From 5008cd85ca11750f23ce7bc001e8e821763b7501 Mon Sep 17 00:00:00 2001 From: Digital Drosophila Archive Date: Wed, 30 Sep 2026 01:07:42 +0800 Subject: [PATCH] Contextualize isolated feedback motifs with archived whole-brain input accounting --- CURRENT.md | 8 + .../feedback-context-review-20260930.md | 48 + .../REPORT.md | 20 + .../checksums.sha256 | 8 + .../context-fractions.csv | 271 + .../existing-conditional-replay.csv | 91 + .../manifest.json | 44 + .../protocol.json | 64 + .../source-neuron-fractions.csv | 20685 ++++++++++++++++ .../source-type-fractions.csv | 10720 ++++++++ .../summary.csv | 6 + .../verification.json | 9 + tools/review_feedback_context.py | 151 + 13 files changed, 32125 insertions(+) create mode 100644 docs/progress/feedback-context-review-20260930.md create mode 100644 registry/feedback-context-review-20260930/REPORT.md create mode 100644 registry/feedback-context-review-20260930/checksums.sha256 create mode 100644 registry/feedback-context-review-20260930/context-fractions.csv create mode 100644 registry/feedback-context-review-20260930/existing-conditional-replay.csv create mode 100644 registry/feedback-context-review-20260930/manifest.json create mode 100644 registry/feedback-context-review-20260930/protocol.json create mode 100644 registry/feedback-context-review-20260930/source-neuron-fractions.csv create mode 100644 registry/feedback-context-review-20260930/source-type-fractions.csv create mode 100644 registry/feedback-context-review-20260930/summary.csv create mode 100644 registry/feedback-context-review-20260930/verification.json create mode 100644 tools/review_feedback_context.py diff --git a/CURRENT.md b/CURRENT.md index 626160e..3948cc1 100644 --- a/CURRENT.md +++ b/CURRENT.md @@ -9,6 +9,14 @@ - [预先声明的诊断方案](models/male-cns-lif/lif-semantics-audit-v1/PROTOCOL.md) - [新阶段校验清单](registry/phase4ac-lif-semantics/seal-verification.json) - [上一轮末梢作用范围诊断](docs/progress/phase4ab-terminal-scope.md) +- [小回路与全脑背景的只读复核](docs/progress/feedback-context-review-20260930.md) + +## 后续只读复核的重要限制 + +所选五节点只贡献三个 ALLN 晚期正到达权重的 7.57%–8.99%；达到各自80%正输入需要49–52个来源。 +因此孤立小回路可以自持，不意味着它是全脑唯一原因。回路外输入也可能受该回路反馈影响，不是已证明独立的外源驱动。 +对旧数据的派生分解没有新模拟或训练；正输入比例不能当因果责任比例。 +独立新模型分支尚待用户确认，不把持续目标自动当作改变冻结动力学的许可。 ## 新增机制证据 diff --git a/docs/progress/feedback-context-review-20260930.md b/docs/progress/feedback-context-review-20260930.md new file mode 100644 index 0000000..127746d --- /dev/null +++ b/docs/progress/feedback-context-review-20260930.md @@ -0,0 +1,48 @@ +# 小反馈环在全脑中的位置：充分性不等于唯一原因 + +这是对既有封存记录的只读复核，不是新的训练阶段或新模型。 +使用六个旧校准气味、seed 131101 的全部 frozen_reference 记录，没有运行新模拟，也没有使用 held-out 输入。 + +## 新量化结果 + +晚期时窗为 500–1,000 ms，下表逐气味统计后列范围。 +比例分母为该目标的全部正突触到达权重之和，不是净输入、g 轨迹、电压贡献或因果责任。 + +| 目标 | 五节点小回路内部正输入比例 | 正输入来源神经元数 | 累计80%正输入需要的来源数 | +|---|---:|---:|---:| +| ALLN 1197 / body11289 | 8.96%–8.99% | 197 | 49 | +| ALLN 1381 / body11478 | 7.86%–7.89% | 214 | 51 | +| ALLN 1511 / body11620 | 7.57%–7.60% | 205 | 52 | +| VA6 PN 133666 / body527577 | 10.18%–10.22% | 119 | 31 | +| KC 82312 / body109321 | 36.16%–36.39% | 8 | 4 | + +因此，4AC 的小回路能在隔离条件下持续放电，但其成员在全脑里接收了大量回路外输入。 +不能据此把某两条边定为唯一病因，或者认为只修两枚细胞就能解决学习问题。 +“回路外”仅表示不属于所选五节点；这些来源仍可能受该小回路反馈影响，**并非已经证明独立于该回路**，也不是外部刺激。 + +## 同时公开已有条件回放，避免只挑支持某个解释的结果 + +| 目标 | 基线晚期 spike | 忽略ALLN到达 | 忽略ALPN到达 | +|---|---:|---:|---:| +| ALLN 1197 | 228 | 217–218 | 227 | +| ALLN 1381 | 227–228 | 227–228 | 227 | +| ALLN 1511 | 228 | 219–221 | 227–228 | +| VA6 PN 133666 | 212–214 | 0 | 208–210 | +| KC 82312 | 60–61 | 60–61 | 0 | + +这些结果来自已封存 Phase 4Z，不是本轮重新模拟；回放固定其他已记录输入和 APL，不能替代实时全脑干预。 +ALLN 原本已接近模型不应期限制，放电计数相同不等于膜状态或输入没有影响。 +PN→KC 中有些比例并不占绝大多数的输入仍能决定阈值跨越，不能按比例大小直接删边。 + +4Z 当时没有孤立回路自持的证据；4AC 已补上数学模型下的孤立充分性。 +二者合起来仍没有证明该小回路在全脑中的必要性、唯一性或真实果蝇中的同样动力学。 + +## 对下一步的实际影响 + +独立新模型实验若获授权，应先核对原作者算子，再检验分布式局部反馈与输入特异性；不把两神经元回路上的改善直接外推全脑学习。 +仍不得靠提高抑制、改符号、调学习率/阈值或扩大mask来追求通过。 +在此之前，本轮不会启动替代动力学、conditioning、游戏或decoder。 + +来源与逐试次完整表：`registry/feedback-context-review-20260930/`。 +9个输入文件均对照原有封存manifest核验，前后字节一致；13条小回路边与旧事件会计的源、目标、count逐条一致。 +全部输出有manifest和SHA-256。后续更新应新增材料，不重写已封存数据。 diff --git a/registry/feedback-context-review-20260930/REPORT.md b/registry/feedback-context-review-20260930/REPORT.md new file mode 100644 index 0000000..c23a3dc --- /dev/null +++ b/registry/feedback-context-review-20260930/REPORT.md @@ -0,0 +1,20 @@ +# Feedback motif contextualization — read-only review + +This is not a new learning stage, intervention or model. Source: six archived calibration odors, one seed 131101, frozen_reference; all cases retained. +Late interval 500–1,000 ms. Fractions measure positive arrived weights, not causal importance, g attribution or net excitation after inhibition/APL. + +| Target idx / type | Five-node internal positive input | Positive sources | Sources needed for 80% | Base late spikes | omit ALLN | omit ALPN | +|---|---:|---:|---:|---:|---:|---:| +| 1197 / lLN1_bc | 8.96–8.99% | 197–197 | 49–49 | 228–228 | 217–218 | 227–227 | +| 1381 / lLN1_bc | 7.86–7.89% | 214–214 | 51–51 | 227–228 | 227–228 | 227–227 | +| 1511 / lLN1_bc | 7.57–7.60% | 205–205 | 52–52 | 228–228 | 219–221 | 227–228 | +| 82312 / KC | 36.16–36.39% | 8–8 | 4–4 | 60–61 | 60–61 | 0–0 | +| 133666 / VA6_adPN | 10.18–10.22% | 119–119 | 31–31 | 212–214 | 0–0 | 208–210 | + +## Consequence for the next experiment + +The two-cell loop can sustain activity in isolation, but the full-brain watched ALLNs receive most positive input from outside the five-cell motif. Do not target only this pair as the established unique cause. +Existing conditional omissions freeze other recorded events: removing ALLN arrivals still leaves PN/other recorded drive. This establishes conditional sufficiency of residual input, NOT that an ALLN knockout in the live brain would fail. +Likewise a large input fraction is not a causal fraction; small inputs can matter near threshold. The VA6->KC edge illustrates why fractions alone are not a deletion target ranking. +Future separately authorized model tests should first validate operator semantics, then assess distributed local feedback and preservation of stimulus information, before learning. No gain/threshold/eta/mask tuning is licensed by this table. +No new simulations, learning, weights or frozen-file changes. No heldout data used. Usable associative learning remains unachieved. diff --git a/registry/feedback-context-review-20260930/checksums.sha256 b/registry/feedback-context-review-20260930/checksums.sha256 new file mode 100644 index 0000000..e538950 --- /dev/null +++ b/registry/feedback-context-review-20260930/checksums.sha256 @@ -0,0 +1,8 @@ +0c3c6db65be1f886f43e6c1d626d11086a41d739c3b74e8789ea14dd99b8ac5c REPORT.md +980024748379a30d470672e2fce6b4a0b1ad636a4f54ff630c1f10f1bd0fa387 context-fractions.csv +1f3e85da1527d3ae4720b6f0673ce1e90ad3739c992fbe25753a8c688e8ec01c existing-conditional-replay.csv +320a33e0a21653091c25c4eaf07b949accd2a7ce6d5918c440ad07e09b6ffed0 protocol.json +c6415f02fc8832830ce6f8b260583fe2e16964540b2ba49c527a67de4e14f518 source-neuron-fractions.csv +29384ffd4844d46019a8e65c314f22a09f86d4645806107f07ce8b5de7c93962 source-type-fractions.csv +c53fefb51bad059f176f90ecf53fa2ea3c53e57f710a88c3f61f5004a5d6ad67 summary.csv +d7e99c7af2a28424d064eb025b0ff05b93242c2f285263d966ca63a568c25ee8 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b/registry/feedback-context-review-20260930/summary.csv new file mode 100644 index 0000000..d4a0b1c --- /dev/null +++ b/registry/feedback-context-review-20260930/summary.csv @@ -0,0 +1,6 @@ +neuron_idx,body_id,type,internal_positive_fraction_min,internal_positive_fraction_max,sources_for_80_percent_min,sources_for_80_percent_max,positive_sources_min,positive_sources_max,isolated_five_late_spikes,whole_brain_late_rate_min,whole_brain_late_rate_max,base_late_min,base_late_max,omit_ALLN_late_min,omit_ALLN_late_max,omit_ALPN_late_min,omit_ALPN_late_max +1197,11289,lLN1_bc,0.08960140811364586,0.08988441360051412,49,49,197,197,185,456.0,456.0,228,228,217,218,227,227 +1381,11478,lLN1_bc,0.07863660098309871,0.0789103216189623,51,51,214,214,185,454.0,456.0,227,228,227,228,227,227 +1511,11620,lLN1_bc,0.07569838634101086,0.07596087892954709,52,52,205,205,186,456.0,456.0,228,228,219,221,227,228 +82312,109321,KC,0.3616168737979565,0.3639311754071379,4,4,8,8,41,120.0,122.0,60,61,60,61,0,0 +133666,527577,VA6_adPN,0.10176837945956113,0.10217650374647959,31,31,119,119,150,424.0,428.0,212,214,0,0,208,210 diff --git a/registry/feedback-context-review-20260930/verification.json b/registry/feedback-context-review-20260930/verification.json new file mode 100644 index 0000000..80cfae2 --- /dev/null +++ b/registry/feedback-context-review-20260930/verification.json @@ -0,0 +1,9 @@ +{ + "pass_all": true, + "inputs_before_after_identical": true, + "inputs_checked": 9, + "edge_identity_matches": 13, + "frozen_source_CPU_replay_checks": "Previously sealed Phase4Z regressions, not rerun here", + "new_simulations": 0, + "learning_achieved": false +} diff --git a/tools/review_feedback_context.py b/tools/review_feedback_context.py new file mode 100644 index 0000000..47b39a0 --- /dev/null +++ b/tools/review_feedback_context.py @@ -0,0 +1,151 @@ +"""Read-only reanalysis of sealed event accounting; no simulation/model mutation.""" +from datetime import datetime, timezone +import hashlib +import json +from pathlib import Path +import sys +import numpy as np +import pandas as pd + +ROOT=Path('/data/digital-drosophila') +Z=ROOT/'experiments/phase4z-pn-feedback-audit' +AC=ROOT/'experiments/phase4ac-lif-semantics' +OUT=ROOT/'registry/feedback-context-review-20260930' + + +def sha(path): + h=hashlib.sha256() + with path.open('rb') as f: + for b in iter(lambda:f.read(8<<20),b''):h.update(b) + return h.hexdigest() + + +def save(path,value): + with path.open('x',encoding='utf-8') as f:json.dump(value,f,indent=2,ensure_ascii=False,allow_nan=False);f.write('\n') + + +def verify_inputs(): + selection={Z:['drive/edge-accounting.parquet','replay/results.parquet','drive/late-ISI-and-g.parquet', + 'audit/incoming-source-metadata.parquet','audit/watched-metadata.parquet','regression/trials.json'], + AC:['audit/selected-real-edges.csv','motifs/summary.csv','audit/final-status.json']} + rows=[] + for folder,names in selection.items(): + manifest=json.loads((folder/'manifest.json').read_text()) + indexed={r['path']:r for r in manifest['files']} + for name in names: + p=folder/name;r=indexed[name] + assert p.is_file() and p.stat().st_size==r['bytes'] and sha(p)==r['sha256'],str(p) + rows.append(dict(path=str(p.relative_to(ROOT)),bytes=r['bytes'],sha256=r['sha256'], + sealed_manifest_sha256=sha(folder/'manifest.json'))) + return rows + + +def analyze(): + before=verify_inputs() + if OUT.exists():raise RuntimeError('Refusing existing output') + OUT.mkdir() + save(OUT/'protocol.json',dict(timestamp_utc=datetime.now(timezone.utc).isoformat(), + source=str(Path(__file__).resolve().relative_to(ROOT)),source_sha256=sha(Path(__file__)), + analysis='Post-hoc contextualization of preselected motifs using existing sealed accounting; no new simulations.', + scope='All six archived calibration odors, seed 131101, frozen_reference only; not heldout or learning evidence.', + inputs=before,metric='sum of positive arrived synaptic weights, NOT g trajectory attribution or causal responsibility')) + d=pd.read_parquet(Z/'drive/edge-accounting.parquet') + required={'trial','period','edge_id','source_neuron_idx','target_neuron_idx','raw_synapse_count','effective_weight', + 'edge_event_count','positive_arrival_sum','negative_arrival_sum','source_role'} + assert required<=set(d) + d=d[d.trial.str.endswith('-frozen_reference')].copy() + expected={f'{i}-131101-frozen_reference' for i in range(6)} + assert set(d.trial)==expected and not d.duplicated(['trial','period','edge_id']).any() + assert set(d.period)=={'input_on','post_input','late'} + assert np.allclose(d.positive_arrival_sum,d.edge_event_count*np.maximum(d.effective_weight,0),rtol=0,atol=0) + assert np.allclose(d.negative_arrival_sum,d.edge_event_count*np.minimum(d.effective_weight,0),rtol=0,atol=0) + edges=pd.read_csv(AC/'audit/selected-real-edges.csv') + for e in edges.itertuples(): + records=d[d.edge_id==e.edge_id] + assert len(records)>0 + assert records.source_neuron_idx.eq(e.source_neuron_idx).all() + assert records.target_neuron_idx.eq(e.target_neuron_idx).all() + assert records.raw_synapse_count.eq(e.raw_count).all() + metadata=pd.read_parquet(Z/'audit/incoming-source-metadata.parquet').set_index('neuron_idx') + watch=pd.read_parquet(Z/'audit/watched-metadata.parquet').set_index('neuron_idx') + assert metadata.index.is_unique and watch.index.is_unique + nodes=[1197,1381,1511,82312,133666] + scopes={'pair':{1381,1511},'trio':{1197,1381,1511},'five':set(nodes)} + summaries=[];types=[];sources=[] + for (trial,period,target),g in d[d.target_neuron_idx.isin(nodes)].groupby(['trial','period','target_neuron_idx']): + den=float(g.positive_arrival_sum.sum());neg=float(g.negative_arrival_sum.sum()) + assert den>0 + per=g.groupby('source_neuron_idx',sort=False).positive_arrival_sum.sum().sort_values(ascending=False,kind='stable') + pos=per[per>0];n80=int(np.searchsorted(pos.cumsum().to_numpy(),.8*den,side='left')+1) + alln=float(g.loc[g.source_role.eq('ALLN'),'positive_arrival_sum'].sum()) + alpn=float(g.loc[g.source_role.eq('ALPN'),'positive_arrival_sum'].sum()) + for scope,subset in scopes.items(): + internal=g.source_neuron_idx.isin(subset)&g.target_neuron_idx.isin(subset) + num=float(g.loc[internal,'positive_arrival_sum'].sum()) + summaries.append(dict(trial=trial,period=period,target_neuron_idx=int(target),body_id=int(watch.loc[target,'body_id']), + annotation_type=watch.loc[target,'annotation_type'],scope=scope,target_in_scope=bool(target in subset), + positive_arrival_sum=den,negative_arrival_sum=neg,internal_positive_sum=num, + internal_positive_fraction=num/den,outside_positive_fraction=(den-num)/den, + active_positive_source_neurons=int(len(pos)),sources_for_80_percent=n80, + ALLN_positive_fraction=alln/den,ALPN_positive_fraction=alpn/den)) + for src,value in per.items(): + m=metadata.loc[src] + sources.append(dict(trial=trial,period=period,target_neuron_idx=int(target),source_neuron_idx=int(src), + source_body_id=int(m.body_id),source_type=m.annotation_type,positive_arrival_sum=float(value),positive_fraction=float(value/den))) + gg=g.assign(source_type=g.source_neuron_idx.map(metadata.annotation_type).fillna('UNKNOWN_TYPE')) + for typ,z in gg.groupby('source_type'): + types.append(dict(trial=trial,period=period,target_neuron_idx=int(target),source_type=str(typ), + positive_arrival_sum=float(z.positive_arrival_sum.sum()),positive_fraction=float(z.positive_arrival_sum.sum()/den), + source_neurons=int(z.source_neuron_idx.nunique()))) + summary=pd.DataFrame(summaries);summary.to_csv(OUT/'context-fractions.csv',index=False) + pd.DataFrame(types).to_csv(OUT/'source-type-fractions.csv',index=False) + pd.DataFrame(sources).to_csv(OUT/'source-neuron-fractions.csv',index=False) + rep=pd.read_parquet(Z/'replay/results.parquet') + rep=rep[rep.trial.isin(expected)&rep.neuron_idx.isin(nodes)&rep['mode'].isin(['base','omit_ALLN','omit_ALPN'])].copy() + assert len(rep)==6*5*3 + rep.to_csv(OUT/'existing-conditional-replay.csv',index=False) + late=summary[(summary.period=='late')&(summary.scope=='five')] + iso=pd.read_csv(AC/'motifs/summary.csv') + isi=pd.read_parquet(Z/'drive/late-ISI-and-g.parquet') + isi=isi[isi.trial.isin(expected)&isi.neuron_idx.isin(nodes)] + comparison=[] + for node,g in late.groupby('target_neuron_idx'): + rr=rep[rep.neuron_idx==node];ii=isi[isi.neuron_idx==node] + row=dict(neuron_idx=int(node),body_id=int(watch.loc[node,'body_id']),type=str(watch.loc[node,'annotation_type']), + internal_positive_fraction_min=float(g.internal_positive_fraction.min()), + internal_positive_fraction_max=float(g.internal_positive_fraction.max()), + sources_for_80_percent_min=int(g.sources_for_80_percent.min()),sources_for_80_percent_max=int(g.sources_for_80_percent.max()), + positive_sources_min=int(g.active_positive_source_neurons.min()),positive_sources_max=int(g.active_positive_source_neurons.max()), + isolated_five_late_spikes=int(iso[(iso.motif=='five')&(iso.neuron_idx==node)].late_spikes.iloc[0]), + whole_brain_late_rate_min=float(ii.late_rate_hz.min()),whole_brain_late_rate_max=float(ii.late_rate_hz.max())) + for mode in ('base','omit_ALLN','omit_ALPN'): + vals=rr.loc[rr['mode']==mode,'late_spikes'] + row[mode+'_late_min']=int(vals.min());row[mode+'_late_max']=int(vals.max()) + comparison.append(row) + comp=pd.DataFrame(comparison);comp.to_csv(OUT/'summary.csv',index=False) + lines=['# Feedback motif contextualization — read-only review','', + 'This is not a new learning stage, intervention or model. Source: six archived calibration odors, one seed 131101, frozen_reference; all cases retained.', + 'Late interval 500–1,000 ms. Fractions measure positive arrived weights, not causal importance, g attribution or net excitation after inhibition/APL.', '', + '| Target idx / type | Five-node internal positive input | Positive sources | Sources needed for 80% | Base late spikes | omit ALLN | omit ALPN |', + '|---|---:|---:|---:|---:|---:|---:|'] + for r in comp.itertuples(): + lines.append(f'| {r.neuron_idx} / {r.type} | {100*r.internal_positive_fraction_min:.2f}–{100*r.internal_positive_fraction_max:.2f}% | {r.positive_sources_min}–{r.positive_sources_max} | {r.sources_for_80_percent_min}–{r.sources_for_80_percent_max} | {r.base_late_min}–{r.base_late_max} | {r.omit_ALLN_late_min}–{r.omit_ALLN_late_max} | {r.omit_ALPN_late_min}–{r.omit_ALPN_late_max} |') + lines+=['', '## Consequence for the next experiment', '', + 'The two-cell loop can sustain activity in isolation, but the full-brain watched ALLNs receive most positive input from outside the five-cell motif. Do not target only this pair as the established unique cause.', + 'Existing conditional omissions freeze other recorded events: removing ALLN arrivals still leaves PN/other recorded drive. This establishes conditional sufficiency of residual input, NOT that an ALLN knockout in the live brain would fail.', + 'Likewise a large input fraction is not a causal fraction; small inputs can matter near threshold. The VA6->KC edge illustrates why fractions alone are not a deletion target ranking.', + 'Future separately authorized model tests should first validate operator semantics, then assess distributed local feedback and preservation of stimulus information, before learning. No gain/threshold/eta/mask tuning is licensed by this table.', + 'No new simulations, learning, weights or frozen-file changes. No heldout data used. Usable associative learning remains unachieved.',''] + with (OUT/'REPORT.md').open('x',encoding='utf-8') as f:f.write('\n'.join(lines)) + after=verify_inputs();assert before==after + save(OUT/'verification.json',dict(pass_all=True,inputs_before_after_identical=True, + inputs_checked=len(before),edge_identity_matches=13,frozen_source_CPU_replay_checks='Previously sealed Phase4Z regressions, not rerun here', + new_simulations=0,learning_achieved=False)) + records=[dict(path=str(p.relative_to(OUT)),bytes=p.stat().st_size,sha256=sha(p)) for p in sorted(OUT.iterdir()) if p.is_file()] + save(OUT/'manifest.json',dict(files=records)) + with (OUT/'checksums.sha256').open('x') as f: + for r in records:f.write(r['sha256']+' '+r['path']+'\n') + print(comp.to_string(index=False));print('REVIEW SEALED; no new model or simulation') + + +if __name__=='__main__':analyze()