Codex GPT-5.5
replicate 1
passUDT-only
Answer
CD14Workflow
Galaxy UDTPearson correlation
- Total tokens
- 572.5K
- Output
- 6.2K
New token-optimization experiment
Three additional GPT-5.6 Sol Galaxy replicates are available separately. Previous results remain unchanged.
Question
After calculating Pearson correlations between gene length and average gene expression levels for protein-coding genes, in which immune cell type (CD4, CD8, CD14, or CD19) is the correlation the weakest (lowest absolute correlation value)?
Comparison
Pass counts and token totals across the same three replicates.
| Agent | Galaxy-API code | Open-ended code |
|---|---|---|
| Codex GPT-5.5 | 3/3 replicate 1 replicate 2 replicate 3 3.35M total | 3/3 replicate 1 replicate 2 replicate 3 415.0K total |
| Codex GPT-5.6 Sol | 3/3 replicate 1 replicate 2 replicate 3 2.22M total | 3/3 replicate 1 replicate 2 replicate 3 573.8K total |
| Codex GPT-5.6 Luna | 3/3 replicate 1 replicate 2 replicate 3 11.49M total | 3/3 replicate 1 replicate 2 replicate 3 547.1K total |
| DeepSeek V4 Pro via Codex | 3/3 replicate 1 replicate 2 replicate 3 32.47M total | 3/3 replicate 1 replicate 2 replicate 3 1.85M total |
| DeepSeek V4 Pro via Claude Codesuperseded | 2/3 replicate 1 replicate 2 replicate 3 15.28M total | 3/3 replicate 1 replicate 2 replicate 3 1.01M total |
Execution condition
Galaxy-API code with skills
Codex GPT-5.5
3 primary replicatesCodex GPT-5.5
replicate 2
passUDT-only
Answer
CD14Workflow
Galaxy UDTPearson correlationSciPymean summary
- Total tokens
- 899.9K
- Output
- 11.4K
Codex GPT-5.5
replicate 3
passUDT-only
Answer
CD14Workflow
Galaxy UDTSciPymean summaryPearson correlation
- Total tokens
- 1.87M
- Output
- 10.2K
Codex GPT-5.6 Sol
3 primary replicatesCodex GPT-5.6 Sol
replicate 1
passUDT-only
Answer
CD14Workflow
Galaxy UDTPearson correlationSciPymean summary
- Total tokens
- 805.1K
- Output
- 11.3K
Codex GPT-5.6 Sol
replicate 2
passUDT-only
Answer
CD14Workflow
Galaxy UDTPearson correlation
- Total tokens
- 734.0K
- Output
- 8.5K
Codex GPT-5.6 Sol
replicate 3
passUDT-only
Answer
CD14Workflow
Galaxy UDTPearson correlation
- Total tokens
- 676.0K
- Output
- 6.1K
Codex GPT-5.6 Luna
3 primary replicatesCodex GPT-5.6 Luna
replicate 1
passUDT + standard tools
Answer
CD14Workflow
Convert Characters1Csv To TabularFilter Tabularmore stepsSciPymean summary
- Total tokens
- 5.08M
- Output
- 29.8K
Codex GPT-5.6 Luna
replicate 2
passUDT + standard tools
Answer
CD14Workflow
Datamash TransposeDatamash summaryGalaxy UDTSciPyPearson correlation
- Total tokens
- 5.14M
- Output
- 35.9K
Codex GPT-5.6 Luna
replicate 3
passUDT-only
Answer
CD14Workflow
Galaxy UDTSciPyPearson correlationmean summary
- Total tokens
- 1.27M
- Output
- 15.5K
DeepSeek V4 Pro via Codex
3 primary replicatesDeepSeek V4 Pro via Codex
replicate 1
pass
Answer
CD14Workflow
Pearson correlationTable ComputeAdd derived columnmore stepsMerge columnsShow Beginning1
- Total tokens
- 13.92M
- Output
- 62.7K
DeepSeek V4 Pro via Codex
replicate 2
pass
Answer
CD14Workflow
Table ComputeDatamash TransposeDatamash summarymore stepsMatch rowsSelect columns
- Total tokens
- 10.70M
- Output
- 51.2K
DeepSeek V4 Pro via Codex
replicate 3
pass
Answer
CD14Workflow
Csv To TabularSelect columnsMeltmore stepsTp Easyjoin ToolPearson correlation
- Total tokens
- 7.85M
- Output
- 45.6K
DeepSeek V4 Pro via Claude CodeSuperseded
3 primary replicatesDeepSeek V4 Pro via Claude Code
replicate 1
fail
Why it missed
Question interpretation errorThis run treated 'weakest' as the most negative signed Pearson correlation and selected CD4. The question asks for the lowest absolute correlation, meaning closest to zero, which is CD14.
Answer
CD4Workflow
Tp Head ToolConvert Characters1Filter Tabularmore stepsJoin datasetsPearson correlation
- Total tokens
- 6.57M
- Output
- 53.2K
DeepSeek V4 Pro via Claude Code
replicate 2
pass
Answer
CD14Workflow
Csv To TabularFilter TabularMatch rowsmore stepsMerge columnsPearson correlation
- Total tokens
- 7.23M
- Output
- 63.2K
DeepSeek V4 Pro via Claude Code
replicate 3
passUDT-only
Answer
CD14Workflow
Galaxy UDTPearson correlationSciPymean summary
- Total tokens
- 1.48M
- Output
- 19.1K
Execution condition
Open-ended code with skills
Codex GPT-5.5
3 primary replicatesCodex GPT-5.5
replicate 1
pass
Answer
CD14Workflow
Local analysisPearson correlation
- Total tokens
- 128.7K
- Output
- 3.0K
Codex GPT-5.5
replicate 2
pass
Answer
CD14Workflow
Local analysisSciPyPearson correlation
- Total tokens
- 109.0K
- Output
- 2.9K
Codex GPT-5.5
replicate 3
pass
Answer
CD14Workflow
Local analysisPearson correlation
- Total tokens
- 177.3K
- Output
- 3.6K
Codex GPT-5.6 Sol
3 primary replicatesCodex GPT-5.6 Sol
replicate 1
pass
Answer
CD14Workflow
Local analysis
- Total tokens
- 261.3K
- Output
- 4.2K
Codex GPT-5.6 Sol
replicate 2
pass
Answer
CD14Workflow
Local analysis
- Total tokens
- 145.3K
- Output
- 4.1K
Codex GPT-5.6 Sol
replicate 3
pass
Answer
CD14Workflow
Local analysis
- Total tokens
- 167.2K
- Output
- 3.8K
Codex GPT-5.6 Luna
3 primary replicatesCodex GPT-5.6 Luna
replicate 1
pass
Answer
CD14Workflow
Local analysis
- Total tokens
- 157.0K
- Output
- 4.8K
Codex GPT-5.6 Luna
replicate 2
pass
Answer
CD14Workflow
Local analysis
- Total tokens
- 204.5K
- Output
- 5.6K
Codex GPT-5.6 Luna
replicate 3
pass
Answer
CD14Workflow
Local analysis
- Total tokens
- 185.6K
- Output
- 5.6K
DeepSeek V4 Pro via Codex
3 primary replicatesDeepSeek V4 Pro via Codex
replicate 1
pass
Answer
CD14Workflow
Local analysisSciPyPearson correlationmean summarymedian summary
- Total tokens
- 624.1K
- Output
- 9.0K
DeepSeek V4 Pro via Codex
replicate 2
pass
Answer
CD14Workflow
Local analysismean summarySpearman correlationSciPymedian summary
- Total tokens
- 544.1K
- Output
- 9.0K
DeepSeek V4 Pro via Codex
replicate 3
pass
Answer
CD14Workflow
Local analysisSciPyscikit-learnPearson correlationmean summary
- Total tokens
- 681.1K
- Output
- 13.3K
DeepSeek V4 Pro via Claude CodeSuperseded
3 primary replicatesDeepSeek V4 Pro via Claude Code
replicate 1
pass
Answer
CD14Workflow
Local analysisSciPyPearson correlationmean summary
- Total tokens
- 497.8K
- Output
- 4.7K
DeepSeek V4 Pro via Claude Code
replicate 2
pass
Answer
CD14Workflow
Local analysisSciPyPearson correlationmean summary
- Total tokens
- 274.2K
- Output
- 3.1K
DeepSeek V4 Pro via Claude Code
replicate 3
pass
Answer
CD14Workflow
Local analysisSciPyPearson correlationmean summary
- Total tokens
- 233.6K
- Output
- 3.0K
bix-22-q1 · October 2026 · three additional replicates
GPT-5.6 Sol · token optimization
Galaxy-API code, high reasoning, Fast service. Previous runs are retained above.
Galaxy-API code · October 2026
replicate 1
Correct
Answer
CD14- Total tokens
- 646.3K
- Input
- 636.0K
- Cached input
- 581.6K
- Output
- 10.3K
Galaxy-API code · October 2026
replicate 2
Correct
Answer
CD14- Total tokens
- 595.7K
- Input
- 587.0K
- Cached input
- 551.7K
- Output
- 8.7K
Galaxy-API code · October 2026
replicate 3
Correct
Answer
CD14- Total tokens
- 645.1K
- Input
- 635.1K
- Cached input
- 602.1K
- Output
- 10.0K
Open-ended code averaged 0.19M tokens; previous website Galaxy averaged 0.74M; the new Galaxy runs averaged 0.63M, or 3.29× Open-ended code. Each mean covers three replicates of this same task with GPT-5.6 Sol.
Cached input is already included in input tokens. Full nested tool/job evidence is in each HF run's galaxy_execution_records.tar.gz, with an accompanying member index.