Archive MaleCNS research sources, provenance, bibliography and immutable data inventory

2026-09-29 03:38:32 +08:00
commit 3981628ff8
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+phase: 4F
+names:
+  reference: MaleCNS-LIF-reference-v1
+  runtime: MaleCNS-LIF-runtime-v1
+  io_api: MaleCNS-BrainIO-v1
+  activity_stream: MaleCNS-ActivityStream-v1
+  encoder: MaleCNS-VisualEncoder-v1
+  candidate: MaleCNS-VisualEncoder-v1-candidate
+
+paths:
+  connectome_root: /data/digital-drosophila/datasets/male-cns-v1.0/processed/neuron-only
+  model_root: /data/digital-drosophila/models/male-cns-lif
+  reference_root: /data/digital-drosophila/models/male-cns-lif/reference-v1
+  runtime_root: /data/digital-drosophila/models/male-cns-lif/runtime-v1
+  io_root: /data/digital-drosophila/models/male-cns-lif/io-v1
+  phase4c_root: /data/digital-drosophila/experiments/phase4c-runtime
+  phase4d_root: /data/digital-drosophila/experiments/phase4d-io
+  phase4e_root: /data/digital-drosophila/experiments/phase4e-visual-calibration
+  experiment_root: /data/digital-drosophila/experiments/phase4f-retinotopic-vision
+  encoder_root: /data/digital-drosophila/models/male-cns-lif/visual-encoder-v1
+  external_root: /data/digital-drosophila/experiments/phase4f-retinotopic-vision/external-resources
+
+device:
+  required_name_substring: RTX 4090
+  launcher_visible_gpu_uuid: GPU-79f3a85d-adce-7833-7003-6488140ca596
+
+model:
+  dt_ms: 0.1
+  membrane_tau_ms: 20.0
+  synaptic_tau_ms: 5.0
+  refractory_ms: 2.2
+  resting_potential_mv: -52.0
+  reset_potential_mv: -52.0
+  threshold_mv: -45.0
+  synaptic_delay_ms: 1.8
+  w_syn_mv_per_anatomical_synapse: 0.275
+
+sign_policy:
+  neurotransmitter_sign: {acetylcholine: 1, gaba: -1, glutamate: -1, dopamine: 1, octopamine: 1, serotonin: 1, histamine: -1}
+  unknown_sign: 0
+  unclear_sign: 0
+
+official_resources:
+  visualpathways_commit: 23f6ac131529b5f56894c6eeb9b88b17894fc00d
+  celltype_explorer_commit: 789cc6c105798ce2fd70ba85dab394f90899616b
+  flyvis_commit: 92b3845cc426dd309a1a0e1b3890156c42e14021
+  retinotopy_tbar_url: https://storage.googleapis.com/flyem-male-cns/auxiliary-data/retinotopy-tbars/retinotopy_tbar_olr-2026-06-26.precomputed
+  paper_doi: 10.1016/j.cell.2026.08.014
+
+encoder:
+  trial_duration_ms: 100.0
+  temporal_segments: 5
+  targets_per_segment: 460
+  poisson_rate_hz: 50.0
+  external_drive_mv: 8.8
+  seeds: [46101, 46102, 46103]
+  flyvis_bridge:
+    geometry: regular axial hex lattice sized from official MaleCNS unique eye columns
+    coordinate_equations: exact public flyvis.utils.hex_utils get_hex_coords/hex_to_pixel default convention
+    channel_weights: {luminance: 1.0, on_change: 1.0, off_change: 1.0, temporal_motion: 0.5, horizontal_motion_tendency: 1.0, vertical_motion_tendency: 1.0}
+    target_expression: annotation_superclass in [visual_projection, visual_projection_tbc] with retinotopic coordinate
+  patterns:
+    - full-field
+    - left-spot
+    - right-spot
+    - upper-spot
+    - lower-spot
+    - left-to-right
+    - right-to-left
+    - up-to-down
+    - down-to-up
+    - looming
+    - sparse-moving-object
+    - static-object
+  matched_pairs:
+    - [left-spot, right-spot]
+    - [upper-spot, lower-spot]
+    - [left-to-right, right-to-left]
+    - [up-to-down, down-to-up]
+    - [looming, left-to-right]
+    - [sparse-moving-object, static-object]
+  runaway: {active_fraction_gte: 0.80, mean_firing_rate_hz_gte: 100.0, peak_step_fraction_gte: 0.10}
+
+success_gate:
+  minimum_separable_matched_pairs_in_descending_or_motor: 2
+  minimum_graph_hops: 2
+  maximum_output_latency_ms: 100.0
+  require_non_runaway: true
+  require_frozen_regression: true
+
+readout:
+  bins_ms: [1, 5, 10, 20, 50]
+
+regression:
+  float_absolute_tolerance: 0.00390625
+  reference_trials:
+    - {name: auditory-10hz, population: auditory, rate_hz: 10, seed: 42001, duration_ms: 1000.0}
+    - {name: auditory-100hz, population: auditory, rate_hz: 100, seed: 42001, duration_ms: 1000.0}
+    - {name: olfactory-50hz, population: olfactory, rate_hz: 50, seed: 42003, duration_ms: 1000.0}
+    - {name: mechanosensory-50hz, population: mechanosensory, rate_hz: 50, seed: 42003, duration_ms: 1000.0}
+    - {name: gustatory-50hz, population: gustatory, rate_hz: 50, seed: 42003, duration_ms: 1000.0}
+
+prohibitions:
+  connectome_changes: false
+  raw_weight_changes: false
+  lif_semantics_changes: false
+  transmitter_sign_changes: false
+  brain_gain_changes: false
+  training: false
+  reinforcement_learning: false
+  game_integration: false
+  action_decoder: false
+  web_server: false
+  three_d_frontend: false
+  phase4g: false