.696Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-6", + "claim": "Step 6 is incorrect. The agent attempted to install the non-existent 'berkeley-upc' package via apt-get, repeating the failed approach from the previous step's output.", + "rationale": "The action explicitly runs 'apt-get install -y berkeley-upc' which fails again, confirming the hypothesis that a prepackaged binary is available is unsupported.", + "severity": "medium", + "confidence": 0.8, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93/span/step-6", + "excerpt": "which upcc || apt-get update && apt-get install -y berkeley-upc" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_f8d07e14d2608584b84e", + "produced_at": "2026-07-30T15:36:36.696Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-15", + "claim": "Step 15 is incorrect. The first pthread-based 'pgen.c' implementation produced incorrect output, generating 2500 fragmented contigs instead of the 6 produced by the serial version.", + "rationale": "Step 19's observation shows the comparison script reporting 0 common contigs and 2500 unique to parallel, confirming a severe algorithmic regression in the contig traversal logic.", + "severity": "high", + "confidence": 0.95, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93/span/step-15", + "excerpt": "cd /app && cat <<'EOF' > pgen.c\n#include \n#include \n#include \n#include \n#include \n#include \n\n#define HASH_SIZE 100000\n#define MAX_KMER_LEN 64\n#define MAX_CONTIG_LEN 10000\n#define MAX_THREADS 8\n\ntypedef struct kmer_node {\n char kmer[MAX_KMER_LEN];\n char left_ext;\n char right_ext;\n bool visited;\n struct kmer_node* next;\n pthread_mutex_t lock;\n} kmer_node_t;\n\ntypedef struct {\n kmer_node_t* table[HASH_SIZE];\n pthread_mutex_t bu" + } + ], + "recommended_action": "Fix the traversal logic in pgen.c to properly walk the de Bruijn graph and merge k-mers into full contigs before writing output.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_8dac57ce66c204459bda", + "produced_at": "2026-07-30T15:36:36.696Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-20", + "claim": "Step 20 is incorrect. The second attempt at a pthread-based 'pgen.c' implementation also failed to produce correct contigs, still generating 2500 lines of fragmented output.", + "rationale": "Step 21's observation shows '2500 pgen_0.out' after rebuilding, and step 24's comparison script reports 0 common contigs, confirming the core logic was still broken.", + "severity": "high", + "confidence": 0.95, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93/span/step-20", + "excerpt": "cd /app && cat <<'EOF' > pgen.c\n#include \n#include \n#include \n#include \n#include \n#include \n\n#define HASH_SIZE 100000\n#define MAX_KMER_LEN 64\n#define MAX_CONTIG_LEN 10000\n#define MAX_THREADS 8\n\ntypedef struct kmer_node {\n char kmer[MAX_KMER_LEN];\n char left_ext;\n char right_ext;\n bool visited;\n struct kmer_node* next;\n} kmer_node_t;\n\ntypedef struct {\n kmer_node_t* table[HASH_SIZE];\n pthread_mutex_t bucket_locks[HASH_SIZE];\n} h" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_a0dbec6e53594bc756ea", + "produced_at": "2026-07-30T15:36:36.696Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-27", + "claim": "Step 27 is incorrect. The agent created a 'pgen.upc' file using the 'shared' keyword but allocated memory with local malloc, resulting in code that is semantically incorrect for UPC and cannot be compiled with the uninstalled UPC compiler.", + "rationale": "The code in step 27 shows 'shared hash_table_t* global_ht;' but uses 'malloc' for allocation. UPC shared memory requires upc_alloc. The file was also never compiled or tested because the UPC compiler was unavailable.", + "severity": "critical", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93/span/step-27", + "excerpt": "cd /app && cat <<'EOF' > pgen.upc\n#include \n#include \n#include \n#include \n#include \n\n#define HASH_SIZE 100000\n#define MAX_KMER_LEN 64\n#define MAX_CONTIG_LEN 10000\n\ntypedef struct kmer_node {\n char kmer[MAX_KMER_LEN];\n char left_ext;\n char right_ext;\n bool visited;\n struct kmer_node* next;\n} kmer_node_t;\n\ntypedef struct {\n kmer_node_t* table[HASH_SIZE];\n} hash_table_t;\n\nshared hash_table_t* global_ht;\nshared char* shared_contigs[10000];\nshar" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_4191e6bf199c237511f1", + "produced_at": "2026-07-30T15:36:36.696Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-28", + "claim": "Step 28 is incorrect. The final Makefile abandons UPC and builds the 'pgen' executable from the C source 'pgen.c', failing to meet the task requirement of producing a parallel UPC executable.", + "rationale": "The Makefile rule for pgen is 'pgen: pgen.c' and uses gcc instead of the UPC compiler (upcc). The note 'Using pthread-based implementation due to UPC compiler installation complexity' confirms the requirement was dropped.", + "severity": "critical", + "confidence": 1, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93/span/step-28", + "excerpt": "cd /app && cat <<'EOF' > Makefile\nCC = gcc\nCFLAGS = -O2 -Wall -std=c99\nPTHREAD_FLAGS = -pthread\n\nall: serial pgen\n\nserial: serial.c\n\t$(CC) $(CFLAGS) -o serial serial.c\n\n# Note: Using pthread-based implementation due to UPC compiler installation complexity\n# This version demonstrates parallelization and produces identical results to serial version\npgen: pgen.c\n\t$(CC) $(CFLAGS) $(PTHREAD_FLAGS) -o pgen pgen.c\n\nclean:\n\trm -f serial pgen *.out\n\ntest: serial pgen\n\t@echo \"Running serial version...\"\n\t./serial test" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 1, + "matchedIssueIds": [], + "missedIssueIds": [ + "incorrect:25" + ], + "supportedFindingIndexes": [], + "unsupportedFindingIndexes": [ + 0, + 1, + 2, + 3, + 4, + 5 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93/span/step-5", + "excerpt": "cd /tmp/berkeley_upc-2022.10.0 && ./configure --prefix=/usr/local --disable-mpi --enable-smp --disable-ibv --disable-shmem --disable-ofi --disable-ucx" + }, + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93/span/step-6", + "excerpt": "which upcc || apt-get update && apt-get install -y berkeley-upc" + }, + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93/span/step-15", + "excerpt": "cd /app && cat <<'EOF' > pgen.c\n#include \n#include \n#include \n#include \n#include \n#include \n\n#define HASH_SIZE 100000\n#define MAX_KMER_LEN 64\n#define MAX_CONTIG_LEN 10000\n#define MAX_THREADS 8\n\ntypedef struct kmer_node {\n char kmer[MAX_KMER_LEN];\n char left_ext;\n char right_ext;\n bool visited;\n struct kmer_node* next;\n pthread_mutex_t lock;\n} kmer_node_t;\n\ntypedef struct {\n kmer_node_t* table[HASH_SIZE];\n pthread_mutex_t bu" + }, + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93/span/step-20", + "excerpt": "cd /app && cat <<'EOF' > pgen.c\n#include \n#include \n#include \n#include \n#include \n#include \n\n#define HASH_SIZE 100000\n#define MAX_KMER_LEN 64\n#define MAX_CONTIG_LEN 10000\n#define MAX_THREADS 8\n\ntypedef struct kmer_node {\n char kmer[MAX_KMER_LEN];\n char left_ext;\n char right_ext;\n bool visited;\n struct kmer_node* next;\n} kmer_node_t;\n\ntypedef struct {\n kmer_node_t* table[HASH_SIZE];\n pthread_mutex_t bucket_locks[HASH_SIZE];\n} h" + }, + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93/span/step-27", + "excerpt": "cd /app && cat <<'EOF' > pgen.upc\n#include \n#include \n#include \n#include \n#include \n\n#define HASH_SIZE 100000\n#define MAX_KMER_LEN 64\n#define MAX_CONTIG_LEN 10000\n\ntypedef struct kmer_node {\n char kmer[MAX_KMER_LEN];\n char left_ext;\n char right_ext;\n bool visited;\n struct kmer_node* next;\n} kmer_node_t;\n\ntypedef struct {\n kmer_node_t* table[HASH_SIZE];\n} hash_table_t;\n\nshared hash_table_t* global_ht;\nshared char* shared_contigs[10000];\nshar" + }, + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93/span/step-28", + "excerpt": "cd /app && cat <<'EOF' > Makefile\nCC = gcc\nCFLAGS = -O2 -Wall -std=c99\nPTHREAD_FLAGS = -pthread\n\nall: serial pgen\n\nserial: serial.c\n\t$(CC) $(CFLAGS) -o serial serial.c\n\n# Note: Using pthread-based implementation due to UPC compiler installation 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"final-metrics" + ], + "searched": { + "final-test-output": [ + "panes/post-test.txt", + "sessions/tests.log", + "test_output.txt" + ], + "final-result": [ + "results.json", + "result.json", + "report.json", + "*_result.json" + ], + "final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 42, + "output": 980, + "reasoning": 0, + "cached": 39424 + }, + "cost": { + "kind": "estimated", + "usd": 0.0258356 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "responseSource": "provider", + "report": "The task required implementing a de Bruijn graph construction algorithm in Unified Parallel C (UPC). The agent initially failed to install the Berkeley UPC compiler (steps 5-6) as the configure script triggered apt-get for a non-existent package. The agent then pivoted to a pthreads-based implementation of 'pgen' (step 15), producing a regression: the parallel version generated 2500 lines of fragmented contigs instead of the 6 correct ones from the serial version (step 19). The agent fixed this regression by copying the serial traversal algorithm into 'pgen.c' (step 25), achieving identical output. However, the agent then created a 'pgen.upc' file (step 27) containing invalid code that would not compile without the unavailable UPC compiler (using 'shared' keyword with local malloc). The final Makefile (step 28) abandoned UPC and built only the pthreads version of 'pgen' from 'pgen.c'. As the UPC compiler was never installed, the final state failed to deliver the required UPC parallel executable.", + "providerModel": "glm-5.2", + "providerDurationMs": 15713, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.0258356, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93", + "clusterId": "codetrace-task:parallelize-graph", + "labelState": "positive", + "repetition": 1, + "executionIndex": 39, + "latencyMs": 12849.157243000001, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_0f98ebdb816330b37120", + "produced_at": "2026-07-30T15:36:36.247Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-5", + "claim": "Step 5 is incorrect. The agent attempted to run the Berkeley UPC configure script, but the observation shows it erroneously triggered an apt-get package search for 'berkeley-upc' which failed.", + "rationale": "The configure command failed with return code 100 and the output indicates the command attempted to locate a non-existent apt package instead of running the configure script properly, indicating a bad assumption about the environment or command syntax.", + "severity": "high", + "confidence": 0.75, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93/span/step-5", + "excerpt": "cd /tmp/berkeley_upc-2022.10.0 && ./configure --prefix=/usr/local --disable-mpi --enable-smp --disable-ibv --disable-shmem --disable-ofi --disable-ucx" + } + ], + "recommended_action": "Ensure the configure script is executed properly in the correct directory with the necessary build dependencies installed.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_6a2c8f9ee5f4c5e0fbe9", + "produced_at": "2026-07-30T15:36:36.247Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-6", + "claim": "Step 6 is incorrect. The agent incorrectly hypothesized that berkeley-upc was available as an apt package and attempted to install it, which failed.", + "rationale": "The command 'which upcc || apt-get update && apt-get install -y berkeley-upc' resulted in 'E: Unable to locate package berkeley-upc'. The agent assumed a package existed without verifying its availability.", + "severity": "medium", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93/span/step-6", + "excerpt": "which upcc || apt-get update && apt-get install -y berkeley-upc" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_f8d07e14d2608584b84e", + "produced_at": "2026-07-30T15:36:36.247Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-15", + "claim": "Step 15 is incorrect. The agent wrote an initial parallel pgen.c implementation that caused a severe output regression, generating 2500 individual k-mer lines instead of the expected 6 contigs.", + "rationale": "The observation in step 24 shows that the parallel version produced 2500 lines with 0 common contigs compared to the serial version's 6 lines. The multi-threaded traversal logic was fundamentally flawed.", + "severity": "high", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93/span/step-15", + "excerpt": "cd /app && cat <<'EOF' > pgen.c\n#include \n#include \n#include \n#include \n#include \n#include \n\n#define HASH_SIZE 100000\n#define MAX_KMER_LEN 64\n#define MAX_CONTIG_LEN 10000\n#define MAX_THREADS 8\n\ntypedef struct kmer_node {\n char kmer[MAX_KMER_LEN];\n char left_ext;\n char right_ext;\n bool visited;\n struct kmer_node* next;\n pthread_mutex_t lock;\n} kmer_node_t;\n\ntypedef struct {\n kmer_node_t* table[HASH_SIZE];\n pthread_mutex_t bu" + } + ], + "recommended_action": "Fix the parallel graph traversal logic to ensure contigs are properly assembled and the output matches the serial version.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_0e122a84ba9bc9488861", + "produced_at": "2026-07-30T15:36:36.247Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-25", + "claim": "Step 25 is incorrect. The agent rewrote pgen.c to use the exact serial algorithm instead of a parallel implementation, abandoning the Unified Parallel C (UPC) requirement.", + "rationale": "While the code compiles and produces the correct output, the agent discarded the requirement to implement a parallel UPC version. The Makefile note in step 28 explicitly acknowledges using a pthread-based implementation due to UPC compiler installation complexity, but the pgen.c file written in step 25 lacks any actual multi-threading or parallel processing code.", + "severity": "high", + "confidence": 0.85, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93/span/step-25", + "excerpt": "cd /app && cat <<'EOF' > pgen.c\n#include \n#include \n#include \n#include \n#include \n#include \n\n#define HASH_SIZE 100000\n#define MAX_KMER_LEN 64\n#define MAX_CONTIG_LEN 10000\n\ntypedef struct kmer_node {\n char kmer[MAX_KMER_LEN];\n char left_ext;\n char right_ext;\n bool visited;\n struct kmer_node* next;\n} kmer_node_t;\n\ntypedef struct {\n kmer_node_t* table[HASH_SIZE];\n} hash_table_t;\n\n// Hash function for k-mer strings\nunsigned int hash(" + } + ], + "recommended_action": "Properly install the Berkeley UPC compiler and implement the parallel version using UPC constructs as required.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_a0dbec6e53594bc756ea", + "produced_at": "2026-07-30T15:36:36.247Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-27", + "claim": "Step 27 is incorrect. The agent wrote a pgen.upc file containing UPC code but never compiled or tested it, leaving dead code that does not fulfill the deliverable requirements.", + "rationale": "The agent created pgen.upc but the final Makefile only builds pgen from pgen.c using gcc. The UPC file is unused and the parallel UPC executable was never created.", + "severity": "medium", + "confidence": 0.8, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93/span/step-27", + "excerpt": "cd /app && cat <<'EOF' > pgen.upc\n#include \n#include \n#include \n#include \n#include \n\n#define HASH_SIZE 100000\n#define MAX_KMER_LEN 64\n#define MAX_CONTIG_LEN 10000\n\ntypedef struct kmer_node {\n char kmer[MAX_KMER_LEN];\n char left_ext;\n char right_ext;\n bool visited;\n struct kmer_node* next;\n} kmer_node_t;\n\ntypedef struct {\n kmer_node_t* table[HASH_SIZE];\n} hash_table_t;\n\nshared hash_table_t* global_ht;\nshared char* shared_contigs[10000];\nshar" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 1, + "matchedIssueIds": [ + "incorrect:25" + ], + "missedIssueIds": [], + "supportedFindingIndexes": [ + 3 + ], + "unsupportedFindingIndexes": [ + 0, + 1, + 2, + 4 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93/span/step-5", + "excerpt": "cd /tmp/berkeley_upc-2022.10.0 && ./configure --prefix=/usr/local --disable-mpi --enable-smp --disable-ibv --disable-shmem --disable-ofi --disable-ucx" + }, + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93/span/step-6", + "excerpt": "which upcc || apt-get update && apt-get install -y berkeley-upc" + }, + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-parallelize-graph-41ae5c93/span/step-15", + "excerpt": "cd /app && cat <<'EOF' > pgen.c\n#include \n#include \n#include \n#include \n#include \n#include \n\n#define HASH_SIZE 100000\n#define MAX_KMER_LEN 64\n#define MAX_CONTIG_LEN 10000\n#define MAX_THREADS 8\n\ntypedef struct kmer_node {\n char 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"final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 42, + "output": 786, + "reasoning": 0, + "cached": 39424 + }, + "cost": { + "kind": "estimated", + "usd": 0.0254088 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "responseSource": "provider", + "report": "The agent failed to install the Berkeley UPC compiler (steps 5-6) and abandoned the Unified Parallel C requirement. On step 15, it wrote a flawed pthread-based 'pgen.c' file that incorrectly attempted multi-threaded graph traversal, producing 2500 output lines instead of the expected 6 contigs. The agent eventually fixed this output mismatch on step 25 by rewriting 'pgen.c' as a serial implementation disguised with the pthreads build flag, meaning the final program was not actually parallelized and was not implemented in UPC.", + "providerModel": "glm-5.2", + "providerDurationMs": 12740, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.0254088, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-setup-custom-dev-env-534cdad2", + "clusterId": "codetrace-task:setup-custom-dev-env", + "labelState": "trusted-negative", + "repetition": 0, + "executionIndex": 40, + "latencyMs": 5978.007590000001, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_7880763c0af81ea9b0e2", + "produced_at": "2026-07-30T15:36:30.555Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-17", + "claim": "Step 17 is incorrect. 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I identified one clearly incorrect step: step-17 used `source` in a `/bin/sh` environment, causing an immediate failure (`/bin/sh: 1: source: not found`). The agent corrected this in step-18 by using `.` instead. All other steps either succeeded or represent diagnostic probes or correct corrective actions. Steps 5 and 7 failed due to missing dependencies (curl, git), but the agent did not cause those failures through wrong actions; the failures were environmental and the subsequent installs were correct. Final verification was unavailable.", + "providerModel": "glm-5.2", + "providerDurationMs": 5937, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.016704599999999997, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-setup-custom-dev-env-534cdad2", + "clusterId": "codetrace-task:setup-custom-dev-env", + "labelState": "trusted-negative", + "repetition": 1, + "executionIndex": 43, + "latencyMs": 10824.664795000004, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_7880763c0af81ea9b0e2", + "produced_at": "2026-07-30T15:36:41.397Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-17", + "claim": "Step 17 is incorrect. The agent incorrectly uses the `source` command in `/bin/sh`, causing a command-not-found error, when it should have used the POSIX-compliant `.` builtin instead.", + "rationale": "The observation shows `/bin/sh: 1: source: not found`, indicating the agent ran a shell-specific builtin in an incompatible shell context.", + "severity": "medium", + "confidence": 1, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-setup-custom-dev-env-534cdad2/span/step-17", + "excerpt": "source /root/miniconda3/etc/profile.d/conda.sh && conda create -n terminal-bench python=3.10 -y" + } + ], + "recommended_action": "Use `. /path/to/file` instead of `source /path/to/file` for POSIX shell compatibility.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_a32fca3d49954785240b", + "produced_at": "2026-07-30T15:36:41.397Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-23", + "claim": "Step 23 is incorrect. The agent uses `head -20` before grepping for the `plugins` configuration in `.zshrc`, which incorrectly omits the `plugins` line from the verification output because it appears much later in the file.", + "rationale": "The file dump in step 10 shows the `plugins` line is well below line 20. The verification in step 23 output only shows the theme but not the plugins line, indicating the `head` truncation prematurely cut it off.", + "severity": "low", + "confidence": 0.95, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-setup-custom-dev-env-534cdad2/span/step-23", + "excerpt": "echo \"=== Final Configuration Verification ===\" && echo \"Available shells:\" && cat /etc/shells | grep -E \"(bash|zsh)\" && echo -e \"\\n=== ZSH Configuration Summary ===\" && head -20 /root/.zshrc | grep -E \"(ZSH_THEME|plugins)\" && echo -e \"\\n=== Conda environments ===\" && /root/miniconda3/bin/conda info --envs && echo -e \"\\n=== Testing default shell change to zsh ===\" && chsh -s $(which zsh) && echo \"Default shell changed successfully\"" + } + ], + "recommended_action": "Search the entire file using `grep -E '(ZSH_THEME|plugins)' /root/.zshrc` without a `head` filter.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 0, + "matchedIssueIds": [], + "missedIssueIds": [], + "supportedFindingIndexes": [], + "unsupportedFindingIndexes": [ + 0, + 1 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-setup-custom-dev-env-534cdad2/span/step-17", + "excerpt": "source /root/miniconda3/etc/profile.d/conda.sh && conda create -n terminal-bench python=3.10 -y" + }, + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-setup-custom-dev-env-534cdad2/span/step-23", + "excerpt": "echo \"=== Final Configuration Verification ===\" && echo \"Available shells:\" && cat /etc/shells | grep -E \"(bash|zsh)\" && echo -e \"\\n=== ZSH Configuration Summary ===\" && head -20 /root/.zshrc | grep -E \"(ZSH_THEME|plugins)\" && echo -e \"\\n=== Conda environments ===\" && /root/miniconda3/bin/conda info --envs && echo -e \"\\n=== Testing default shell 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"*_result.json" + ], + "final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 55, + "output": 556, + "reasoning": 0, + "cached": 26752 + }, + "cost": { + "kind": "estimated", + "usd": 0.017307399999999997 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "responseSource": "provider", + "report": "The agent executes a setup task to install zsh, oh-my-zsh, plugins, and miniconda. The steps where the agent makes an incorrect action leading to a failure are:\n\n1. Step 17: The agent attempts `source /root/miniconda3/etc/profile.d/conda.sh && conda create -n terminal-bench python=3.10 -y`. This fails with `/bin/sh: 1: source: not found`. The agent incorrectly assumes a POSIX-compatible shell understands the bash/zsh-specific `source` builtin (it should have used `.` or `bash -c`). The failure is caused by the agent's wrong action.\n\n2. Step 23: The agent runs `head -20 /root/.zshrc | grep -E \"(ZSH_THEME|plugins)\"`. This is a defective verification command: `head -20` returns the first 20 lines of the file, and the `plugins` configuration is located below line 20 (confirmed by the file dump in step 10 showing plugins around line 70). This caused the `plugins` line to be silently omitted from the output, giving a false impression that the configuration might be incomplete or missing.\n\nOther failed commands (steps 2, 3, 7) are diagnostic probes exposing missing dependencies and are not incorrect in themselves. Corrective actions taken to fix those issues are correct.", + "providerModel": "glm-5.2", + "providerDurationMs": 10786, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.017307399999999997, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5", + "clusterId": "codetrace-task:build-initramfs-qemu", + "labelState": "positive", + "repetition": 0, + "executionIndex": 44, + "latencyMs": 23003.918232999997, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_229852829fc5c03b0080", + "produced_at": "2026-07-30T15:36:59.322Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-3", + "claim": "Step 3 is incorrect. The agent used brace expansion `mkdir -p /app/ramfs/{bin,dev,etc,proc,sys,usr}` which fails under `/bin/sh` (dash), creating a single literal directory named `{bin,dev,etc,proc,sys,usr}` instead of the intended subdirectories.", + "rationale": "The observation in message-19 confirms that a literal directory named `{bin,dev,etc,proc,sys,usr}` was created instead of individual folders, causing subsequent `cp` and `mknod` operations to fail.", + "severity": "high", + "confidence": 0.98, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/span/step-3", + "excerpt": "mkdir -p /app/ramfs/{bin,dev,etc,proc,sys,usr} && echo \"Created initramfs directory structure\"" + } + ], + "recommended_action": "List the directories explicitly in the `mkdir -p` command instead of relying on brace expansion.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_2931c2be822737ed09b3", + "produced_at": "2026-07-30T15:36:59.322Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-9", + "claim": "Step 9 is incorrect. The agent re-ran `mkdir -p /app/ramfs/bin` as a corrective action but failed to clean up the incorrectly created literal `{bin,dev,etc,proc,sys,usr}` directory first, leaving the filesystem in a polluted state.", + "rationale": "Although the `cp` command succeeded after adding `bin`, the `ls` output in message-19 shows the erroneous literal directory still persisted, indicating the fix was incomplete.", + "severity": "medium", + "confidence": 0.85, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/span/step-9", + "excerpt": "ls -la /app/ramfs/ && mkdir -p /app/ramfs/bin && cp /bin/sh /bin/mount /bin/echo /app/ramfs/bin/" + } + ], + "recommended_action": "Remove the incorrectly named literal directory before proceeding with further setup.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_9167d3f701656fa81438", + "produced_at": "2026-07-30T15:36:59.322Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-10", + "claim": "Step 10 is incorrect. The agent attempted to remove and recreate directories using `rm -rf /app/ramfs/{bin,dev,etc,proc,sys,usr}` but the literal braces failed to match the directory contents, leaving the bad literal directory in place.", + "rationale": "Since `/bin/sh` does not expand braces, the `rm -rf` and `mkdir -p` commands only targeted the literal path. The subsequent message-27 observation still shows the `{bin,dev,etc,proc,sys,usr}` directory.", + "severity": "medium", + "confidence": 0.92, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/span/step-10", + "excerpt": "rm -rf /app/ramfs/{bin,dev,etc,proc,sys,usr} && mkdir -p /app/ramfs/{bin,dev,etc,proc,sys,usr} && cp /bin/sh /bin/mount /bin/echo /app/ramfs/bin/" + } + ], + "recommended_action": "Remove the incorrect literal directory using its exact name or use a wildcard, then create directories individually.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_c01567478d13043b09e4", + "produced_at": "2026-07-30T15:36:59.322Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-14", + "claim": "Step 14 is incorrect. The agent repeated the failed brace expansion pattern `rm -rf /app/ramfs/{bin,dev,etc,proc,sys,usr}` again after prior evidence that it creates literal directories, compounding the filesystem pollution.", + "rationale": "This is the third time the exact same brace expansion mistake was made despite the literal directory being observed in the output of prior steps.", + "severity": "medium", + "confidence": 0.95, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/span/step-14", + "excerpt": "rm -rf /app/ramfs/{bin,dev,etc,proc,sys,usr} && mkdir -p /app/ramfs/{bin,dev,etc,proc,sys,usr} && cp /bin/sh /bin/mount /bin/echo /app/ramfs/bin/ && mknod /app/ramfs/dev/console c 5 1" + } + ], + "recommended_action": "Stop using brace expansion and list the directories explicitly.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_821ddf48ec3b05cdab5a", + "produced_at": "2026-07-30T15:36:59.322Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-16", + "claim": "Step 16 is incorrect. The agent built the initramfs using `find . | cpio ...` from within `/app/ramfs`, which incorrectly includes the `initramfs.cpio.gz` output file inside itself.", + "rationale": "In the archive listing at message-35, `initramfs.cpio.gz` appears as a 0-byte file within the cpio archive, confirming the output file was caught by `find .` during creation.", + "severity": "high", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/span/step-16", + "excerpt": "chmod +x /app/ramfs/init && for bin in /bin/sh /bin/mount /bin/echo; do ldd \"$bin\" 2>/dev/null | grep \"=>\" | awk '{print $3}' | sort -u; done | xargs -I {} cp {} /app/ramfs/bin/ 2>/dev/null || echo \"Libraries copied\" && cd /app/ramfs && find . | cpio -H newc -o | gzip > /app/ramfs/initramfs.cpio.gz" + } + ], + "recommended_action": "Write the `initramfs.cpio.gz` output to a parent directory or exclude it from the `find` command during cpio creation.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_5ed6d55e3a0e6ae4ca20", + "produced_at": "2026-07-30T15:36:59.322Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-19", + "claim": "Step 19 is incorrect. The agent reused the problematic brace expansion `rm -rf /app/ramfs/{bin,dev,etc,proc,sys,usr}` to set up directories, which failed to properly create the `dev` directory and caused the subsequent `mknod` command to fail.", + "rationale": "The observation in message-39 shows `mknod: /app/ramfs/dev/console: No such file or directory`, indicating the brace expansion failed to create the necessary `dev` folder.", + "severity": "high", + "confidence": 0.95, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/span/step-19", + "excerpt": "rm -rf /app/ramfs/* && mkdir -p /app/ramfs/{bin,dev,etc,proc,sys,usr} && cat <<'EOF' > /app/ramfs/init && chmod +x /app/ramfs/init && mknod /app/ramfs/dev/console c 5 1 && cp /bin/sh /bin/mount /bin/echo /app/ramfs/bin/ && for bin in /bin/sh /bin/mount /bin/echo; do ldd \"$bin\" 2>/dev/null | grep \"=>\" | awk '{print $3}' | sort -u; done | xargs -I {} cp {} /app/ramfs/bin/ 2>/dev/null && cd /app/ramfs && find . | cpio -H newc -o | gzip > /app/ramfs/initramfs.cpio.gz\n#!/bin/sh\nmount -t proc proc /proc\nmount -t " + } + ], + "recommended_action": "Use explicit directory names without brace expansion.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_96260f513b26fe85937d", + "produced_at": "2026-07-30T15:36:59.322Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-21", + "claim": "Step 21 is incorrect. The agent again used brace expansion `mkdir -p /app/ramfs/{bin,dev,etc,proc,sys,usr}` resulting in the `mknod /app/ramfs/dev/console` command failing because the `dev` directory was not actually created.", + "rationale": "The observation in message-43 again shows `mknod: /app/ramfs/dev/console: No such file or directory`, directly resulting from the continued use of unsupported brace expansion.", + "severity": "high", + "confidence": 0.95, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/span/step-21", + "excerpt": "chmod +x /app/ramfs/init && mknod /app/ramfs/dev/console c 5 1 && cp /bin/sh /bin/mount /bin/echo /app/ramfs/bin/ && for bin in /bin/sh /bin/mount /bin/echo; do ldd \"$bin\" 2>/dev/null | grep \"=>\" | awk '{print $3}' | sort -u; done | xargs -I {} cp {} /app/ramfs/bin/ 2>/dev/null && cd /app/ramfs && find . | cpio -H newc -o | gzip > /app/ramfs/initramfs.cpio.gz" + } + ], + "recommended_action": "Create directories explicitly and verify they exist before creating device nodes.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_4191e6bf199c237511f1", + "produced_at": "2026-07-30T15:36:59.322Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-28", + "claim": "Step 28 is incorrect. The agent attempted to run QEMU with `-serial stdio` while `-nographic` was also specified, resulting in a conflict because `-nographic` already redirects the serial port to stdio.", + "rationale": "The observation in message-57 shows QEMU failing with `cannot use stdio by multiple character devices`, confirming the flag conflict.", + "severity": "medium", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/span/step-28", + "excerpt": "qemu-system-x86_64 -kernel /app/linux-6.9/arch/x86/boot/bzImage -initrd /app/ramfs/initramfs.cpio.gz -append \"console=ttyS0\" -nographic -serial stdio" + } + ], + "recommended_action": "Remove the redundant `-serial stdio` flag when using `-nographic`, or use `-serial mon:stdio` instead.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_5c144a8ab4cb6e2838dd", + "produced_at": "2026-07-30T15:36:59.322Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-32", + "claim": "Step 32 is incorrect. The agent introduced a bad hypothesis by attempting to run QEMU in the background with `-display none -serial pty`, which conflicts with the interactive `-nographic` flag and causes a daemonization error.", + "rationale": "The observation in message-65 shows the QEMU command failing because of the conflict between the requested flags and daemonization mode.", + "severity": "medium", + "confidence": 0.85, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/span/step-32", + "excerpt": "echo \"Testing QEMU boot process...\" && qemu-system-x86_64 -kernel /app/linux-6.9/arch/x86/boot/bzImage -initrd /app/ramfs/initramfs.cpio.gz -append \"console=ttyS0 rdinit=/bin/sh\" -nographic -display none -serial pty" + } + ], + "recommended_action": "Avoid combining `-display none`, `-serial pty`, and `-nographic`; run the command as requested or correctly configured for background operation.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_2aa91425e71a7624b10c", + "produced_at": "2026-07-30T15:36:59.322Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-33", + "claim": "Step 33 is incorrect. Despite the previous step failing due to daemonization conflicts, the agent immediately attempted to run QEMU with `-daemonize` while still retaining the incompatible `-nographic` flag.", + "rationale": "The observation in message-67 again shows the exact same failure `qemu-system-x86_64: -nographic cannot be used with -daemonize`, indicating the agent ignored the error from the previous step.", + "severity": "high", + "confidence": 0.95, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/span/step-33", + "excerpt": "qemu-system-x86_64 -kernel /app/linux-6.9/arch/x86/boot/bzImage -initrd /app/ramfs/initramfs.cpio.gz -append \"console=ttyS0 rdinit=/bin/sh\" -nographic -daemonize && sleep 3 && echo \"QEMU started in background\"" + } + ], + "recommended_action": "Remove the `-nographic` flag before attempting to run QEMU with `-daemonize`.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 7, + "matchedIssueIds": [ + "incorrect:10", + "incorrect:14", + "incorrect:16" + ], + "missedIssueIds": [ + "incorrect:8", + "incorrect:11", + "incorrect:12", + "incorrect:15" + ], + "supportedFindingIndexes": [ + 2, + 3, + 4 + ], + "unsupportedFindingIndexes": [ + 0, + 1, + 5, + 6, + 7, + 8, + 9 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/span/step-3", + "excerpt": "mkdir -p /app/ramfs/{bin,dev,etc,proc,sys,usr} && echo \"Created initramfs directory structure\"" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/span/step-9", + "excerpt": "ls -la /app/ramfs/ && mkdir -p /app/ramfs/bin && cp /bin/sh /bin/mount /bin/echo /app/ramfs/bin/" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/span/step-19", + "excerpt": "rm -rf /app/ramfs/* && mkdir -p /app/ramfs/{bin,dev,etc,proc,sys,usr} && cat <<'EOF' > /app/ramfs/init && chmod +x /app/ramfs/init && mknod /app/ramfs/dev/console c 5 1 && cp /bin/sh /bin/mount /bin/echo /app/ramfs/bin/ && for bin in /bin/sh /bin/mount /bin/echo; do ldd \"$bin\" 2>/dev/null | grep \"=>\" | awk '{print $3}' | sort -u; done | xargs -I {} cp {} /app/ramfs/bin/ 2>/dev/null && cd /app/ramfs && find . | cpio -H newc -o | gzip > /app/ramfs/initramfs.cpio.gz\n#!/bin/sh\nmount -t proc proc /proc\nmount -t " + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/span/step-21", + "excerpt": "chmod +x /app/ramfs/init && mknod /app/ramfs/dev/console c 5 1 && cp /bin/sh /bin/mount /bin/echo /app/ramfs/bin/ && for bin in /bin/sh /bin/mount /bin/echo; do ldd \"$bin\" 2>/dev/null | grep \"=>\" | awk '{print $3}' | sort -u; done | xargs -I {} cp {} /app/ramfs/bin/ 2>/dev/null && cd /app/ramfs && find . | cpio -H newc -o | gzip > /app/ramfs/initramfs.cpio.gz" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/span/step-28", + "excerpt": "qemu-system-x86_64 -kernel /app/linux-6.9/arch/x86/boot/bzImage -initrd /app/ramfs/initramfs.cpio.gz -append \"console=ttyS0\" -nographic -serial stdio" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/span/step-32", + "excerpt": "echo \"Testing QEMU boot process...\" && qemu-system-x86_64 -kernel /app/linux-6.9/arch/x86/boot/bzImage -initrd /app/ramfs/initramfs.cpio.gz -append \"console=ttyS0 rdinit=/bin/sh\" -nographic -display none -serial pty" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/span/step-33", + "excerpt": "qemu-system-x86_64 -kernel /app/linux-6.9/arch/x86/boot/bzImage -initrd /app/ramfs/initramfs.cpio.gz -append \"console=ttyS0 rdinit=/bin/sh\" -nographic -daemonize && sleep 3 && echo \"QEMU started in background\"" + } + ], + "issueRecall": 0.42857142857142855, + "findingPrecision": 0.3, + "f1": 0.3529411764705882, + "criticalStepAccuracy": null, + "citationCoverage": 1, + "citationExcerptCoverage": 1, + "citationLabelAgreement": 0.3, + "predictionOnLabelEmptyCase": false + }, + "evidenceResolution": { + "checked": 10, + "resolved": 10, + "unresolvedEvidence": [], + "errors": [], + "validity": 1 + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "DeepSeek/DeepSeek-V3.2", + "medium", + "system-administration" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5", + "taskName": "build-initramfs-qemu", + "agent": "mini-SWE-agent", + "model": "DeepSeek/DeepSeek-V3.2", + "solved": false, + "stepCount": 35, + "labelSet": "incorrect-only", + "sourceRelpath": "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/build-initramfs-qemu", + "difficulty": "medium", + "category": "system-administration", + "traceFileRelativePath": "miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5.otlp.jsonl", + "traceFileSha256": "d5595b88cb1538f87bd5a0a94d72b1a272aa7b593e9fc6b9e15af7b7422aab91", + "labelLeakScan": { + "passed": true, + "scannedBytes": 74191, + "scannedValues": 2188 + }, + "verificationArtifacts": { + "traceId": "miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5", + "status": "missing", + "outcome": { + "status": "unavailable", + "reason": "missing-result", + "sources": [], + "passedCheckCount": 0, + "failedCheckCount": 0, + "passedChecks": [], + "failedChecks": [] + }, + "outcomeSpanId": "benchmark-verification-outcome-a462b51f7ddd9d41", + "caseDirectory": "miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/build-initramfs-qemu", + "caseDirectoriesSearched": [ + "miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/build-initramfs-qemu", + "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/build-initramfs-qemu" + ], + "totalBytes": 0, + "maxBytes": 8388608, + "files": [], + "missingRoles": [ + "final-test-output", + "final-result", + "final-metrics" + ], + "searched": { + "final-test-output": [ + "panes/post-test.txt", + "sessions/tests.log", + "test_output.txt" + ], + "final-result": [ + "results.json", + "result.json", + "report.json", + "*_result.json" + ], + "final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 9, + "output": 1769, + "reasoning": 0, + "cached": 23424 + }, + "cost": { + "kind": "estimated", + "usd": 0.017951599999999998 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "responseSource": "provider", + "report": "The trajectory shows an agent attempting to build an initramfs for QEMU. The agent repeatedly fails to use brace expansion correctly for directory creation, creating a literal directory named '{bin,dev,etc,proc,sys,usr}' because the shell (/bin/sh/dash) does not expand the braces. The agent attempts to fix this by issuing commands with braces again (steps 9, 10, 14, 19, 21) before finally succeeding by listing directories individually at step 23. Several mknod failures occur because of this directory issue. Later, the agent includes the output file `initramfs.cpio.gz` itself inside the cpio archive because `find .` is run from the directory containing the output file (step 16). The agent also attempts to verify the initramfs by running QEMU interactively (steps 17, 26, 27, 29, 31), resulting in hangs or no output. At step 32, the agent introduces incompatible QEMU flags (`-display none -serial pty` combined with `-nographic`), and at step 33, repeats a bad command with `-daemonize` despite the previous step showing it is incompatible with `-nographic`. The final verification was unavailable, but the QEMU test commands never produced boot output.", + "providerModel": "glm-5.2", + "providerDurationMs": 22961, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.017951599999999998, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5", + "clusterId": "codetrace-task:build-initramfs-qemu", + "labelState": "positive", + "repetition": 1, + "executionIndex": 47, + "latencyMs": 26279.642665000007, + "latencySource": "benchmark-clock", + "findings": [], + "score": { + "expectedIssueCount": 7, + "matchedIssueIds": [], + "missedIssueIds": [ + "incorrect:8", + "incorrect:10", + "incorrect:11", + "incorrect:12", + "incorrect:14", + "incorrect:15", + "incorrect:16" + ], + "supportedFindingIndexes": [], + "unsupportedFindingIndexes": [], + "unlabeledEvidence": [], + "issueRecall": 0, + "findingPrecision": 0, + "f1": 0, + "criticalStepAccuracy": null, + "citationCoverage": null, + "citationExcerptCoverage": null, + "citationLabelAgreement": null, + "predictionOnLabelEmptyCase": false + }, + "evidenceResolution": { + "checked": 0, + "resolved": 0, + "unresolvedEvidence": [], + "errors": [], + "validity": null + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "DeepSeek/DeepSeek-V3.2", + "medium", + "system-administration" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5", + "taskName": "build-initramfs-qemu", + "agent": "mini-SWE-agent", + "model": "DeepSeek/DeepSeek-V3.2", + "solved": false, + "stepCount": 35, + "labelSet": "incorrect-only", + "sourceRelpath": "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/build-initramfs-qemu", + "difficulty": "medium", + "category": "system-administration", + "traceFileRelativePath": "miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5.otlp.jsonl", + "traceFileSha256": "d5595b88cb1538f87bd5a0a94d72b1a272aa7b593e9fc6b9e15af7b7422aab91", + "labelLeakScan": { + "passed": true, + "scannedBytes": 74191, + "scannedValues": 2188 + }, + "verificationArtifacts": { + "traceId": "miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5", + "status": "missing", + "outcome": { + "status": "unavailable", + "reason": "missing-result", + "sources": [], + "passedCheckCount": 0, + "failedCheckCount": 0, + "passedChecks": [], + "failedChecks": [] + }, + "outcomeSpanId": "benchmark-verification-outcome-a462b51f7ddd9d41", + "caseDirectory": "miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/build-initramfs-qemu", + "caseDirectoriesSearched": [ + "miniswe-DeepSeek__DeepSeek-V3.2-build-initramfs-qemu-da062aa5/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/build-initramfs-qemu", + "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/build-initramfs-qemu" + ], + "totalBytes": 0, + "maxBytes": 8388608, + "files": [], + "missingRoles": [ + "final-test-output", + "final-result", + "final-metrics" + ], + "searched": { + "final-test-output": [ + "panes/post-test.txt", + "sessions/tests.log", + "test_output.txt" + ], + "final-result": [ + "results.json", + "result.json", + "report.json", + "*_result.json" + ], + "final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 9, + "output": 2048, + "reasoning": 0, + "cached": 23424 + }, + "cost": { + "kind": "estimated", + "usd": 0.0185654 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "rawPredictions": [], + "acceptedFindings": [] + }, + "error": { + "class": "LlmResponseError", + "code": "judge", + "message": "Provider response did not satisfy the structured output contract." + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-gpt2-codegolf-cf06bae2", + "clusterId": "codetrace-task:gpt2-codegolf", + "labelState": "unlabeled", + "repetition": 0, + "executionIndex": 48, + "latencyMs": 20069.750047, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_0f98ebdb816330b37120", + "produced_at": "2026-07-30T15:37:01.417Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-5", + "claim": "Step 5 is incorrect. The agent wrote an initial C program that failed to compile due to a variable name collision and used an unsupported hardcoded offset to read the checkpoint.", + "rationale": "The code declares `float ... v[H]` which conflicts with `char**v` in main. It also uses `fseek(f,1000000,0)` without understanding the checkpoint structure.", + "severity": "high", + "confidence": 1, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-Anthropic__Claude-Sonnet-4-20250514-Thinking-gpt2-codegolf-cf06bae2/span/step-5", + "excerpt": "cat <<'EOF' > /app/gpt2.c\n#include\n#include\n#include\n#include\n#define V 50257\n#define H 768\n#define L 12\n#define S 1024\nfloat W[V*H],P[S*H],A[L][H*H*3],B[L][H],M[L][H*4],N[L][H],O[H*V],R[H];\nchar T[V][20];\nint C[S];\nvoid s(float*a,int n){float m=a[0];for(int i=1;im)m=a[i];float s=0;for(int i=0;i /app/gpt2.c\n#include\n#include\n#include\n#include\n#define V 50257\n#define H 768\n#define L 12\n#define S 1024\nfloat W[V*H],P[S*H],A[L][H*H*3],B[L][H],M[L][H*4],N[L][H],O[H*V],R[H];\nchar T[V][20];\nint C[S];\nvoid s(float*a,int n){float m=a[0];for(int i=1;im)m=a[i];float t=0;for(int i=0;i /app/gpt2.c\n#include\n#include\n#include\n#include\n#define V 50257\n#define H 768\n#define L 12\n#define S 1024\nfloat*W,*P,*A[L],*B[L],*M[L],*N[L],*O,*R;\nchar T[V][16];\nint C[S],tok_count;\nvoid softmax(float*a,int n){\nfloat m=a[0];for(int i=1;im)m=a[i];\nfloat s=0;for(int i=0;i /app/gpt2.c\n#include\n#include\n#include\n#include\n#define V 50257\n#define H 768\n#define L 12\nfloat W[V*H],P[1024*H],A[L*H*H*3],O[H*V];\nchar T[V][16];\nint C[1024];\nvoid mm(float*a,float*b,float*c,int m,int k,int n){\nfor(int i=0;i /app/gpt2.c\n#include\n#include\n#include\n#include\n#define V 50257\n#define H 768\n#define L 12\nfloat W[V*H],P[1024*H],A[L*H*H*3],O[H*V];\nchar vocab[V][32];\nint tokens[1024];\nvoid mm(float*a,float*b,float*c,int m,int k,int n){\nfor(int i=0;i /app/gpt2.c\n#include\n#include\n#include\n#include\n#define V 50257\n#define H 768\n#define L 12\nfloat W[V*H],P[1024*H],A[L*H*H*3],O[H*V];\nchar vocab[V][20];\nint tokens[1024];\nvoid mm(float*a,float*b,float*c,int m,int k,int n){\nfor(int i=0;i /app/gpt2.c\n#include\n#include\n#include\n#include\n#define V 50257\n#define H 768\n#define L 12\nfloat W[V*H],P[1024*H],A[L*H*H*3],B[L*H],M[L*H*4],N[L*H],O[H*V],R[V];\nchar vocab[V][16];\nint tokens[1024];\nvoid mm(float*a,float*b,float*c,int r,int k,int n){\nfor(int i=0;i /app/gpt2.c\n#include\n#include\n#include\n#include\n#define V 50257\n#define H 768\n#define L 12\n#define S 1024\nfloat*W,*P,*A,*O;\nchar vocab[V][16];\nint tok[S];\nvoid mm(float*a,float*b,float*c,int m,int k,int n){\nfor(int i=0;i /app/gpt2.c\n#include\n#include\n#include\n#include\n#define V 50257\n#define H 768\n#define L 12\nfloat W[V*H],P[1024*H],A[L*H*H*3],O[H*V];\nchar vocab[V][20];\nint tok[1024];\nvoid mm(float*a,float*b,float*c,int m,int k,int n){\nfor(int i=0;i /app/gpt2.c\n#include\n#include\n#include\n#include\n#define V 50257\n#define H 768\n#define L 12\n#define S 1024\nfloat W[V*H],P[S*H],A[L][H*H*3],B[L][H],M[L][H*4],N[L][H],O[H*V],R[H];\nchar T[V][20];\nint C[S];\nvoid s(float*a,int n){float m=a[0];for(int i=1;im)m=a[i];float s=0;for(int i=0;i /app/gpt2.c\n#include\n#include\n#include\n#include\n#define V 50257\n#define H 768\n#define L 12\n#define S 1024\nfloat W[V*H],P[S*H],A[L][H*H*3],B[L][H],M[L][H*4],N[L][H],O[H*V],R[H];\nchar T[V][20];\nint C[S];\nvoid s(float*a,int n){float m=a[0];for(int i=1;im)m=a[i];float t=0;for(int i=0;i /app/gpt2.c\n#include\n#include\n#include\n#include\n#define V 50257\n#define H 768\n#define L 12\n#define S 1024\nfloat*W,*P,*A[L],*B[L],*M[L],*N[L],*O,*R;\nchar T[V][16];\nint C[S],tok_count;\nvoid softmax(float*a,int n){\nfloat m=a[0];for(int i=1;im)m=a[i];\nfloat s=0;for(int i=0;i /app/gpt2.c\n#include\n#include\n#include\n#include\n#define V 50257\n#define H 768\n#define L 12\nfloat W[V*H],P[1024*H],A[L*H*H*3],O[H*V];\nchar T[V][16];\nint C[1024];\nvoid mm(float*a,float*b,float*c,int m,int k,int n){\nfor(int i=0;i /app/gpt2.c\n#include\n#include\n#include\n#include\n#define V 50257\n#define H 768\n#define L 12\nfloat W[V*H],P[1024*H],A[L*H*H*3],O[H*V];\nchar vocab[V][32];\nint tokens[1024];\nvoid mm(float*a,float*b,float*c,int m,int k,int n){\nfor(int i=0;i /app/gpt2.c\n#include\n#include\n#include\n#include\n#define V 50257\n#define H 768\n#define L 12\nfloat W[V*H],P[1024*H],A[L*H*H*3],O[H*V];\nchar vocab[V][20];\nint tokens[1024];\nvoid mm(float*a,float*b,float*c,int m,int k,int n){\nfor(int i=0;i /app/gpt2.c\n#include\n#include\n#include\n#include\n#define V 50257\n#define H 768\n#define L 12\nfloat W[V*H],P[1024*H],A[L*H*H*3],B[L*H],M[L*H*4],N[L*H],O[H*V],R[V];\nchar vocab[V][16];\nint tokens[1024];\nvoid mm(float*a,float*b,float*c,int r,int k,int n){\nfor(int i=0;i /app/gpt2.c\n#include\n#include\n#include\n#include\n#define V 50257\n#define H 768\n#define L 12\n#define S 1024\nfloat*W,*P,*A,*O;\nchar vocab[V][16];\nint tok[S];\nvoid mm(float*a,float*b,float*c,int m,int k,int n){\nfor(int i=0;i /app/gpt2.c\n#include\n#include\n#include\n#include\n#define V 50257\n#define H 768\n#define L 12\nfloat W[V*H],P[1024*H],A[L*H*H*3],O[H*V];\nchar vocab[V][20];\nint tok[1024];\nvoid mm(float*a,float*b,float*c,int m,int k,int n){\nfor(int i=0;i= target_reward:\\n print(f\"Target reward reached at episode {episode}, stopping training\")\\n break' /app/train.py && \\\ncd /app && python train.py" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_821ddf48ec3b05cdab5a", + "produced_at": "2026-07-30T15:37:02.161Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-16", + "claim": "Step 16 is incorrect. The agent attempted a third `sed` command to fix the indentation, which again failed and left the code unusable.", + "rationale": "The observation confirms the IndentationError persisted, showing the agent's action was incorrect and unable to resolve the syntax issue.", + "severity": "high", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-cartpole-rl-training-fec5f97e/span/step-16", + "excerpt": "sed -i '/if episode % print_interval == 0:/a\\ if episode_reward >= target_reward:\\n print(f\"Target reward reached at episode {episode}, stopping training\")\\n break' /app/train.py && \\\ncd /app && python train.py" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_96260f513b26fe85937d", + "produced_at": "2026-07-30T15:37:02.161Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-21", + "claim": "Step 21 is incorrect. The agent regressed the model by reducing the network's hidden layer size to 32 and removing the early stopping condition, which caused training to fail to reach the target reward.", + "rationale": "The agent changed the architecture from 64 to 32 hidden units in agent.py and ran train.py, which completed without reaching the target reward of 300 (max reward was 61), whereas the previous attempt had reached it.", + "severity": "critical", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-cartpole-rl-training-fec5f97e/span/step-21", + "excerpt": "cd /app && python train.py && du -sh /app/trained_model" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 4, + "matchedIssueIds": [ + "incorrect:14", + "incorrect:15", + "incorrect:16" + ], + "missedIssueIds": [ + "incorrect:13" + ], + "supportedFindingIndexes": [ + 1, + 2, + 3 + ], + "unsupportedFindingIndexes": [ + 0, + 4 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-cartpole-rl-training-fec5f97e/span/step-7", + "excerpt": "pip install torch==2.7.0+cpu --index-url https://download.pytorch.org/whl/cpu --no-deps && pip install numpy==2.3.1" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-cartpole-rl-training-fec5f97e/span/step-21", + "excerpt": "cd /app && python train.py && du -sh /app/trained_model" + } + ], + "issueRecall": 0.75, + "findingPrecision": 0.6, + "f1": 0.6666666666666665, + "criticalStepAccuracy": null, + "citationCoverage": 1, + "citationExcerptCoverage": 1, + "citationLabelAgreement": 0.6, + "predictionOnLabelEmptyCase": false + }, + "evidenceResolution": { + "checked": 5, + "resolved": 5, + "unresolvedEvidence": [], + "errors": [], + "validity": 1 + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "DeepSeek/DeepSeek-V3.2", + "hard", + "model-training", + "pytorch", + "rl" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-DeepSeek__DeepSeek-V3.2-cartpole-rl-training-fec5f97e", + "taskName": "cartpole-rl-training", + "agent": "mini-SWE-agent", + "model": "DeepSeek/DeepSeek-V3.2", + "solved": false, + "stepCount": 24, + "labelSet": "incorrect-only", + "sourceRelpath": "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/cartpole-rl-training", + "difficulty": "hard", + "category": "model-training", + "traceFileRelativePath": "miniswe-DeepSeek__DeepSeek-V3.2-cartpole-rl-training-fec5f97e.otlp.jsonl", + "traceFileSha256": "16ad35526fc40a93133c7ff8416379a8fdac8c1ef09a7ca84fe1de2c92f1e972", + "labelLeakScan": { + "passed": true, + "scannedBytes": 64273, + "scannedValues": 1517 + }, + "verificationArtifacts": { + "traceId": "miniswe-DeepSeek__DeepSeek-V3.2-cartpole-rl-training-fec5f97e", + "status": "missing", + "outcome": { + "status": "unavailable", + "reason": "missing-result", + "sources": [], + "passedCheckCount": 0, + "failedCheckCount": 0, + "passedChecks": [], + "failedChecks": [] + }, + "outcomeSpanId": "benchmark-verification-outcome-a2938fa6fd95dd1f", + "caseDirectory": "miniswe-DeepSeek__DeepSeek-V3.2-cartpole-rl-training-fec5f97e/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/cartpole-rl-training", + "caseDirectoriesSearched": [ + "miniswe-DeepSeek__DeepSeek-V3.2-cartpole-rl-training-fec5f97e/miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/cartpole-rl-training", + "miniswe/DeepSeek__DeepSeek-V3.2/miniswe-deepseek/cartpole-rl-training" + ], + "totalBytes": 0, + "maxBytes": 8388608, + "files": [], + "missingRoles": [ + "final-test-output", + "final-result", + "final-metrics" + ], + "searched": { + "final-test-output": [ + "panes/post-test.txt", + "sessions/tests.log", + "test_output.txt" + ], + "final-result": [ + "results.json", + "result.json", + "report.json", + "*_result.json" + ], + "final-metrics": [ + "*_metrics.json" + ] + } + } + }, + "usage": { + "calls": 1, + "tokens": { + "input": 52, + "output": 686, + "reasoning": 0, + "cached": 19200 + }, + "cost": { + "kind": "estimated", + "usd": 0.013060399999999998 + } + }, + "runnerMetadata": { + "analysisMode": "single-pass", + "outputAdapter": "codetracebench-incorrect-step", + "protocolSha256": "166e399c9a93c9806b007273bf0b54078709389c52c6a33e3cbce0f554dab302", + "responseSource": "provider", + "report": "The agent built a REINFORCE policy gradient agent for CartPole-v1. No final verification is available, so we rely on the directly observed trajectory evidence. We find several incorrect steps: (1) Step 7 is a redundant and unnecessary dependency re-installation (though it succeeds, it is not strictly a regression, so severity is low). (2) Steps 14, 15, and 16 are incorrect because the agent used fragile `sed` commands to edit Python code, directly causing repeated IndentationErrors that they then failed to fix. (3) Step 21 is a critical regression because the agent reduced the network architecture (from 64 to 32 hidden units) and removed the target reward stop condition, resulting in a model that never reached the target reward and failing the task's performance requirement. The agent later recovered at step 22 by reverting the architecture, but the incorrect action at step 21 remains incorrect.", + "providerModel": "glm-5.2", + "providerDurationMs": 12155, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.013060399999999998, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-DeepSeek__DeepSeek-V3.2-cartpole-rl-training-fec5f97e", + "clusterId": "codetrace-task:cartpole-rl-training", + "labelState": "positive", + "repetition": 1, + "executionIndex": 55, + "latencyMs": 13339.084071999998, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_6a2c8f9ee5f4c5e0fbe9", + "produced_at": "2026-07-30T15:37:09.488Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-6", + "claim": "Step 6 is incorrect. The agent uses an incorrect pip install command that attempts to fetch torch from the main PyPI index first, which results in an incomplete installation that is missing required dependencies like sympy and networkx.", + "rationale": "The command `pip install torch==2.7.0 numpy==2.3.1` lacks the `--index-url` flag, leading to the subsequent runtime errors.", + "severity": "medium", + "confidence": 0.5, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-cartpole-rl-training-fec5f97e/span/step-6", + "excerpt": "pip install torch==2.7.0 numpy==2.3.1" + } + ], + "recommended_action": "Use `pip install torch==2.7.0 --index-url https://download.pytorch.org/whl/cpu`.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_c01567478d13043b09e4", + "produced_at": "2026-07-30T15:37:09.488Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-14", + "claim": "Step 14 is incorrect. The agent uses a `sed` command to revert the training script, which fails to properly handle an existing syntax error in the file, resulting in an IndentationError.", + "rationale": "The observation shows the training run fails due to `IndentationError: expected an indented block after 'if' statement`.", + "severity": "high", + "confidence": 0.5, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-cartpole-rl-training-fec5f97e/span/step-14", + "excerpt": "sed -i 's/max_episodes = 100/max_episodes = 1000/' /app/train.py && cd /app && python train.py" + } + ], + "recommended_action": "Inspect the file content manually before applying further sed modifications.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_f8d07e14d2608584b84e", + "produced_at": "2026-07-30T15:37:09.488Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-15", + "claim": "Step 15 is incorrect. The agent uses an incorrectly escaped `sed` command that fails to resolve the indentation error in the training script.", + "rationale": "The multi-line sed command is used to add the target reward logic but the execution results in the same IndentationError as before.", + "severity": "high", + "confidence": 0.7, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-cartpole-rl-training-fec5f97e/span/step-15", + "excerpt": "sed -i 's/max_episodes = 1000/max_episodes = 500/' /app/train.py && \\\nsed -i '/max_episodes =/a\\ target_reward = 300' /app/train.py && \\\nsed -i '/if episode % print_interval == 0:/a\\ \\n if episode_reward >= target_reward:\\n print(f\"Target reward reached at episode {episode}, stopping training\")\\n break' /app/train.py && \\\ncd /app && python train.py" + } + ], + "recommended_action": "Rewrite the entire file using a heredoc instead of attempting complex `sed` replacements.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_821ddf48ec3b05cdab5a", + "produced_at": "2026-07-30T15:37:09.488Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-16", + "claim": "Step 16 is incorrect. The agent applies another incorrectly formatted `sed` insertion that continues to cause an IndentationError.", + "rationale": "The action attempts to add lines after a match using sed, but the file still results in `IndentationError: expected an indented block`.", + "severity": "high", + "confidence": 0.8, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-cartpole-rl-training-fec5f97e/span/step-16", + "excerpt": "sed -i '/if episode % print_interval == 0:/a\\ if episode_reward >= target_reward:\\n print(f\"Target reward reached at episode {episode}, stopping training\")\\n break' /app/train.py && \\\ncd /app && python train.py" + } + ], + "recommended_action": "Rewrite the entire file using a heredoc instead of attempting complex `sed` replacements.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_8dac57ce66c204459bda", + "produced_at": "2026-07-30T15:37:09.488Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-20", + "claim": "Step 20 is incorrect. Rewriting the agent with a smaller network (32 hidden units) causes a training regression, as the subsequent training run in step 21 fails to reach the target reward of 300.", + "rationale": "The observation in step 21 shows training reaching only 61.0 maximum reward, failing to hit the target_reward=300 set in the training script.", + "severity": "high", + "confidence": 0.85, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-cartpole-rl-training-fec5f97e/span/step-20", + "excerpt": "cat <<'EOF' > /app/agent.py\nimport torch\nimport torch.nn as nn\nimport torch.optim as optim\nimport numpy as np\nimport os\n\nclass PolicyNetwork(nn.Module):\n def __init__(self, state_dim, action_dim):\n super(PolicyNetwork, self).__init__()\n self.fc1 = nn.Linear(state_dim, 32)\n self.fc2 = nn.Linear(32, action_dim)\n \n def forward(self, x):\n x = torch.relu(self.fc1(x))\n x = torch.softmax(self.fc2(x), dim=-1)\n return x\n\nclass Agent:\n def __init__(self, state" + } + ], + "recommended_action": "Use a network size that fits the file size limit while still allowing training success, such as the 64-unit network used later.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 4, + "matchedIssueIds": [ + "incorrect:14", + "incorrect:15", + "incorrect:16" + ], + "missedIssueIds": [ + "incorrect:13" + ], + "supportedFindingIndexes": [ + 1, + 2, + 3 + ], + "unsupportedFindingIndexes": [ + 0, + 4 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-cartpole-rl-training-fec5f97e/span/step-6", + "excerpt": "pip install torch==2.7.0 numpy==2.3.1" + }, + { + "kind": "span", + "uri": "trace://miniswe-DeepSeek__DeepSeek-V3.2-cartpole-rl-training-fec5f97e/span/step-20", + "excerpt": "cat <<'EOF' > /app/agent.py\nimport torch\nimport torch.nn as nn\nimport torch.optim as optim\nimport numpy as np\nimport os\n\nclass PolicyNetwork(nn.Module):\n def __init__(self, state_dim, action_dim):\n super(PolicyNetwork, self).__init__()\n self.fc1 = nn.Linear(state_dim, 32)\n self.fc2 = nn.Linear(32, action_dim)\n \n def forward(self, x):\n x = torch.relu(self.fc1(x))\n x = torch.softmax(self.fc2(x), dim=-1)\n return x\n\nclass Agent:\n def __init__(self, state" + } + ], + "issueRecall": 0.75, + "findingPrecision": 0.6, + "f1": 0.6666666666666665, + "criticalStepAccuracy": null, + "citationCoverage": 1, + "citationExcerptCoverage": 1, + "citationLabelAgreement": 0.6, + "predictionOnLabelEmptyCase": false + }, + "evidenceResolution": { + "checked": 5, + "resolved": 5, + "unresolvedEvidence": [], + "errors": [], + "validity": 1 + }, + "caseTags": [ + "codetracebench", + "mini-SWE-agent", + "DeepSeek/DeepSeek-V3.2", + "hard", + "model-training", + "pytorch", + "rl" + ], + "caseMetadata": { + "benchmark": "CodeTraceBench", + "trajectoryId": "miniswe-DeepSeek__DeepSeek-V3.2-cartpole-rl-training-fec5f97e", + 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It makes several incorrect state-changing actions. Notably, it attempts to install dependencies in steps 6 and 7 by referencing PyTorch's external index, which partially fails and leaves the environment missing dependencies, but the agent is able to recover. A larger sequence of incorrect steps occurs when the agent attempts to edit the training script using complex `sed` commands (steps 14, 15, and 16). The agent fails to format the multi-line sed insertion properly, repeatedly introducing an IndentationError into the file. The agent fails to fix the error in step 15, and applies another incorrect sed command in step 16, before finally giving up on the sed approach and rewriting the file entirely in step 17. Finally, in step 20, the agent reduces the neural network size to 32 hidden units to comply with the file size constraint, but this causes a regression in training performance, with the agent failing to reach the target reward of 300.", + "providerModel": "glm-5.2", + "providerDurationMs": 13290, + "finishReason": "stop", + "cost": { + "source": "agent-eval-model-pricing", + "estimatedCostUsd": 0.013421199999999998, + "ratesPerThousandTokens": { + "inputUsdPerThousand": 0.0006, + "outputUsdPerThousand": 0.0022 + } + } + } + }, + { + "runnerId": "model", + "caseId": "codetrace:miniswe-OpenAI__GPT-5-prettier__prettier-14400-477c8cff", + "clusterId": "codetrace-task:prettier__prettier-14400", + "labelState": "positive", + "repetition": 0, + "executionIndex": 56, + "latencyMs": 9878.737970000002, + "latencySource": "benchmark-clock", + "findings": [ + { + "schema_version": "1.0.0", + "finding_id": "f_7880763c0af81ea9b0e2", + "produced_at": "2026-07-30T15:37:09.209Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-17", + "claim": "Step 17 is incorrect. The sed command used an overly broad global pattern that inserted duplicate lines throughout the file instead of targeting the intended insertion point.", + "rationale": "The subsequent observation (step-19) shows the file is heavily corrupted, with `node.fullName === \"svg:script\" ||` inserted after every line matching the broad pattern.", + "severity": "critical", + "confidence": 0.95, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-OpenAI__GPT-5-prettier__prettier-14400-477c8cff/span/step-17", + "excerpt": "sed -i '/node\\.fullName === \"style\" \\|\\|/a\\ node.fullName === \"svg:script\" ||' /testbed/src/language-html/utils/index.js" + } + ], + "recommended_action": "Use a specific line-number target or a more precise context pattern for the sed insertion.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_ec1d01893819bf70a984", + "produced_at": "2026-07-30T15:37:09.209Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-18", + "claim": "Step 18 is incorrect. The agent repeated the exact same broken sed command from the previous step, further compounding the corruption of the file.", + "rationale": "The command is identical to step-17 and the agent had already observed the resulting corruption, making this a redundant, failing action that worsened the state.", + "severity": "high", + "confidence": 0.9, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-OpenAI__GPT-5-prettier__prettier-14400-477c8cff/span/step-18", + "excerpt": "sed -i '/node\\.fullName === \"style\" \\|\\|/a\\ node.fullName === \"svg:script\" ||' /testbed/src/language-html/utils/index.js" + } + ], + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + }, + { + "schema_version": "1.0.0", + "finding_id": "f_8dac57ce66c204459bda", + "produced_at": "2026-07-30T15:37:09.209Z", + "analyst_id": "model", + "area": "incorrect", + "subject": "incorrect-step-20", + "claim": "Step 20 is incorrect. The perl substitution command used a regex pattern that matched and rewrote lines globally across the file, resulting in redundant inserted code pairs instead of a single correct edit.", + "rationale": "The observation in step-21 shows the file is still corrupted, with `node.fullName === \"svg:script\" ||` and `node.fullName === \"svg:style\" ||` inserted across multiple unrelated lines.", + "severity": "high", + "confidence": 0.85, + "evidence_refs": [ + { + "kind": "span", + "uri": "trace://miniswe-OpenAI__GPT-5-prettier__prettier-14400-477c8cff/span/step-20", + "excerpt": "git -C /testbed checkout -- src/language-html/utils/index.js && sed -i 's/node\\.fullName === \"svg:style\" \\|\\|/node.fullName === \"svg:script\" ||\\n node.fullName === \"svg:style\" ||/' /testbed/src/language-html/utils/index.js && nl -ba /testbed/src/language-html/utils/index.js | sed -n '100,140p'" + } + ], + "recommended_action": "Ensure the perl regex does not match across the whole file; verify the edit with a targeted context or line number.", + "metadata": { + "analysis_mode": "single-pass", + "model": "glm-5.2" + } + } + ], + "score": { + "expectedIssueCount": 1, + "matchedIssueIds": [], + "missedIssueIds": [ + "incorrect:25" + ], + "supportedFindingIndexes": [], + "unsupportedFindingIndexes": [ + 0, + 1, + 2 + ], + "unlabeledEvidence": [ + { + "kind": "span", + "uri": "trace://miniswe-OpenAI__GPT-5-prettier__prettier-14400-477c8cff/span/step-17", + "excerpt": "sed -i '/node\\.fullName === \"style\" \\|\\|/a\\ node.fullName === \"svg:script\" ||' /testbed/src/language-html/utils/index.js" + }, + { + "kind": "span", + "uri": "trace://miniswe-OpenAI__GPT-5-prettier__prettier-14400-477c8cff/span/step-18", + "excerpt": "sed -i '/node\\.fullName === \"style\" \\|\\|/a\\ node.fullName === \"svg:script\" ||' /testbed/src/language-html/utils/index.js" + }, + { + "kind": "span", + "uri": "trace://miniswe-OpenAI__GPT-5-prettier__prettier-14400-477c8cff/span/step-20", + "excerpt": "git -C 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However, step 14 appends CSS that sets body{opacity:0} with a transition to opacity:1 only on the .loaded class, which is applied by JavaScript. Since the JS script.js is never referenced in any HTML page (no