Files
digital-drosophila/models/male-cns-lif/apl-timing-lab-v1/PROTOCOL.md
T
2026-09-30 12:08:25 +08:00

73 lines
4.2 KiB
Markdown
Raw Blame History

This file contains ambiguous Unicode characters
This file contains Unicode characters that might be confused with other characters. If you think that this is intentional, you can safely ignore this warning. Use the Escape button to reveal them.
# Phase 4AJ: a single graded-APL timing hypothesis
Independent branch authorized by the human. All earlier models and data remain
read-only. The learning goal remains unmet; neither an audit nor fixed-CAL PASS
constitutes usable learning.
## Fixed intervention
Use the exact sealed AG author-style float64 LIF and float32 legacy graded APL.
Compare h applied at its generating tick with the identical generated operator
applied 18 steps later. No other change: dt=0.1 ms, anatomical delay=18 steps,
refractory=22 steps, tau_m=20 ms, tau_syn=5 ms, W_syn=0.275 mV, original signs,
threshold/rest/reset, all canonical IDs/edges, legacy APL tau=20 ms and gain=0.01.
The unchanged fast-APL zero mask includes 1,212 non-KC edges not replaced by the
graded operator. The branch does not silently fix this limitation.
This is engineering scheduling parity, not evidence of a measured 1.8 ms graded
APL delay. Whole h is delayed, including KC feedback; it is not a PN-only
intervention. APL still subtracts unconditionally at end-of-step, including
refractory KC, whereas ordinary synaptic arrivals are guarded by refractory.
Equal arrival time is not equivalent biological action.
## Stages and gates
1. Exact conditional reconstruction of all 420 metadata-defined ALLN in all
60 sealed CAL r0 records. Audit every simultaneous earliest non-design PN,
before first KC, and duration-matched never-active PN controls. PN→ALLN→PN
witnesses must be actual accepted timed edges; distinguish signed weights,
reset windows and zeroed edges. No shortest paths, unique-cause or necessity
claims. Unknown antecedents are retained and do not falsify numerical audit.
2. Fixed stored h trace shift audit: no loss, duplication, amplitude arithmetic
or brain simulation. Initial +0 padding and chronological unconsumed tail
explicitly retained. No extra brain/APL tail advance or future-decay claim.
3. Both arms: eight fixed real-edge fixtures, three fresh GPU repeats, independent
Brian LIF/own spikes/own FIFO, legacy APL component audit. Delay0 must reproduce
sealed AG scientific outputs bitwise.
4. Both arms: the same two fullgraph first-seed CAL probes, independent Brian
comparison and APL component audit. Numerical failure stops later execution.
5. Both arms: every original six-odor × two-mode × five-seed CAL, plus first-seed
repeat for each odor/mode. Exact source input files, not regenerated random
inputs. All results retained. Known baseline representation failure does not
skip treatment; no seed selection, threshold/gain search or gate relaxation.
6. Recompute comparisons from raw evidence, old checksums and five frozen
reference regressions. Seal truthful outcome with SHA-256 and source version.
## Interpretation limits
Generated h depends on changed closed-loop spikes, so branch inhibition integrals
need not match. Fixed-trace conservation is a transport check, not proof of
equal closed-loop dose. Accepted request counts can also change with refractory
state, despite byte-identical requested input schedules.
Brian state integration is independent but APL arithmetic is intentionally a
shared frozen component. Original operator AST replay and rounding audit remain
separate; no universal CPU/GPU equivalence is claimed from sampled fixtures.
CAL gate retains original 3–9% mean KC fraction, all-run limits, within/between
Jaccard and Euclidean gates, and minimum odor-pair count in both input modes.
Passing fixed CAL is not heldout generalization or associative memory. Further
progress requires independent seeds/novel odors, credit specificity, isolated and
whole-brain functional readouts, then conditioning with proper controls.
No training, eta/threshold/sign tuning, plastic mask expansion, heldout dynamic
access, visual input, decoder, RL, game, Web or new candidate in this experiment.
## Literature scope
Shiu et al. 2024, DOI 10.1038/s41586-024-07763-9, supplies the spiking-LIF
scheduling reference, not a measured MaleCNS graded-APL delay. Amin et al. 2020,
DOI 10.7554/eLife.56954, and Prisco et al. 2021 (PMC8741211) motivate local graded
APL/calyx interaction but do not determine this millisecond delay value. Prior
sealed source/literature audits retain versions and provenance.