Digital Drosophila Archive
117 lines
2.9 KiB
YAML
117 lines
2.9 KiB
YAML
phase: 4B
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paths:
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connectome_root: /data/digital-drosophila/datasets/male-cns-v1.0/processed/neuron-only
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experiment_root: /data/digital-drosophila/experiments/phase4b-dynamics
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expected_graph:
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neurons: 166700
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directed_edges: 25582938
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synaptic_contact_weight_sum: 124177617
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isolated_neurons: 217
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self_loops: 101
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device:
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required_name_substring: RTX 4090
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launcher_visible_gpu_uuid: GPU-79f3a85d-adce-7833-7003-6488140ca596
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mixed_multi_gpu: false
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model:
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dt_ms: 0.1
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membrane_tau_ms: 20.0
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synaptic_tau_ms: 5.0
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refractory_ms: 2.2
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resting_potential_mv: -52.0
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reset_potential_mv: -52.0
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threshold_mv: -45.0
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synaptic_delay_ms: 1.8
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w_syn_mv_per_anatomical_synapse: 0.275
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integration: forward_euler
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refractory_g_policy: g continues to decay and receive delayed events while v is clamped at V_reset
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provenance: Shiu-2024-compatible baseline supplied by user; not MaleCNS measured single-cell parameters
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sign_policy:
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neurotransmitter_sign:
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acetylcholine: 1
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gaba: -1
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glutamate: -1
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histamine: -1
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dopamine: 1
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octopamine: 1
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serotonin: 1
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unknown_sign: 0
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unclear_sign: 0
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unmapped_policy: error
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sensory_populations:
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visual:
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expression: annotation_class == 'visual'
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mechanosensory:
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expression: annotation_class in {'mechanosensory','mechanosensory_tactile','mechanosensory_proprioceptive'} and annotation_subclass != 'auditory'
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olfactory:
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expression: annotation_class == 'olfactory'
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gustatory:
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expression: annotation_class == 'gustatory'
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auditory:
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expression: annotation_subclass == 'auditory'
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baseline_sweep:
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rates_hz: [10, 25, 50, 100, 150, 200]
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seeds: [42001, 42002, 42003]
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duration_ms: 1000.0
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event_logging: false
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weight_sweep:
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population: auditory
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rate_hz: 100
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seed: 42100
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duration_ms: 1000.0
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values_mv: [0.1375, 0.20625, 0.275, 0.34375, 0.55]
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stimulation:
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mode: refractory-respecting forced sensory-neuron Poisson spikes
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note: no arbitrary current amplitude is introduced; accepted events become presynaptic spikes
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classification:
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supercritical_peak_step_fraction: 0.10
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supercritical_active_fraction: 0.80
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supercritical_mean_rate_hz: 100.0
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propagating_min_depth: 2
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abort_supercritical: true
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check_interval_steps: 50
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performance:
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population: auditory
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rate_hz: 10
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seed: 42200
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duration_ms: 1000.0
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gpu_sample_interval_seconds: 0.2
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compare_logging_disabled_and_full: true
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profiler:
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population: auditory
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rate_hz: 10
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seed: 42201
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duration_ms: 1000.0
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synchronized_category_timing: true
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causal_validation:
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requested_chains: 100
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requested_inhibitory_transmissions: 100
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seed: 42300
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max_edges_examined: 5000000
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cpu_gpu_reference:
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seed: 42400
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subgraph_neurons: 512
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steps: 100
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absolute_tolerance: 1.0e-10
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audit:
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finite_check_interval_steps: 100
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memory_growth_tolerance_bytes: 10485760
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preserve_source_data: true
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reproducibility:
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global_seed: 42000
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deterministic_inputs: true
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