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CompBioBench item

read-paper-download-file-parse-q1

Question

Take a look at the pdf here: https://www.biorxiv.org/content/10.1101/2023.10.04.560808v2.full.pdf, can you find the exact number of peaks in the COC/L1 cluster? Follow any external links in the paper if additional data is required to answer this question. Respond with only the number.

Predicted answer
6907Most likely answer for this question; not uniquely determined from submitted scores.
Domain
Epigenomics
Question style
Retrieval

An answer can be uniquely inferred for 54 of 100 questions from submitted scores. Green: correct · Red: incorrect. For questions without a uniquely determined answer: Blue: matches prediction · Orange: differs from prediction. These are inferred answer checks, not official per-question grades.

Galaxy

12/12 terminal item results

UDT = user-defined tool: custom code executed by Galaxy. Route badges summarize analysis tools, excluding uploads and automatic conversions. How usage is counted.

Codex GPT-5.5

3 replicates
Codex GPT-5.5

Replicate 2

Matches predictionUDT-only
Answer6907
Workflow
COC L1 Peak Label Count
Total tokens
444.5K
Output
4.7K
Codex GPT-5.5

Replicate 3

Matches predictionStandard tools only
Answer6907
Workflow
Tp Grep ToolWc Gnu
Total tokens
2.2M
Output
6.4K

Codex GPT-5.6 Sol

3 replicates
Codex GPT-5.6 Sol

Replicate 1

Matches predictionStandard tools only
Answer6907
Workflow
Datamash OpsFilter Tabular
Total tokens
3.6M
Output
9.2K
Codex GPT-5.6 Sol

Replicate 2

Matches predictionUDT-only
Answer6907
Workflow
OCR final peak-set counts from authoritative notebook outputValidate paper peak-set counts and extract COC-L1
Total tokens
3.9M
Output
15.6K
Codex GPT-5.6 Sol

Replicate 3

Matches predictionUDT + standard tools
Answer6907
Workflow
Imagemagick Image ConvertOCR authors peak-set gridOCR enlarged authors peak-set grid
Total tokens
5.1M
Output
10.1K

Codex + DeepSeek-v4-pro-0813

3 replicates
Codex + DeepSeek-v4-pro-0813

Replicate 1

Matches predictionUDT + standard tools
Answer6907
Workflow
No Galaxy tool job recorded
Total tokens
6.4M
Output
25.2K
Codex + DeepSeek-v4-pro-0813

Replicate 2

Matches predictionStandard tools only
Answer6907
Workflow
Count1
Total tokens
3.1M
Output
12.9K
Codex + DeepSeek-v4-pro-0813

Replicate 3

Matches predictionStandard tools only
Answer6907
Workflow
Filter TabularFilter rowsGroup and aggregateWc Gnu
Total tokens
2.8M
Output
12.2K

Codex GPT-5.6 Luna

3 replicates
Codex GPT-5.6 Luna

Replicate 1

Matches predictionStandard tools only
Answer6907
Workflow
Tp Grep ToolWc Gnu
Total tokens
5.9M
Output
14.0K
Codex GPT-5.6 Luna

Replicate 2

Matches predictionStandard tools only
Answer6907
Workflow
Filter TabularTp Grep ToolNl
Total tokens
15.6M
Output
36.2K
Codex GPT-5.6 Luna

Replicate 3

Matches predictionStandard tools only
Answer6907
Workflow
Tp Grep ToolWc Gnu
Total tokens
3.0M
Output
11.1K

Anycode

13/13 terminal item results

Codex GPT-5.5

3 replicates
Codex GPT-5.5

Replicate 1

Matches prediction
Answer6907
Workflow
Local codePython
Codex GPT-5.5

Replicate 2

Matches prediction
Answer6907
Workflow
Local codePython
Codex GPT-5.5

Replicate 3

Matches prediction
Answer6907
Workflow
Local codePython

Codex GPT-5.6 Sol

3 replicates
Codex GPT-5.6 Sol

Replicate 1

Matches prediction
Answer6907
Workflow
Local codePython
Codex GPT-5.6 Sol

Replicate 2

Matches prediction
Answer6907
Workflow
Local codePython
Codex GPT-5.6 Sol

Replicate 3

Matches prediction
Answer6907
Workflow
Local codePython

Codex + DeepSeek-v4-pro-0813

3 replicates
Codex + DeepSeek-v4-pro-0813

Replicate 1

Matches prediction
Answer6907
Workflow
Local codePython
Total tokens
2.2M
Output
18.1K
Codex + DeepSeek-v4-pro-0813

Replicate 2

Matches prediction
Answer6907
Workflow
Local codePython
Total tokens
1.8M
Output
14.2K
Codex + DeepSeek-v4-pro-0813

Replicate 3

Matches prediction
Answer6907
Workflow
Local codePython
Total tokens
5.3M
Output
21.1K

Codex GPT-5.6 Luna

3 replicates
Codex GPT-5.6 Luna

Replicate 1

Matches prediction
Answer6907
Workflow
Local codePython
Codex GPT-5.6 Luna

Replicate 2

Matches prediction
Answer6907
Workflow
Local codePython
Codex GPT-5.6 Luna

Replicate 3

Matches prediction
Answer6907
Workflow
Local codePython

Codex GPT-6 Astra

1 replicate
Codex GPT-6 Astra

Replicate 1

Matches prediction
Answer6907
Workflow
Local codePython
Total tokens
502.8K
Output
2.6K