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sft_gene_pathway_v7_6_100k_relabel_9b — generations
Every raw generation behind the reported scores for
wanglab/sft_gene_pathway_v7_6_100k_relabel_9b,
at both decodings, released so the numbers can be recomputed rather than taken on trust.
The repo name is the run name, so it maps 1:1 onto the source tree:
| experiment leaf | experiments/sft_gene_pathway_v7_6_100k/9b_full_relabel/ |
| training run | sft_gene_pathway_v7_6_100k_relabel_9b_stage2 |
| checkpoint scored | sft_gene_pathway_v7_6_100k_relabel_9b_converted, stage 2 last.ckpt (step 14,480) |
| source dirs | evals_bench/ → greedy/, evals_bench_sc/ → maj10/ |
| scoring set | benchmark_genetic_v1 |
Contents
Scored set is benchmark_genetic_v1 — 27,067 rows / 1,319 perturbations.
| split | decoding | rows | files |
|---|---|---|---|
greedy/ |
greedy, 1 sample per row | 27,067 | 5 |
maj10/ |
temperature 1, 10 samples per row | 270,670 | 5 |
One file per source dataset in each:
| dataset | rows | perturbations |
|---|---|---|
| xaira_orion | 9,929 | 598 |
| nadig | 8,708 | 292 |
| marson | 4,579 | 240 |
| xaira_pisces | 2,186 | 110 |
| kaufman | 1,665 | 77 |
Schema
JSONL, one record per generation:
| field | type | meaning |
|---|---|---|
idx |
int | row index into the benchmark; join on this, never on position |
prompt |
str | the rendered prompt as fed to the model |
generation |
str | the model's reasoning trace and boxed answer |
ground_truth |
str | the reference completion, carrying the true label in \boxed{} |
timestamp |
str | ISO-8601 generation time |
Two things to know before parsing:
Join on idx, not on line order. Generation is emitted in dataset order, so a positional join is
correct for a file written in one pass — but a run requeued after an interruption replays a block, and
the file then carries duplicate idx out of order. The last write of an idx wins. This is not
hypothetical; it happened during this project and a positional join would have silently scored every
row after the tear against the wrong benchmark row.
prompt is the embedded-prompt form. Cell state enters as a projected embedding rather than
text, so the prompt field carries padding tokens where the cell block sits. It is the literal model
input, not a human-readable rendering.
Scoring
The label is the direction inside \boxed{}. The metric of record is committed accuracy —
accuracy over rows where the model commits to upregulated or downregulated — reported as the
per-perturbation macro-average, with the commit rate beside it. Models abstain at different rates
and that is a property worth reporting, not a nuisance to average away.
For maj10/, take the modal parse over the ten samples per idx.
Always quote the constant-direction control alongside any number: always answering that dataset's majority direction scores 58.6 pooled, and per-dataset from 51.3 to 65.5. It is the bar to clear.
Provenance
Generated from stage 2's last.ckpt (step 14,480) of the 9b_full_relabel run, at 100% row coverage
on all ten dataset × decoding cells as of 2026-08-31.
Any maj@10 figure for this model quoted before that date is superseded: an earlier table was computed
while nadig and xaira_orion were still filling at 89–91%, and the missing rows were not neutral —
completing them moved xaira_orion 76.4 → 74.0 and nadig 61.1 → 59.7, i.e. the partial figures ran
~1.5–2.5 points optimistic on exactly the two incomplete datasets.
License
Generations from a model derived from Qwen3.5-9B, itself trained on Claude Opus 5 outputs. Use is subject to the terms governing both.
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