Archive MaleCNS research sources, provenance, bibliography and immutable data inventory
This commit is contained in:
Digital Drosophila Archive
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# Phase 4R — KC–US timing audit
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Status: COMPLETED-DIAGNOSTIC-NO-CANDIDATE. No training, new timing selection, weight update or next phase.
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## Fixed-event matched/random ratio
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| Seed split | Window (ms) | Random [0,120) | Random [30,110] |
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|---|---:|---:|---:|
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| calibration | 5 | 0.017351 | 0.131271 |
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| calibration | 10 | 0.040701 | 0.230398 |
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| calibration | 20 | 0.067120 | 0.167925 |
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| calibration | 50 | 0.058699 | 0.070346 |
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| calibration | 100 | 0.494515 | 0.457529 |
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| calibration | 250 | 0.902178 | 0.763949 |
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| heldout | 5 | 0.342145 | 2.648988 |
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| heldout | 10 | 0.225614 | 1.337659 |
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| heldout | 20 | 0.149717 | 0.392041 |
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| heldout | 50 | 0.080961 | 0.099113 |
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| heldout | 100 | 0.495901 | 0.463649 |
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| heldout | 250 | 0.898125 | 0.765088 |
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## Actual target-compartment KC timing
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- {"split": "calibration", "label": "CAL_A", "peak_bin_start_ms": 20.0, "peak_spikes_per_5ms": 42.8, "spikes_85_90ms": 0.0, "fraction_events_first30ms": 0.9137931034482758, "median_last_spike_age_at_US_ms_edge_weighted": 69.05000000000001, "p10_last_spike_age_ms": 65.0, "fraction_edges_recent_20ms": 0.000474158368895211}
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- {"split": "calibration", "label": "CAL_B", "peak_bin_start_ms": 15.0, "peak_spikes_per_5ms": 36.8, "spikes_85_90ms": 0.4, "fraction_events_first30ms": 0.9011627906976745, "median_last_spike_age_at_US_ms_edge_weighted": 71.3, "p10_last_spike_age_ms": 67.39, "fraction_edges_recent_20ms": 0.000474158368895211}
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- {"split": "heldout", "label": "CAL_A", "peak_bin_start_ms": 20.0, "peak_spikes_per_5ms": 46.4, "spikes_85_90ms": 0.4, "fraction_events_first30ms": 0.9108910891089108, "median_last_spike_age_at_US_ms_edge_weighted": 69.0, "p10_last_spike_age_ms": 65.4, "fraction_edges_recent_20ms": 0.000474158368895211}
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- {"split": "heldout", "label": "CAL_B", "peak_bin_start_ms": 15.0, "peak_spikes_per_5ms": 37.2, "spikes_85_90ms": 0.8, "fraction_events_first30ms": 0.8902821316614421, "median_last_spike_age_at_US_ms_edge_weighted": 72.60000000000001, "p10_last_spike_age_ms": 67.8, "fraction_edges_recent_20ms": 0.000474158368895211}
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## Verification
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- Phase 4Q events and credit reproduced: True
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- Ten full-runtime repeat runs exact: True
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- Five frozen trials, two repeats each: True
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- Equal delay on both pathways preserves relative timing: True
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## Interpretation and limits
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- Phase 4Q failure reproduced only for its declared timing protocol; it is not evidence against all local credit rules.
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- Early target-KC activity and late 90ms reinforcement are measured associations. No APL ablation was authorized, so APL causation remains unresolved.
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- The exact uniform-time expectations remove random-US sampling noise on the same KC event stream.
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- US=0..120ms versus 30..110ms is a protocol difference, not an event-energy mismatch. Both use one forced spike per selected DAN.
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- The same 1.8ms delay on KC and DAN leaves relative timing unchanged. Counting only KC arrival is a different gate convention.
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- Pre-existing Phase 4Q controls were offline algebraic tests. This audit adds recorded events, disk checkpoint restoration, real full-runtime repeats and frozen reference comparisons.
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- No timing/eligibility candidate was selected. Independent heldout seeds replicate diagnosis; heldout odor generalization was not tested.
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- Heldout 5ms/10ms credit exceeds the narrower random-N expectation (2.649x/1.338x), but calibration does not replicate this and all ratios remain below the prior 3x gate.
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Final integrity verification is recorded separately in audit/frozen-integrity.json and the root checksums.sha256.
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@@ -0,0 +1,121 @@
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{
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"Phase1_4O": {
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"Phase1_to_3B": {
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"all_passed": true,
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"phase1_phase2_backup_sha256": {
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"passed": true,
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"returncode": 0,
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"stderr": ""
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},
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"phase3_sha256": {
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"passed": true,
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"returncode": 0,
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"stderr": ""
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},
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"phase3b_166700_sha256": {
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"passed": true,
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"returncode": 0,
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"stderr": ""
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},
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"phase3b_audit_sha256": {
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"passed": true,
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"returncode": 0,
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"stderr": ""
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},
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"raw_core_sha256": {
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"passed": true,
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"returncode": 0,
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"stderr": ""
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},
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"raw_skeleton_md5": {
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"passed": true,
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"returncode": 0,
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"stderr": ""
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}
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},
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"Phase4C_to_4L": {
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"all_passed": true,
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"phase4c_to_4i": true,
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"phase4j_to_4l": {
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"phase4j_model_root": true,
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"phase4j_root": true,
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"phase4k_model_root": true,
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"phase4k_root": true,
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"phase4l_model_root": true,
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"phase4l_root": true
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}
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},
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"Phase4M_4N": {
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"Phase4M experiment": {
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"checked": 80,
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"control": "/data/digital-drosophila/experiments/phase4m-kcmbon-efficacy/manifests/checksums.sha256",
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"failures": [],
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"passed": true,
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"root": "/data/digital-drosophila/experiments/phase4m-kcmbon-efficacy"
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},
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"Phase4M model": {
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"checked": 7,
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"control": "/data/digital-drosophila/models/male-cns-lif/kcmbon-efficacy-v1/checksums.sha256",
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"failures": [],
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"passed": true,
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"root": "/data/digital-drosophila/models/male-cns-lif/kcmbon-efficacy-v1"
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},
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"Phase4N experiment": {
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"checked": 396,
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"control": "/data/digital-drosophila/experiments/phase4n-credit-assignment/manifests/checksums.sha256",
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"failures": [],
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"passed": true,
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"root": "/data/digital-drosophila/experiments/phase4n-credit-assignment"
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},
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"Phase4N model": {
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"checked": 12,
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"control": "/data/digital-drosophila/models/male-cns-lif/credit-assignment-v1/checksums.sha256",
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"failures": [],
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"passed": true,
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"root": "/data/digital-drosophila/models/male-cns-lif/credit-assignment-v1"
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}
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},
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"Phase4O": {
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"checked": 40,
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"control": "/data/digital-drosophila/experiments/phase4o-runtime-credit/manifests/checksums.sha256",
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"failures": [],
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"passed": true,
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"root": "/data/digital-drosophila/experiments/phase4o-runtime-credit"
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},
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"all_static_checks_passed": true,
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"frozen_input_hashes_unchanged": true
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},
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"Phase4P_4Q": {
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"P": {
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"checked": 86,
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"control": "/data/digital-drosophila/experiments/phase4p-deterministic-runtime/manifests/checksums.sha256",
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"failures": [],
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"passed": true,
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"root": "/data/digital-drosophila/experiments/phase4p-deterministic-runtime"
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},
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"P_candidate": {
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"checked": 10,
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"control": "/data/digital-drosophila/models/male-cns-lif/deterministic-runtime-v2/candidate/checksums.sha256",
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"failures": [],
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"passed": true,
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"root": "/data/digital-drosophila/models/male-cns-lif/deterministic-runtime-v2/candidate"
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},
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"Q": {
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"checked": 24,
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"control": "/data/digital-drosophila/experiments/phase4q-credit-v3/manifests/checksums.sha256",
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"failures": [],
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"passed": true,
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"root": "/data/digital-drosophila/experiments/phase4q-credit-v3"
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},
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"Q_model": {
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"checked": 6,
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"control": "/data/digital-drosophila/models/male-cns-lif/credit-v3/checksums.sha256",
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"failures": [],
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"passed": true,
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"root": "/data/digital-drosophila/models/male-cns-lif/credit-v3"
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}
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},
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"all_passed": true,
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"same_before_after": true,
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"source_hashes_unchanged": true
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}
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@@ -0,0 +1,560 @@
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{
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"candidate_generated": false,
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"five_reference_trials_two_repeats_exact": true,
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"fixed_event_ratios": [
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{
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"matched": 0.018289440870285036,
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"random_N_exact": 0.1393261993508786,
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||||
"random_Q_exact": 1.0540861498924592,
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||||
"ratio_N": 0.1312706508574527,
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"ratio_Q": 0.017350992489703974,
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||||
"split": "calibration",
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"window_ms": 5
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},
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{
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"matched": 0.08421135768294334,
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"random_N_exact": 0.3655030649241525,
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"random_Q_exact": 2.0690166372675454,
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||||
"ratio_N": 0.23039849939539764,
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||||
"ratio_Q": 0.040701150568879615,
|
||||
"split": "calibration",
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"window_ms": 10
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||||
},
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{
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||||
"matched": 0.2720220059156418,
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||||
"random_N_exact": 1.619898363911081,
|
||||
"random_Q_exact": 4.052770160483817,
|
||||
"ratio_N": 0.16792535382212012,
|
||||
"ratio_Q": 0.0671200179491965,
|
||||
"split": "calibration",
|
||||
"window_ms": 20
|
||||
},
|
||||
{
|
||||
"matched": 0.5723733961582184,
|
||||
"random_N_exact": 8.136530840041116,
|
||||
"random_Q_exact": 9.750976653377217,
|
||||
"ratio_N": 0.07034612261794439,
|
||||
"ratio_Q": 0.05869908384612723,
|
||||
"split": "calibration",
|
||||
"window_ms": 50
|
||||
},
|
||||
{
|
||||
"matched": 9.391122939437627,
|
||||
"random_N_exact": 20.525734224732734,
|
||||
"random_Q_exact": 18.990561331759203,
|
||||
"ratio_N": 0.4575292087783968,
|
||||
"ratio_Q": 0.49451528974723963,
|
||||
"split": "calibration",
|
||||
"window_ms": 100
|
||||
},
|
||||
{
|
||||
"matched": 31.068125841021537,
|
||||
"random_N_exact": 40.66779589611292,
|
||||
"random_Q_exact": 34.436803252143164,
|
||||
"ratio_N": 0.7639490942756273,
|
||||
"ratio_Q": 0.9021779871245169,
|
||||
"split": "calibration",
|
||||
"window_ms": 250
|
||||
},
|
||||
{
|
||||
"matched": 0.34724832624197005,
|
||||
"random_N_exact": 0.13108717918908225,
|
||||
"random_Q_exact": 1.0149149899793168,
|
||||
"ratio_N": 2.648987707189072,
|
||||
"ratio_Q": 0.34214523351265774,
|
||||
"split": "heldout",
|
||||
"window_ms": 5
|
||||
},
|
||||
{
|
||||
"matched": 0.4489832133054733,
|
||||
"random_N_exact": 0.3356486068700906,
|
||||
"random_Q_exact": 1.9900508151693892,
|
||||
"ratio_N": 1.3376585039104532,
|
||||
"ratio_Q": 0.2256139440676829,
|
||||
"split": "heldout",
|
||||
"window_ms": 10
|
||||
},
|
||||
{
|
||||
"matched": 0.5835820764303208,
|
||||
"random_N_exact": 1.4885730991167947,
|
||||
"random_Q_exact": 3.897906442171584,
|
||||
"ratio_N": 0.3920412620492562,
|
||||
"ratio_Q": 0.1497167992839762,
|
||||
"split": "heldout",
|
||||
"window_ms": 20
|
||||
},
|
||||
{
|
||||
"matched": 0.7595419704914093,
|
||||
"random_N_exact": 7.6633822981612765,
|
||||
"random_Q_exact": 9.381602759805196,
|
||||
"ratio_N": 0.09911315147016102,
|
||||
"ratio_Q": 0.08096078995644672,
|
||||
"split": "heldout",
|
||||
"window_ms": 50
|
||||
},
|
||||
{
|
||||
"matched": 9.065953924506903,
|
||||
"random_N_exact": 19.553495740576647,
|
||||
"random_Q_exact": 18.2817877383378,
|
||||
"ratio_N": 0.4636487533885612,
|
||||
"ratio_Q": 0.49590084155146136,
|
||||
"split": "heldout",
|
||||
"window_ms": 100
|
||||
},
|
||||
{
|
||||
"matched": 29.834765711426734,
|
||||
"random_N_exact": 38.99518462149612,
|
||||
"random_Q_exact": 33.218945012715956,
|
||||
"ratio_N": 0.7650884590242535,
|
||||
"ratio_Q": 0.8981250217310097,
|
||||
"split": "heldout",
|
||||
"window_ms": 250
|
||||
}
|
||||
],
|
||||
"full_runtime_ten_repeats_exact": true,
|
||||
"heldout_all_windows_ratio_below_one_N": false,
|
||||
"heldout_all_windows_ratio_below_one_Q": true,
|
||||
"important_qualification": "Heldout 5ms/10ms credit exceeds the narrower random-N expectation (2.649x/1.338x), but calibration does not replicate this and all ratios remain below the prior 3x gate.",
|
||||
"interpretation_limits": [
|
||||
"Phase 4Q failure reproduced only for its declared timing protocol; it is not evidence against all local credit rules.",
|
||||
"Early target-KC activity and late 90ms reinforcement are measured associations. No APL ablation was authorized, so APL causation remains unresolved.",
|
||||
"The exact uniform-time expectations remove random-US sampling noise on the same KC event stream.",
|
||||
"US=0..120ms versus 30..110ms is a protocol difference, not an event-energy mismatch. Both use one forced spike per selected DAN.",
|
||||
"The same 1.8ms delay on KC and DAN leaves relative timing unchanged. Counting only KC arrival is a different gate convention.",
|
||||
"Pre-existing Phase 4Q controls were offline algebraic tests. This audit adds recorded events, disk checkpoint restoration, real full-runtime repeats and frozen reference comparisons.",
|
||||
"No timing/eligibility candidate was selected. Independent heldout seeds replicate diagnosis; heldout odor generalization was not tested."
|
||||
],
|
||||
"mechanism_labels": [
|
||||
"KC-US-TIMING-MISMATCH-SUPPORTED",
|
||||
"RANDOM-TIMING-DISTRIBUTION-EFFECT-CONFIRMED",
|
||||
"CURRENT-GATE-CREDIT-UNCHANGED-BY-DAN-FEEDBACK",
|
||||
"FROZEN-RUNTIME-REGRESSION-PASS"
|
||||
],
|
||||
"next_phase_started": false,
|
||||
"next_step": "Pre-register stimulus and reinforcement timing using independent calibration data; keep brain and learning magnitude frozen. Do not select an optimum from heldout results.",
|
||||
"offline_controls_all_pass": true,
|
||||
"paired_network_effects": [
|
||||
{
|
||||
"changed_event_streams": 1,
|
||||
"condition": "matched_90ms",
|
||||
"max_absolute_feedback_credit": 0.0,
|
||||
"mean_KC_count_L1": 0.0,
|
||||
"mean_absolute_feedback_credit": 0.0,
|
||||
"split": "calibration",
|
||||
"trials": 10,
|
||||
"window_ms": 5
|
||||
},
|
||||
{
|
||||
"changed_event_streams": 1,
|
||||
"condition": "matched_90ms",
|
||||
"max_absolute_feedback_credit": 0.0,
|
||||
"mean_KC_count_L1": 0.0,
|
||||
"mean_absolute_feedback_credit": 0.0,
|
||||
"split": "calibration",
|
||||
"trials": 10,
|
||||
"window_ms": 10
|
||||
},
|
||||
{
|
||||
"changed_event_streams": 1,
|
||||
"condition": "matched_90ms",
|
||||
"max_absolute_feedback_credit": 0.0,
|
||||
"mean_KC_count_L1": 0.0,
|
||||
"mean_absolute_feedback_credit": 0.0,
|
||||
"split": "calibration",
|
||||
"trials": 10,
|
||||
"window_ms": 20
|
||||
},
|
||||
{
|
||||
"changed_event_streams": 1,
|
||||
"condition": "matched_90ms",
|
||||
"max_absolute_feedback_credit": 0.0,
|
||||
"mean_KC_count_L1": 0.0,
|
||||
"mean_absolute_feedback_credit": 0.0,
|
||||
"split": "calibration",
|
||||
"trials": 10,
|
||||
"window_ms": 50
|
||||
},
|
||||
{
|
||||
"changed_event_streams": 1,
|
||||
"condition": "matched_90ms",
|
||||
"max_absolute_feedback_credit": 0.0,
|
||||
"mean_KC_count_L1": 0.0,
|
||||
"mean_absolute_feedback_credit": 0.0,
|
||||
"split": "calibration",
|
||||
"trials": 10,
|
||||
"window_ms": 100
|
||||
},
|
||||
{
|
||||
"changed_event_streams": 1,
|
||||
"condition": "matched_90ms",
|
||||
"max_absolute_feedback_credit": 0.0,
|
||||
"mean_KC_count_L1": 0.0,
|
||||
"mean_absolute_feedback_credit": 0.0,
|
||||
"split": "calibration",
|
||||
"trials": 10,
|
||||
"window_ms": 250
|
||||
},
|
||||
{
|
||||
"changed_event_streams": 4,
|
||||
"condition": "random_N_30_110ms",
|
||||
"max_absolute_feedback_credit": 0.0,
|
||||
"mean_KC_count_L1": 0.1,
|
||||
"mean_absolute_feedback_credit": 0.0,
|
||||
"split": "calibration",
|
||||
"trials": 10,
|
||||
"window_ms": 5
|
||||
},
|
||||
{
|
||||
"changed_event_streams": 4,
|
||||
"condition": "random_N_30_110ms",
|
||||
"max_absolute_feedback_credit": 0.0,
|
||||
"mean_KC_count_L1": 0.1,
|
||||
"mean_absolute_feedback_credit": 0.0,
|
||||
"split": "calibration",
|
||||
"trials": 10,
|
||||
"window_ms": 10
|
||||
},
|
||||
{
|
||||
"changed_event_streams": 4,
|
||||
"condition": "random_N_30_110ms",
|
||||
"max_absolute_feedback_credit": 0.0,
|
||||
"mean_KC_count_L1": 0.1,
|
||||
"mean_absolute_feedback_credit": 0.0,
|
||||
"split": "calibration",
|
||||
"trials": 10,
|
||||
"window_ms": 20
|
||||
},
|
||||
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||||
+11
@@ -0,0 +1,11 @@
|
||||
{
|
||||
"failure": "main audit completed simulations and numerical regression, then matplotlib import failed",
|
||||
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|
||||
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|
||||
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@@ -0,0 +1,30 @@
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|
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|
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||||
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|
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||||
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|
||||
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||||
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||||
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|
||||
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||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
}
|
||||
}
|
||||
@@ -0,0 +1,555 @@
|
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|
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|
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
],
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||||
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|
||||
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|
||||
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|
||||
"Same two calibration odors with independent heldout seeds; not heldout odors or generalization proof.",
|
||||
"No APL ablation; early transient cannot be uniquely attributed to APL.",
|
||||
"Emission-time vs arrival-time semantics audited without changing frozen teaching semantics.",
|
||||
"No training or functional associative-memory gate in this audit.",
|
||||
"Frozen-group labels belong to formal A/B; calibration credit on these groups is not calibration odor specificity."
|
||||
],
|
||||
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|
||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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|
||||
"ratio_N": 0.4575292087783968,
|
||||
"ratio_Q": 0.49451528974723963,
|
||||
"split": "calibration",
|
||||
"window_ms": 100
|
||||
},
|
||||
{
|
||||
"matched": 31.068125841021537,
|
||||
"random_N_exact": 40.66779589611292,
|
||||
"random_Q_exact": 34.436803252143164,
|
||||
"ratio_N": 0.7639490942756273,
|
||||
"ratio_Q": 0.9021779871245169,
|
||||
"split": "calibration",
|
||||
"window_ms": 250
|
||||
},
|
||||
{
|
||||
"matched": 0.34724832624197005,
|
||||
"random_N_exact": 0.13108717918908225,
|
||||
"random_Q_exact": 1.0149149899793168,
|
||||
"ratio_N": 2.648987707189072,
|
||||
"ratio_Q": 0.34214523351265774,
|
||||
"split": "heldout",
|
||||
"window_ms": 5
|
||||
},
|
||||
{
|
||||
"matched": 0.4489832133054733,
|
||||
"random_N_exact": 0.3356486068700906,
|
||||
"random_Q_exact": 1.9900508151693892,
|
||||
"ratio_N": 1.3376585039104532,
|
||||
"ratio_Q": 0.2256139440676829,
|
||||
"split": "heldout",
|
||||
"window_ms": 10
|
||||
},
|
||||
{
|
||||
"matched": 0.5835820764303208,
|
||||
"random_N_exact": 1.4885730991167947,
|
||||
"random_Q_exact": 3.897906442171584,
|
||||
"ratio_N": 0.3920412620492562,
|
||||
"ratio_Q": 0.1497167992839762,
|
||||
"split": "heldout",
|
||||
"window_ms": 20
|
||||
},
|
||||
{
|
||||
"matched": 0.7595419704914093,
|
||||
"random_N_exact": 7.6633822981612765,
|
||||
"random_Q_exact": 9.381602759805196,
|
||||
"ratio_N": 0.09911315147016102,
|
||||
"ratio_Q": 0.08096078995644672,
|
||||
"split": "heldout",
|
||||
"window_ms": 50
|
||||
},
|
||||
{
|
||||
"matched": 9.065953924506903,
|
||||
"random_N_exact": 19.553495740576647,
|
||||
"random_Q_exact": 18.2817877383378,
|
||||
"ratio_N": 0.4636487533885612,
|
||||
"ratio_Q": 0.49590084155146136,
|
||||
"split": "heldout",
|
||||
"window_ms": 100
|
||||
},
|
||||
{
|
||||
"matched": 29.834765711426734,
|
||||
"random_N_exact": 38.99518462149612,
|
||||
"random_Q_exact": 33.218945012715956,
|
||||
"ratio_N": 0.7650884590242535,
|
||||
"ratio_Q": 0.8981250217310097,
|
||||
"split": "heldout",
|
||||
"window_ms": 250
|
||||
}
|
||||
],
|
||||
"status": "COMPLETED-DIAGNOSTIC-NO-CANDIDATE",
|
||||
"symmetric_delay_exact": true
|
||||
}
|
||||
+16
@@ -0,0 +1,16 @@
|
||||
{
|
||||
"Q_KC_timing": "KC soma/emission event time is called terminal time; does not add 18-step anatomical delay",
|
||||
"Q_checkpoint": "reconstructs trace from in-memory last-spike array, no disk serialize/restore",
|
||||
"Q_claim_limit": "calibration failure does not prove universal credit-rule failure or associative-memory failure",
|
||||
"Q_comparison": "matched and random timing were run separately, so KC streams may differ through DAN/network feedback",
|
||||
"Q_control_scope": "D0/unrelated/far-before/far-after are algebraic eligibility tests, not physiological control simulations",
|
||||
"Q_future_far_case": "for window 250 ms, synthetic far-before KC step is negative; this is not an actual runtime event",
|
||||
"Q_independence": "calibration split selected independently of formal odors; frozen-stimuli file was written after simulations",
|
||||
"Q_ten_repeats": "same NumPy function called ten times on a synthetic event, not full-brain runtime repeats",
|
||||
"Q_timing_matrix": "synchronous hypothetical activity on all in-compartment terminals, not measured odor-driven edge-group credit",
|
||||
"equal_delay_note": "shifting BOTH KC and US by 18 steps preserves relative timing; shifting only KC changes the teaching contract",
|
||||
"matched_US": "one forced spike per selected DAN at 90 ms; external teaching gate sampled at same emission timestep",
|
||||
"odor_forcing": "constant PN rate vectors over all 120 ms, Bernoulli events per timestep; no brief CS pulse in this runtime",
|
||||
"random_N": "continuous uniform [30,110] ms then rounded to a timestep",
|
||||
"random_Q": "one discrete uniform step over [0,120) ms; unchanged selected DANs/amplitude"
|
||||
}
|
||||
Reference in New Issue
Block a user