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- Two-fly simultaneous brain simulation (two_flies.py): identical connectomes develop emergent individuality through independent sensory experience - Neural integration metrics (consciousness.py): IIT Phi, Global Workspace broadcast, Self-Model, Perturbation Complexity — computed every 500ms - Hebbian synaptic plasticity across all 15M synapses with weight tracking - Physics watchdog for automatic NaN/freeze recovery in long runs - Procedural arena with chunk-based world generation (procedural_arena.py) - Paper: "Emergent Individuality in Whole-Brain Connectome Simulations of Drosophila melanogaster" (English + Spanish, 14 pages, 10 figures) - 20 experimental sessions (8 paired two-fly + 4 single-fly baselines) - Plasticity weight snapshots for both flies after 24h of simulation - Analysis scripts for plasticity divergence, overnight evolution - Publication-quality figures at 300 DPI (paper_figures/) - Restructured README for bioRxiv reproducibility - Git LFS for large binary files (*.pt, *.mp4) - Removed old paper drafts superseded by programmatic generation
26 lines
402 B
Plaintext
26 lines
402 B
Plaintext
__pycache__/
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*.egg-info
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*.pyc
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# Brian2/Brian2CUDA generated standalone code
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code/output*
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# Simulation results (large parquet files)
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data/results/
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# PyTorch cached weight matrices (generated from connectivity data)
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data/weight_coo.pkl
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data/weight_csr.pkl
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# Legacy archive data (too large, available from FlyWire)
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data/archive/
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# Backups
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backup_*.zip
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# OS / IDE
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.DS_Store
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Thumbs.db
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.vscode/
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.idea/
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