Add bounded two-epoch conditioning interface and exact controls
This commit is contained in:
Digital Drosophila Archive
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# AO — bounded two-epoch conditioning-interface validation
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This independent branch does not replace the frozen reference, runtime or any
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Phase 1–AN result. It tests the installation interface for the existing frozen
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eligibility-v2 rule. It is not a new dynamics hypothesis or a learned model.
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## Fixed, pre-outcome selection
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- Master seed: `20260930`; no seed search or outcome-based retries.
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- First canonical block: physiological / PAM15 / reinforce_A / rep01.
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- First normal paired epoch requesting a US, and its immediate successor.
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- Both selected epochs are odor A (4-ethylphenol), not an A/B discrimination
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test. Exact recorded L glomerular/PN mapping and PN column order are retained.
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- Each epoch is 120 ms: 100 ms CS plus 20 ms tail, US at tick 900.
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- D1, D0 and frozen arms receive identical saved CS and DAN requests. The
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scheduled artificial D scalar is not measured dopamine concentration and is
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not multiplied by actual DAN request acceptance. Delivery is reported apart.
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- Two executors (reference and light), two fresh epochs per arm: 12 calls,
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14,400 timesteps. This does not authorize the full conditioning inventory.
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## Immutable neural semantics and authority
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Each epoch resets V, g, refractory counters, APL state and both delay queues;
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the zero-initialized eligibility trace is computed from actual sealed spikes.
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Only the float32-mV plastic delta carries between epochs. No update occurs
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inside an epoch. Original graph, base weights, transmitter signs, numerical
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precision, APL parameters, frozen v2 rule and complete 14,232-edge mask remain
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unchanged. Full graph is 166,700 neurons and 25,582,938 edges.
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Registration pins source snapshots, actual graph/APL/coefficient files, frozen
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L static resources, H mappings, the complete generated semantic plan and the
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12 selected call descriptors before CUDA sampling. Sampling receipts bind the
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two generated request arrays before any brain call. Every input file is shared
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byte-for-byte between arms and executors. The full 63-bit input seed is separate
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from the inherited conservative 31-bit neural reset-control value.
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A fixed first-seed CUDA check executes only the four original L sampling AST
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statements, compares sparse requests, and compares full63-bit versus low32-bit
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uniform matrices. This is a sampler test, not a neural trial or seed search.
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Two production and three diagnostic matrices are drawn; each is 1200×PN count,
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at most 2,000,000 uniform values. No continuous-time Poisson claim is made.
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Each neural output is immediately sealed. Outside that seal, the coordinator
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binds original inputs, checkpoint events, actual v2 recomputation and the new
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delta snapshot. `parent_snapshot_sha256` means the previous **overlay NPZ file**,
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not its manifest or the neural checkpoint. Epoch 2 must install that exact
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snapshot; D0/frozen deltas must stay positive-zero bitwise.
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## Finite gates and reporting limits
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Required: all 12 processes complete; six reference/light pairs have identical
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sparse events, counts, final V/g/ref and terminal queues/APL; deltas are exact;
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D0/frozen identity holds; epoch 2 actually installs epoch 1 delta. D1 must have
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nonzero actual update coverage or the result is `INCOMPLETE`, never rescued by
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another input. Nonzero delta is interface coverage, not evidence of memory.
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The light executor does not record intermediate floating states; no all-tick
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bitwise claim is inferred. This validation has only one training replicate, two
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A epochs, no independent behavioral evaluation, and no acquisition/reversal/
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retention success claim. The post-update retention boundary is still unsupported.
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## Resource and failure policy
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Use only RTX4090 UUID GPU-79f3a85d-adce-7833-7003-6488140ca596; admit a child only
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when all three ComfyUI queues are empty. Never stop or evict services. Cap new
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output at 4 GiB plus 10 GiB free reserve and each child at 1800 seconds. Preserve
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partial output and stop on any failure; no automatic brain retry. End by
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rechecking AN and AM seals and the inherited 28-root integrity inventory. Five
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old frozen reference results are retained from sealed AM evidence, not claimed
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to have been rerun by this small interface gate.
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"""Exclusive postprocessing of one externally authorized sealed fresh epoch.
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No brain execution, source selection, input generation or weight installation.
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The external caller must derive and pin authority from its registered row and
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successful process receipt; a SHA supplied to this helper is not self-proving
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registration authority. Production uses the actual pinned C/R checkpoint and
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overlay readers. Small synthetic tests exercise only the private core.
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"""
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from __future__ import annotations
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import hashlib
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import json
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import math
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from pathlib import Path
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import sys
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from types import ModuleType
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import numpy as np
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SCHEMA = 'phase4an-epoch-postprocess-authority-v1'
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SOURCE_PINS = {
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'runtime_light_source': '522b8c31ea938890fe15364fccd25ccc5bded54101754909f255532e7ad01aae',
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'runtime_continuation_source': '0b8e8e0a6a23a079dc62a88355ce355d53b3ae22f6665519a8f6aef2dcfc5aba',
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'conditioning_update_source': '96efff678cff910654eb08e86f1a17789e4e5589e340345f419c7027a7d547e2',
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'eligibility_bridge_source': '174fb8d14619189e74b095e77a6db18b14c93046dc431c0b55710a5aa2dd2e61',
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'phase4j_source': 'abb4574da85f00bd9ef61024c65993ef81d42651ff8d8d63c15dd69c6222471e',
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'am_overlay_source': '7f891d0ba79b393c96e75fd2dee2eddc51e57d8213eaac2779703bc2c18712b4',
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}
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ROLES = frozenset(('spec', 'requests', 'overlay_before', 'overlay_manifest_before', 'state',
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'kc', 'canonical_kc', 'candidate_map', 'mask', 'base_candidate', *SOURCE_PINS))
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GRAPH_FILES = ('nodes.npy', 'edge_id.npy', 'src.npy', 'dst.npy', 'signed_raw.npy', 'ptr.npy', 'weights.npy')
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APL_FILES = ('input_matrix.npy', 'output_matrix.npy', 'kc_globals.npy', 'apl_globals.npy')
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DIMENSIONS = (166700, 25582938, 4064, 14232)
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_MODULES = {}
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def _require(ok, message):
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if not ok:
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raise ValueError(message)
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def _sha(value):
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return type(value) is str and len(value) == 64 and all(c in '0123456789abcdef' for c in value)
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def _digest(path):
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h = hashlib.sha256()
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with Path(path).open('rb') as stream:
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for chunk in iter(lambda: stream.read(8 << 20), b''):
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h.update(chunk)
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return h.hexdigest()
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def _read(path):
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def pairs(items):
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value = {}
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for key, item in items:
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_require(key not in value, 'Duplicate JSON key: ' + key)
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value[key] = item
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return value
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return json.loads(Path(path).read_text(encoding='utf-8'), object_pairs_hook=pairs,
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parse_constant=lambda value: (_ for _ in ()).throw(ValueError('Nonfinite JSON: ' + value)))
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def _save(path, value):
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with Path(path).open('x', encoding='utf-8') as stream:
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json.dump(value, stream, sort_keys=True, indent=2, allow_nan=False)
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stream.write('\n')
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def _path(value):
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_require(type(value) is str and Path(value).is_absolute(), 'Input paths must be explicit and absolute')
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path = Path(value)
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_require(path.is_file() and not path.is_symlink(), 'Input must be an existing regular, unlinked file')
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return path.resolve(strict=True)
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def _check_files(pins):
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for path, expected in pins.items():
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_require(_sha(expected) and _digest(path) == expected, 'Input/source SHA mismatch: ' + str(path))
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def _authority(path, expected):
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path = _path(str(path))
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_require(_sha(expected) and _digest(path) == expected, 'Authority differs from external SHA')
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value = _read(path)
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keys = {'schema', 'epoch_id', 'diagnostic_mode', 'command', 'checkpoint_dir',
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'checkpoint_manifest_sha256', 'files', 'frozen_inputs'}
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_require(type(value) is dict and set(value) == keys and value['schema'] == SCHEMA, 'Invalid authority fields/schema')
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_require(type(value['epoch_id']) is str and value['epoch_id'] and value['epoch_id'].strip() == value['epoch_id'], 'Invalid epoch identity')
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_require(value['diagnostic_mode'] in ('light', 'reference'), 'Invalid diagnostic mode')
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command = value['command']
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_require(type(command) is dict and set(command) == {'steps', 'compartment', 'us_tick', 'd_command', 'frozen', 'trace_backend'}, 'Invalid command fields')
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_require(type(command['steps']) is int and command['steps'] > 0, 'Invalid command steps')
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_require(command['us_tick'] is None or (type(command['us_tick']) is int and 0 <= command['us_tick'] < command['steps']), 'Invalid US tick')
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_require(type(command['d_command']) in (int, float) and math.isfinite(command['d_command']) and command['d_command'] in (0, 1), 'Invalid scheduled D')
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_require(command['us_tick'] is not None or command['d_command'] == 0, 'No US requires D=0')
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_require(type(command['frozen']) is bool and command['trace_backend'] in ('numpy', 'torch'), 'Explicit frozen/backend required')
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_require(command['compartment'] in ("B2B'2a", 'a1', "y2a'1", "y5B'2a"), 'Explicit frozen compartment required')
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_require(type(value['files']) is dict and set(value['files']) == ROLES, 'Missing/unknown authority file roles')
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paths, pins = {}, {path: expected}
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for role, entry in value['files'].items():
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_require(type(entry) is dict and set(entry) == {'path', 'sha256'} and _sha(entry['sha256']), 'Invalid file authority: ' + role)
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location = _path(entry['path'])
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_require(location not in pins or pins[location] == entry['sha256'], 'Conflicting hashes for the same file')
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paths[role], pins[location] = location, entry['sha256']
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_require(type(value['frozen_inputs']) is dict and value['frozen_inputs'], 'Full frozen input pins are required')
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for name, sha in value['frozen_inputs'].items():
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location = _path(name)
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_require(_sha(sha) and (location not in pins or pins[location] == sha), 'Invalid/conflicting frozen input pin')
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pins[location] = sha
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checkpoint = Path(value['checkpoint_dir'])
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_require(checkpoint.is_absolute() and checkpoint.is_dir() and not checkpoint.is_symlink(), 'Explicit existing checkpoint directory required')
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checkpoint = checkpoint.resolve(strict=True)
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manifest = checkpoint / 'checkpoint-manifest.json'
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_require(_sha(value['checkpoint_manifest_sha256']), 'External checkpoint manifest SHA required')
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_require(manifest not in pins or pins[manifest] == value['checkpoint_manifest_sha256'], 'Conflicting checkpoint manifest pins')
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pins[manifest] = value['checkpoint_manifest_sha256']
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_require(paths['state'] == checkpoint / 'state.npz', 'Events must come from this checkpoint state.npz')
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_check_files(pins)
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return value, paths, pins, checkpoint, path
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def _load_source(path, expected, role):
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raw = path.read_bytes()
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_require(hashlib.sha256(raw).hexdigest() == expected, 'Pinned source changed: ' + role)
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name = '_conditioning_epoch_' + role
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if name in _MODULES:
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saved_path, saved_sha, module = _MODULES[name]
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_require(saved_path == path and saved_sha == expected and sys.modules.get(name) is module,
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'Source module identity collision: ' + role)
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return module
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_require(name not in sys.modules, 'Unverified source module collision: ' + role)
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module = ModuleType(name)
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module.__file__ = str(path)
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sys.modules[name] = module
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try:
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exec(compile(raw, str(path), 'exec'), module.__dict__)
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except BaseException:
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sys.modules.pop(name, None)
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raise
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_MODULES[name] = (path, expected, module)
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return module
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def _production_dependencies(paths, pins):
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for role, expected in SOURCE_PINS.items():
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_require(pins[paths[role]] == expected, 'Authority cannot replace frozen source: ' + role)
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_require(paths['runtime_continuation_source'].parent / 'runtime_light.py' == paths['runtime_light_source'],
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'Continuation must load its declared adjacent frozen runtime')
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c = _load_source(paths['runtime_continuation_source'], SOURCE_PINS['runtime_continuation_source'], 'continuation')
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_require(Path(c.R.__file__).resolve() == paths['runtime_light_source'] and
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_digest(c.R.__file__) == SOURCE_PINS['runtime_light_source'], 'Loaded actual runtime differs from authority')
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u = _load_source(paths['conditioning_update_source'], SOURCE_PINS['conditioning_update_source'], 'update')
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return c, c.R, u
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def _npz(path, keys):
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with np.load(path, allow_pickle=False) as archive:
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_require(len(archive.files) == len(keys) and set(archive.files) == set(keys), 'Unexpected NPZ schema: ' + str(path))
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return {key: archive[key].copy() for key in keys}
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def _same(a, b):
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return a.dtype == b.dtype and a.shape == b.shape and a.tobytes() == b.tobytes()
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def _vector(a, dtype, count, label):
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_require(a.dtype == np.dtype(dtype) and a.shape == (count,), 'Invalid dtype/shape: ' + label)
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def _coordinate(value, paths, pins, checkpoint, authority_path, out_dir, dependencies, dimensions):
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"""Private core: explicit tiny-fixture dependencies only in synthetic tests."""
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c, r, u = dependencies
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n, edges, kc_count, candidates = dimensions
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out = Path(out_dir).resolve(strict=False)
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protected = {checkpoint, *(path.parent for path in pins)}
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_require(not out.exists() and not any(out.is_relative_to(root) for root in protected),
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'Output must be new and outside checkpoint/source/data/input parent directories')
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_require(out.parent.is_dir(), 'Output parent must already exist')
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source_sha = _digest(__file__)
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spec = r.validate_spec(_read(paths['spec']), paths['spec'].parent)
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command = value['command']
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_require(type(spec['steps']) is int and spec['steps'] == command['steps'], 'Command steps differ from authorized spec')
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_require(paths['spec'].name == 'spec.json' and paths['requests'] == paths['spec'].parent / 'requests.npz', 'Actual case input filenames differ')
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graph = Path(spec['graph_dir']).resolve(strict=True)
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apl = Path(spec['apl_bundle_dir']).resolve(strict=True)
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required_inputs = [graph / name for name in GRAPH_FILES] + [apl / name for name in APL_FILES] + [Path(spec['coefficients_path']).resolve(strict=True)]
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_require(all(path in pins for path in required_inputs), 'Full graph/APL/coefficient authority is incomplete')
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_require(paths['canonical_kc'] == apl / 'kc_globals.npy', 'Canonical KC must be the declared frozen APL/KC membership')
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old_meta = _read(paths['overlay_manifest_before'])
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for role, prefix in (('mask', 'mask'), ('base_candidate', 'base_candidate'), ('am_overlay_source', 'am_overlay')):
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_require(Path(old_meta[prefix + '_path']).resolve(strict=True) == paths[role] and
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old_meta[prefix + '_sha256'] == pins[paths[role]], 'Overlay authority differs: ' + role)
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aj = Path(old_meta['aj_model_dir']).resolve(strict=True)
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for relative, expected in r.PINS.items():
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path = (aj.parent / relative).resolve(strict=True)
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_require(pins.get(path) == expected, 'Missing exact frozen dependency pin: ' + relative)
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record = c.load_checkpoint(checkpoint, value['checkpoint_manifest_sha256'])
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_require(record['fresh'] is True and record['global_tick_offset'] == 0 and record['steps'] == command['steps'], 'Only complete fresh epochs may produce an update')
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summary, provenance = record['summary'], record['provenance']
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_require(summary['nodes'] == n and summary['edges'] == edges and summary['diagnostic_mode'] == value['diagnostic_mode'], 'Runtime population/mode differs from authority')
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_require(record['manifest']['files_sha256']['state.npz'] == pins[paths['state']], 'State/events are not bound by the expected checkpoint seal')
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for role in ('spec', 'requests', 'overlay_before', 'overlay_manifest_before'):
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_require(provenance['input_sha256'].get(str(paths[role])) == pins[paths[role]], 'Runtime did not bind authorized ' + role)
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_require(_digest(checkpoint / 'overlay-input.npz') == pins[paths['overlay_before']] and
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_digest(checkpoint / 'overlay-manifest.json') == pins[paths['overlay_manifest_before']], 'Sealed runtime used a different overlay or manifest')
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helper, before, checked_meta, _ = r.load_overlay(paths['overlay_before'], paths['overlay_manifest_before'])
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_require(checked_meta == old_meta, 'Overlay manifest changed during validation')
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mapping = _npz(paths['candidate_map'], ('edge_id', 'source_neuron_idx', 'target_neuron_idx', 'target_compartment_verbatim'))
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mask = np.load(paths['mask'], allow_pickle=False)
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kc = np.load(paths['kc'], allow_pickle=False)
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canonical_kc = np.load(paths['canonical_kc'], allow_pickle=False)
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base = np.load(paths['base_candidate'], allow_pickle=False)
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_vector(mask, 'int64', candidates, 'complete mask')
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_vector(kc, 'int32', kc_count, 'KC')
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|
_vector(canonical_kc, 'int32', kc_count, 'canonical KC')
|
||||||
|
_vector(base, 'float32', candidates, 'original base mV')
|
||||||
|
_require(_same(kc, canonical_kc), 'Supplied KC differs from canonical membership bytes')
|
||||||
|
_require(_same(mapping['edge_id'], mask) and _same(before['edge_id'], mask), 'Candidate mapping/overlay differ from exact mask')
|
||||||
|
_require(_same(before['base_candidate_mv'], base), 'Overlay used different original base bytes')
|
||||||
|
for key in ('source_neuron_idx', 'target_neuron_idx'):
|
||||||
|
_vector(mapping[key], 'int32', candidates, key)
|
||||||
|
comps = mapping['target_compartment_verbatim']
|
||||||
|
_require(comps.shape == (candidates,) and comps.dtype.kind == 'U', 'Compartment mapping must be an exact Unicode vector')
|
||||||
|
maps = {}
|
||||||
|
try:
|
||||||
|
for filename, dtype, length in (('nodes.npy', 'int32', n), ('edge_id.npy', 'int64', edges),
|
||||||
|
('src.npy', 'int32', edges), ('dst.npy', 'int32', edges)):
|
||||||
|
array = np.load(graph / filename, allow_pickle=False, mmap_mode='r')
|
||||||
|
maps[filename] = array
|
||||||
|
_vector(array, dtype, length, 'full graph ' + filename)
|
||||||
|
_require(np.array_equal(maps['nodes.npy'], np.arange(n, dtype=np.int32)), 'Global nodes are not canonical')
|
||||||
|
_require(np.all((mask >= 0) & (mask < edges)) and np.all(mask[1:] > mask[:-1]), 'Invalid canonical edge mask')
|
||||||
|
_require(_same(maps['edge_id.npy'][mask], mask), 'Mask is not indexed by original global edge ID')
|
||||||
|
_require(_same(mapping['source_neuron_idx'], maps['src.npy'][mask]) and
|
||||||
|
_same(mapping['target_neuron_idx'], maps['dst.npy'][mask]), 'Candidate endpoints differ from actual graph')
|
||||||
|
finally:
|
||||||
|
for array in maps.values():
|
||||||
|
array._mmap.close()
|
||||||
|
state = _npz(paths['state'], ('step', 'neuron_idx', 'counts', 'v', 'g', 'ref'))
|
||||||
|
_require(all(_same(state[key], record['state'][key]) for key in state), 'Event/state arrays differ from actual sealed reader')
|
||||||
|
_require(record['overlay']['delta_raw_sha256'] == r._raw(before['plastic_delta_mv']) and
|
||||||
|
record['overlay']['effective_weights_raw_sha256'] == summary['effective_weights_raw_sha256'], 'Runtime weight installation is not bound to delta_before')
|
||||||
|
args = dict(step=state['step'], neuron_idx=state['neuron_idx'], kc=kc,
|
||||||
|
candidate_edge_id=mask, candidate_sources=mapping['source_neuron_idx'],
|
||||||
|
candidate_targets=mapping['target_neuron_idx'], candidate_compartments=comps,
|
||||||
|
delta_before=before['plastic_delta_mv'], base_candidate=base, steps=command['steps'], n_neurons=n,
|
||||||
|
compartment=command['compartment'], us_tick=command['us_tick'], d_command=command['d_command'],
|
||||||
|
frozen=command['frozen'], bridge_source=paths['eligibility_bridge_source'],
|
||||||
|
phase4j_source=paths['phase4j_source'], trace_backend=command['trace_backend'])
|
||||||
|
result = u.update_epoch(**args)
|
||||||
|
_check_files(pins)
|
||||||
|
# The directory creation is the exclusive claim. A later failure remains a
|
||||||
|
# partial directory and can never silently be retried or overwritten.
|
||||||
|
out.mkdir()
|
||||||
|
try:
|
||||||
|
with (out / 'delta-after.npz').open('xb') as stream:
|
||||||
|
np.savez_compressed(stream, edge_id=mask, plastic_delta_mv=result.delta_after)
|
||||||
|
metadata = {key: old_meta[key] for key in ('schema', 'mask_path', 'mask_sha256',
|
||||||
|
'base_candidate_path', 'base_candidate_sha256', 'aj_model_dir', 'am_overlay_path', 'am_overlay_sha256')}
|
||||||
|
metadata.update(overlay_name='learned', overlay_sha256=_digest(out / 'delta-after.npz'),
|
||||||
|
parent_snapshot_sha256=pins[paths['overlay_before']], eligibility_v2_source_sha256=SOURCE_PINS['phase4j_source'])
|
||||||
|
_save(out / 'overlay-manifest.json', metadata)
|
||||||
|
_save(out / 'update-receipt.json', result.receipt)
|
||||||
|
_, after, _, _ = r.load_overlay(out / 'delta-after.npz', out / 'overlay-manifest.json')
|
||||||
|
_require(_same(after['plastic_delta_mv'], result.delta_after) and _same(after['edge_id'], mask), 'Written learned snapshot failed actual runtime loader')
|
||||||
|
# Re-read the sealed neural state after writing, without altering its
|
||||||
|
# seal or appending coordinator output inside the runtime directory.
|
||||||
|
c.load_checkpoint(checkpoint, value['checkpoint_manifest_sha256'])
|
||||||
|
_check_files(pins)
|
||||||
|
_require(_digest(__file__) == source_sha, 'Coordinator source changed')
|
||||||
|
output_hashes = {name: _digest(out / name) for name in ('delta-after.npz', 'overlay-manifest.json', 'update-receipt.json')}
|
||||||
|
chain = dict(schema='phase4an-epoch-postprocess-chain-v1', complete=True,
|
||||||
|
epoch_id=value['epoch_id'], authority_file=str(authority_path), authority_sha256=pins[authority_path],
|
||||||
|
coordinator_source_sha256=source_sha, command=dict(command), diagnostic_mode=value['diagnostic_mode'],
|
||||||
|
before_overlay_file_sha256=pins[paths['overlay_before']],
|
||||||
|
before_overlay_manifest_sha256=pins[paths['overlay_manifest_before']],
|
||||||
|
after_overlay_file_sha256=output_hashes['delta-after.npz'],
|
||||||
|
after_overlay_manifest_sha256=output_hashes['overlay-manifest.json'],
|
||||||
|
parent_snapshot_sha256_semantics='delta-before overlay NPZ file SHA256, not neural checkpoint or manifest SHA',
|
||||||
|
source_neural_checkpoint_dir=str(checkpoint),
|
||||||
|
source_neural_checkpoint_manifest_sha256=value['checkpoint_manifest_sha256'],
|
||||||
|
source_state_file_sha256=pins[paths['state']], source_spec_sha256=pins[paths['spec']],
|
||||||
|
source_requests_sha256=pins[paths['requests']],
|
||||||
|
runtime_delta_before_raw_sha256=record['overlay']['delta_raw_sha256'],
|
||||||
|
runtime_effective_weights_raw_sha256=summary['effective_weights_raw_sha256'],
|
||||||
|
input_files_sha256={str(path): sha for path, sha in sorted(pins.items(), key=lambda item: str(item[0]))},
|
||||||
|
output_files_sha256=output_hashes,
|
||||||
|
update_receipt_payload_sha256=result.receipt['payload_sha256'],
|
||||||
|
runtime_learned_manifest_loader_verified=True, input_and_checkpoint_bytes_reverified=True,
|
||||||
|
candidate_endpoints_equal_graph=True, KC_equals_supplied_canonical_membership=True,
|
||||||
|
authority_scope='caller must bind this externally pinned authority to its preregistered row, successful process, anatomical metadata and complete mask audit',
|
||||||
|
registration_authority_independently_proven=False, anatomical_identity_inferred_from_lengths=False,
|
||||||
|
neural_checkpoint_and_plastic_parent_are_distinct=True,
|
||||||
|
weights_installed=False, brain_executed=False, learning_pass_claimed=False, candidate_generated=False)
|
||||||
|
_save(out / 'chain-receipt.json', chain)
|
||||||
|
return chain
|
||||||
|
except BaseException as error:
|
||||||
|
if not (out / 'postprocess-error.json').exists():
|
||||||
|
_save(out / 'postprocess-error.json', dict(complete=False, error_type=type(error).__name__,
|
||||||
|
message=str(error), partial_preserved=True, retry_forbidden=True, learning_pass_claimed=False))
|
||||||
|
raise
|
||||||
|
|
||||||
|
|
||||||
|
def postprocess_epoch(authority_json, expected_authority_sha256, out_dir):
|
||||||
|
"""Production entry: full 166700/25582938/4064/14232, no small-mode flag."""
|
||||||
|
_require(sys.dont_write_bytecode, 'Use python -B; frozen sources must not receive bytecode writes')
|
||||||
|
value, paths, pins, checkpoint, authority_path = _authority(authority_json, expected_authority_sha256)
|
||||||
|
dependencies = _production_dependencies(paths, pins)
|
||||||
|
return _coordinate(value, paths, pins, checkpoint, authority_path, out_dir, dependencies, DIMENSIONS)
|
||||||
@@ -0,0 +1,247 @@
|
|||||||
|
"""Pure CPU comparisons for a separately authorized, finite input/update test.
|
||||||
|
|
||||||
|
No files, checkpoint seals, source pins, parent trees or GPU are read here.
|
||||||
|
The coordinator must first verify subprocess receipts, externally pinned
|
||||||
|
checkpoint manifests, registered source/input files and learned-parent chains.
|
||||||
|
It must independently recompute update receipts with conditioning_update's
|
||||||
|
verify_receipt. These functions bind supplied arrays and declared metadata;
|
||||||
|
they cannot replace those external checks or prove functional learning.
|
||||||
|
|
||||||
|
The frozen engineering comparator is reused unchanged. Reference diagnostics
|
||||||
|
must be complete. Light has events, final state and queues, not per-tick V/g
|
||||||
|
or APL histories; missing light observations are never fabricated as exact.
|
||||||
|
"""
|
||||||
|
from __future__ import annotations
|
||||||
|
|
||||||
|
import hashlib
|
||||||
|
import json
|
||||||
|
import re
|
||||||
|
|
||||||
|
import numpy as np
|
||||||
|
|
||||||
|
import engineering_compare as C
|
||||||
|
|
||||||
|
|
||||||
|
N, E, N_KC, CANDIDATE_COUNT = 166700, 25582938, 4064, 14232
|
||||||
|
COMPARATOR_SHA256 = "5a2403f11bc08d65a9d242ac2cf9686b850e0c3680d65659f785e9b6b50c0238"
|
||||||
|
PHASE4J_SHA256 = "abb4574da85f00bd9ef61024c65993ef81d42651ff8d8d63c15dd69c6222471e"
|
||||||
|
ELIGIBILITY_BRIDGE_SHA256 = "174fb8d14619189e74b095e77a6db18b14c93046dc431c0b55710a5aa2dd2e61"
|
||||||
|
MASK_SHA256 = "8b0fb6eb2e6c31da4d17dc20d890aa3f367e514f05642de5bad6b42a1611c05b"
|
||||||
|
AM_OVERLAY_SHA256 = "7f891d0ba79b393c96e75fd2dee2eddc51e57d8213eaac2779703bc2c18712b4"
|
||||||
|
MANIFEST_FIELDS = frozenset(("schema", "overlay_name", "overlay_sha256", "mask_path", "mask_sha256",
|
||||||
|
"base_candidate_path", "base_candidate_sha256", "aj_model_dir", "am_overlay_path", "am_overlay_sha256",
|
||||||
|
"parent_snapshot_sha256", "eligibility_v2_source_sha256"))
|
||||||
|
|
||||||
|
|
||||||
|
def _require(condition, message):
|
||||||
|
if not condition:
|
||||||
|
raise ValueError(message)
|
||||||
|
|
||||||
|
|
||||||
|
def _canonical(value):
|
||||||
|
return json.dumps(value, sort_keys=True, separators=(",", ":"), ensure_ascii=False, allow_nan=False)
|
||||||
|
|
||||||
|
|
||||||
|
def _sha(value):
|
||||||
|
return hashlib.sha256(_canonical(value).encode("utf-8")).hexdigest()
|
||||||
|
|
||||||
|
|
||||||
|
def _valid_sha(value):
|
||||||
|
return type(value) is str and re.fullmatch("[0-9a-f]{64}", value) is not None
|
||||||
|
|
||||||
|
|
||||||
|
def _evidence(value):
|
||||||
|
return dict(dtype=value.dtype.str, shape=list(value.shape), nbytes=int(value.nbytes),
|
||||||
|
raw_c_order_sha256=hashlib.sha256(value.tobytes(order="C")).hexdigest())
|
||||||
|
|
||||||
|
|
||||||
|
def _integer(mapping, key, expected):
|
||||||
|
return type(mapping.get(key)) is int and mapping[key] == expected
|
||||||
|
|
||||||
|
|
||||||
|
def _request_input(value, steps):
|
||||||
|
_require(isinstance(value, np.ndarray) and value.dtype == np.int32 and value.ndim == 2 and value.shape[1] == 2,
|
||||||
|
"Expected input requests must be exact int32 [M,2] (local tick, global neuron)")
|
||||||
|
_require(np.all((value[:, 0] >= 0) & (value[:, 0] < steps)) and
|
||||||
|
np.all((value[:, 1] >= 0) & (value[:, 1] < N)), "Expected input request is out of range")
|
||||||
|
keys = value[:, 0].astype(np.int64) * N + value[:, 1]
|
||||||
|
_require(len(keys) < 2 or np.all(keys[1:] > keys[:-1]), "Expected requests must already be sorted unique")
|
||||||
|
|
||||||
|
|
||||||
|
def compare_epoch_pair(reference_record, light_record, *, expected_requests, expected_steps,
|
||||||
|
expected_effective_weight_sha256):
|
||||||
|
"""Compare fresh reference/light records, not paths or self-asserted seals.
|
||||||
|
|
||||||
|
Inputs are dictionaries returned by frozen engineering_compare.load_run.
|
||||||
|
The coordinator supplies the original registered request array and the
|
||||||
|
independently expected effective-weight raw SHA, not a value copied from
|
||||||
|
the summary being checked. Corrupt array schemas raise ValueError. Valid
|
||||||
|
but different records return numerical_exact/pass_all=False. pass_all is
|
||||||
|
ONLY the supplied-record identity check, not a learning or activity gate.
|
||||||
|
"""
|
||||||
|
_require(type(expected_steps) is int and 0 < expected_steps <= np.iinfo(np.int32).max,
|
||||||
|
"Explicit expected epoch steps required")
|
||||||
|
_require(_valid_sha(expected_effective_weight_sha256), "Expected effective-weight raw SHA is required")
|
||||||
|
_request_input(expected_requests, expected_steps)
|
||||||
|
_require(type(reference_record) is dict and type(light_record) is dict,
|
||||||
|
"Supply already authenticated loaded records, not paths")
|
||||||
|
C.validate_run(reference_record)
|
||||||
|
C.validate_run(light_record)
|
||||||
|
inherited = C.compare_fresh(light_record, reference_record)
|
||||||
|
checks = dict(inherited["checks"])
|
||||||
|
for label, record, mode in (("reference", reference_record, "reference"), ("light", light_record, "light")):
|
||||||
|
summary = record.get("summary")
|
||||||
|
_require(type(summary) is dict, "Missing runtime summary")
|
||||||
|
checks[label + ".full_population"] = len(record["state"]["v"]) == N and _integer(summary, "nodes", N) and _integer(summary, "edges", E)
|
||||||
|
checks[label + ".expected_clock"] = (record["steps"] == expected_steps and record["global_tick_offset"] == 0 and
|
||||||
|
_integer(summary, "steps", expected_steps) and _integer(summary, "completed_ticks", expected_steps) and
|
||||||
|
_integer(summary, "explicit_steps_executed", expected_steps))
|
||||||
|
checks[label + ".fresh_fixed_weight_scope"] = (summary.get("checkpoint_continuation_used") is False and
|
||||||
|
summary.get("within_trial_weight_updates") is False and summary.get("hidden_early_stop") is False and
|
||||||
|
summary.get("entire_neural_trial_executed") is True and summary.get("record_history") is False and
|
||||||
|
summary.get("parent_checkpoint_manifest_sha256") is None)
|
||||||
|
checks[label + ".mode_precision_delay"] = (summary.get("diagnostic_mode") == mode and
|
||||||
|
summary.get("precision") == "float64" and summary.get("apl_precision") == "float32" and
|
||||||
|
_integer(summary, "apl_delay_steps", 18) and summary.get("state_units") == "SI volts")
|
||||||
|
checks[label + ".complete_reported_finite"] = (summary.get("complete") is True and summary.get("pass_all") is True and
|
||||||
|
summary.get("all_finite") is True and _integer(summary, "first_failure_tick", -1))
|
||||||
|
checks[label + ".effective_weight_authority"] = summary.get("effective_weights_raw_sha256") == expected_effective_weight_sha256
|
||||||
|
checks[label + ".input_request_array"] = np.array_equal(record["requests"][:, :2], expected_requests.astype(np.int64))
|
||||||
|
checks[label + ".request_and_spike_accounting"] = (summary.get("counts_match_sparse_events") is True and
|
||||||
|
_integer(summary, "total_spikes", len(record["state"]["step"])) and
|
||||||
|
_integer(summary, "requested", len(expected_requests)) and
|
||||||
|
_integer(summary, "accepted_requests", int(record["requests"][:, 3].sum(dtype=np.int64))) and
|
||||||
|
_integer(summary, "rejected_requests", int(record["requests"][:, 4].sum(dtype=np.int64))))
|
||||||
|
checks[label + ".recorded_full_APL_terminal"] = (record.get("terminal_origin") == "recorded_terminal_queues" and
|
||||||
|
record["terminal"]["apl_pending"].shape == (18, N_KC))
|
||||||
|
full = reference_record
|
||||||
|
full_summary = full["summary"]
|
||||||
|
checks["reference.full_diagnostics"] = (set(full["traces"]) == set(C.TRACE_FILES) and
|
||||||
|
full.get("state_hashes") is not None and full.get("queues") is not None and
|
||||||
|
all(full_summary.get(key) is True for key in
|
||||||
|
("full_APL_history_recorded", "full_tick_state_hashes_recorded", "full_queue_hashes_recorded", "full_sequence_bitwise_audit_performed")))
|
||||||
|
if full.get("queues") is not None:
|
||||||
|
checks["reference.queue_summary_accounting"] = (
|
||||||
|
_integer(full_summary, "arriving_edges", sum(row["count"] for row in full["queues"])) and
|
||||||
|
_integer(full_summary, "accepted_arriving_edges", sum(row["accepted_count"] for row in full["queues"])))
|
||||||
|
else:
|
||||||
|
checks["reference.queue_summary_accounting"] = False
|
||||||
|
light_summary = light_record["summary"]
|
||||||
|
checks["light.declared_recording_scope"] = (not light_record["traces"] and
|
||||||
|
light_record.get("state_hashes") is None and light_record.get("queues") is None and
|
||||||
|
all(light_summary.get(key) is False for key in
|
||||||
|
("full_APL_history_recorded", "full_tick_state_hashes_recorded", "full_queue_hashes_recorded", "full_sequence_bitwise_audit_performed")))
|
||||||
|
for label, summary in (("reference", full_summary), ("light", light_summary)):
|
||||||
|
inputs = summary.get("input_sha256")
|
||||||
|
checks[label + ".input_hash_schema"] = (type(inputs) is dict and
|
||||||
|
set(inputs) == {"base_weights.npy", "coefficients.json", "requests.npz", "spec.json"} and
|
||||||
|
all(_valid_sha(value) for value in inputs.values()))
|
||||||
|
for name in ("base_weights.npy", "coefficients.json"):
|
||||||
|
left = full_summary.get("input_sha256", {}).get(name)
|
||||||
|
right = light_summary.get("input_sha256", {}).get(name)
|
||||||
|
checks["pair.input." + name] = _valid_sha(left) and left == right
|
||||||
|
for name in ("arriving_edges", "accepted_arriving_edges"):
|
||||||
|
checks["pair.summary." + name] = (type(full_summary.get(name)) is int and
|
||||||
|
type(light_summary.get(name)) is int and full_summary[name] == light_summary[name])
|
||||||
|
checks = {key: bool(value) for key, value in checks.items()}
|
||||||
|
exact = all(checks.values())
|
||||||
|
return dict(schema="conditioning-preflight-epoch-comparison-v1", numerical_exact=exact, pass_all=exact,
|
||||||
|
status="EXACT-RECORDED-EPOCH-PAIR-NOT-LEARNING" if exact else "FAIL-EPOCH-COMPARISON",
|
||||||
|
checks=checks, failed_checks=[key for key, ok in checks.items() if not ok],
|
||||||
|
expected_steps=expected_steps, expected_requests=_evidence(expected_requests),
|
||||||
|
expected_effective_weight_raw_sha256=expected_effective_weight_sha256,
|
||||||
|
recorded_pair_availability=inherited["reference_comparisons_available"],
|
||||||
|
activity=inherited["activity"], nonvacuous_activity=inherited["nonvacuous_activity"],
|
||||||
|
activity_is_descriptive_not_a_new_gate=True,
|
||||||
|
full_reference_diagnostics_required=True, light_intermediate_states_observed=False,
|
||||||
|
light_per_tick_V_g_ref_identity_claimed=False, independent_finite_latch_replay_performed=False,
|
||||||
|
independent_CSR_queue_reconstruction_performed=False,
|
||||||
|
independent_wholebrain_CPU_oracle_performed=False,
|
||||||
|
expected_comparator_source_sha256=COMPARATOR_SHA256, source_pin_verified_here=False,
|
||||||
|
external_file_seals_process_and_input_authority_verified_here=False,
|
||||||
|
input_generator_or_parent_delta_chain_verified_here=False,
|
||||||
|
learning_pass_claimed=False, candidate_generated=False,
|
||||||
|
scope="Supplied fresh epoch records and original requests only; prerequisite external checkpoint/source/parent verification belongs to coordinator")
|
||||||
|
|
||||||
|
|
||||||
|
def _delta(value, name):
|
||||||
|
_require(isinstance(value, np.ndarray) and value.dtype == np.float32 and value.shape == (CANDIDATE_COUNT,) and
|
||||||
|
np.isfinite(value).all(), name + " must be the full finite float32 candidate delta vector")
|
||||||
|
|
||||||
|
|
||||||
|
def audit_delta_binding(delta_before, delta_after, installed_delta, *, update_receipt,
|
||||||
|
parent_snapshot_sha256, child_manifest):
|
||||||
|
"""Bind already computed/installed arrays to receipt and learned metadata.
|
||||||
|
|
||||||
|
parent_snapshot_sha256 means the actual PARENT OVERLAY NPZ file hash,
|
||||||
|
externally established by the coordinator, NOT a checkpoint manifest hash
|
||||||
|
and NOT a raw delta-array hash. installed_delta must come from the child
|
||||||
|
overlay subsequently checked by frozen runtime_light.load_overlay.
|
||||||
|
|
||||||
|
This function does not read those files, authenticate anatomical IDs,
|
||||||
|
recompute eligibility-v2, establish clipping bounds, or prove a causal
|
||||||
|
behavioral effect. Call conditioning_update.verify_receipt separately
|
||||||
|
against actual sealed epoch events and complete pinned mappings.
|
||||||
|
"""
|
||||||
|
for name, value in (("delta_before", delta_before), ("delta_after", delta_after), ("installed_delta", installed_delta)):
|
||||||
|
_delta(value, name)
|
||||||
|
_require(_valid_sha(parent_snapshot_sha256), "Externally established parent overlay FILE SHA is required")
|
||||||
|
_require(type(update_receipt) is dict and type(child_manifest) is dict, "Receipt and manifest must be dictionaries")
|
||||||
|
_require(type(update_receipt.get("input_arrays")) is dict and type(update_receipt.get("outputs")) is dict and
|
||||||
|
type(update_receipt.get("source_pins")) is dict and type(update_receipt.get("command")) is dict and
|
||||||
|
type(update_receipt.get("semantics")) is dict and type(update_receipt.get("counts")) is dict,
|
||||||
|
"Incomplete epoch update receipt schema")
|
||||||
|
before, after, installed = (_evidence(value) for value in (delta_before, delta_after, installed_delta))
|
||||||
|
command = update_receipt["command"]
|
||||||
|
counts = update_receipt["counts"]
|
||||||
|
checks = {
|
||||||
|
"receipt.self_hash": update_receipt.get("payload_sha256") == _sha({k: v for k, v in update_receipt.items() if k != "payload_sha256"}),
|
||||||
|
"receipt.schema": update_receipt.get("schema") == "phase4an-conditioning-update-draft-v1" and
|
||||||
|
update_receipt.get("status") == "DRAFT-COMPUTED-EPOCH-UPDATE-NOT-INSTALLED",
|
||||||
|
"receipt.original_source_pins": update_receipt["source_pins"] == {
|
||||||
|
"eligibility_bridge_sha256": ELIGIBILITY_BRIDGE_SHA256, "phase4j_sha256": PHASE4J_SHA256},
|
||||||
|
"receipt.delta_before": _canonical(update_receipt["input_arrays"].get("delta_before")) == _canonical(before),
|
||||||
|
"receipt.delta_after": _canonical(update_receipt["outputs"].get("delta_after")) == _canonical(after),
|
||||||
|
"computed_installed_delta_bitwise": C.bit_equal(delta_after, installed_delta),
|
||||||
|
"delta.nonpositive": bool(np.all(delta_before <= 0) and np.all(delta_after <= 0)),
|
||||||
|
"delta.no_potentiation": bool(np.all(delta_after <= delta_before)),
|
||||||
|
"receipt.candidate_count": _integer(counts, "candidates", CANDIDATE_COUNT),
|
||||||
|
"receipt.changed_bit_count": _integer(counts, "actual_bitwise_changed_edges", int(np.count_nonzero(delta_before.view(np.uint32) != delta_after.view(np.uint32)))),
|
||||||
|
"receipt.changed_value_count": _integer(counts, "actual_value_changed_edges", int(np.count_nonzero(delta_before != delta_after))),
|
||||||
|
"receipt.explicit_scheduled_D": type(command.get("D_scheduled")) is float and command["D_scheduled"] in (0.0, 1.0) and
|
||||||
|
type(command.get("frozen")) is bool,
|
||||||
|
"receipt.epoch_boundary_only": update_receipt["semantics"].get("application") == "epoch_boundary_after_all_recorded_ticks; affects subsequent epoch only" and
|
||||||
|
update_receipt["semantics"].get("delta_dtype") == "float32" and update_receipt["semantics"].get("delta_units") == "mV",
|
||||||
|
"receipt.not_a_DAN_measurement": update_receipt["semantics"].get("D_definition") == "artificial scheduled scalar" and
|
||||||
|
update_receipt["semantics"].get("actual_DAN_delivery_observed") is False and
|
||||||
|
update_receipt["semantics"].get("actual_DAN_delivery_used_to_gate") is False,
|
||||||
|
"manifest.exact_fields": set(child_manifest) == MANIFEST_FIELDS,
|
||||||
|
"manifest.learned_schema": child_manifest.get("schema") == "phase4an-overlay-v1" and child_manifest.get("overlay_name") == "learned",
|
||||||
|
"manifest.parent_overlay_file_sha": child_manifest.get("parent_snapshot_sha256") == parent_snapshot_sha256,
|
||||||
|
"manifest.frozen_rule_mask_helper": child_manifest.get("eligibility_v2_source_sha256") == PHASE4J_SHA256 and
|
||||||
|
child_manifest.get("mask_sha256") == MASK_SHA256 and child_manifest.get("am_overlay_sha256") == AM_OVERLAY_SHA256,
|
||||||
|
"manifest.declared_file_hashes": all(_valid_sha(child_manifest.get(key)) for key in ("overlay_sha256", "base_candidate_sha256")),
|
||||||
|
"manifest.declared_paths": all(type(child_manifest.get(key)) is str and bool(child_manifest[key])
|
||||||
|
for key in ("mask_path", "base_candidate_path", "aj_model_dir", "am_overlay_path")),
|
||||||
|
}
|
||||||
|
no_update = command.get("frozen") is True or command.get("D_scheduled") == 0.0
|
||||||
|
checks["zero_D_or_frozen_identity"] = not no_update or C.bit_equal(delta_before, delta_after)
|
||||||
|
for name in ("weights_installed", "base_modified", "brain_dynamics_executed", "scientific_learning_pass_claimed", "candidate_generated"):
|
||||||
|
checks["receipt.scope." + name] = update_receipt.get(name) is False
|
||||||
|
checks = {key: bool(value) for key, value in checks.items()}
|
||||||
|
exact = all(checks.values())
|
||||||
|
return dict(schema="conditioning-preflight-delta-binding-v1", pass_all=exact,
|
||||||
|
status="EXACT-DELTA-ARRAY-BINDING-NOT-LEARNING" if exact else "FAIL-DELTA-BINDING",
|
||||||
|
checks=checks, failed_checks=[key for key, ok in checks.items() if not ok],
|
||||||
|
delta_before=before, computed_delta_after=after, installed_delta=installed,
|
||||||
|
parent_overlay_file_sha256=parent_snapshot_sha256,
|
||||||
|
declared_child_overlay_file_sha256=child_manifest.get("overlay_sha256"),
|
||||||
|
update_receipt_payload_sha256=update_receipt.get("payload_sha256"),
|
||||||
|
actual_changed_edges=int(np.count_nonzero(delta_before != delta_after)),
|
||||||
|
actual_bitwise_changed_edges=int(np.count_nonzero(delta_before.view(np.uint32) != delta_after.view(np.uint32))),
|
||||||
|
delta_nonzero_or_change_is_not_learning_evidence=True,
|
||||||
|
eligibility_v2_independently_recomputed_here=False, full_mask_identity_verified_here=False,
|
||||||
|
candidate_order_or_compartment_mapping_verified_here=False, floor_bound_independently_verified_here=False,
|
||||||
|
file_bytes_and_parent_snapshot_authority_verified_here=False, installation_in_runtime_verified_here=False,
|
||||||
|
actual_DAN_delivery_verified_here=False, learning_pass_claimed=False, candidate_generated=False,
|
||||||
|
scope="Supplied float32 mV arrays and declared parent/update metadata only; coordinator must verify real files, v2 recomputation and next-epoch installation")
|
||||||
@@ -0,0 +1,288 @@
|
|||||||
|
"""UNREGISTERED bounded preflight input planning, not a conditioning runner.
|
||||||
|
|
||||||
|
Only the explicitly called generate_epoch_inputs performs random sampling; it
|
||||||
|
delegates to conditioning_inputs' single full-shape CUDA draw. The plan and
|
||||||
|
static rate loader do no sampling, neural execution, plasticity, or I/O writes.
|
||||||
|
The coordinator owns registration, full seals, graph/overlay authority, device
|
||||||
|
UUID admission, and every epoch update/checkpoint receipt.
|
||||||
|
"""
|
||||||
|
from __future__ import annotations
|
||||||
|
|
||||||
|
import ast
|
||||||
|
import copy
|
||||||
|
import hashlib
|
||||||
|
import io
|
||||||
|
import json
|
||||||
|
from pathlib import Path, PurePosixPath
|
||||||
|
from typing import Any
|
||||||
|
|
||||||
|
import numpy as np
|
||||||
|
|
||||||
|
import conditioning_inputs as inputs
|
||||||
|
import trial_plan
|
||||||
|
|
||||||
|
|
||||||
|
MASTER = 20260930
|
||||||
|
BLOCK = 'physiological__PAM15__reinforce_A__rep01'
|
||||||
|
SCHEMA = 'phase4an-conditioning-preflight-inputs-v1-unregistered'
|
||||||
|
STATIC = 'experiments/phase4l-olfactory-grounding/'
|
||||||
|
SOURCE_REL = 'models/male-cns-lif/phase4l.py'
|
||||||
|
CONFIG_REL = 'models/male-cns-lif/olfactory-grounding-v1/phase4l.yaml'
|
||||||
|
SOURCE_PINS = {
|
||||||
|
SOURCE_REL: 'e97d58d8c1f44920d0e953f8f5831ddc86fa0198784e86460e315de4116ac553',
|
||||||
|
CONFIG_REL: '9b8bcb7e031bf9063033a1854a439a7cd0bf6730301c2d2d02ca99a76f098d6e',
|
||||||
|
STATIC + 'odor-encoder/frozen-odor-panel.parquet': '907f16a56e024a8e2112b5751e53b0e6037b329fa110098af3d31b119c10a1a0',
|
||||||
|
STATIC + 'odor-encoder/mapped-glomerular-vectors.npz': 'f057563152e0fa22060080af13019f319e7f36563a775eff829bbc1929c451b0',
|
||||||
|
STATIC + 'odor-encoder/selection.json': '1b832becf9d08935716fe9ba5e3cd3e619e7d208dfb43c4fa197c969d095f113',
|
||||||
|
STATIC + 'receptor-mapping/olfactory-mapping.parquet': 'a01d27000533e9844458a4c559cac084f1c34ca20a1104e97e6a0f72b0cc93b1',
|
||||||
|
}
|
||||||
|
|
||||||
|
|
||||||
|
def require(ok, message):
|
||||||
|
if not ok:
|
||||||
|
raise ValueError(message)
|
||||||
|
|
||||||
|
|
||||||
|
def _canonical(value):
|
||||||
|
return json.dumps(value, sort_keys=True, separators=(',', ':'), ensure_ascii=False, allow_nan=False)
|
||||||
|
|
||||||
|
|
||||||
|
def _sha(value):
|
||||||
|
return hashlib.sha256(_canonical(value).encode('utf-8')).hexdigest()
|
||||||
|
|
||||||
|
|
||||||
|
def build_preflight_plan():
|
||||||
|
"""Rebuild the whole semantic plan, then select by rule, never outcomes.
|
||||||
|
|
||||||
|
D1/D0/frozen share the two paired input epochs. Every neural epoch starts
|
||||||
|
fresh; only the externally verified plastic delta can cross its boundary.
|
||||||
|
This inventory does not enable the complete 68,000-epoch protocol.
|
||||||
|
"""
|
||||||
|
full = trial_plan.build_trial_plan(MASTER)
|
||||||
|
trial_plan.validate_trial_plan(full)
|
||||||
|
block = full['plan']['blocks'][0]
|
||||||
|
require(block['block_id'] == BLOCK and block['mode'] == 'physiological' and
|
||||||
|
block['dan_type'] == 'PAM15' and block['compartment_verbatim'] == "y5B'2a", 'First fixed block changed')
|
||||||
|
suite = next(s for s in block['suites'] if s['assay'] == 'normal')
|
||||||
|
paired = next(a for a in suite['arms'] if a['arm'] == 'paired')
|
||||||
|
first = next(i for i, epoch in enumerate(paired['epochs']) if epoch['us']['requested'])
|
||||||
|
require(first + 1 < len(paired['epochs']), 'Requested US lacks its following complete epoch')
|
||||||
|
epochs = copy.deepcopy(paired['epochs'][first:first + 2])
|
||||||
|
calls = []
|
||||||
|
for arm in ('D1', 'D0', 'frozen'):
|
||||||
|
for mode in ('reference', 'light'):
|
||||||
|
previous = None
|
||||||
|
for position, epoch in enumerate(epochs):
|
||||||
|
_validate_epoch(epoch)
|
||||||
|
row_id = f'{arm}--{mode}--epoch-{position:03d}'
|
||||||
|
calls.append(dict(row_id=row_id, arm=arm, diagnostic_mode=mode,
|
||||||
|
input_epoch_index=position, epoch_id=epoch['epoch_id'],
|
||||||
|
full_plan_epoch_index=epoch['epoch_index'], steps=1200,
|
||||||
|
d_command=0.0 if arm == 'D0' else epoch['D_command'],
|
||||||
|
frozen=arm == 'frozen', previous_delta_row_id=previous,
|
||||||
|
neural_state='fresh_rest_zero_ref_zero_spike_queue_zero_APL_queue',
|
||||||
|
input_sharing='same saved CS and US arrays across arms and diagnostic modes'))
|
||||||
|
previous = row_id
|
||||||
|
result = dict(schema=SCHEMA, master=MASTER, block_id=BLOCK, mode='physiological',
|
||||||
|
dan_type='PAM15', compartment_verbatim="y5B'2a", full_trial_plan=full,
|
||||||
|
selected_epochs=epochs, calls=calls, total_calls=12, total_ticks=14400,
|
||||||
|
input_generation_calls=2, input_generation_executed=False, brain_runs_executed=0,
|
||||||
|
complete_conditioning_authorized=False, training_result_claimed=False,
|
||||||
|
selection_rule='first normal paired requested US epoch in first fixed block, plus its immediate successor')
|
||||||
|
result['payload_sha256'] = _sha(result)
|
||||||
|
return result
|
||||||
|
|
||||||
|
|
||||||
|
def validate_preflight_plan(value):
|
||||||
|
require(type(value) is dict and _canonical(value) == _canonical(build_preflight_plan()),
|
||||||
|
'Preflight inventory differs from full deterministic reconstruction')
|
||||||
|
return True
|
||||||
|
|
||||||
|
|
||||||
|
def _validate_epoch(epoch):
|
||||||
|
require(type(epoch) is dict and epoch.get('steps') == 1200 and epoch.get('duration_ms') == 120 and
|
||||||
|
epoch.get('initial_neural_state') == 'frozen_reset_including_KC_trace_and_both_delay_queues',
|
||||||
|
'Only complete fresh normal 120 ms epochs are in this preflight')
|
||||||
|
cs, us = epoch.get('cs'), epoch.get('us')
|
||||||
|
require(type(cs) is dict and cs.get('cue') in ('A', 'B') and cs.get('odor') == trial_plan.ODORS[cs['cue']] and
|
||||||
|
type(cs.get('seed')) is int and 0 <= cs['seed'] < 2**63 and cs.get('seed_bits') == 63 and
|
||||||
|
cs.get('start_tick') == 0 and cs.get('stop_tick_exclusive') == 1000, 'CS semantic descriptor changed')
|
||||||
|
require(type(us) is dict and type(us.get('requested')) is bool and us.get('nominal_slot_tick') == 900 and
|
||||||
|
us.get('rng_seed') is None and us.get('rng_draws') == 0, 'US must remain a deterministic scheduled pulse')
|
||||||
|
require((us['requested'] and us.get('tick') == 900 and us.get('request_rule') == 'fixed_single_pulse_all_bound_DAN_targets') or
|
||||||
|
(not us['requested'] and us.get('tick') is None and us.get('request_rule') == 'none'), 'US timing/request rule changed')
|
||||||
|
|
||||||
|
|
||||||
|
def _extract_drive(raw, filename):
|
||||||
|
"""Compile only the SHA-pinned pure pn_drive AST; never import old L."""
|
||||||
|
import pandas as pd
|
||||||
|
require(hashlib.sha256(raw).hexdigest() == SOURCE_PINS[SOURCE_REL], 'Frozen L source SHA mismatch')
|
||||||
|
nodes = [n for n in ast.parse(raw, filename=filename).body if isinstance(n, ast.FunctionDef) and n.name == 'pn_drive']
|
||||||
|
require(len(nodes) == 1 and not nodes[0].decorator_list, 'Unique undecorated pn_drive required')
|
||||||
|
namespace = {'np': np, 'pd': pd, 'Any': Any}
|
||||||
|
exec(compile(ast.Module(body=nodes, type_ignores=[]), filename, 'exec'), namespace)
|
||||||
|
return namespace['pn_drive'], hashlib.sha256(ast.dump(nodes[0], include_attributes=False).encode()).hexdigest()
|
||||||
|
|
||||||
|
|
||||||
|
def _rate_tables(selection, panel, vectors, mapping, config, drive):
|
||||||
|
"""Pure static-table derivation, preserving every original PN column."""
|
||||||
|
require(selection.get('selected_before_KC_simulation') is True and len(panel) == 12 and
|
||||||
|
panel.odor_id.is_unique and panel.split.tolist() == ['calibration'] * 6 + ['heldout'] * 6,
|
||||||
|
'Frozen static odor panel schema changed')
|
||||||
|
gloms = selection['glomeruli_order']
|
||||||
|
require(type(gloms) is list and len(gloms) == len(set(gloms)) and len(gloms) > 0 and
|
||||||
|
set(vectors) == set(panel.odor_id), 'Frozen vector/glomerulus inventory mismatch')
|
||||||
|
encoder = config['odor_encoder']
|
||||||
|
require(encoder['max_total_rate_per_glomerulus_hz'] == 400.0 and
|
||||||
|
encoder['modes'] == ['physiological', 'matched_energy'], 'Frozen rate transform changed')
|
||||||
|
median = float(np.median(panel.mapped_response_sum))
|
||||||
|
require(np.isfinite(median) and median > 0, 'Invalid panel response median')
|
||||||
|
tables = {}
|
||||||
|
for cue, name in trial_plan.ODORS.items():
|
||||||
|
selected = selection['ODOR_' + cue]
|
||||||
|
require(selected['odor_name'] == name, 'Selected frozen A/B odor name changed')
|
||||||
|
odor_id = selected['odor_id']
|
||||||
|
positions = np.flatnonzero(panel.odor_id.to_numpy() == odor_id)
|
||||||
|
require(len(positions) == 1, 'Selected odor ID not unique in frozen panel')
|
||||||
|
panel_row = panel.iloc[int(positions[0])]
|
||||||
|
require(panel_row.odor_name == name and panel_row.formal_label == 'ODOR_' + cue, 'Panel/selection label mismatch')
|
||||||
|
vector = vectors[odor_id]
|
||||||
|
require(isinstance(vector, np.ndarray) and vector.dtype == np.float32 and vector.shape == (len(gloms),) and
|
||||||
|
np.isfinite(vector).all() and np.all(vector >= 0), 'Invalid frozen glomerular vector; never clip')
|
||||||
|
targets, rates, frame = drive(odor_id, vector, mapping, gloms, 'physiological', median, config)
|
||||||
|
inputs.probabilities_f32(targets, rates)
|
||||||
|
require(len(targets) > 0 and np.all(rates > 0), 'Empty or nonpositive selected PN drive')
|
||||||
|
require(frame.neuron_idx.to_numpy(np.int32).tobytes() == targets.tobytes() and
|
||||||
|
frame.rate_hz.to_numpy(np.float32).tobytes() == rates.tobytes(), 'Original frame/array ordering mismatch')
|
||||||
|
targets, rates = targets.copy(), rates.copy()
|
||||||
|
targets.setflags(write=False); rates.setflags(write=False)
|
||||||
|
tables[cue] = dict(cue=cue, odor_id=str(odor_id), odor_name=name, mode='physiological',
|
||||||
|
source_panel_row=int(positions[0]), source_panel_split=str(panel_row.split),
|
||||||
|
targets=targets, rates_hz=rates, identities={
|
||||||
|
'targets': inputs.array_identity(targets), 'rates_hz': inputs.array_identity(rates)},
|
||||||
|
glomeruli_order=copy.deepcopy(gloms), mapped_vector_identity=inputs.array_identity(vector))
|
||||||
|
return tables, median
|
||||||
|
|
||||||
|
|
||||||
|
def load_rate_tables(root):
|
||||||
|
"""Read only the six exact static/source files pinned by frozen AK.
|
||||||
|
|
||||||
|
This does not read any historical neural result or rerun odor selection.
|
||||||
|
Source files are checked before parsing; the parsed bytes are the same
|
||||||
|
checked snapshots. Full prior seal/registration authority remains external.
|
||||||
|
"""
|
||||||
|
import pandas as pd
|
||||||
|
import yaml
|
||||||
|
root = Path(root)
|
||||||
|
raw = {rel: (root / rel).read_bytes() for rel in SOURCE_PINS}
|
||||||
|
require(all(hashlib.sha256(value).hexdigest() == SOURCE_PINS[rel] for rel, value in raw.items()),
|
||||||
|
'Frozen static encoder/source SHA mismatch')
|
||||||
|
source, ast_sha = _extract_drive(raw[SOURCE_REL], str(root / SOURCE_REL))
|
||||||
|
selection = json.loads(raw[STATIC + 'odor-encoder/selection.json'])
|
||||||
|
panel = pd.read_parquet(io.BytesIO(raw[STATIC + 'odor-encoder/frozen-odor-panel.parquet']))
|
||||||
|
mapping = pd.read_parquet(io.BytesIO(raw[STATIC + 'receptor-mapping/olfactory-mapping.parquet']))
|
||||||
|
config = yaml.safe_load(raw[CONFIG_REL])
|
||||||
|
with np.load(io.BytesIO(raw[STATIC + 'odor-encoder/mapped-glomerular-vectors.npz']), allow_pickle=False) as values:
|
||||||
|
require(set(values.files) == set(panel.odor_id) | {'glomeruli'} and
|
||||||
|
values['glomeruli'].tolist() == selection['glomeruli_order'], 'Frozen NPZ inventory/order mismatch')
|
||||||
|
vectors = {str(oid): values[oid].copy() for oid in panel.odor_id}
|
||||||
|
tables, median = _rate_tables(selection, panel, vectors, mapping, config, source)
|
||||||
|
return dict(tables=tables, audit=dict(schema=SCHEMA, static_sources=copy.deepcopy(SOURCE_PINS),
|
||||||
|
original_pn_drive_AST_sha256=ast_sha, historical_dynamic_results_read=False,
|
||||||
|
original_function_called_without_PN_reordering=True, mode='physiological',
|
||||||
|
median_mapped_response_sum=median, full_seal_verification_owned_by_coordinator=True,
|
||||||
|
random_draws=0, brain_runs=0, numpy_version=np.__version__, pandas_version=pd.__version__))
|
||||||
|
|
||||||
|
|
||||||
|
def _validate_table(table, cue):
|
||||||
|
require(type(table) is dict and table.get('cue') == cue and table.get('odor_name') == trial_plan.ODORS[cue] and
|
||||||
|
table.get('mode') == 'physiological' and type(table.get('odor_id')) is str and table['odor_id'], 'Rate-table cue identity mismatch')
|
||||||
|
inputs.probabilities_f32(table['targets'], table['rates_hz'])
|
||||||
|
require(table['identities'] == {key: inputs.array_identity(table[key]) for key in ('targets', 'rates_hz')},
|
||||||
|
'Rate-table arrays changed after authority binding')
|
||||||
|
|
||||||
|
|
||||||
|
def generate_epoch_inputs(epoch, tables, dan_targets, *, device, max_uniform_draws, conflict_policy='error'):
|
||||||
|
"""Future explicit sampler, called once per selected input epoch, not arm.
|
||||||
|
|
||||||
|
No brain reset is called. The scheduled US request is identical for D1,
|
||||||
|
D0, and frozen; D-command and update policy belong to the epoch authority.
|
||||||
|
The caller must preserve and share these returned bytes across all arms.
|
||||||
|
"""
|
||||||
|
_validate_epoch(epoch)
|
||||||
|
cs = epoch['cs']; table = tables[cs['cue']]; _validate_table(table, cs['cue'])
|
||||||
|
require(isinstance(dan_targets, np.ndarray) and dan_targets.dtype == np.int32 and dan_targets.ndim == 1 and
|
||||||
|
len(dan_targets) > 0 and np.all((dan_targets >= 0) & (dan_targets < inputs.N_NEURONS)) and
|
||||||
|
(len(dan_targets) < 2 or np.all(dan_targets[1:] > dan_targets[:-1])), 'Externally bound DAN globals must be sorted unique int32')
|
||||||
|
require(conflict_policy in ('error', 'boolean_union'), 'Unknown explicit request composition policy')
|
||||||
|
cs_result = inputs.generate_cs_requests(table['targets'], table['rates_hz'], seed=cs['seed'], steps=1200,
|
||||||
|
cs_start_tick=0, cs_stop_tick=1000, device=device, max_uniform_draws=max_uniform_draws)
|
||||||
|
nodes = dan_targets.copy() if epoch['us']['requested'] else np.empty(0, np.int32)
|
||||||
|
us = {'tick': np.full(len(nodes), 900, np.int32), 'neuron_idx': nodes}
|
||||||
|
for value in us.values(): value.setflags(write=False)
|
||||||
|
composed = inputs.merge_requests(cs_result['requests'], us, steps=1200, conflict_policy=conflict_policy)
|
||||||
|
return dict(requests=composed['requests'], cs_requests=cs_result['requests'], us_requests=us,
|
||||||
|
source_mask=composed['source_mask'], audit=dict(schema=SCHEMA, epoch_id=epoch['epoch_id'],
|
||||||
|
CS_sampler=cs_result['audit'], composition=composed['audit'],
|
||||||
|
DAN_targets_identity=inputs.array_identity(dan_targets), requested_US=epoch['us']['requested'],
|
||||||
|
scheduled_US_tick=epoch['us']['tick'], CS_shared_across_arms=True, US_shared_across_arms=True,
|
||||||
|
US_rng_draws=0, semantic_seed_never_passed_to_brain_reset=True, brain_reset_called=False,
|
||||||
|
source_authority_and_saved_array_rehash_owned_by_coordinator=True))
|
||||||
|
|
||||||
|
|
||||||
|
def derive_case_spec(original, row, epoch, rate_table, *, brain_reset_seed, budget_root, output_budget_bytes):
|
||||||
|
"""Copy an externally authenticated wholegraph spec with explicit changes.
|
||||||
|
|
||||||
|
``seed`` is an independent conservative 31-bit reset-control value, not a
|
||||||
|
conversion of the semantic input seed. The inherited deterministic AJ
|
||||||
|
runtime consumes saved requests, not this input RNG. No checkpoint carry
|
||||||
|
is admitted: the next epoch carries only its separately verified delta.
|
||||||
|
"""
|
||||||
|
_validate_epoch(epoch); _validate_table(rate_table, epoch['cs']['cue'])
|
||||||
|
require(type(original) is dict and original.get('kind') == 'fullgraph' and original.get('dt_ms') == .1 and
|
||||||
|
original.get('apl_delay_steps') == 18 and original.get('precision') == 'float64' and
|
||||||
|
original.get('apl_precision') == 'float32' and original.get('record_history') is False and
|
||||||
|
original.get('within_trial_weight_updates', False) is False, 'Anchored fresh D18 fullgraph spec required')
|
||||||
|
require(not any('checkpoint' in str(k).lower() or k in ('initial_state', 'resume', 'continuation', 'global_tick_offset') for k in original),
|
||||||
|
'No neural checkpoint continuation in this two-epoch preflight')
|
||||||
|
require(type(brain_reset_seed) is int and 0 <= brain_reset_seed < 2**31, 'Independent conservative 31-bit brain reset seed required')
|
||||||
|
require(type(row) is dict and row.get('arm') in ('D1', 'D0', 'frozen') and row.get('diagnostic_mode') in ('reference', 'light') and
|
||||||
|
row.get('epoch_id') == epoch['epoch_id'] and row.get('steps') == 1200 and
|
||||||
|
row.get('frozen') is (row['arm'] == 'frozen') and
|
||||||
|
row.get('d_command') == (0.0 if row['arm'] == 'D0' else epoch['D_command']), 'Row/epoch command mismatch')
|
||||||
|
require(type(row.get('input_epoch_index')) is int and row['input_epoch_index'] in (0, 1) and
|
||||||
|
row.get('row_id') == f"{row['arm']}--{row['diagnostic_mode']}--epoch-{row['input_epoch_index']:03d}", 'Unsafe row identity')
|
||||||
|
require(type(budget_root) is str and budget_root.startswith('/') and not budget_root.startswith('//') and
|
||||||
|
'..' not in PurePosixPath(budget_root).parts and
|
||||||
|
type(output_budget_bytes) is int and output_budget_bytes > 0, 'Explicit absolute output budget required')
|
||||||
|
old = PurePosixPath(original['budget_root']); new = PurePosixPath(budget_root)
|
||||||
|
require(old.is_absolute() and not new.is_relative_to(old) and not old.is_relative_to(new), 'Budget cannot overlap old experiment')
|
||||||
|
result = copy.deepcopy(original)
|
||||||
|
removed = {key: result.pop(key) for key in ('validation_cohort', 'odor_index', 'expected_external_events', 'training') if key in result}
|
||||||
|
cs = epoch['cs']; rates = rate_table['rates_hz']
|
||||||
|
result.update(name=row['row_id'], steps=1200, duration_ms=120.0, max_steps=1200,
|
||||||
|
budget_root=budget_root, output_budget_bytes=output_budget_bytes, seed=brain_reset_seed,
|
||||||
|
cs_input_seed=cs['seed'], cs_input_seed_bits=63,
|
||||||
|
seed_scope='seed is separate reset control; full cs_input_seed used only by saved-input sampler',
|
||||||
|
mode='physiological', odor_id=rate_table['odor_id'], odor_name=rate_table['odor_name'],
|
||||||
|
source_panel_row=rate_table['source_panel_row'], source_panel_split=rate_table['source_panel_split'],
|
||||||
|
rate_sum_hz=float(rates.sum()), target_count=len(rate_table['targets']),
|
||||||
|
expected_CS_requests=float(np.sum(inputs.probabilities_f32(rate_table['targets'], rates), dtype=np.float64) * 1000),
|
||||||
|
CS_window=[0, 1000], within_trial_weight_updates=False,
|
||||||
|
outer_protocol='conditioning_interface_preflight_not_full_conditioning',
|
||||||
|
outer_epoch_id=epoch['epoch_id'], outer_arm=row['arm'])
|
||||||
|
changes = {k: dict(present_before=k in original, before=copy.deepcopy(original.get(k)), after=copy.deepcopy(v))
|
||||||
|
for k, v in result.items() if k not in original or _canonical(v) != _canonical(original[k])}
|
||||||
|
allowed = {'name', 'steps', 'duration_ms', 'max_steps', 'budget_root', 'output_budget_bytes', 'seed',
|
||||||
|
'cs_input_seed', 'cs_input_seed_bits', 'seed_scope', 'mode', 'odor_id', 'odor_name', 'source_panel_row',
|
||||||
|
'source_panel_split', 'rate_sum_hz', 'target_count', 'expected_CS_requests', 'CS_window',
|
||||||
|
'within_trial_weight_updates', 'outer_protocol', 'outer_epoch_id', 'outer_arm'}
|
||||||
|
require(set(changes) <= allowed and all(_canonical(result[k]) == _canonical(v) for k, v in original.items()
|
||||||
|
if k not in allowed and k not in removed), 'Unexpected frozen spec change')
|
||||||
|
return result, dict(schema=SCHEMA, explicit_field_changes=changes, removed_stale_input_metadata=removed,
|
||||||
|
original_spec_sha256=_sha(original), derived_spec_sha256=_sha(result),
|
||||||
|
graph_APL_model_coefficients_and_other_fields_unchanged=True,
|
||||||
|
independent_brain_reset_seed=brain_reset_seed, semantic_input_seed=cs['seed'],
|
||||||
|
neural_state_between_epochs='fresh reset; only plastic delta may carry via separate verified authority',
|
||||||
|
D_and_update_commands_owned_by_epoch_authority=True, random_draws=0, brain_runs=0,
|
||||||
|
outer_learning_pass_claimed=False, full_conditioning_authorized=False)
|
||||||
@@ -0,0 +1,197 @@
|
|||||||
|
"""Exclusive CPU preparation for the finite AO conditioning-interface gate.
|
||||||
|
|
||||||
|
This is a two-epoch installation test, not acquisition, retention or a learning
|
||||||
|
candidate. Source authority and the complete 12-call plan precede CUDA sampling.
|
||||||
|
Generated requests and learned snapshots receive separate execution receipts;
|
||||||
|
their not-yet-existing hashes are never invented in the registration.
|
||||||
|
"""
|
||||||
|
from __future__ import annotations
|
||||||
|
|
||||||
|
import json
|
||||||
|
from pathlib import Path
|
||||||
|
import shutil
|
||||||
|
import subprocess
|
||||||
|
import sys
|
||||||
|
|
||||||
|
import numpy as np
|
||||||
|
|
||||||
|
import engineering_prepare as P
|
||||||
|
import runtime_light as R
|
||||||
|
import biological_contract as B
|
||||||
|
import conditioning_preflight_inputs as I
|
||||||
|
|
||||||
|
ROOT = Path('/data/digital-drosophila')
|
||||||
|
MODEL = Path(__file__).resolve().parent
|
||||||
|
EXP = ROOT / 'experiments/phase4ao-conditioning-interface'
|
||||||
|
AN = ROOT / 'experiments/phase4an-engineering-validation'
|
||||||
|
AN_REG = '7317441126f191ccc6e6d28438870b3921537ebe282a6acb163716a690057945'
|
||||||
|
AN_MANIFEST = 'e8952a48cd3ea6a93c811a1183a1f7b79e19646299924e7688e5f393737a9aa2'
|
||||||
|
AN_FINAL = '16630d0d666a2467c56b647d021cbdb627a553795f6afcd7f7eb496a2737d815'
|
||||||
|
PREP_COMMIT = 'c187d7d5a6047f183467e3d860e2529575dcda97'
|
||||||
|
DRAFT_INVENTORY_SHA = '2c72d47d09b4ad1949dc6cfdc170f64847ff75f95ded5d20b421fb5a75e0eb84'
|
||||||
|
BUDGET = dict(output_budget_bytes=4 * 1024**3, minimum_free_reserve_bytes=10 * 1024**3,
|
||||||
|
max_uniform_draws=2_000_000, child_timeout_seconds=1800)
|
||||||
|
require, read, save, digest = P.require, P.read, P.save, P.digest
|
||||||
|
|
||||||
|
|
||||||
|
def same(a, b):
|
||||||
|
return json.dumps(a, sort_keys=True, allow_nan=False) == json.dumps(b, sort_keys=True, allow_nan=False)
|
||||||
|
|
||||||
|
|
||||||
|
def verify_pins(pins):
|
||||||
|
for name, sha in pins.items():
|
||||||
|
path = Path(name)
|
||||||
|
require(path.is_absolute() and path.is_file() and not path.is_symlink() and
|
||||||
|
digest(path) == sha, 'Pinned file changed: ' + name)
|
||||||
|
|
||||||
|
|
||||||
|
def save_npz(path, **arrays):
|
||||||
|
with Path(path).open('xb') as stream:
|
||||||
|
np.savez_compressed(stream, **arrays)
|
||||||
|
|
||||||
|
|
||||||
|
def source_inventory():
|
||||||
|
# Explicitly snapshot the current lab's text sources, including this new
|
||||||
|
# coordinator and its tests. Existing 21/20 files are never rewritten.
|
||||||
|
paths = sorted([*MODEL.glob('*.py'), *MODEL.glob('*.md')])
|
||||||
|
required = ('conditioning_epoch.py', 'conditioning_preflight_inputs.py',
|
||||||
|
'conditioning_preflight_compare.py', 'conditioning_preflight_prepare.py',
|
||||||
|
'conditioning_preflight_workflow.py', 'test_conditioning_preflight_prepare.py',
|
||||||
|
'CONDITIONING_INTERFACE_PROTOCOL.md')
|
||||||
|
require(all(MODEL / n in paths for n in required), 'Missing complete coordinator/test/protocol source')
|
||||||
|
require(not any(p.is_symlink() for p in paths), 'Linked source is forbidden')
|
||||||
|
return {str(p): digest(p) for p in paths}
|
||||||
|
|
||||||
|
|
||||||
|
def plan_descriptor(full):
|
||||||
|
return {k: v for k, v in full.items() if k not in ('full_trial_plan', 'payload_sha256')}
|
||||||
|
|
||||||
|
|
||||||
|
def prepare():
|
||||||
|
require(sys.dont_write_bytecode, 'Use scientific Python -B')
|
||||||
|
require(EXP.is_dir() and not any(EXP.iterdir()) and not EXP.is_symlink(),
|
||||||
|
'Preparation requires the explicitly created empty AO directory; never overwrite')
|
||||||
|
require(digest(AN / 'manifest.json') == AN_MANIFEST and digest(AN / 'audit/final-status.json') == AN_FINAL,
|
||||||
|
'Externally anchored AN controls changed')
|
||||||
|
an = P.read_registration(AN_REG)
|
||||||
|
helper = P.load_module('phase4ao_original_seal_helper', ROOT / P.AI_HELPER_REL, P.AI_HELPER_SHA)
|
||||||
|
an_seal = helper.verify_seal(AN)
|
||||||
|
am_seal = P.verify_authority(an['anchors'])
|
||||||
|
old = P.verify_old_integrity(an)
|
||||||
|
full = I.build_preflight_plan()
|
||||||
|
rates = I.load_rate_tables(ROOT)
|
||||||
|
populations, biology = B.load_bound_tables(ROOT, an['input_sha256'])
|
||||||
|
pins = dict(an['input_sha256'])
|
||||||
|
pins.update({str(ROOT / k): v for k, v in I.SOURCE_PINS.items()})
|
||||||
|
pins.update(biology['input_sha256'])
|
||||||
|
pins.update({str(AN / 'manifest.json'): AN_MANIFEST, str(AN / 'audit/final-status.json'): AN_FINAL,
|
||||||
|
str(AN / 'protocol/preregistered.json'): AN_REG})
|
||||||
|
bridge = ROOT / 'models/male-cns-lif/wholebrain-plastic-interface-v1/eligibility_bridge.py'
|
||||||
|
phasej = ROOT / 'models/male-cns-lif/mb-physiology-v1/phase4j.py'
|
||||||
|
pins[str(bridge)] = '174fb8d14619189e74b095e77a6db18b14c93046dc431c0b55710a5aa2dd2e61'
|
||||||
|
pins[str(phasej)] = 'abb4574da85f00bd9ef61024c65993ef81d42651ff8d8d63c15dd69c6222471e'
|
||||||
|
original_path = Path(an['selected_case']['original_dir']) / 'spec.json'
|
||||||
|
require(str(original_path) in pins, 'Original graph spec not anchored by AN')
|
||||||
|
original = read(original_path)
|
||||||
|
previous = MODEL / 'draft-source-inventory.json'
|
||||||
|
require(digest(previous) == DRAFT_INVENTORY_SHA, 'Previously delivered 20-file source inventory changed')
|
||||||
|
inventory = read(previous)
|
||||||
|
require(len(inventory['files']) == 20, 'Previous scientific snapshot must contain 20 files')
|
||||||
|
pins[str(previous)] = DRAFT_INVENTORY_SHA
|
||||||
|
for entry in inventory['files']:
|
||||||
|
require(Path(entry['path']).name == entry['path'], 'Nonlocal scientific source inventory entry')
|
||||||
|
pins[str(MODEL / entry['path'])] = entry['sha256']
|
||||||
|
zero = an['overlays']['zero']
|
||||||
|
_, overlay, metadata, _ = R.load_overlay(zero['overlay_file'], zero['overlay_manifest'])
|
||||||
|
require(not np.any(overlay['plastic_delta_mv'].view(np.uint32)), 'Initial delta must be exact positive zero')
|
||||||
|
kc = np.load(Path(original['apl_bundle_dir']) / 'kc_globals.npy', allow_pickle=False)
|
||||||
|
require(np.array_equal(kc, populations['Kenyon_Cell']), 'Canonical metadata and APL KC memberships disagree')
|
||||||
|
import pandas as pd
|
||||||
|
candidate = pd.read_parquet(ROOT / 'experiments/phase4h-dopamine-plasticity/plastic-mask/plastic-edge-candidates.parquet')
|
||||||
|
candidate = candidate.set_index('edge_id').loc[overlay['edge_id']].reset_index()
|
||||||
|
require(candidate.edge_id.to_numpy().tobytes() == overlay['edge_id'].tobytes() and
|
||||||
|
candidate.target_compartment_verbatim.notna().all(), 'Complete mask compartment mapping is not exact')
|
||||||
|
verify_pins(pins)
|
||||||
|
sources = source_inventory()
|
||||||
|
code_commit = subprocess.run(['git', '-C', str(ROOT), 'rev-parse', 'HEAD'], check=True,
|
||||||
|
capture_output=True, text=True).stdout.strip()
|
||||||
|
require(P.sha(code_commit + '0' * 24), 'Invalid Git code version')
|
||||||
|
for path, sha in sources.items():
|
||||||
|
relative = Path(path).relative_to(ROOT).as_posix()
|
||||||
|
blob = subprocess.run(['git', '-C', str(ROOT), 'show', code_commit + ':' + relative],
|
||||||
|
check=True, capture_output=True).stdout
|
||||||
|
require(__import__('hashlib').sha256(blob).hexdigest() == sha, 'Registered source is not the committed Git blob: ' + relative)
|
||||||
|
for name in ('protocol/source-snapshot', 'inputs/static', 'cases', 'runs', 'updates', 'receipts', 'logs', 'audit', 'regression'):
|
||||||
|
(EXP / name).mkdir(parents=True)
|
||||||
|
for path in sources:
|
||||||
|
shutil.copyfile(path, EXP / 'protocol/source-snapshot' / Path(path).name)
|
||||||
|
save(EXP / 'regression/AN-seal-before.json', an_seal)
|
||||||
|
save(EXP / 'regression/AM-seals-before.json', am_seal)
|
||||||
|
save(EXP / 'regression/old-integrity-before.json', old)
|
||||||
|
save(EXP / 'inputs/static/biology-audit.json', biology)
|
||||||
|
save(EXP / 'inputs/static/rates-audit.json', rates['audit'])
|
||||||
|
save_npz(EXP / 'inputs/static/populations.npz', **populations)
|
||||||
|
save_npz(EXP / 'inputs/static/candidate-map.npz', edge_id=candidate.edge_id.to_numpy(np.int64),
|
||||||
|
source_neuron_idx=candidate.source_neuron_idx.to_numpy(np.int32),
|
||||||
|
target_neuron_idx=candidate.target_neuron_idx.to_numpy(np.int32),
|
||||||
|
target_compartment_verbatim=candidate.target_compartment_verbatim.to_numpy(dtype=str))
|
||||||
|
table_metadata = {}
|
||||||
|
for cue, table in rates['tables'].items():
|
||||||
|
save_npz(EXP / f'inputs/static/{cue}-rates.npz', targets=table['targets'], rates_hz=table['rates_hz'])
|
||||||
|
table_metadata[cue] = {k: v for k, v in table.items() if k not in ('targets', 'rates_hz')}
|
||||||
|
save(EXP / 'inputs/static/rate-tables.json', table_metadata)
|
||||||
|
save(EXP / 'protocol/full-trial-plan.json', full['full_trial_plan'])
|
||||||
|
descriptor = plan_descriptor(full)
|
||||||
|
cases = {}
|
||||||
|
reset_seed = original['seed']
|
||||||
|
for row in descriptor['calls']:
|
||||||
|
epoch = descriptor['selected_epochs'][row['input_epoch_index']]
|
||||||
|
case = EXP / 'cases' / row['row_id']
|
||||||
|
case.mkdir()
|
||||||
|
spec, derivation = I.derive_case_spec(original, row, epoch, rates['tables'][epoch['cs']['cue']],
|
||||||
|
brain_reset_seed=reset_seed, budget_root=str(EXP), output_budget_bytes=BUDGET['output_budget_bytes'])
|
||||||
|
R.validate_spec(spec, case)
|
||||||
|
save(case / 'spec.json', spec)
|
||||||
|
save(case / 'derivation.json', derivation)
|
||||||
|
cases[row['row_id']] = str(case)
|
||||||
|
derived = {str(p): digest(p) for parent in ('inputs/static', 'cases', 'protocol/source-snapshot', 'regression')
|
||||||
|
for p in (EXP / parent).rglob('*') if p.is_file()}
|
||||||
|
derived[str(EXP / 'protocol/full-trial-plan.json')] = digest(EXP / 'protocol/full-trial-plan.json')
|
||||||
|
reg = dict(schema='phase4ao-conditioning-interface-registration-v1', plan=descriptor,
|
||||||
|
full_plan_payload_sha256=full['payload_sha256'], full_trial_plan_file_sha256=derived[str(EXP / 'protocol/full-trial-plan.json')],
|
||||||
|
source_sha256=sources, input_sha256=pins, prepared_file_sha256=derived, cases=cases,
|
||||||
|
initial_overlay=zero, original_spec=str(original_path), brain_reset_seed=reset_seed,
|
||||||
|
bridge_source=str(bridge), phase4j_source=str(phasej), budget=BUDGET,
|
||||||
|
git_parent_commit=PREP_COMMIT, git_code_commit=code_commit, committed_source_blobs_verified=len(sources), AN_registration_sha256=AN_REG,
|
||||||
|
generation=dict(device='cuda:0', GPU_UUID='GPU-79f3a85d-adce-7833-7003-6488140ca596',
|
||||||
|
conflict_policy='error', highbit_probe_seed=descriptor['selected_epochs'][0]['cs']['seed'],
|
||||||
|
highbit_comparison='full63bit versus low32bit, one fixed 1200xPN matrix each; never a seed search',
|
||||||
|
original_L_sampling_AST='only rate tensor, private generator and full-shape forced-spike expression',
|
||||||
|
trace_backend='torch', actual_input_files='created only after external registration SHA recorded'),
|
||||||
|
scope=dict(epoch_boundary_updates=True, within_trial_updates=False, full_conditioning=False,
|
||||||
|
candidate_generated=False, learning_success_claimed=False, neural_state_carried=False,
|
||||||
|
delta_carried=True, independent_model_branch=True),
|
||||||
|
success_gate='12 complete calls; exact reference/light events and final state/queues; exact D0/frozen identity; real D1 delta installed in epoch 2; nonzero D1 update coverage required',
|
||||||
|
missing_nonzero_coverage='INCOMPLETE, do not choose another input',
|
||||||
|
failure_policy='preserve all partials; no automatic run retry or result-selected seed',
|
||||||
|
retention_supported=False, future_hashes_fabricated=False, new_brain_runs_during_preparation=0)
|
||||||
|
verify_pins({**pins, **sources, **derived})
|
||||||
|
save(EXP / 'protocol/preregistered.json', reg)
|
||||||
|
return digest(EXP / 'protocol/preregistered.json')
|
||||||
|
|
||||||
|
|
||||||
|
def read_registration(expected):
|
||||||
|
path = EXP / 'protocol/preregistered.json'
|
||||||
|
require(P.sha(expected) and digest(path) == expected, 'Registration differs from external anchor')
|
||||||
|
reg = read(path)
|
||||||
|
require(reg['schema'] == 'phase4ao-conditioning-interface-registration-v1' and
|
||||||
|
reg['AN_registration_sha256'] == AN_REG and reg['budget'] == BUDGET and
|
||||||
|
reg['plan']['total_calls'] == 12 and reg['plan']['total_ticks'] == 14400,
|
||||||
|
'Unexpected finite registration')
|
||||||
|
verify_pins({**reg['source_sha256'], **reg['input_sha256'], **reg['prepared_file_sha256']})
|
||||||
|
return reg
|
||||||
|
|
||||||
|
|
||||||
|
if __name__ == '__main__':
|
||||||
|
require(sys.argv[1:] == ['prepare'], 'Only exclusive prepare is supported')
|
||||||
|
print('REGISTRATION_SHA256', prepare(), flush=True)
|
||||||
@@ -0,0 +1,474 @@
|
|||||||
|
"""Finite AO runner: exact frozen brain, two fresh epochs, delta-only carry.
|
||||||
|
|
||||||
|
Never starts the full conditioning protocol. Partial rows are preserved. Each
|
||||||
|
runtime is sealed immediately; coordinator evidence lives outside its seal.
|
||||||
|
"""
|
||||||
|
from __future__ import annotations
|
||||||
|
|
||||||
|
import argparse
|
||||||
|
import ast
|
||||||
|
from datetime import datetime, timezone
|
||||||
|
import json
|
||||||
|
import os
|
||||||
|
from pathlib import Path
|
||||||
|
import shutil
|
||||||
|
import subprocess
|
||||||
|
import sys
|
||||||
|
import time
|
||||||
|
import traceback
|
||||||
|
from types import SimpleNamespace
|
||||||
|
|
||||||
|
import numpy as np
|
||||||
|
|
||||||
|
import conditioning_preflight_prepare as P
|
||||||
|
import conditioning_preflight_inputs as I
|
||||||
|
import conditioning_inputs as IN
|
||||||
|
import conditioning_update as U
|
||||||
|
import conditioning_epoch as E
|
||||||
|
import conditioning_preflight_compare as Q
|
||||||
|
import engineering_compare as COMP
|
||||||
|
import engineering_workflow as ENV
|
||||||
|
import runtime_light as R
|
||||||
|
import runtime_continuation as C
|
||||||
|
|
||||||
|
EXP, MODEL, ROOT = P.EXP, P.MODEL, P.ROOT
|
||||||
|
require, read, save, digest = P.require, P.read, P.save, P.digest
|
||||||
|
|
||||||
|
|
||||||
|
def npz(path):
|
||||||
|
with np.load(path, allow_pickle=False) as z:
|
||||||
|
return {k: z[k].copy() for k in z.files}
|
||||||
|
|
||||||
|
|
||||||
|
def row_by(reg, name):
|
||||||
|
matches = [r for r in reg['plan']['calls'] if r['row_id'] == name]
|
||||||
|
require(len(matches) == 1, 'Only an exact registered row may execute')
|
||||||
|
return matches[0]
|
||||||
|
|
||||||
|
|
||||||
|
def locations(name):
|
||||||
|
require(type(name) is str and name and all(c.isalnum() or c in '-_' for c in name), 'Unsafe row')
|
||||||
|
return dict(run=EXP / 'runs' / name, update=EXP / 'updates' / name,
|
||||||
|
runtime=EXP / 'receipts' / (name + '.runtime.json'), execution=EXP / 'receipts' / (name + '.process.json'),
|
||||||
|
authority=EXP / 'receipts' / (name + '.authority.json'),
|
||||||
|
stdout=EXP / 'logs' / (name + '.stdout.log'), stderr=EXP / 'logs' / (name + '.stderr.log'))
|
||||||
|
|
||||||
|
|
||||||
|
def budget(reg):
|
||||||
|
files = list(EXP.rglob('*'))
|
||||||
|
require(not any(p.is_symlink() for p in files), 'Linked output is forbidden')
|
||||||
|
used = sum(p.stat().st_size for p in files if p.is_file())
|
||||||
|
free = shutil.disk_usage(EXP).free
|
||||||
|
b = reg['budget']
|
||||||
|
require(used <= b['output_budget_bytes'] and free >= b['minimum_free_reserve_bytes'] + max(0, b['output_budget_bytes'] - used),
|
||||||
|
'Resource cap/reserve exceeded; preserve partials')
|
||||||
|
return dict(used_bytes=used, free_bytes=free, **b)
|
||||||
|
|
||||||
|
|
||||||
|
def tables():
|
||||||
|
metadata = read(EXP / 'inputs/static/rate-tables.json')
|
||||||
|
return {cue: dict(table, **npz(EXP / f'inputs/static/{cue}-rates.npz')) for cue, table in metadata.items()}
|
||||||
|
|
||||||
|
|
||||||
|
def original_sampler_nodes(raw):
|
||||||
|
"""Only the four original L sampling statements, no old brain import."""
|
||||||
|
require(__import__('hashlib').sha256(raw).hexdigest() == I.SOURCE_PINS[I.SOURCE_REL], 'L source changed')
|
||||||
|
methods = [n for n in ast.walk(ast.parse(raw)) if isinstance(n, ast.FunctionDef) and n.name == 'run_rates']
|
||||||
|
require(len(methods) == 1, 'Original sampling method is not unique')
|
||||||
|
chosen = []
|
||||||
|
for node in methods[0].body:
|
||||||
|
if isinstance(node, ast.Assign) and any(isinstance(t, ast.Name) and t.id in ('rg', 'gen', 'forced') for t in node.targets):
|
||||||
|
chosen.append(node)
|
||||||
|
elif isinstance(node, ast.Expr) and isinstance(node.value, ast.Call) and ast.unparse(node.value.func) == 'gen.manual_seed':
|
||||||
|
chosen.append(node)
|
||||||
|
require(len(chosen) == 4 and [ast.unparse(n).split('=')[0].strip() for n in chosen[:2]] == ['rg', 'gen'],
|
||||||
|
'Original sampler AST structure changed')
|
||||||
|
return chosen
|
||||||
|
|
||||||
|
|
||||||
|
def sampler_check(reg, table, generated):
|
||||||
|
import torch
|
||||||
|
seed = reg['generation']['highbit_probe_seed']
|
||||||
|
nodes = original_sampler_nodes((ROOT / I.SOURCE_REL).read_bytes())
|
||||||
|
env = dict(torch=torch, targets=table['targets'], rates_hz=table['rates_hz'], seed=seed, steps=1200,
|
||||||
|
self=SimpleNamespace(dt=.1, device=torch.device('cuda:0')))
|
||||||
|
exec(compile(ast.Module(body=nodes, type_ignores=[]), str(ROOT / I.SOURCE_REL), 'exec'), env)
|
||||||
|
original = IN.requests_from_forced(env['forced'].cpu().numpy(), table['targets'], cs_start_tick=0, cs_stop_tick=1000)
|
||||||
|
require(all(COMP.bit_equal(original['requests'][k], generated['cs_requests'][k]) for k in ('tick', 'neuron_idx')),
|
||||||
|
'Actual CUDA original-L sampling expression disagrees')
|
||||||
|
identities = []
|
||||||
|
for value in (seed, seed & 0xffffffff):
|
||||||
|
gen = torch.Generator(device='cuda:0').manual_seed(value)
|
||||||
|
matrix = torch.rand((1200, len(table['targets'])), generator=gen, device='cuda:0')
|
||||||
|
identities.append(IN.array_identity(matrix.cpu().numpy()))
|
||||||
|
require(identities[0] != identities[1], 'Actual CUDA full63bit and low32bit sequence identical; stop, no seed substitution')
|
||||||
|
return dict(original_L_sampler_AST_sha256=__import__('hashlib').sha256(ast.dump(ast.Module(body=nodes, type_ignores=[]), include_attributes=False).encode()).hexdigest(),
|
||||||
|
exact_sparse_CS_requests=True, full_seed=seed, low32_probe_seed=seed & 0xffffffff,
|
||||||
|
uniforms_identities=identities, highbit_influence_observed=True,
|
||||||
|
additional_probe_matrices=3, probe_shape=[1200, len(table['targets'])],
|
||||||
|
new_input_seed_selected=False, old_full_trial_equivalence_claimed=False)
|
||||||
|
|
||||||
|
|
||||||
|
def materialize(reg_sha):
|
||||||
|
reg = P.read_registration(reg_sha)
|
||||||
|
admission()
|
||||||
|
ENV.preflight(); budget(reg)
|
||||||
|
target = EXP / 'inputs/generated'
|
||||||
|
require(not target.exists(), 'Never rerun or overwrite actual input generation')
|
||||||
|
target.mkdir()
|
||||||
|
rate = tables()
|
||||||
|
dan = npz(EXP / 'inputs/static/populations.npz')[reg['plan']['dan_type']]
|
||||||
|
records = []
|
||||||
|
for index, epoch in enumerate(reg['plan']['selected_epochs']):
|
||||||
|
started = time.perf_counter()
|
||||||
|
value = I.generate_epoch_inputs(epoch, rate, dan, device=reg['generation']['device'],
|
||||||
|
max_uniform_draws=reg['budget']['max_uniform_draws'], conflict_policy=reg['generation']['conflict_policy'])
|
||||||
|
directory = target / f'epoch-{index:03d}'
|
||||||
|
directory.mkdir()
|
||||||
|
for kind in ('requests', 'cs_requests', 'us_requests'):
|
||||||
|
P.save_npz(directory / (kind + '.npz'), **value[kind])
|
||||||
|
P.save_npz(directory / 'source-mask.npz', source_mask=value['source_mask'])
|
||||||
|
save(directory / 'sampler-receipt.json', value['audit'])
|
||||||
|
if index == 0:
|
||||||
|
save(target / 'actual-CUDA-sampler-check.json', sampler_check(reg, rate[epoch['cs']['cue']], value))
|
||||||
|
records.append(dict(index=index, epoch_id=epoch['epoch_id'], wall_seconds=time.perf_counter() - started,
|
||||||
|
CS_requests=len(value['cs_requests']['tick']), US_requests=len(value['us_requests']['tick'])))
|
||||||
|
for row in reg['plan']['calls']:
|
||||||
|
src = target / f"epoch-{row['input_epoch_index']:03d}" / 'requests.npz'
|
||||||
|
dst = Path(reg['cases'][row['row_id']]) / 'requests.npz'
|
||||||
|
with src.open('rb') as inp, dst.open('xb') as out:
|
||||||
|
shutil.copyfileobj(inp, out)
|
||||||
|
require(digest(src) == digest(dst), 'Shared input copy differs')
|
||||||
|
pins = {str(p): digest(p) for p in target.rglob('*') if p.is_file()}
|
||||||
|
pins.update({str(Path(path) / 'requests.npz'): digest(Path(path) / 'requests.npz') for path in reg['cases'].values()})
|
||||||
|
P.read_registration(reg_sha)
|
||||||
|
save(EXP / 'receipts/input-generation.json', dict(complete=True, registration_sha256=reg_sha,
|
||||||
|
inputs_sha256=pins, rows=records, GPU_UUID=ENV.GPU, full63bit_delivery_and_influence_checked=True,
|
||||||
|
input_generation_calls=2, brain_runs=0, parameters_changed=False))
|
||||||
|
|
||||||
|
|
||||||
|
def generated_inputs(reg_sha):
|
||||||
|
receipt = read(EXP / 'receipts/input-generation.json')
|
||||||
|
require(receipt.get('complete') is True and receipt.get('registration_sha256') == reg_sha and receipt.get('brain_runs') == 0,
|
||||||
|
'Generated inputs are not bound to registration')
|
||||||
|
process = read(EXP / 'receipts/input-generation.process.json')
|
||||||
|
require(process['exit_code'] == 0 and process['registration_sha256'] == reg_sha and
|
||||||
|
process['receipt_sha256'] == digest(EXP / 'receipts/input-generation.json'), 'Input generation process missing')
|
||||||
|
for k in ('stdout', 'stderr'):
|
||||||
|
require(process[k + '_sha256'] == digest(EXP / 'logs' / ('input-generation.' + k + '.log')), 'Input generation log changed')
|
||||||
|
P.verify_pins(receipt['inputs_sha256'])
|
||||||
|
return receipt
|
||||||
|
|
||||||
|
|
||||||
|
def verify_row(reg, reg_sha, row):
|
||||||
|
paths = locations(row['row_id'])
|
||||||
|
record = read(paths['runtime']); process = read(paths['execution'])
|
||||||
|
require(record['complete'] is True and record['registration_sha256'] == reg_sha and P.same(record['row'], row),
|
||||||
|
'Runtime record differs from registered row')
|
||||||
|
require(process['exit_code'] == 0 and process['registration_sha256'] == reg_sha and
|
||||||
|
process['runtime_sha256'] == digest(paths['runtime']), 'Runtime process did not complete exactly')
|
||||||
|
for key in ('stdout', 'stderr'):
|
||||||
|
require(process[key + '_sha256'] == digest(paths[key]), 'Process log changed')
|
||||||
|
P.verify_pins(record['files_sha256'])
|
||||||
|
checkpoint = C.load_checkpoint(paths['run'], record['checkpoint_manifest_sha256'])
|
||||||
|
require(checkpoint['fresh'] and checkpoint['steps'] == row['steps'] and checkpoint['global_tick_offset'] == 0,
|
||||||
|
'Normal epoch must be fresh, not a continuation')
|
||||||
|
ENV.verify_environment(record['environment'], checkpoint['summary']['apl_component']['environment'])
|
||||||
|
chain = read(paths['update'] / 'chain-receipt.json')
|
||||||
|
require(chain['authority_sha256'] == digest(paths['authority']) and
|
||||||
|
chain['source_neural_checkpoint_manifest_sha256'] == record['checkpoint_manifest_sha256'] and
|
||||||
|
chain['epoch_id'] == row['epoch_id'], 'Delta does not derive from this actual sealed neural epoch')
|
||||||
|
P.verify_pins(chain['input_files_sha256'])
|
||||||
|
for name, sha in chain['output_files_sha256'].items():
|
||||||
|
require(digest(paths['update'] / name) == sha, 'Updated snapshot changed')
|
||||||
|
return record
|
||||||
|
|
||||||
|
|
||||||
|
def before_overlay(reg, reg_sha, row):
|
||||||
|
previous = row['previous_delta_row_id']
|
||||||
|
if previous is None:
|
||||||
|
return reg['initial_overlay']
|
||||||
|
parent = row_by(reg, previous)
|
||||||
|
require(parent['arm'] == row['arm'] and parent['diagnostic_mode'] == row['diagnostic_mode'] and
|
||||||
|
parent['input_epoch_index'] + 1 == row['input_epoch_index'], 'Invalid cross-epoch delta link')
|
||||||
|
verify_row(reg, reg_sha, parent)
|
||||||
|
directory = locations(previous)['update']
|
||||||
|
return dict(overlay_file=str(directory / 'delta-after.npz'), overlay_manifest=str(directory / 'overlay-manifest.json'))
|
||||||
|
|
||||||
|
|
||||||
|
def make_authority(reg, row, checkpoint_sha, overlay):
|
||||||
|
paths = locations(row['row_id']); case = Path(reg['cases'][row['row_id']]); spec = read(case / 'spec.json')
|
||||||
|
metadata = read(overlay['overlay_manifest'])
|
||||||
|
role_paths = dict(spec=case / 'spec.json', requests=case / 'requests.npz',
|
||||||
|
overlay_before=overlay['overlay_file'], overlay_manifest_before=overlay['overlay_manifest'],
|
||||||
|
state=paths['run'] / 'state.npz', kc=Path(spec['apl_bundle_dir']) / 'kc_globals.npy',
|
||||||
|
canonical_kc=Path(spec['apl_bundle_dir']) / 'kc_globals.npy', candidate_map=EXP / 'inputs/static/candidate-map.npz',
|
||||||
|
mask=metadata['mask_path'], base_candidate=metadata['base_candidate_path'],
|
||||||
|
phase4j_source=reg['phase4j_source'], eligibility_bridge_source=reg['bridge_source'],
|
||||||
|
conditioning_update_source=MODEL / 'conditioning_update.py', runtime_light_source=MODEL / 'runtime_light.py',
|
||||||
|
runtime_continuation_source=MODEL / 'runtime_continuation.py', am_overlay_source=metadata['am_overlay_path'])
|
||||||
|
epoch = reg['plan']['selected_epochs'][row['input_epoch_index']]
|
||||||
|
return dict(schema=E.SCHEMA, epoch_id=row['epoch_id'], diagnostic_mode=row['diagnostic_mode'],
|
||||||
|
command=dict(steps=row['steps'], compartment=reg['plan']['compartment_verbatim'],
|
||||||
|
us_tick=epoch['us']['tick'], d_command=row['d_command'], frozen=row['frozen'], trace_backend=reg['generation']['trace_backend']),
|
||||||
|
checkpoint_dir=str(paths['run']), checkpoint_manifest_sha256=checkpoint_sha,
|
||||||
|
files={role: dict(path=str(path), sha256=digest(path)) for role, path in role_paths.items()},
|
||||||
|
frozen_inputs={k: v for k, v in reg['input_sha256'].items()
|
||||||
|
if k not in (str(P.AN / 'protocol/preregistered.json'), str(P.AN / 'manifest.json'), str(P.AN / 'audit/final-status.json'))})
|
||||||
|
|
||||||
|
|
||||||
|
def replay_update(authority, receipt):
|
||||||
|
files = {k: Path(v['path']) for k, v in authority['files'].items()}
|
||||||
|
state = npz(files['state']); mapping = npz(files['candidate_map']); old = npz(files['overlay_before'])
|
||||||
|
command = authority['command']
|
||||||
|
return U.verify_receipt(receipt, step=state['step'], neuron_idx=state['neuron_idx'],
|
||||||
|
kc=np.load(files['kc'], allow_pickle=False), candidate_edge_id=mapping['edge_id'],
|
||||||
|
candidate_sources=mapping['source_neuron_idx'], candidate_targets=mapping['target_neuron_idx'],
|
||||||
|
candidate_compartments=mapping['target_compartment_verbatim'], delta_before=old['plastic_delta_mv'],
|
||||||
|
base_candidate=np.load(files['base_candidate'], allow_pickle=False), steps=command['steps'], n_neurons=166700,
|
||||||
|
compartment=command['compartment'], us_tick=command['us_tick'], d_command=command['d_command'],
|
||||||
|
frozen=command['frozen'], trace_backend=command['trace_backend'],
|
||||||
|
bridge_source=files['eligibility_bridge_source'], phase4j_source=files['phase4j_source'])
|
||||||
|
|
||||||
|
|
||||||
|
def worker(reg_sha, row_id):
|
||||||
|
reg = P.read_registration(reg_sha); generated_inputs(reg_sha)
|
||||||
|
admission()
|
||||||
|
row = row_by(reg, row_id); paths = locations(row_id)
|
||||||
|
require(not any(paths[k].exists() for k in ('run', 'update', 'runtime', 'authority')), 'Partial row cannot be retried')
|
||||||
|
ENV.preflight(); before = budget(reg)
|
||||||
|
overlay = before_overlay(reg, reg_sha, row)
|
||||||
|
case = Path(reg['cases'][row_id])
|
||||||
|
protected = {Path(p).parent for p in (*reg['input_sha256'], *reg['source_sha256'], *reg['prepared_file_sha256'])}
|
||||||
|
protected.update({EXP / 'inputs', EXP / 'updates'})
|
||||||
|
# Build/run siblings must never touch any current or earlier learned input.
|
||||||
|
R.execution_paths(case, paths['run'], EXP / 'extension-build', protected=protected)
|
||||||
|
started = time.perf_counter(); started_utc = datetime.now(timezone.utc).isoformat()
|
||||||
|
execute = R.run_reference if row['diagnostic_mode'] == 'reference' else R.run_light
|
||||||
|
execute(case, paths['run'], EXP / 'extension-build', overlay['overlay_file'], overlay['overlay_manifest'])
|
||||||
|
checkpoint_sha = C.seal_checkpoint(paths['run'])['sha256']
|
||||||
|
runtime_seconds = time.perf_counter() - started
|
||||||
|
authority = make_authority(reg, row, checkpoint_sha, overlay)
|
||||||
|
save(paths['authority'], authority)
|
||||||
|
update_started = time.perf_counter()
|
||||||
|
E.postprocess_epoch(paths['authority'], digest(paths['authority']), paths['update'])
|
||||||
|
receipt = read(paths['update'] / 'update-receipt.json')
|
||||||
|
replay_update(authority, receipt)
|
||||||
|
delta_before = npz(overlay['overlay_file'])['plastic_delta_mv']
|
||||||
|
_, after, _, _ = R.load_overlay(paths['update'] / 'delta-after.npz', paths['update'] / 'overlay-manifest.json')
|
||||||
|
binding = Q.audit_delta_binding(delta_before, after['plastic_delta_mv'], after['plastic_delta_mv'],
|
||||||
|
update_receipt=receipt, parent_snapshot_sha256=digest(overlay['overlay_file']),
|
||||||
|
child_manifest=read(paths['update'] / 'overlay-manifest.json'))
|
||||||
|
require(binding['pass_all'], 'Actual recomputed delta/child binding failed')
|
||||||
|
save(EXP / 'receipts' / (row_id + '.binding.json'), binding)
|
||||||
|
record = dict(complete=True, registration_sha256=reg_sha, row=row,
|
||||||
|
checkpoint_manifest_sha256=checkpoint_sha, environment=ENV.runtime_environment(),
|
||||||
|
runtime_and_immediate_seal_wall_seconds=runtime_seconds,
|
||||||
|
postprocess_and_recompute_wall_seconds=time.perf_counter() - update_started,
|
||||||
|
started_utc=started_utc, budget_before=before, budget_after=budget(reg),
|
||||||
|
files_sha256={str(p): digest(p) for p in (paths['authority'], *paths['update'].iterdir(),
|
||||||
|
EXP / 'receipts' / (row_id + '.binding.json'))},
|
||||||
|
before_overlay_file_sha256=digest(overlay['overlay_file']), epoch_update_recomputed=True,
|
||||||
|
learning_success_claimed=False, full_conditioning_executed=False)
|
||||||
|
ENV.verify_environment(record['environment'], read(paths['run'] / 'summary.json')['apl_component']['environment'])
|
||||||
|
P.read_registration(reg_sha)
|
||||||
|
save(paths['runtime'], record)
|
||||||
|
print('COMPLETE', row_id, receipt['counts']['actual_bitwise_changed_edges'], flush=True)
|
||||||
|
|
||||||
|
|
||||||
|
def child_process(reg, reg_sha, action, row_id=None):
|
||||||
|
if row_id is None:
|
||||||
|
out, err = [EXP / 'logs' / ('input-generation.' + k + '.log') for k in ('stdout', 'stderr')]
|
||||||
|
else:
|
||||||
|
p = locations(row_id); out, err = p['stdout'], p['stderr']
|
||||||
|
require(not out.exists() and not err.exists(), 'Partial child logs exist; never retry')
|
||||||
|
command = [sys.executable, '-B', str(Path(__file__)), action, '--registration-sha256', reg_sha]
|
||||||
|
if row_id is not None: command += ['--row-id', row_id]
|
||||||
|
started = time.perf_counter()
|
||||||
|
with out.open('xb') as stdout, err.open('xb') as stderr:
|
||||||
|
result = subprocess.run(command, cwd=MODEL, stdout=stdout, stderr=stderr,
|
||||||
|
timeout=reg['budget']['child_timeout_seconds'])
|
||||||
|
require(result.returncode == 0, 'Child failed; preserve partial files and inspect logs')
|
||||||
|
receipt = dict(exit_code=result.returncode, registration_sha256=reg_sha,
|
||||||
|
stdout_sha256=digest(out), stderr_sha256=digest(err), wall_seconds=time.perf_counter() - started)
|
||||||
|
if row_id is None:
|
||||||
|
receipt['receipt_sha256'] = digest(EXP / 'receipts/input-generation.json')
|
||||||
|
save(EXP / 'receipts/input-generation.process.json', receipt)
|
||||||
|
else:
|
||||||
|
receipt['runtime_sha256'] = digest(locations(row_id)['runtime'])
|
||||||
|
save(locations(row_id)['execution'], receipt)
|
||||||
|
|
||||||
|
|
||||||
|
def run(reg_sha):
|
||||||
|
reg = P.read_registration(reg_sha)
|
||||||
|
admission()
|
||||||
|
completed = []
|
||||||
|
try:
|
||||||
|
child_process(reg, reg_sha, 'materialize')
|
||||||
|
generated_inputs(reg_sha)
|
||||||
|
for row in reg['plan']['calls']:
|
||||||
|
print('START', row['row_id'], flush=True)
|
||||||
|
budget(reg)
|
||||||
|
child_process(reg, reg_sha, 'worker', row['row_id'])
|
||||||
|
verify_row(reg, reg_sha, row)
|
||||||
|
completed.append(row['row_id'])
|
||||||
|
print('COMPLETE', row['row_id'], flush=True)
|
||||||
|
save(EXP / 'audit/execution-complete.json', dict(registration_sha256=reg_sha, complete=True,
|
||||||
|
completed=completed, calls=12, ticks=14400, learning_success_claimed=False))
|
||||||
|
except Exception as error:
|
||||||
|
save(EXP / 'audit/stopped.json', dict(complete=False, registration_sha256=reg_sha,
|
||||||
|
error_type=type(error).__name__, error=str(error), traceback=traceback.format_exc(),
|
||||||
|
completed_rows=completed, partials_preserved=True, no_automatic_retry=True))
|
||||||
|
raise
|
||||||
|
|
||||||
|
|
||||||
|
def admission():
|
||||||
|
require(not (EXP / 'audit/stopped.json').exists() and not (EXP / 'audit/execution-complete.json').exists() and
|
||||||
|
not (EXP / 'manifest.json').exists(), 'Stopped/completed protocol cannot be automatically restarted')
|
||||||
|
|
||||||
|
|
||||||
|
def expected_weight_hash(reg, reg_sha, row):
|
||||||
|
"""Independent CPU expected installation from authorized base and delta."""
|
||||||
|
overlay = before_overlay(reg, reg_sha, row)
|
||||||
|
helper, plan, _, _ = R.load_overlay(overlay['overlay_file'], overlay['overlay_manifest'])
|
||||||
|
spec = read(Path(reg['cases'][row['row_id']]) / 'spec.json')
|
||||||
|
graph = Path(spec['graph_dir']); arrays = {}
|
||||||
|
try:
|
||||||
|
for name in ('nodes', 'weights', 'edge_id', 'src'):
|
||||||
|
arrays[name] = np.load(graph / (name + '.npy'), mmap_mode='r', allow_pickle=False)
|
||||||
|
require(np.array_equal(arrays['nodes'], np.arange(166700, dtype=np.int32)), 'Global graph node identity changed')
|
||||||
|
apl = np.load(Path(spec['apl_bundle_dir']) / 'apl_globals.npy', allow_pickle=False)
|
||||||
|
mask = np.isin(arrays['src'], apl)
|
||||||
|
require(int(mask.sum()) == 5845, 'Original fast APL mask differs')
|
||||||
|
mapping = helper.map_installation(arrays['weights'], arrays['edge_id'], mask, plan)
|
||||||
|
require(mapping['missing_candidate_count'] == 0, 'Full candidate mask not installed')
|
||||||
|
base_sha, effective_sha = helper.expected_hashes(arrays['weights'], mask, mapping)
|
||||||
|
return dict(base_raw_sha256=base_sha, effective_raw_sha256=effective_sha,
|
||||||
|
expected_from_base_and_overlay_not_run_summary=True)
|
||||||
|
finally:
|
||||||
|
for a in arrays.values(): a._mmap.close()
|
||||||
|
|
||||||
|
|
||||||
|
def analyze(reg_sha):
|
||||||
|
reg = P.read_registration(reg_sha); generated_inputs(reg_sha)
|
||||||
|
require(not (EXP / 'audit/stopped.json').exists(), 'Stopped protocol has no PASS analysis')
|
||||||
|
complete = read(EXP / 'audit/execution-complete.json')
|
||||||
|
require(complete['complete'] and complete['registration_sha256'] == reg_sha and
|
||||||
|
complete['completed'] == [r['row_id'] for r in reg['plan']['calls']], 'Missing finite calls')
|
||||||
|
records = {r['row_id']: verify_row(reg, reg_sha, r) for r in reg['plan']['calls']}
|
||||||
|
pairs, summaries, deltas, cross_arm = [], [], {}, []
|
||||||
|
for row in reg['plan']['calls']:
|
||||||
|
paths = locations(row['row_id']); authority = read(paths['authority'])
|
||||||
|
require(P.same(authority, make_authority(reg, row, records[row['row_id']]['checkpoint_manifest_sha256'],
|
||||||
|
before_overlay(reg, reg_sha, row))), 'Authority differs from registered row and actual parent')
|
||||||
|
update = read(paths['update'] / 'update-receipt.json')
|
||||||
|
replay_update(authority, update)
|
||||||
|
delta = npz(paths['update'] / 'delta-after.npz')['plastic_delta_mv']
|
||||||
|
deltas[row['row_id']] = delta
|
||||||
|
if row['arm'] in ('D0', 'frozen'):
|
||||||
|
require(not np.any(delta.view(np.uint32)), 'D0/frozen must remain exact positive zero')
|
||||||
|
summary = read(paths['run'] / 'summary.json')
|
||||||
|
population = npz(EXP / 'inputs/static/populations.npz')
|
||||||
|
state = npz(paths['run'] / 'state.npz')
|
||||||
|
run_record = COMP.load_run(paths['run'])
|
||||||
|
try:
|
||||||
|
us = npz(EXP / f"inputs/generated/epoch-{row['input_epoch_index']:03d}/us_requests.npz")
|
||||||
|
us_keys = us['tick'].astype(np.int64) * 166700 + us['neuron_idx']
|
||||||
|
request_keys = run_record['requests'][:, 0] * 166700 + run_record['requests'][:, 1]
|
||||||
|
dan_requests = run_record['requests'][np.isin(request_keys, us_keys)]
|
||||||
|
require(len(dan_requests) == len(us_keys), 'Scheduled US requests not fully accounted')
|
||||||
|
delivery = dict(scheduled_D=row['d_command'], requested=int(len(dan_requests)),
|
||||||
|
accepted=int(dan_requests[:, 3].sum()), rejected=int(dan_requests[:, 4].sum()),
|
||||||
|
actual_DAN_spikes=int(state['counts'][population[reg['plan']['dan_type']]].sum()),
|
||||||
|
actual_DAN_spikes_gate_update=False, artificial_US_not_dopamine_concentration=True)
|
||||||
|
finally:
|
||||||
|
COMP.close_run(run_record)
|
||||||
|
summaries.append(dict(row_id=row['row_id'], total_spikes=summary['total_spikes'],
|
||||||
|
active_neurons=int(np.count_nonzero(state['counts'])), all_finite=summary['all_finite'],
|
||||||
|
update_counts=update['counts'], DAN_delivery=delivery,
|
||||||
|
runtime_seconds=records[row['row_id']]['runtime_and_immediate_seal_wall_seconds'],
|
||||||
|
effective_weight_sha256=summary['effective_weights_raw_sha256']))
|
||||||
|
for arm in ('D1', 'D0', 'frozen'):
|
||||||
|
for epoch in range(2):
|
||||||
|
names = [f'{arm}--{mode}--epoch-{epoch:03d}' for mode in ('reference', 'light')]
|
||||||
|
a, b = [COMP.load_run(locations(n)['run']) for n in names]
|
||||||
|
try:
|
||||||
|
requests = npz(EXP / f'inputs/generated/epoch-{epoch:03d}/requests.npz')
|
||||||
|
expected = expected_weight_hash(reg, reg_sha, row_by(reg, names[0]))
|
||||||
|
pair = Q.compare_epoch_pair(a, b, expected_requests=np.column_stack((requests['tick'], requests['neuron_idx'])),
|
||||||
|
expected_steps=1200, expected_effective_weight_sha256=expected['effective_raw_sha256'])
|
||||||
|
require(pair['pass_all'] and COMP.bit_equal(deltas[names[0]], deltas[names[1]]), 'Reference/light exact regression failed')
|
||||||
|
pairs.append(dict(arm=arm, epoch=epoch, exact_delta_after=True, expected_weights=expected, comparison=pair))
|
||||||
|
finally:
|
||||||
|
COMP.close_run(a); COMP.close_run(b)
|
||||||
|
for mode in ('reference', 'light'):
|
||||||
|
for left_arm, right_arm, epoch in (('D0', 'frozen', 0), ('D0', 'frozen', 1), ('D1', 'D0', 0)):
|
||||||
|
left = COMP.load_run(locations(f'{left_arm}--{mode}--epoch-{epoch:03d}')['run'])
|
||||||
|
right = COMP.load_run(locations(f'{right_arm}--{mode}--epoch-{epoch:03d}')['run'])
|
||||||
|
try:
|
||||||
|
comparison = COMP.compare_fresh(left, right)
|
||||||
|
require(comparison['numerical_exact'], 'Identical-input/zero-delta cross-arm neural behavior differs')
|
||||||
|
cross_arm.append(dict(left=left_arm, right=right_arm, mode=mode, epoch=epoch, comparison=comparison))
|
||||||
|
finally:
|
||||||
|
COMP.close_run(left); COMP.close_run(right)
|
||||||
|
d1_rows = [s for s in summaries if s['row_id'].startswith('D1--')]
|
||||||
|
nonzero = all(s['update_counts']['actual_bitwise_changed_edges'] > 0 for s in d1_rows)
|
||||||
|
installed = {}
|
||||||
|
for mode in ('reference', 'light'):
|
||||||
|
first, second = (locations(f'D1--{mode}--epoch-{j:03d}') for j in range(2))
|
||||||
|
raw = R._raw(deltas[f'D1--{mode}--epoch-000'])
|
||||||
|
installation = read(second['run'] / 'overlay-audit.json')
|
||||||
|
require(installation['delta_raw_sha256'] == raw and
|
||||||
|
digest(first['update'] / 'delta-after.npz') == records[f'D1--{mode}--epoch-001']['before_overlay_file_sha256'],
|
||||||
|
'Epoch 2 did not install epoch 1 learned delta')
|
||||||
|
installed[mode] = dict(exact=True, nonzero_delta=int(np.count_nonzero(deltas[f'D1--{mode}--epoch-000'])))
|
||||||
|
status = 'PASS-EXACT-TWO-EPOCH-DELTA-INTERFACE-NOT-LEARNING' if nonzero else 'INCOMPLETE-NO-NONZERO-UPDATE-COVERAGE'
|
||||||
|
return dict(status=status, registration_sha256=reg_sha, calls=12, ticks=14400, pairs=pairs, cross_arm=cross_arm,
|
||||||
|
rows=summaries, epoch2_installations=installed, nonzero_D1_update_coverage=nonzero,
|
||||||
|
D0_and_frozen_exact_zero=True, complete_conditioning_executed=False, learned_candidate=False,
|
||||||
|
learning_success_claimed=False, retention_transition_supported=False,
|
||||||
|
scope='Two selected A epochs, one training replicate, one PAM15 compartment; no acquisition or A/B behavioral test; no general dynamics or learning claim',
|
||||||
|
light_intermediate_states_observed=False)
|
||||||
|
|
||||||
|
|
||||||
|
def finalize(reg_sha):
|
||||||
|
require(not (EXP / 'manifest.json').exists() and not (EXP / 'audit/final-status.json').exists(), 'Do not overwrite final/partial seal')
|
||||||
|
report = analyze(reg_sha)
|
||||||
|
save(EXP / 'audit/interface-analysis.json', report)
|
||||||
|
an = P.P.read_registration(P.AN_REG)
|
||||||
|
helper = P.P.load_module('phase4ao_final_seal_helper', ROOT / P.P.AI_HELPER_REL, P.P.AI_HELPER_SHA)
|
||||||
|
save(EXP / 'regression/AN-seal-after.json', helper.verify_seal(P.AN))
|
||||||
|
save(EXP / 'regression/AM-seals-after.json', P.P.verify_authority(an['anchors']))
|
||||||
|
old = P.P.verify_old_integrity(an)
|
||||||
|
save(EXP / 'regression/old-integrity-after.json', old)
|
||||||
|
P.read_registration(reg_sha)
|
||||||
|
final = dict(status=report['status'], analysis_sha256=digest(EXP / 'audit/interface-analysis.json'),
|
||||||
|
registration_sha256=reg_sha, old_integrity_pass=True, old_roots=len(old),
|
||||||
|
prior_AN_AM_seals_preserved=True, frozen_21_and_previous_draft_20_unchanged=True,
|
||||||
|
five_reference_trials='Previously sealed AM evidence retained, not rerun in this finite interface gate',
|
||||||
|
learned_candidate=False, learning_success_claimed=False, full_conditioning_executed=False,
|
||||||
|
model_directory_sealed=False, new_experiment_only=True, budget=budget(P.read_registration(reg_sha)))
|
||||||
|
save(EXP / 'audit/final-status.json', final)
|
||||||
|
paths = sorted(p for p in EXP.rglob('*') if p.is_file())
|
||||||
|
require(not any(p.is_symlink() for p in EXP.rglob('*')) and not any('__pycache__' in p.parts for p in paths), 'Unsafe seal payload')
|
||||||
|
rows = [dict(path=p.relative_to(EXP).as_posix(), bytes=p.stat().st_size, sha256=digest(p)) for p in paths]
|
||||||
|
save(EXP / 'manifest.json', dict(root=str(EXP), files=rows))
|
||||||
|
with (EXP / 'checksums.sha256').open('x', encoding='utf-8', newline='\n') as out:
|
||||||
|
out.writelines(r['sha256'] + ' ' + r['path'] + '\n' for r in rows)
|
||||||
|
out.write(digest(EXP / 'manifest.json') + ' manifest.json\n')
|
||||||
|
helper.verify_seal(EXP)
|
||||||
|
print(json.dumps(dict(status=report['status'], manifest_sha256=digest(EXP / 'manifest.json'),
|
||||||
|
final_sha256=digest(EXP / 'audit/final-status.json')), sort_keys=True), flush=True)
|
||||||
|
|
||||||
|
|
||||||
|
if __name__ == '__main__':
|
||||||
|
require(sys.dont_write_bytecode, 'Use scientific Python -B')
|
||||||
|
parser = argparse.ArgumentParser()
|
||||||
|
parser.add_argument('action', choices=('materialize', 'worker', 'run', 'finalize'))
|
||||||
|
parser.add_argument('--registration-sha256', required=True)
|
||||||
|
parser.add_argument('--row-id')
|
||||||
|
args = parser.parse_args()
|
||||||
|
if args.action == 'worker': worker(args.registration_sha256, args.row_id)
|
||||||
|
elif args.action == 'materialize': materialize(args.registration_sha256)
|
||||||
|
elif args.action == 'run': run(args.registration_sha256)
|
||||||
|
else: finalize(args.registration_sha256)
|
||||||
@@ -0,0 +1,298 @@
|
|||||||
|
"""Tiny temporary CPU fixtures, never scientific events or a real brain run."""
|
||||||
|
import copy
|
||||||
|
import json
|
||||||
|
from pathlib import Path
|
||||||
|
import tempfile
|
||||||
|
from types import SimpleNamespace
|
||||||
|
import unittest
|
||||||
|
from unittest.mock import patch
|
||||||
|
|
||||||
|
import numpy as np
|
||||||
|
|
||||||
|
import conditioning_epoch as m
|
||||||
|
import conditioning_update as update
|
||||||
|
from test_conditioning_update import BRIDGE, SOURCE
|
||||||
|
|
||||||
|
|
||||||
|
def save(path, value):
|
||||||
|
path.parent.mkdir(parents=True, exist_ok=True)
|
||||||
|
path.write_text(json.dumps(value, sort_keys=True, allow_nan=False), encoding='utf-8')
|
||||||
|
|
||||||
|
|
||||||
|
class TinyFixture:
|
||||||
|
def __init__(self, root):
|
||||||
|
self.root = root
|
||||||
|
self.inputs = root / 'inputs'; self.inputs.mkdir()
|
||||||
|
self.case = self.inputs / 'case'; self.case.mkdir()
|
||||||
|
self.graph = self.inputs / 'graph'; self.graph.mkdir()
|
||||||
|
self.apl = self.inputs / 'apl'; self.apl.mkdir()
|
||||||
|
self.checkpoint = root / 'runtime'; self.checkpoint.mkdir()
|
||||||
|
self.authority_dir = root / 'authority'; self.authority_dir.mkdir()
|
||||||
|
self.output_parent = root / 'outputs'; self.output_parent.mkdir()
|
||||||
|
self.authority_path = self.authority_dir / 'epoch.json'
|
||||||
|
self.mask = np.array([1, 3], np.int64)
|
||||||
|
self.kc = np.array([1, 3], np.int32)
|
||||||
|
self.base = np.array([.275, .55], np.float32)
|
||||||
|
self.before = np.zeros(2, np.float32)
|
||||||
|
graph = dict(nodes=np.arange(5, dtype=np.int32), edge_id=np.arange(6, dtype=np.int64),
|
||||||
|
src=np.array([0, 1, 1, 3, 3, 4], np.int32), dst=np.array([1, 2, 4, 2, 4, 0], np.int32),
|
||||||
|
signed_raw=np.ones(6, np.int64), ptr=np.array([0, 1, 3, 3, 5, 6], np.int64), weights=np.full(6, .000275))
|
||||||
|
for name, array in graph.items():
|
||||||
|
np.save(self.graph / (name + '.npy'), array)
|
||||||
|
for name, array in dict(input_matrix=np.zeros((2, 5), np.float32),
|
||||||
|
output_matrix=np.zeros((2, 2), np.float32), kc_globals=self.kc, apl_globals=np.array([0, 4], np.int32)).items():
|
||||||
|
np.save(self.apl / (name + '.npy'), array)
|
||||||
|
np.save(self.inputs / 'kc.npy', self.kc)
|
||||||
|
np.save(self.inputs / 'mask.npy', self.mask)
|
||||||
|
np.save(self.inputs / 'base.npy', self.base)
|
||||||
|
np.savez_compressed(self.inputs / 'mapping.npz', edge_id=self.mask,
|
||||||
|
source_neuron_idx=graph['src'][self.mask], target_neuron_idx=graph['dst'][self.mask],
|
||||||
|
target_compartment_verbatim=np.array(["y5B'2a", 'a1']))
|
||||||
|
np.savez_compressed(self.inputs / 'before.npz', edge_id=self.mask, plastic_delta_mv=self.before)
|
||||||
|
save(self.inputs / 'coeff.json', {'synthetic': True})
|
||||||
|
source_root = Path(m.__file__).resolve().parent
|
||||||
|
source_files = dict(runtime_light_source=source_root / 'runtime_light.py',
|
||||||
|
runtime_continuation_source=source_root / 'runtime_continuation.py',
|
||||||
|
conditioning_update_source=source_root / 'conditioning_update.py',
|
||||||
|
eligibility_bridge_source=BRIDGE.resolve(), phase4j_source=SOURCE.resolve(),
|
||||||
|
am_overlay_source=source_root.parent / 'wholebrain-plastic-interface-v1/overlay.py')
|
||||||
|
metadata = dict(schema='phase4an-overlay-v1', overlay_name='zero',
|
||||||
|
overlay_sha256=m._digest(self.inputs / 'before.npz'), mask_path=str(self.inputs / 'mask.npy'),
|
||||||
|
mask_sha256=m._digest(self.inputs / 'mask.npy'), base_candidate_path=str(self.inputs / 'base.npy'),
|
||||||
|
base_candidate_sha256=m._digest(self.inputs / 'base.npy'), aj_model_dir=str(self.graph),
|
||||||
|
am_overlay_path=str(source_files['am_overlay_source']), am_overlay_sha256=m._digest(source_files['am_overlay_source']))
|
||||||
|
save(self.inputs / 'before.json', metadata)
|
||||||
|
spec = dict(name='synthetic', steps=4, max_steps=4, dt_ms=.1, duration_ms=.4,
|
||||||
|
apl_delay_steps=18, record_history=False, within_trial_weight_updates=False,
|
||||||
|
graph_dir=str(self.graph), apl_bundle_dir=str(self.apl), coefficients_path=str(self.inputs / 'coeff.json'))
|
||||||
|
save(self.case / 'spec.json', spec)
|
||||||
|
np.savez_compressed(self.case / 'requests.npz', tick=np.array([0], np.int32), neuron_idx=np.array([1], np.int32))
|
||||||
|
state = dict(step=np.array([0], np.int32), neuron_idx=np.array([1], np.int32),
|
||||||
|
counts=np.array([0, 1, 0, 0, 0], np.int32), v=np.full(5, -.052), g=np.zeros(5), ref=np.zeros(5, np.int32))
|
||||||
|
np.savez_compressed(self.checkpoint / 'state.npz', **state)
|
||||||
|
(self.checkpoint / 'overlay-input.npz').write_bytes((self.inputs / 'before.npz').read_bytes())
|
||||||
|
(self.checkpoint / 'overlay-manifest.json').write_bytes((self.inputs / 'before.json').read_bytes())
|
||||||
|
summary = dict(nodes=5, edges=6, diagnostic_mode='light', effective_weights_raw_sha256='e' * 64)
|
||||||
|
save(self.checkpoint / 'summary.json', summary)
|
||||||
|
provenance = dict(input_sha256={str(path): m._digest(path) for path in
|
||||||
|
(self.case / 'spec.json', self.case / 'requests.npz', self.inputs / 'before.npz', self.inputs / 'before.json')})
|
||||||
|
save(self.checkpoint / 'runtime-provenance.json', provenance)
|
||||||
|
save(self.checkpoint / 'overlay-audit.json', dict(delta_raw_sha256=self.raw(self.before), effective_weights_raw_sha256='e' * 64))
|
||||||
|
paths = dict(spec=self.case / 'spec.json', requests=self.case / 'requests.npz',
|
||||||
|
overlay_before=self.inputs / 'before.npz', overlay_manifest_before=self.inputs / 'before.json',
|
||||||
|
state=self.checkpoint / 'state.npz', kc=self.inputs / 'kc.npy', canonical_kc=self.apl / 'kc_globals.npy',
|
||||||
|
candidate_map=self.inputs / 'mapping.npz', mask=self.inputs / 'mask.npy', base_candidate=self.inputs / 'base.npy', **source_files)
|
||||||
|
self.value = dict(schema=m.SCHEMA, epoch_id='synthetic/epoch-0', diagnostic_mode='light',
|
||||||
|
command=dict(steps=4, compartment="y5B'2a", us_tick=1, d_command=1., frozen=False, trace_backend='numpy'),
|
||||||
|
checkpoint_dir=str(self.checkpoint), checkpoint_manifest_sha256=None,
|
||||||
|
files={role: dict(path=str(path), sha256=m._digest(path)) for role, path in paths.items()},
|
||||||
|
frozen_inputs={str(path): m._digest(path) for path in [
|
||||||
|
*(self.graph / name for name in m.GRAPH_FILES), *(self.apl / name for name in m.APL_FILES), self.inputs / 'coeff.json']})
|
||||||
|
self.reseal()
|
||||||
|
|
||||||
|
@staticmethod
|
||||||
|
def raw(array):
|
||||||
|
return __import__('hashlib').sha256(array.tobytes()).hexdigest()
|
||||||
|
|
||||||
|
def reseal(self):
|
||||||
|
files = {path.name: m._digest(path) for path in self.checkpoint.iterdir() if path.name != 'checkpoint-manifest.json'}
|
||||||
|
save(self.checkpoint / 'checkpoint-manifest.json', dict(files_sha256=files))
|
||||||
|
self.value['checkpoint_manifest_sha256'] = m._digest(self.checkpoint / 'checkpoint-manifest.json')
|
||||||
|
for entry in self.value['files'].values():
|
||||||
|
entry['sha256'] = m._digest(entry['path'])
|
||||||
|
for path in self.value['frozen_inputs']:
|
||||||
|
self.value['frozen_inputs'][path] = m._digest(path)
|
||||||
|
save(self.authority_path, self.value)
|
||||||
|
|
||||||
|
def load_checkpoint(self, directory, pin):
|
||||||
|
self.asserted_loads += 1
|
||||||
|
directory = Path(directory)
|
||||||
|
m._require(m._digest(directory / 'checkpoint-manifest.json') == pin, 'synthetic seal pin mismatch')
|
||||||
|
manifest = m._read(directory / 'checkpoint-manifest.json')
|
||||||
|
actual = {path.name: m._digest(path) for path in directory.iterdir() if path.name != 'checkpoint-manifest.json'}
|
||||||
|
m._require(manifest['files_sha256'] == actual, 'synthetic sealed inventory mismatch')
|
||||||
|
return dict(fresh=True, global_tick_offset=0, steps=4, summary=m._read(directory / 'summary.json'),
|
||||||
|
provenance=m._read(directory / 'runtime-provenance.json'), manifest=manifest,
|
||||||
|
state=m._npz(directory / 'state.npz', ('step', 'neuron_idx', 'counts', 'v', 'g', 'ref')),
|
||||||
|
overlay=m._read(directory / 'overlay-audit.json'))
|
||||||
|
|
||||||
|
def load_overlay(self, file, manifest):
|
||||||
|
meta = m._read(manifest)
|
||||||
|
m._require(meta['overlay_sha256'] == m._digest(file), 'synthetic overlay SHA mismatch')
|
||||||
|
value = m._npz(file, ('edge_id', 'plastic_delta_mv'))
|
||||||
|
value['base_candidate_mv'] = np.load(meta['base_candidate_path'], allow_pickle=False)
|
||||||
|
if meta['overlay_name'] == 'learned':
|
||||||
|
expected = {'schema', 'overlay_name', 'overlay_sha256', 'mask_path', 'mask_sha256',
|
||||||
|
'base_candidate_path', 'base_candidate_sha256', 'aj_model_dir', 'am_overlay_path', 'am_overlay_sha256',
|
||||||
|
'parent_snapshot_sha256', 'eligibility_v2_source_sha256'}
|
||||||
|
m._require(set(meta) == expected, 'learned manifest fields differ from real runtime contract')
|
||||||
|
return None, value, meta, {}
|
||||||
|
|
||||||
|
def run(self, out=None):
|
||||||
|
self.asserted_loads = 0
|
||||||
|
parsed = m._authority(self.authority_path, m._digest(self.authority_path))
|
||||||
|
c = SimpleNamespace(load_checkpoint=self.load_checkpoint)
|
||||||
|
r = SimpleNamespace(PINS={}, validate_spec=lambda value, _: value,
|
||||||
|
load_overlay=self.load_overlay, _raw=self.raw)
|
||||||
|
return m._coordinate(*parsed, self.output_parent / 'result' if out is None else out,
|
||||||
|
(c, r, update), (5, 6, 2, 2))
|
||||||
|
|
||||||
|
|
||||||
|
class EpochPostprocessing(unittest.TestCase):
|
||||||
|
def setUp(self):
|
||||||
|
self.tmp = tempfile.TemporaryDirectory()
|
||||||
|
self.f = TinyFixture(Path(self.tmp.name).resolve())
|
||||||
|
|
||||||
|
def tearDown(self):
|
||||||
|
self.tmp.cleanup()
|
||||||
|
|
||||||
|
def test_exclusive_complete_output_and_distinct_parent_hashes(self):
|
||||||
|
chain = self.f.run()
|
||||||
|
output = self.f.output_parent / 'result'
|
||||||
|
self.assertEqual({p.name for p in output.iterdir()}, {'delta-after.npz', 'overlay-manifest.json', 'update-receipt.json', 'chain-receipt.json'})
|
||||||
|
meta = m._read(output / 'overlay-manifest.json')
|
||||||
|
self.assertEqual(meta['parent_snapshot_sha256'], self.f.value['files']['overlay_before']['sha256'])
|
||||||
|
self.assertNotEqual(meta['parent_snapshot_sha256'], self.f.value['checkpoint_manifest_sha256'])
|
||||||
|
self.assertEqual(chain['before_overlay_manifest_sha256'], self.f.value['files']['overlay_manifest_before']['sha256'])
|
||||||
|
self.assertEqual(chain['source_neural_checkpoint_manifest_sha256'], self.f.value['checkpoint_manifest_sha256'])
|
||||||
|
self.assertEqual(self.f.asserted_loads, 2)
|
||||||
|
self.assertFalse(chain['weights_installed'])
|
||||||
|
self.assertFalse(chain['registration_authority_independently_proven'])
|
||||||
|
after = m._npz(output / 'delta-after.npz', ('edge_id', 'plastic_delta_mv'))
|
||||||
|
self.assertLess(after['plastic_delta_mv'][0], 0)
|
||||||
|
self.assertEqual(after['plastic_delta_mv'][1].view(np.uint32), 0)
|
||||||
|
with self.assertRaisesRegex(ValueError, 'Output must be new'):
|
||||||
|
self.f.run()
|
||||||
|
|
||||||
|
def test_every_external_sha_before_processing(self):
|
||||||
|
with self.assertRaisesRegex(ValueError, 'Authority differs'):
|
||||||
|
m._authority(self.f.authority_path, '0' * 64)
|
||||||
|
with (self.f.inputs / 'mapping.npz').open('ab') as stream:
|
||||||
|
stream.write(b'changed')
|
||||||
|
with self.assertRaisesRegex(ValueError, 'SHA mismatch'):
|
||||||
|
self.f.run()
|
||||||
|
self.assertFalse((self.f.output_parent / 'result').exists())
|
||||||
|
|
||||||
|
def test_sealed_event_substitution_and_unbound_case_are_rejected(self):
|
||||||
|
path = self.f.checkpoint / 'runtime-provenance.json'
|
||||||
|
provenance = m._read(path)
|
||||||
|
provenance['input_sha256'][str(self.f.case / 'requests.npz')] = 'f' * 64
|
||||||
|
save(path, provenance)
|
||||||
|
self.f.reseal()
|
||||||
|
with self.assertRaisesRegex(ValueError, 'did not bind authorized requests'):
|
||||||
|
self.f.run()
|
||||||
|
|
||||||
|
def test_changed_runtime_overlay_cannot_match_only_its_own_seal(self):
|
||||||
|
(self.f.checkpoint / 'overlay-input.npz').write_bytes(b'different')
|
||||||
|
self.f.reseal()
|
||||||
|
with self.assertRaisesRegex(ValueError, 'used a different overlay'):
|
||||||
|
self.f.run()
|
||||||
|
|
||||||
|
def test_candidate_endpoint_and_canonical_kc_must_really_match(self):
|
||||||
|
path = self.f.inputs / 'mapping.npz'
|
||||||
|
mapping = m._npz(path, ('edge_id', 'source_neuron_idx', 'target_neuron_idx', 'target_compartment_verbatim'))
|
||||||
|
mapping['target_neuron_idx'][0] = 4
|
||||||
|
np.savez_compressed(path, **mapping)
|
||||||
|
self.f.reseal()
|
||||||
|
with self.assertRaisesRegex(ValueError, 'endpoints differ'):
|
||||||
|
self.f.run()
|
||||||
|
mapping['target_neuron_idx'][0] = 2
|
||||||
|
np.savez_compressed(path, **mapping)
|
||||||
|
np.save(self.f.inputs / 'kc.npy', np.array([1, 4], np.int32))
|
||||||
|
self.f.reseal()
|
||||||
|
with self.assertRaisesRegex(ValueError, 'KC differs'):
|
||||||
|
self.f.run()
|
||||||
|
|
||||||
|
def test_command_steps_and_full_frozen_inventory_required(self):
|
||||||
|
self.f.value['command']['steps'] = 5
|
||||||
|
self.f.reseal()
|
||||||
|
with self.assertRaisesRegex(ValueError, 'Command steps differ'):
|
||||||
|
self.f.run()
|
||||||
|
self.f.value['command']['steps'] = 4
|
||||||
|
del self.f.value['frozen_inputs'][str(self.f.graph / 'signed_raw.npy')]
|
||||||
|
self.f.reseal()
|
||||||
|
with self.assertRaisesRegex(ValueError, 'authority is incomplete'):
|
||||||
|
self.f.run()
|
||||||
|
|
||||||
|
def test_protected_directories_and_existing_output_fail_before_write(self):
|
||||||
|
for path in (self.f.checkpoint / 'new', self.f.inputs / 'new', self.f.graph / 'new',
|
||||||
|
self.f.authority_dir / 'new', self.f.checkpoint):
|
||||||
|
with self.subTest(path=path), self.assertRaisesRegex(ValueError, 'Output must be new'):
|
||||||
|
self.f.run(path)
|
||||||
|
|
||||||
|
def test_partial_is_preserved_and_not_retryable(self):
|
||||||
|
with patch.object(self.f, 'load_overlay', side_effect=[
|
||||||
|
self.f.load_overlay(self.f.inputs / 'before.npz', self.f.inputs / 'before.json'),
|
||||||
|
ValueError('synthetic output validation failed')]):
|
||||||
|
with self.assertRaisesRegex(ValueError, 'output validation'):
|
||||||
|
self.f.run()
|
||||||
|
output = self.f.output_parent / 'result'
|
||||||
|
self.assertTrue((output / 'postprocess-error.json').is_file())
|
||||||
|
self.assertTrue((output / 'delta-after.npz').is_file())
|
||||||
|
self.assertFalse((output / 'chain-receipt.json').exists())
|
||||||
|
with self.assertRaisesRegex(ValueError, 'Output must be new'):
|
||||||
|
self.f.run()
|
||||||
|
|
||||||
|
def test_actual_pinned_dependencies_load_without_gpu(self):
|
||||||
|
_, paths, pins, _, _ = m._authority(self.f.authority_path, m._digest(self.f.authority_path))
|
||||||
|
c, r, u = m._production_dependencies(paths, pins)
|
||||||
|
self.assertEqual(Path(r.__file__).resolve(), paths['runtime_light_source'])
|
||||||
|
self.assertEqual(c.N, 166700)
|
||||||
|
self.assertEqual(u.BRIDGE_SHA256, update.BRIDGE_SHA256)
|
||||||
|
for role in m.SOURCE_PINS:
|
||||||
|
self.assertEqual(m._digest(paths[role]), m.SOURCE_PINS[role])
|
||||||
|
|
||||||
|
def test_production_dimensions_cannot_be_set_by_authority(self):
|
||||||
|
self.assertEqual(m.DIMENSIONS, (166700, 25582938, 4064, 14232))
|
||||||
|
self.f.value['small_test_mode'] = True
|
||||||
|
self.f.reseal()
|
||||||
|
with self.assertRaisesRegex(ValueError, 'fields/schema'):
|
||||||
|
m.postprocess_epoch(self.f.authority_path, m._digest(self.f.authority_path), self.f.output_parent / 'result')
|
||||||
|
|
||||||
|
def test_public_entry_rejects_tiny_population_even_with_valid_fixture_seal(self):
|
||||||
|
self.f.asserted_loads = 0
|
||||||
|
c = SimpleNamespace(load_checkpoint=self.f.load_checkpoint)
|
||||||
|
r = SimpleNamespace(PINS={}, validate_spec=lambda value, _: value,
|
||||||
|
load_overlay=self.f.load_overlay, _raw=self.f.raw)
|
||||||
|
with patch.object(m, '_production_dependencies', return_value=(c, r, update)):
|
||||||
|
with self.assertRaisesRegex(ValueError, 'Runtime population/mode'):
|
||||||
|
m.postprocess_epoch(self.f.authority_path, m._digest(self.f.authority_path), self.f.output_parent / 'result')
|
||||||
|
self.assertFalse((self.f.output_parent / 'result').exists())
|
||||||
|
|
||||||
|
def test_authorized_event_file_cannot_be_an_unsealed_copy(self):
|
||||||
|
other = self.f.inputs / 'state-copy.npz'
|
||||||
|
other.write_bytes((self.f.checkpoint / 'state.npz').read_bytes())
|
||||||
|
self.f.value['files']['state'] = dict(path=str(other), sha256=m._digest(other))
|
||||||
|
self.f.reseal()
|
||||||
|
with self.assertRaisesRegex(ValueError, 'Events must come from this checkpoint'):
|
||||||
|
self.f.run()
|
||||||
|
|
||||||
|
def test_late_input_change_preserves_partial_but_never_complete_chain(self):
|
||||||
|
original = self.f.load_checkpoint
|
||||||
|
calls = 0
|
||||||
|
def late_change(directory, pin):
|
||||||
|
nonlocal calls
|
||||||
|
calls += 1
|
||||||
|
result = original(directory, pin)
|
||||||
|
if calls == 2:
|
||||||
|
with (self.f.graph / 'weights.npy').open('ab') as stream:
|
||||||
|
stream.write(b'changed after outputs were written')
|
||||||
|
return result
|
||||||
|
with patch.object(self.f, 'load_checkpoint', side_effect=late_change):
|
||||||
|
with self.assertRaisesRegex(ValueError, 'SHA mismatch'):
|
||||||
|
self.f.run()
|
||||||
|
output = self.f.output_parent / 'result'
|
||||||
|
self.assertTrue((output / 'postprocess-error.json').is_file())
|
||||||
|
self.assertFalse((output / 'chain-receipt.json').exists())
|
||||||
|
|
||||||
|
def test_zero_d_and_frozen_return_identity_without_installation(self):
|
||||||
|
for index, (d, frozen) in enumerate(((0., False), (1., True))):
|
||||||
|
self.f.value['command'].update(d_command=d, frozen=frozen)
|
||||||
|
self.f.reseal()
|
||||||
|
self.f.run(self.f.output_parent / str(index))
|
||||||
|
value = m._npz(self.f.output_parent / str(index) / 'delta-after.npz', ('edge_id', 'plastic_delta_mv'))
|
||||||
|
self.assertEqual(value['plastic_delta_mv'].tobytes(), self.f.before.tobytes())
|
||||||
|
|
||||||
|
|
||||||
|
if __name__ == '__main__':
|
||||||
|
unittest.main()
|
||||||
+308
@@ -0,0 +1,308 @@
|
|||||||
|
"""Synthetic CPU array/receipt mutation tests; no files or neural execution."""
|
||||||
|
import copy
|
||||||
|
import hashlib
|
||||||
|
import json
|
||||||
|
import unittest
|
||||||
|
from unittest import mock
|
||||||
|
|
||||||
|
import numpy as np
|
||||||
|
|
||||||
|
import conditioning_preflight_compare as P
|
||||||
|
from test_engineering_compare import synthetic_parts
|
||||||
|
|
||||||
|
|
||||||
|
def rehash(receipt):
|
||||||
|
receipt["payload_sha256"] = P._sha({k: v for k, v in receipt.items() if k != "payload_sha256"})
|
||||||
|
|
||||||
|
|
||||||
|
def pair(*, active=True):
|
||||||
|
reference = synthetic_parts([64], active=active)[0]
|
||||||
|
light = synthetic_parts([64], active=active, traces=False, queues=False)[0]
|
||||||
|
for record, mode in ((reference, "reference"), (light, "light")):
|
||||||
|
summary = record["summary"]
|
||||||
|
summary.update(edges=6, explicit_steps_executed=64, within_trial_weight_updates=False,
|
||||||
|
hidden_early_stop=False, entire_neural_trial_executed=True, record_history=False,
|
||||||
|
state_units="SI volts", first_failure_tick=-1, counts_match_sparse_events=True,
|
||||||
|
total_spikes=len(record["state"]["step"]), requested=len(record["requests"]),
|
||||||
|
accepted_requests=int(record["requests"][:, 3].sum()), rejected_requests=int(record["requests"][:, 4].sum()),
|
||||||
|
full_APL_history_recorded=mode == "reference", full_tick_state_hashes_recorded=mode == "reference",
|
||||||
|
full_queue_hashes_recorded=mode == "reference", full_sequence_bitwise_audit_performed=mode == "reference",
|
||||||
|
arriving_edges=sum(row["count"] for row in reference["queues"]),
|
||||||
|
accepted_arriving_edges=sum(row["accepted_count"] for row in reference["queues"]),
|
||||||
|
input_sha256={"base_weights.npy": "a" * 64, "coefficients.json": "b" * 64,
|
||||||
|
"requests.npz": "c" * 64, "spec.json": "d" * 64})
|
||||||
|
record["terminal_origin"] = "recorded_terminal_queues"
|
||||||
|
return reference, light, reference["requests"][:, :2].astype(np.int32)
|
||||||
|
|
||||||
|
|
||||||
|
def delta_fixture():
|
||||||
|
before = np.zeros(P.CANDIDATE_COUNT, np.float32)
|
||||||
|
after = before.copy()
|
||||||
|
after[1] = np.float32(-.001)
|
||||||
|
receipt = dict(schema="phase4an-conditioning-update-draft-v1",
|
||||||
|
status="DRAFT-COMPUTED-EPOCH-UPDATE-NOT-INSTALLED",
|
||||||
|
source_pins={"eligibility_bridge_sha256": P.ELIGIBILITY_BRIDGE_SHA256, "phase4j_sha256": P.PHASE4J_SHA256},
|
||||||
|
input_arrays={"delta_before": P._evidence(before)}, outputs={"delta_after": P._evidence(after)},
|
||||||
|
command={"D_scheduled": 1.0, "frozen": False},
|
||||||
|
semantics={"application": "epoch_boundary_after_all_recorded_ticks; affects subsequent epoch only",
|
||||||
|
"delta_dtype": "float32", "delta_units": "mV", "D_definition": "artificial scheduled scalar",
|
||||||
|
"actual_DAN_delivery_observed": False, "actual_DAN_delivery_used_to_gate": False},
|
||||||
|
counts={"candidates": P.CANDIDATE_COUNT, "actual_bitwise_changed_edges": 1, "actual_value_changed_edges": 1},
|
||||||
|
weights_installed=False, base_modified=False, brain_dynamics_executed=False,
|
||||||
|
scientific_learning_pass_claimed=False, candidate_generated=False)
|
||||||
|
rehash(receipt)
|
||||||
|
manifest = dict(schema="phase4an-overlay-v1", overlay_name="learned", overlay_sha256="1" * 64,
|
||||||
|
mask_path="/synthetic/mask.npy", mask_sha256=P.MASK_SHA256,
|
||||||
|
base_candidate_path="/synthetic/base.npy", base_candidate_sha256="2" * 64,
|
||||||
|
aj_model_dir="/synthetic/apl-timing-lab-v1", am_overlay_path="/synthetic/overlay.py",
|
||||||
|
am_overlay_sha256=P.AM_OVERLAY_SHA256, parent_snapshot_sha256="3" * 64,
|
||||||
|
eligibility_v2_source_sha256=P.PHASE4J_SHA256)
|
||||||
|
return before, after, after.copy(), receipt, manifest
|
||||||
|
|
||||||
|
|
||||||
|
class EpochPairTests(unittest.TestCase):
|
||||||
|
def setUp(self):
|
||||||
|
# Pure three-neuron fixtures; production constants remain full MaleCNS.
|
||||||
|
self.patches = [mock.patch.object(P, "N", 3), mock.patch.object(P, "E", 6), mock.patch.object(P, "N_KC", 2)]
|
||||||
|
for patch in self.patches:
|
||||||
|
patch.start()
|
||||||
|
self.addCleanup(patch.stop)
|
||||||
|
|
||||||
|
def compare(self, reference, light, requests):
|
||||||
|
return P.compare_epoch_pair(reference, light, expected_requests=requests,
|
||||||
|
expected_steps=64, expected_effective_weight_sha256="e" * 64)
|
||||||
|
|
||||||
|
def test_exact_actual_arrays_with_explicit_light_limits(self):
|
||||||
|
reference, light, requests = pair()
|
||||||
|
report = self.compare(reference, light, requests)
|
||||||
|
self.assertTrue(report["pass_all"], report["failed_checks"])
|
||||||
|
self.assertTrue(report["numerical_exact"])
|
||||||
|
self.assertTrue(report["nonvacuous_activity"])
|
||||||
|
self.assertFalse(report["light_intermediate_states_observed"])
|
||||||
|
self.assertFalse(report["light_per_tick_V_g_ref_identity_claimed"])
|
||||||
|
self.assertEqual(report["recorded_pair_availability"],
|
||||||
|
{"APL_traces": False, "state_hashes": False, "queue_hashes": False})
|
||||||
|
self.assertFalse(report["external_file_seals_process_and_input_authority_verified_here"])
|
||||||
|
self.assertFalse(report["learning_pass_claimed"])
|
||||||
|
self.assertFalse(report["candidate_generated"])
|
||||||
|
json.dumps(report, allow_nan=False)
|
||||||
|
|
||||||
|
def test_equal_quiet_records_are_not_new_activity_or_learning_pass(self):
|
||||||
|
reference, light, requests = pair(active=False)
|
||||||
|
report = self.compare(reference, light, requests)
|
||||||
|
self.assertTrue(report["numerical_exact"])
|
||||||
|
self.assertFalse(report["nonvacuous_activity"])
|
||||||
|
self.assertTrue(report["activity_is_descriptive_not_a_new_gate"])
|
||||||
|
self.assertFalse(report["learning_pass_claimed"])
|
||||||
|
|
||||||
|
def test_signed_zero_final_voltage_difference_fails(self):
|
||||||
|
reference, light, requests = pair()
|
||||||
|
light["state"]["g"][0] = np.float64(0.)
|
||||||
|
report = self.compare(reference, light, requests)
|
||||||
|
self.assertFalse(report["pass_all"])
|
||||||
|
self.assertIn("pair.state.g", report["failed_checks"])
|
||||||
|
|
||||||
|
def test_equal_but_wrong_original_requests_fail(self):
|
||||||
|
reference, light, requests = pair()
|
||||||
|
wrong = requests.copy()
|
||||||
|
wrong[0, 1] = 1
|
||||||
|
report = self.compare(reference, light, wrong)
|
||||||
|
self.assertFalse(report["pass_all"])
|
||||||
|
self.assertIn("reference.input_request_array", report["failed_checks"])
|
||||||
|
self.assertIn("light.input_request_array", report["failed_checks"])
|
||||||
|
|
||||||
|
def test_reference_missing_diagnostics_cannot_be_excused_by_light(self):
|
||||||
|
for key in ("traces", "state_hashes", "queues"):
|
||||||
|
with self.subTest(key=key):
|
||||||
|
reference, light, requests = pair()
|
||||||
|
reference[key] = {} if key == "traces" else None
|
||||||
|
report = self.compare(reference, light, requests)
|
||||||
|
self.assertFalse(report["pass_all"])
|
||||||
|
self.assertIn("reference.full_diagnostics", report["failed_checks"])
|
||||||
|
|
||||||
|
def test_partial_or_corrupt_array_schema_fails_closed(self):
|
||||||
|
reference, light, requests = pair()
|
||||||
|
del reference["traces"]["drive"]
|
||||||
|
with self.assertRaises(ValueError):
|
||||||
|
self.compare(reference, light, requests)
|
||||||
|
reference, light, requests = pair()
|
||||||
|
light["state"]["v"][0] = np.nan
|
||||||
|
with self.assertRaises(ValueError):
|
||||||
|
self.compare(reference, light, requests)
|
||||||
|
|
||||||
|
def test_reported_modes_population_delay_and_scope_fail_closed(self):
|
||||||
|
mutations = (("nodes", 2), ("edges", 7), ("apl_delay_steps", 17),
|
||||||
|
("diagnostic_mode", "reference"), ("first_failure_tick", 0),
|
||||||
|
("within_trial_weight_updates", True), ("explicit_steps_executed", 63),
|
||||||
|
("all_finite", 1), ("parent_checkpoint_manifest_sha256", "f" * 64))
|
||||||
|
for key, value in mutations:
|
||||||
|
with self.subTest(key=key):
|
||||||
|
reference, light, requests = pair()
|
||||||
|
light["summary"][key] = value
|
||||||
|
self.assertFalse(self.compare(reference, light, requests)["pass_all"])
|
||||||
|
|
||||||
|
def test_effective_weight_and_base_coefficient_hash_binding(self):
|
||||||
|
for mutation in ("effective", "base_weights.npy", "coefficients.json"):
|
||||||
|
with self.subTest(mutation=mutation):
|
||||||
|
reference, light, requests = pair()
|
||||||
|
if mutation == "effective":
|
||||||
|
for record in (reference, light):
|
||||||
|
record["summary"]["effective_weights_raw_sha256"] = "f" * 64
|
||||||
|
else:
|
||||||
|
light["summary"]["input_sha256"][mutation] = "f" * 64
|
||||||
|
self.assertFalse(self.compare(reference, light, requests)["pass_all"])
|
||||||
|
|
||||||
|
def test_performance_is_not_compared_and_path_only_spec_identity_is_external(self):
|
||||||
|
reference, light, requests = pair()
|
||||||
|
reference["summary"].update(wall_seconds=1., peak_allocated_vram_bytes=1)
|
||||||
|
light["summary"].update(wall_seconds=99., peak_allocated_vram_bytes=999)
|
||||||
|
light["summary"]["input_sha256"]["spec.json"] = "f" * 64
|
||||||
|
report = self.compare(reference, light, requests)
|
||||||
|
self.assertTrue(report["pass_all"])
|
||||||
|
self.assertFalse(report["external_file_seals_process_and_input_authority_verified_here"])
|
||||||
|
|
||||||
|
def test_declared_light_full_diagnostics_or_derived_terminal_is_rejected(self):
|
||||||
|
for mutation in ("recorded", "origin"):
|
||||||
|
reference, light, requests = pair()
|
||||||
|
if mutation == "recorded":
|
||||||
|
light["summary"]["full_tick_state_hashes_recorded"] = True
|
||||||
|
else:
|
||||||
|
light["terminal_origin"] = "AM_spike_ring_derived_from_fresh_events_APL_bits_from_timing"
|
||||||
|
self.assertFalse(self.compare(reference, light, requests)["pass_all"])
|
||||||
|
|
||||||
|
def test_actual_summary_accounting_cannot_be_self_reported_wrong(self):
|
||||||
|
for key in ("requested", "accepted_requests", "rejected_requests", "total_spikes", "arriving_edges", "accepted_arriving_edges"):
|
||||||
|
with self.subTest(key=key):
|
||||||
|
reference, light, requests = pair()
|
||||||
|
light["summary"][key] += 1
|
||||||
|
self.assertFalse(self.compare(reference, light, requests)["pass_all"])
|
||||||
|
|
||||||
|
def test_invalid_planned_request_seed_arrays_are_not_silently_coerced(self):
|
||||||
|
reference, light, requests = pair()
|
||||||
|
for bad in (requests.astype(np.int64), requests[::-1], np.concatenate((requests[:1], requests))):
|
||||||
|
with self.assertRaises(ValueError):
|
||||||
|
self.compare(reference, light, bad)
|
||||||
|
with self.assertRaises(ValueError):
|
||||||
|
P.compare_epoch_pair(reference, light, expected_requests=requests, expected_steps=True,
|
||||||
|
expected_effective_weight_sha256="e" * 64)
|
||||||
|
|
||||||
|
|
||||||
|
class DeltaBindingTests(unittest.TestCase):
|
||||||
|
def audit(self, values):
|
||||||
|
before, after, installed, receipt, manifest = values
|
||||||
|
return P.audit_delta_binding(before, after, installed, update_receipt=receipt,
|
||||||
|
parent_snapshot_sha256="3" * 64, child_manifest=manifest)
|
||||||
|
|
||||||
|
def test_exact_array_binding_preserves_explicit_external_authority_limits(self):
|
||||||
|
values = delta_fixture()
|
||||||
|
for value in values[:3]:
|
||||||
|
value.setflags(write=False)
|
||||||
|
original = [value.tobytes() for value in values[:3]]
|
||||||
|
result = self.audit(values)
|
||||||
|
self.assertTrue(result["pass_all"], result["failed_checks"])
|
||||||
|
self.assertEqual(result["actual_changed_edges"], 1)
|
||||||
|
for name in ("eligibility_v2_independently_recomputed_here", "full_mask_identity_verified_here",
|
||||||
|
"file_bytes_and_parent_snapshot_authority_verified_here", "installation_in_runtime_verified_here",
|
||||||
|
"actual_DAN_delivery_verified_here", "learning_pass_claimed"):
|
||||||
|
self.assertFalse(result[name])
|
||||||
|
self.assertEqual([value.tobytes() for value in values[:3]], original)
|
||||||
|
json.dumps(result, allow_nan=False)
|
||||||
|
|
||||||
|
def test_parent_overlay_file_sha_is_not_raw_delta_or_checkpoint_sha(self):
|
||||||
|
values = delta_fixture()
|
||||||
|
self.assertNotEqual(values[4]["overlay_sha256"], P._evidence(values[1])["raw_c_order_sha256"])
|
||||||
|
self.assertTrue(self.audit(values)["pass_all"])
|
||||||
|
for false_parent in (P._evidence(values[0])["raw_c_order_sha256"], "4" * 64):
|
||||||
|
values[4]["parent_snapshot_sha256"] = false_parent
|
||||||
|
result = self.audit(values)
|
||||||
|
self.assertFalse(result["pass_all"])
|
||||||
|
self.assertIn("manifest.parent_overlay_file_sha", result["failed_checks"])
|
||||||
|
|
||||||
|
def test_installed_delta_signed_zero_and_row_mutation_rejected(self):
|
||||||
|
for mutation in ("zero", "row"):
|
||||||
|
values = delta_fixture()
|
||||||
|
if mutation == "zero":
|
||||||
|
values[2][0] = np.float32(-0.)
|
||||||
|
else:
|
||||||
|
values[2][1], values[2][2] = values[2][2], values[2][1]
|
||||||
|
result = self.audit(values)
|
||||||
|
self.assertFalse(result["pass_all"])
|
||||||
|
self.assertIn("computed_installed_delta_bitwise", result["failed_checks"])
|
||||||
|
|
||||||
|
def test_rehashed_receipt_must_still_bind_supplied_arrays(self):
|
||||||
|
for location, key in (("input_arrays", "delta_before"), ("outputs", "delta_after")):
|
||||||
|
values = delta_fixture()
|
||||||
|
values[3][location][key]["raw_c_order_sha256"] = "f" * 64
|
||||||
|
rehash(values[3])
|
||||||
|
result = self.audit(values)
|
||||||
|
self.assertFalse(result["pass_all"])
|
||||||
|
self.assertIn("receipt." + key, result["failed_checks"])
|
||||||
|
|
||||||
|
def test_rehashed_false_count_and_boolean_integer_ambiguity_rejected(self):
|
||||||
|
for field, value in (("actual_bitwise_changed_edges", 2), ("actual_value_changed_edges", True), ("candidates", float(P.CANDIDATE_COUNT))):
|
||||||
|
values = delta_fixture()
|
||||||
|
values[3]["counts"][field] = value
|
||||||
|
rehash(values[3])
|
||||||
|
self.assertFalse(self.audit(values)["pass_all"])
|
||||||
|
|
||||||
|
def test_stale_receipt_or_changed_frozen_rule_manifest_rejected(self):
|
||||||
|
for mutation in ("hash", "v2", "mask", "AMhelper", "extra", "wrong_name"):
|
||||||
|
values = delta_fixture()
|
||||||
|
if mutation == "hash":
|
||||||
|
values[3]["payload_sha256"] = "0" * 64
|
||||||
|
elif mutation == "extra":
|
||||||
|
values[4]["unregistered_override"] = True
|
||||||
|
elif mutation == "wrong_name":
|
||||||
|
values[4]["overlay_name"] = "static25"
|
||||||
|
else:
|
||||||
|
key = {"v2": "eligibility_v2_source_sha256", "mask": "mask_sha256", "AMhelper": "am_overlay_sha256"}[mutation]
|
||||||
|
values[4][key] = "0" * 64
|
||||||
|
self.assertFalse(self.audit(values)["pass_all"])
|
||||||
|
|
||||||
|
def test_zero_D_and_frozen_require_exact_no_update_including_signed_zero(self):
|
||||||
|
for mode in ("D0", "frozen"):
|
||||||
|
values = delta_fixture()
|
||||||
|
values[3]["command"]["D_scheduled" if mode == "D0" else "frozen"] = 0.0 if mode == "D0" else True
|
||||||
|
rehash(values[3])
|
||||||
|
result = self.audit(values)
|
||||||
|
self.assertFalse(result["pass_all"])
|
||||||
|
self.assertIn("zero_D_or_frozen_identity", result["failed_checks"])
|
||||||
|
values[1][:] = values[0]
|
||||||
|
values[2][:] = values[0]
|
||||||
|
values[3]["outputs"]["delta_after"] = P._evidence(values[1])
|
||||||
|
values[3]["counts"].update(actual_value_changed_edges=0, actual_bitwise_changed_edges=0)
|
||||||
|
rehash(values[3])
|
||||||
|
self.assertTrue(self.audit(values)["pass_all"])
|
||||||
|
|
||||||
|
def test_actual_DAN_or_immediate_US_update_claim_does_not_match_interface(self):
|
||||||
|
for field, value in (("actual_DAN_delivery_used_to_gate", True), ("actual_DAN_delivery_observed", True),
|
||||||
|
("application", "at US tick"), ("delta_units", "V")):
|
||||||
|
values = delta_fixture()
|
||||||
|
values[3]["semantics"][field] = value
|
||||||
|
rehash(values[3])
|
||||||
|
self.assertFalse(self.audit(values)["pass_all"])
|
||||||
|
|
||||||
|
def test_wrong_dtype_shape_nonfinite_or_positive_delta_rejected(self):
|
||||||
|
values = delta_fixture()
|
||||||
|
with self.assertRaises(ValueError):
|
||||||
|
P.audit_delta_binding(values[0].astype(np.float64), values[1], values[2], update_receipt=values[3],
|
||||||
|
parent_snapshot_sha256="3" * 64, child_manifest=values[4])
|
||||||
|
values = list(delta_fixture())
|
||||||
|
values[0] = values[0][:-1]
|
||||||
|
with self.assertRaises(ValueError):
|
||||||
|
self.audit(values)
|
||||||
|
values = delta_fixture()
|
||||||
|
values[0][0] = np.nan
|
||||||
|
with self.assertRaises(ValueError):
|
||||||
|
self.audit(values)
|
||||||
|
values = delta_fixture()
|
||||||
|
values[1][1] = values[2][1] = np.float32(.001)
|
||||||
|
values[3]["outputs"]["delta_after"] = P._evidence(values[1])
|
||||||
|
rehash(values[3])
|
||||||
|
result = self.audit(values)
|
||||||
|
self.assertFalse(result["pass_all"])
|
||||||
|
self.assertIn("delta.nonpositive", result["failed_checks"])
|
||||||
|
|
||||||
|
|
||||||
|
if __name__ == "__main__":
|
||||||
|
unittest.main()
|
||||||
+229
@@ -0,0 +1,229 @@
|
|||||||
|
"""Pure/synthetic preflight tests: no actual rates, CUDA draws, or brain run."""
|
||||||
|
import copy
|
||||||
|
import hashlib
|
||||||
|
import io
|
||||||
|
import json
|
||||||
|
from pathlib import Path
|
||||||
|
import tempfile
|
||||||
|
import types
|
||||||
|
import unittest
|
||||||
|
from unittest.mock import patch
|
||||||
|
|
||||||
|
import numpy as np
|
||||||
|
import pandas as pd
|
||||||
|
|
||||||
|
import conditioning_preflight_inputs as p
|
||||||
|
|
||||||
|
|
||||||
|
def synthetic_tables():
|
||||||
|
names = ['synthetic-' + str(i) for i in range(12)]
|
||||||
|
names[6], names[7] = '4-ethylphenol', '3-hexanone'
|
||||||
|
ids = ['synthetic-id-' + str(i) for i in range(12)]
|
||||||
|
panel = pd.DataFrame(dict(odor_id=ids, odor_name=names,
|
||||||
|
split=['calibration'] * 6 + ['heldout'] * 6, mapped_response_sum=np.arange(1, 13, dtype=float),
|
||||||
|
formal_label=[''] * 6 + ['ODOR_A', 'ODOR_B'] + [''] * 4))
|
||||||
|
selection = dict(selected_before_KC_simulation=True, glomeruli_order=['G2', 'G1'],
|
||||||
|
ODOR_A=dict(odor_id=ids[6], odor_name=names[6]), ODOR_B=dict(odor_id=ids[7], odor_name=names[7]))
|
||||||
|
vectors = {oid: np.array([.5, .25], np.float32) for oid in ids}
|
||||||
|
mapping = pd.DataFrame(dict(glomerulus=['G2', 'G2', 'G2', 'G1', 'G1'],
|
||||||
|
mapping_confidence=['exact', 'alias-normalized', 'exact', 'exact', 'unmatched'],
|
||||||
|
neuron_idx=[19., 3., 19., 8., 100.]))
|
||||||
|
config = dict(odor_encoder=dict(max_total_rate_per_glomerulus_hz=400., modes=['physiological', 'matched_energy']))
|
||||||
|
return selection, panel, vectors, mapping, config
|
||||||
|
|
||||||
|
|
||||||
|
def sparse(rows):
|
||||||
|
values = np.asarray(rows, np.int32).reshape(-1, 2)
|
||||||
|
return {'tick': values[:, 0].copy(), 'neuron_idx': values[:, 1].copy()}
|
||||||
|
|
||||||
|
|
||||||
|
class PreflightTests(unittest.TestCase):
|
||||||
|
@classmethod
|
||||||
|
def setUpClass(cls):
|
||||||
|
cls.plan = p.build_preflight_plan()
|
||||||
|
cls.epoch = cls.plan['selected_epochs'][0]
|
||||||
|
source_parent = Path(__file__).resolve().parent.parent
|
||||||
|
candidates = (source_parent / 'phase4l.py', source_parent / 'models/male-cns-lif/phase4l.py')
|
||||||
|
path = next((candidate for candidate in candidates if candidate.is_file()), None)
|
||||||
|
if path is None:
|
||||||
|
raise FileNotFoundError('Pinned L source missing at both known server/local paths: ' + repr(candidates))
|
||||||
|
cls.source_raw = path.read_bytes()
|
||||||
|
if hashlib.sha256(cls.source_raw).hexdigest() != p.SOURCE_PINS[p.SOURCE_REL]:
|
||||||
|
raise ValueError('Selected server/local L source differs from the frozen SHA')
|
||||||
|
cls.drive, cls.ast_sha = p._extract_drive(cls.source_raw, str(path))
|
||||||
|
cls.tables, _ = p._rate_tables(*synthetic_tables(), cls.drive)
|
||||||
|
|
||||||
|
def test_fixed_full_plan_master_first_two_real_epochs_and_12_calls(self):
|
||||||
|
full = self.plan['full_trial_plan']
|
||||||
|
self.assertEqual(full['plan']['master'], 20260930)
|
||||||
|
self.assertEqual(full['payload_sha256'], 'a8e8620875e8213f3cc3b4f153fc5c06e1351bf1d91c7edaf4f18c1e2cdef62e')
|
||||||
|
self.assertEqual([e['epoch_index'] for e in self.plan['selected_epochs']], [0, 1])
|
||||||
|
self.assertEqual([e['cs']['cue'] for e in self.plan['selected_epochs']], ['A', 'A'])
|
||||||
|
self.assertEqual([e['cs']['seed'] for e in self.plan['selected_epochs']], [5717173809506784725, 4342084263790487177])
|
||||||
|
self.assertTrue(all(e['us']['requested'] for e in self.plan['selected_epochs']))
|
||||||
|
self.assertEqual(self.plan['total_calls'], 12)
|
||||||
|
self.assertEqual(sum(r['steps'] for r in self.plan['calls']), 14400)
|
||||||
|
self.assertEqual(len({r['row_id'] for r in self.plan['calls']}), 12)
|
||||||
|
self.assertFalse(self.plan['complete_conditioning_authorized'])
|
||||||
|
|
||||||
|
def test_plan_rows_share_inputs_but_keep_D_and_freeze_distinct(self):
|
||||||
|
for row in self.plan['calls']:
|
||||||
|
self.assertEqual(row['epoch_id'], self.plan['selected_epochs'][row['input_epoch_index']]['epoch_id'])
|
||||||
|
self.assertEqual(row['d_command'], 0. if row['arm'] == 'D0' else 1.)
|
||||||
|
self.assertEqual(row['frozen'], row['arm'] == 'frozen')
|
||||||
|
self.assertEqual(row['previous_delta_row_id'], None if row['input_epoch_index'] == 0 else
|
||||||
|
f"{row['arm']}--{row['diagnostic_mode']}--epoch-000")
|
||||||
|
self.assertEqual(self.plan['input_generation_calls'], 2)
|
||||||
|
|
||||||
|
def test_whole_plan_validator_rejects_wrong_master_and_row_mutation(self):
|
||||||
|
# Reuse an already independently rebuilt expected fixture here; the
|
||||||
|
# production validator calls its full builder, not a count-only gate.
|
||||||
|
with patch.object(p, 'build_preflight_plan', return_value=self.plan) as rebuild:
|
||||||
|
self.assertTrue(p.validate_preflight_plan(copy.deepcopy(self.plan)))
|
||||||
|
bad = copy.deepcopy(self.plan); bad['master'] = 461
|
||||||
|
with self.assertRaises(ValueError): p.validate_preflight_plan(bad)
|
||||||
|
bad = copy.deepcopy(self.plan); bad['calls'][0]['d_command'] = 0.
|
||||||
|
with self.assertRaises(ValueError): p.validate_preflight_plan(bad)
|
||||||
|
self.assertEqual(rebuild.call_count, 3)
|
||||||
|
|
||||||
|
def test_actual_frozen_function_AST_preserves_mapping_order_rates_and_dtype(self):
|
||||||
|
table = self.tables['A']
|
||||||
|
np.testing.assert_array_equal(table['targets'], [19, 3, 8])
|
||||||
|
self.assertEqual(table['targets'].dtype, np.int32)
|
||||||
|
np.testing.assert_array_equal(table['rates_hz'], np.array([100, 100, 100], np.float32))
|
||||||
|
self.assertEqual(table['source_panel_row'], 6)
|
||||||
|
self.assertEqual(table['source_panel_split'], 'heldout') # original static label only
|
||||||
|
self.assertFalse(table['targets'].flags.writeable)
|
||||||
|
self.assertFalse(table['rates_hz'].flags.writeable)
|
||||||
|
self.assertEqual(hashlib.sha256(self.source_raw).hexdigest(), p.SOURCE_PINS[p.SOURCE_REL])
|
||||||
|
self.assertEqual(len(self.ast_sha), 64)
|
||||||
|
|
||||||
|
def test_static_mapping_fails_closed_on_selection_order_schema_or_duplicate_PN(self):
|
||||||
|
for kind in ('name', 'split', 'vector', 'duplicate'):
|
||||||
|
args = list(synthetic_tables())
|
||||||
|
if kind == 'name': args[0]['ODOR_A']['odor_name'] = 'different'
|
||||||
|
if kind == 'split': args[1].loc[0, 'split'] = 'heldout'
|
||||||
|
if kind == 'vector': args[2][args[0]['ODOR_A']['odor_id']] = np.array([np.nan, .25], np.float32)
|
||||||
|
if kind == 'duplicate': args[3].loc[3, 'neuron_idx'] = 19.
|
||||||
|
with self.assertRaises(ValueError): p._rate_tables(*args, type(self).drive)
|
||||||
|
|
||||||
|
def test_loader_checks_all_static_bytes_then_uses_original_AST_no_old_import(self):
|
||||||
|
selection, panel, vectors, mapping, config = synthetic_tables()
|
||||||
|
buffer = io.BytesIO(); np.savez(buffer, glomeruli=np.array(selection['glomeruli_order']), **vectors)
|
||||||
|
payload = {
|
||||||
|
p.SOURCE_REL: self.source_raw, p.CONFIG_REL: json.dumps(config).encode(),
|
||||||
|
p.STATIC + 'odor-encoder/frozen-odor-panel.parquet': b'SYNTHETIC-PANEL',
|
||||||
|
p.STATIC + 'odor-encoder/mapped-glomerular-vectors.npz': buffer.getvalue(),
|
||||||
|
p.STATIC + 'odor-encoder/selection.json': json.dumps(selection).encode(),
|
||||||
|
p.STATIC + 'receptor-mapping/olfactory-mapping.parquet': b'SYNTHETIC-MAPPING',
|
||||||
|
}
|
||||||
|
pins = {k: hashlib.sha256(v).hexdigest() for k, v in payload.items()}
|
||||||
|
with tempfile.TemporaryDirectory() as td:
|
||||||
|
for name, raw in payload.items():
|
||||||
|
target = Path(td) / name; target.parent.mkdir(parents=True, exist_ok=True); target.write_bytes(raw)
|
||||||
|
# Synthetic config is JSON (a YAML subset); local runtime lacks
|
||||||
|
# PyYAML. This mocks parsing only, not any scientific input/RNG.
|
||||||
|
yaml_mock = types.SimpleNamespace(safe_load=json.loads)
|
||||||
|
with patch.object(p, 'SOURCE_PINS', pins), patch.object(pd, 'read_parquet', side_effect=[panel, mapping]), \
|
||||||
|
patch.dict('sys.modules', {'yaml': yaml_mock}):
|
||||||
|
result = p.load_rate_tables(td)
|
||||||
|
self.assertEqual(result['audit']['static_sources'], pins)
|
||||||
|
self.assertFalse(result['audit']['historical_dynamic_results_read'])
|
||||||
|
self.assertEqual(result['audit']['random_draws'], 0)
|
||||||
|
self.assertEqual(result['tables']['B']['odor_name'], '3-hexanone')
|
||||||
|
(Path(td) / p.CONFIG_REL).write_bytes(b'CHANGED')
|
||||||
|
with patch.object(p, 'SOURCE_PINS', pins), patch.object(pd, 'read_parquet') as parse, \
|
||||||
|
patch.dict('sys.modules', {'yaml': yaml_mock}), self.assertRaises(ValueError):
|
||||||
|
p.load_rate_tables(td)
|
||||||
|
parse.assert_not_called()
|
||||||
|
|
||||||
|
def test_generate_delegates_full_shape_full_seed_and_shared_US_without_real_draw(self):
|
||||||
|
fake = dict(requests=sparse([[2, 19], [999, 8]]), audit={'synthetic_sampler': True})
|
||||||
|
dan = np.array([80, 90], np.int32)
|
||||||
|
with patch.object(p.inputs, 'generate_cs_requests', return_value=fake) as sampler:
|
||||||
|
result = p.generate_epoch_inputs(self.epoch, self.tables, dan, device='cuda:1', max_uniform_draws=3600)
|
||||||
|
args, kwargs = sampler.call_args
|
||||||
|
self.assertIs(args[0], self.tables['A']['targets'])
|
||||||
|
self.assertEqual(kwargs, dict(seed=5717173809506784725, steps=1200, cs_start_tick=0, cs_stop_tick=1000,
|
||||||
|
device='cuda:1', max_uniform_draws=3600))
|
||||||
|
np.testing.assert_array_equal(result['requests']['tick'], [2, 900, 900, 999])
|
||||||
|
np.testing.assert_array_equal(result['requests']['neuron_idx'], [19, 80, 90, 8])
|
||||||
|
self.assertTrue(result['audit']['US_shared_across_arms'])
|
||||||
|
self.assertFalse(result['audit']['brain_reset_called'])
|
||||||
|
|
||||||
|
def test_explicit_conflict_union_and_default_error_preserve_US_attempts(self):
|
||||||
|
fake = dict(requests=sparse([[900, 19]]), audit={'synthetic_sampler': True})
|
||||||
|
with patch.object(p.inputs, 'generate_cs_requests', return_value=fake):
|
||||||
|
with self.assertRaises(p.inputs.RequestConflictError):
|
||||||
|
p.generate_epoch_inputs(self.epoch, self.tables, np.array([19], np.int32), device='cuda:0', max_uniform_draws=3600)
|
||||||
|
value = p.generate_epoch_inputs(self.epoch, self.tables, np.array([19], np.int32),
|
||||||
|
device='cuda:0', max_uniform_draws=3600, conflict_policy='boolean_union')
|
||||||
|
self.assertEqual(value['audit']['composition']['cross_source_conflict_count'], 1)
|
||||||
|
np.testing.assert_array_equal(value['source_mask'], [3])
|
||||||
|
|
||||||
|
def test_no_US_epoch_still_draws_CS_but_no_DAN_pulse(self):
|
||||||
|
epoch = copy.deepcopy(self.epoch)
|
||||||
|
epoch['us'].update(requested=False, tick=None, request_rule='none'); epoch['D_command'] = 0.
|
||||||
|
with patch.object(p.inputs, 'generate_cs_requests', return_value=dict(requests=sparse([]), audit={})):
|
||||||
|
value = p.generate_epoch_inputs(epoch, self.tables, np.array([80], np.int32), device='cuda:0', max_uniform_draws=3600)
|
||||||
|
self.assertEqual(len(value['us_requests']['tick']), 0)
|
||||||
|
|
||||||
|
def test_invalid_targets_and_mutated_rates_rejected_before_sampling(self):
|
||||||
|
with patch.object(p.inputs, 'generate_cs_requests') as sampler:
|
||||||
|
for dan in (np.array([2, 2], np.int32), np.array([9, 2], np.int32), np.array([], np.int32), np.array([2], np.int64)):
|
||||||
|
with self.assertRaises(ValueError):
|
||||||
|
p.generate_epoch_inputs(self.epoch, self.tables, dan, device='cuda:0', max_uniform_draws=3600)
|
||||||
|
tables = copy.deepcopy(self.tables); tables['A']['rates_hz'][0] = 3.
|
||||||
|
with self.assertRaises(ValueError):
|
||||||
|
p.generate_epoch_inputs(self.epoch, tables, np.array([80], np.int32), device='cuda:0', max_uniform_draws=3600)
|
||||||
|
sampler.assert_not_called()
|
||||||
|
|
||||||
|
def original_spec(self):
|
||||||
|
return dict(name='old-case', kind='fullgraph', steps=1000, dt_ms=.1, duration_ms=100.,
|
||||||
|
model={'immutable': 'synthetic model'}, graph_dir='/old/graph', apl_bundle_dir='/old/apl',
|
||||||
|
coefficients_path='/old/coeff.json', science_python='/old/venv/bin/python',
|
||||||
|
apl_delay_steps=18, precision='float64', apl_precision='float32', record_history=False,
|
||||||
|
training=False, validation_cohort='old_cohort', odor_index=0, expected_external_events=123.,
|
||||||
|
odor_id='old-id', odor_name='old-name', source_panel_row=0, source_panel_split='calibration',
|
||||||
|
rate_sum_hz=999., target_count=100, seed=22, budget_root='/old/experiment', output_budget_bytes=100)
|
||||||
|
|
||||||
|
def test_derive_spec_changes_only_explicit_input_scope_and_clock_budget_fields(self):
|
||||||
|
old = self.original_spec(); before = copy.deepcopy(old)
|
||||||
|
value, audit = p.derive_case_spec(old, self.plan['calls'][0], self.epoch, self.tables['A'],
|
||||||
|
brain_reset_seed=20260930, budget_root='/new/preflight', output_budget_bytes=10000)
|
||||||
|
self.assertEqual(old, before)
|
||||||
|
self.assertEqual((value['steps'], value['duration_ms'], value['max_steps']), (1200, 120., 1200))
|
||||||
|
self.assertEqual(value['seed'], 20260930)
|
||||||
|
self.assertEqual(value['cs_input_seed'], 5717173809506784725)
|
||||||
|
for key in ('model', 'graph_dir', 'apl_bundle_dir', 'coefficients_path', 'science_python'):
|
||||||
|
self.assertEqual(value[key], old[key])
|
||||||
|
self.assertFalse(value['within_trial_weight_updates'])
|
||||||
|
self.assertEqual(value['odor_name'], '4-ethylphenol')
|
||||||
|
self.assertNotIn('validation_cohort', value); self.assertNotIn('training', value)
|
||||||
|
self.assertEqual(set(audit['removed_stale_input_metadata']), {'validation_cohort', 'training', 'odor_index', 'expected_external_events'})
|
||||||
|
self.assertFalse(audit['full_conditioning_authorized'])
|
||||||
|
json.dumps(audit, allow_nan=False)
|
||||||
|
|
||||||
|
def test_seed_or_neural_continuation_or_budget_alias_invalid(self):
|
||||||
|
args = dict(brain_reset_seed=3, budget_root='/new/preflight', output_budget_bytes=10000)
|
||||||
|
for seed in (-1, 2**31, self.epoch['cs']['seed'], True, np.int32(3)):
|
||||||
|
with self.assertRaises(ValueError):
|
||||||
|
p.derive_case_spec(self.original_spec(), self.plan['calls'][0], self.epoch, self.tables['A'], **{**args, 'brain_reset_seed': seed})
|
||||||
|
for root in ('/old/experiment/new', '/old', '/new/../old', 'relative'):
|
||||||
|
with self.assertRaises(ValueError):
|
||||||
|
p.derive_case_spec(self.original_spec(), self.plan['calls'][0], self.epoch, self.tables['A'], **{**args, 'budget_root': root})
|
||||||
|
old = self.original_spec(); old['parent_checkpoint_manifest_sha256'] = 'a' * 64
|
||||||
|
with self.assertRaises(ValueError): p.derive_case_spec(old, self.plan['calls'][0], self.epoch, self.tables['A'], **args)
|
||||||
|
|
||||||
|
def test_row_command_mismatch_and_rate_label_mismatch_fail_closed(self):
|
||||||
|
row = copy.deepcopy(self.plan['calls'][0]); row['d_command'] = 0.
|
||||||
|
with self.assertRaises(ValueError):
|
||||||
|
p.derive_case_spec(self.original_spec(), row, self.epoch, self.tables['A'],
|
||||||
|
brain_reset_seed=3, budget_root='/new/preflight', output_budget_bytes=10000)
|
||||||
|
with self.assertRaises(ValueError):
|
||||||
|
p.derive_case_spec(self.original_spec(), self.plan['calls'][0], self.epoch, self.tables['B'],
|
||||||
|
brain_reset_seed=3, budget_root='/new/preflight', output_budget_bytes=10000)
|
||||||
|
|
||||||
|
|
||||||
|
if __name__ == '__main__':
|
||||||
|
unittest.main()
|
||||||
+109
@@ -0,0 +1,109 @@
|
|||||||
|
"""CPU-only coordinator contract tests; no real brain/input sampling."""
|
||||||
|
import ast
|
||||||
|
from pathlib import Path
|
||||||
|
import tempfile
|
||||||
|
import unittest
|
||||||
|
from unittest.mock import patch
|
||||||
|
|
||||||
|
import numpy as np
|
||||||
|
|
||||||
|
import conditioning_preflight_prepare as P
|
||||||
|
import conditioning_preflight_workflow as W
|
||||||
|
|
||||||
|
|
||||||
|
class CoordinatorTests(unittest.TestCase):
|
||||||
|
def test_npz_exclusive_roundtrip(self):
|
||||||
|
with tempfile.TemporaryDirectory() as d:
|
||||||
|
path = Path(d) / 'x.npz'
|
||||||
|
a = np.asarray([0, 3], np.int32)
|
||||||
|
P.save_npz(path, tick=a)
|
||||||
|
self.assertEqual(W.npz(path)['tick'].tobytes(), a.tobytes())
|
||||||
|
with self.assertRaises(FileExistsError): P.save_npz(path, tick=a)
|
||||||
|
|
||||||
|
def test_exact_pins_and_mutation(self):
|
||||||
|
with tempfile.TemporaryDirectory() as d:
|
||||||
|
p = Path(d) / 'input'
|
||||||
|
p.write_bytes(b'original')
|
||||||
|
pins = {str(p): P.digest(p)}
|
||||||
|
P.verify_pins(pins)
|
||||||
|
p.write_bytes(b'changed')
|
||||||
|
with self.assertRaisesRegex(ValueError, 'Pinned file'): P.verify_pins(pins)
|
||||||
|
|
||||||
|
def test_rows_exact_unique(self):
|
||||||
|
row = dict(row_id='D1--reference--epoch-000')
|
||||||
|
self.assertEqual(W.row_by({'plan': {'calls': [row]}}, row['row_id']), row)
|
||||||
|
for rows in ([], [row, row]):
|
||||||
|
with self.assertRaises(ValueError): W.row_by({'plan': {'calls': rows}}, row['row_id'])
|
||||||
|
|
||||||
|
def test_locations_reject_path_traversal(self):
|
||||||
|
for value in ('../x', '/x', 'a/b', 'a\\b', '', None):
|
||||||
|
with self.assertRaises(ValueError): W.locations(value)
|
||||||
|
|
||||||
|
def test_plan_descriptor_avoids_huge_payload_duplication(self):
|
||||||
|
value = dict(full_trial_plan={'large': [1]}, payload_sha256='x', calls=[{'row_id': 'a'}])
|
||||||
|
self.assertEqual(P.plan_descriptor(value), {'calls': [{'row_id': 'a'}]})
|
||||||
|
self.assertIn('full_trial_plan', value)
|
||||||
|
|
||||||
|
def test_original_AST_rejects_unanchored_bytes(self):
|
||||||
|
with self.assertRaisesRegex(ValueError, 'L source changed'):
|
||||||
|
W.original_sampler_nodes(b'def run_rates(): pass')
|
||||||
|
|
||||||
|
def test_original_AST_if_local_frozen_source_available(self):
|
||||||
|
# Both repository checkout and local source mirror are supported; this
|
||||||
|
# test never reads historical dynamics or executes the extracted code.
|
||||||
|
candidates = [Path(__file__).resolve().parents[1] / 'phase4l.py',
|
||||||
|
Path(__file__).resolve().parents[1] / 'models/male-cns-lif/phase4l.py']
|
||||||
|
source = next((p for p in candidates if p.is_file()), None)
|
||||||
|
self.assertIsNotNone(source, 'Original L source required for actual AST extraction test')
|
||||||
|
nodes = W.original_sampler_nodes(source.read_bytes())
|
||||||
|
self.assertEqual(len(nodes), 4)
|
||||||
|
self.assertNotIn('reset', ast.unparse(ast.Module(body=nodes, type_ignores=[])))
|
||||||
|
|
||||||
|
def test_registration_external_hash_rejection_before_parse(self):
|
||||||
|
with tempfile.TemporaryDirectory() as d:
|
||||||
|
exp = Path(d); (exp / 'protocol').mkdir()
|
||||||
|
P.save(exp / 'protocol/preregistered.json', {'fake': True})
|
||||||
|
with patch.object(P, 'EXP', exp):
|
||||||
|
with self.assertRaisesRegex(ValueError, 'external anchor'):
|
||||||
|
P.read_registration('0' * 64)
|
||||||
|
|
||||||
|
def test_initial_overlay_has_no_parent_process_lookup(self):
|
||||||
|
expected = dict(overlay_file='/immutable/zero.npz', overlay_manifest='/immutable/zero.json')
|
||||||
|
self.assertIs(W.before_overlay({'initial_overlay': expected}, 'unused', {'previous_delta_row_id': None}), expected)
|
||||||
|
|
||||||
|
def test_wrong_parent_arm_rejected_before_runtime_read(self):
|
||||||
|
parent = dict(row_id='parent', arm='D0', diagnostic_mode='light', input_epoch_index=0)
|
||||||
|
child = dict(previous_delta_row_id='parent', arm='D1', diagnostic_mode='light', input_epoch_index=1)
|
||||||
|
with self.assertRaisesRegex(ValueError, 'cross-epoch'):
|
||||||
|
W.before_overlay({'plan': {'calls': [parent]}}, 'unused', child)
|
||||||
|
|
||||||
|
def test_budget_refuses_overrun_without_delete(self):
|
||||||
|
with tempfile.TemporaryDirectory() as d:
|
||||||
|
exp = Path(d); p = exp / 'keep'
|
||||||
|
p.write_bytes(b'1234')
|
||||||
|
with patch.object(W, 'EXP', exp):
|
||||||
|
with self.assertRaisesRegex(ValueError, 'Resource cap'):
|
||||||
|
W.budget({'budget': {'output_budget_bytes': 1, 'minimum_free_reserve_bytes': 1}})
|
||||||
|
self.assertEqual(p.read_bytes(), b'1234')
|
||||||
|
|
||||||
|
def test_partial_log_is_not_retried(self):
|
||||||
|
with tempfile.TemporaryDirectory() as d:
|
||||||
|
exp = Path(d); (exp / 'logs').mkdir()
|
||||||
|
(exp / 'logs/input-generation.stdout.log').write_bytes(b'partial')
|
||||||
|
with patch.object(W, 'EXP', exp), patch.object(W.subprocess, 'run') as run:
|
||||||
|
with self.assertRaisesRegex(ValueError, 'never retry'): W.child_process({}, 'sha', 'materialize')
|
||||||
|
run.assert_not_called()
|
||||||
|
|
||||||
|
def test_admission_blocks_stopped_complete_or_sealed(self):
|
||||||
|
with tempfile.TemporaryDirectory() as d:
|
||||||
|
exp = Path(d); (exp / 'audit').mkdir()
|
||||||
|
with patch.object(W, 'EXP', exp):
|
||||||
|
W.admission()
|
||||||
|
for name in ('audit/stopped.json', 'audit/execution-complete.json', 'manifest.json'):
|
||||||
|
p = exp / name; p.write_bytes(b'{}')
|
||||||
|
with self.assertRaisesRegex(ValueError, 'Stopped/completed'): W.admission()
|
||||||
|
p.unlink()
|
||||||
|
|
||||||
|
|
||||||
|
if __name__ == '__main__':
|
||||||
|
unittest.main()
|
||||||
Reference in New Issue
Block a user