Question
From the 1000G Phase 3 (3202 individuals), find all individuals that also have ATAC-seq filtered BAMs in the African Functional Genomics Resource (AFGR). Using only publicly available data, collect the md5sums of the filtered BAMs for these individuals (GRCh38 aligned), write the md5sums (one per line) to a text file sorted alphabetically. Return the count of samples and the file’s md5sum as a single comma-separated line, e.g., 42,md5hash.
- Inferred answer
83,1127bd47e06e7c19e8f0d5b5458a244aUniquely inferred from submitted scores.
- Domain
- Population Genetics
- 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 1
CorrectUDT-only
Answer83,1127bd47e06e7c19e8f0d5b5458a244a
WorkflowAFGR 1000G filtered BAM md5s→Verify AFGR md5 list result
- Total tokens
- 1.8M
- Output
- 13.5K
Codex GPT-5.5
Replicate 2
CorrectUDT-only
Answer83,1127bd47e06e7c19e8f0d5b5458a244a
WorkflowAFGR diagnostic→AFGR diagnostic v2→AFGR 1000G md5sums→AFGR 1000G md5sums official
- Total tokens
- 2.1M
- Output
- 10.4K
Codex GPT-5.5
Replicate 3
CorrectUDT + standard tools
Answer83,1127bd47e06e7c19e8f0d5b5458a244a
WorkflowAFGR 1000G filtered BAM md5 intersection→AFGR 1000G filtered BAM md5 intersection v2→UDT smoke echo→UDT smoke cat→Tp Cut Tool→7 more tools
- Total tokens
- 6.0M
- Output
- 23.8K
Codex GPT-5.6 Sol
3 replicates
Codex GPT-5.6 Sol
Replicate 1
CorrectUDT-only
Answer83,1127bd47e06e7c19e8f0d5b5458a244a
WorkflowInspect ENCODE public JSON fields→AFGR filtered BAM MD5 intersection with 1000G 3202→Independent MD5 checksum
Codex GPT-5.6 Sol
Replicate 2
CorrectUDT-only
Answer83,1127bd47e06e7c19e8f0d5b5458a244a
WorkflowAFGR public metadata discovery→AFGR filtered BAM MD5 finalization
- Total tokens
- 1.1M
- Output
- 8.7K
Codex GPT-5.6 Sol
Replicate 3
CorrectUDT-only
Answer83,1127bd47e06e7c19e8f0d5b5458a244a
WorkflowAFGR ATAC filtered BAM metadata diagnostic→AFGR 1000G overlap filtered BAM md5 final
- Total tokens
- 15.9M
- Output
- 23.2K
Codex + DeepSeek-v4-pro-0813
3 replicates
Codex + DeepSeek-v4-pro-0813
Replicate 1
RerunCorrectStandard tools only
Answer83,1127bd47e06e7c19e8f0d5b5458a244a
WorkflowSample identifier mapping→Join datasets→Sort rows→Count lines→Secure Hash Message Digest
- Total tokens
- 20.4M
- Output
- 45.6K
Codex + DeepSeek-v4-pro-0813
Replicate 2
RerunCorrectStandard tools only
Answer83,1127bd47e06e7c19e8f0d5b5458a244a
WorkflowSample identifier mapping→Join datasets→Sort rows→Count lines→Secure Hash Message Digest
- Total tokens
- 15.9M
- Output
- 41.8K
Codex + DeepSeek-v4-pro-0813
Replicate 3
CorrectStandard tools only
Answer83,1127bd47e06e7c19e8f0d5b5458a244a
WorkflowComp1→Select columns→Sort rows→Secure Hash Message Digest→Wc Gnu
- Total tokens
- 6.0M
- Output
- 30.4K
Codex GPT-5.6 Luna
3 replicates
Codex GPT-5.6 Luna
Replicate 1
CorrectUDT-only
Answer83,1127bd47e06e7c19e8f0d5b5458a244a
WorkflowAFGR Phase 3 identity diagnostic→AFGR Phase 3 identity diagnostic v2→AFGR Phase 3 identity diagnostic v3→AFGR Phase 3 identity diagnostic v4→AFGR 3202-sample identity diagnostic→4 more tools
- Total tokens
- 12.1M
- Output
- 50.2K
Codex GPT-5.6 Luna
Replicate 2
IncorrectUDT + standard tools
Answer50,054938323525a222bcc6154a05996ace
WorkflowUpload1→AFGR 1000G Phase 3 matching diagnostic→AFGR 1000G Phase 3 matching diagnostic v2→AFGR 1000G Phase 3 directory-listing overlap diagnostic→Write AFGR 1000G Phase 3 filtered BAM MD5 sums→3 more tools
- Total tokens
- 20.0M
- Output
- 71.8K
Codex GPT-5.6 Luna
Replicate 3
IncorrectUDT + standard tools
Answer50,054938323525a222bcc6154a05996ace
WorkflowAFGR 1000G filtered BAM md5 intersection→Secure Hash Message Digest
- Total tokens
- 7.3M
- Output
- 25.3K