diff --git a/README.md b/README.md index f10d3c5..75dcf30 100644 --- a/README.md +++ b/README.md @@ -7,7 +7,7 @@ [![FlyWire Connectome](https://img.shields.io/badge/brain-FlyWire%20v783-purple.svg)](https://flywire.ai/) [![bioRxiv](https://img.shields.io/badge/preprint-bioRxiv-B31B1B.svg)](https://doi.org/10.1101/2026.XX.XX.XXXXXX) -> **Enrique Manuel Rojas Aliaga** · Independent Researcher · Lima, Peru · erojasoficial@gmail.com +> **Enrique Manuel Rojas Aliaga** · Facultad de Ingenieria y Arquitectura, Universidad de San Martin de Porres · Lima, Peru · enrique_rojas1@usmp.pe
Embodied Drosophila simulation @@ -353,12 +353,12 @@ See Figures 2–9 in the paper for detailed visualizations. | Component | Minimum | Tested | |---|---|---| -| **GPU** | NVIDIA with CUDA 12.x, 6 GB VRAM | RTX 4060 Laptop (8 GB) | -| **RAM** | 32 GB | 64 GB DDR5 | -| **CPU** | Intel i5 / AMD Ryzen 5 | Intel i7-13620H | -| **OS** | Windows 10 / Ubuntu 20.04 | Windows 11 Pro | +| **GPU** | NVIDIA with CUDA 12.x, 6 GB VRAM | RTX 5090 Laptop (24 GB) | +| **RAM** | 32 GB | 64 GB DDR5 5600 MHz | +| **CPU** | Intel i5 / AMD Ryzen 5 | Intel Core Ultra 9 285HX | +| **OS** | Windows 10 / Ubuntu 20.04 | Windows 11 Home | | **Python** | 3.10+ | 3.10.16 | -| **PyTorch** | 2.0+ (CUDA) | 2.5.1+cu121 | +| **PyTorch** | 2.0+ (CUDA) | 2.5.1+cu128 | | **MuJoCo** | 3.0+ | 3.2.7 | --- @@ -390,4 +390,4 @@ See Figures 2–9 in the paper for detailed visualizations. --- -**Enrique Manuel Rojas Aliaga** · erojasoficial@gmail.com · Independent Researcher, Lima, Peru +**Enrique Manuel Rojas Aliaga** · enrique_rojas1@usmp.pe · Facultad de Ingenieria y Arquitectura, Universidad de San Martin de Porres, Lima, Peru diff --git a/generate_paper.py b/generate_paper.py index d9883d0..fce4477 100644 --- a/generate_paper.py +++ b/generate_paper.py @@ -3,7 +3,7 @@ Generate bioRxiv-quality scientific paper PDF with publication figures. Emergent Individuality in Whole-Brain Connectome Simulations of Drosophila. -Author: Enrique Manuel Rojas Aliaga +Author: Enrique Manuel Rojas Aliaga - Universidad de San Martin de Porres """ import os @@ -863,9 +863,9 @@ pdf.set_font('Helvetica', '', 10) pdf.cell(0, 6, 'Enrique Manuel Rojas Aliaga', align='C', new_x="LMARGIN", new_y="NEXT") pdf.ln(2) pdf.set_font('Helvetica', 'I', 8.5) -pdf.cell(0, 5, 'Independent Researcher, Lima, Peru', align='C', new_x="LMARGIN", new_y="NEXT") +pdf.cell(0, 5, 'Facultad de Ingenieria y Arquitectura, Universidad de San Martin de Porres, Lima, Peru', align='C', new_x="LMARGIN", new_y="NEXT") pdf.set_font('Helvetica', '', 8.5) -pdf.cell(0, 5, 'erojasoficial@gmail.com', align='C', new_x="LMARGIN", new_y="NEXT") +pdf.cell(0, 5, 'enrique_rojas1@usmp.pe', align='C', new_x="LMARGIN", new_y="NEXT") pdf.ln(3) pdf.set_font('Helvetica', 'I', 8) @@ -1028,8 +1028,8 @@ pdf.body_text( "input determined by its own position, orientation, and movement history. Integration metrics " "and plastic weights are logged independently. The simulation runs at 5 kHz neural resolution " "with 0.2 ms physics timesteps. We conducted 8 paired sessions over 24 hours, accumulating " - ">100 seconds of simulated time per fly (~7 hours wall-clock per session on an Intel i7-13620H " - "CPU with NVIDIA RTX 4060 Laptop GPU, 8 GB VRAM, 64 GB RAM)." + ">100 seconds of simulated time per fly (~7 hours wall-clock per session on an Intel Core Ultra 9 285HX " + "CPU with NVIDIA RTX 5090 Laptop GPU, 24 GB VRAM, 64 GB DDR5 RAM)." ) # ── RESULTS ── @@ -1260,7 +1260,7 @@ pdf.body_text( "access terms. The NeuroMechFly v2 biomechanical model (Lobato-Rios et al., 2024) and the " "MuJoCo physics engine (DeepMind) provided the embodied simulation framework. This work " "was conducted independently and received no external funding. Computations were performed " - "on consumer hardware (Intel i7-13620H, NVIDIA RTX 4060 Laptop GPU, 64 GB RAM)." + "on consumer hardware (Intel Core Ultra 9 285HX, NVIDIA RTX 5090 Laptop GPU, 64 GB DDR5 RAM)." ) # ── REFERENCES ── @@ -1295,8 +1295,8 @@ pdf.section_title('Supplementary Information') pdf.subsection_title('S1. Hardware and Software') pdf.body_text( "All simulations were performed on a laptop computer with the following specifications: " - "Intel Core i7-13620H (13th Gen, 10 cores), 64 GB DDR5 RAM, NVIDIA GeForce RTX 4060 Laptop " - "GPU (8 GB GDDR6 VRAM). Software: Python 3.10, PyTorch 2.5.1 (CUDA 12.1), MuJoCo 3.2.7, " + "Intel Core Ultra 9 285HX (24 cores), 64 GB DDR5 5600 MHz RAM, NVIDIA GeForce RTX 5090 Laptop " + "GPU (24 GB GDDR7 VRAM). Software: Python 3.10, PyTorch 2.5.1 (CUDA 12.8), MuJoCo 3.2.7, " "flygym (NeuroMechFly v2). Operating system: Windows 11 Pro. Each paired simulation session " "runs for approximately 7 hours wall-clock time to produce ~100 seconds of simulated time " "at 5 kHz neural resolution." diff --git a/paper_emergent_individuality.pdf b/paper_emergent_individuality.pdf index 6eae96f..80677bf 100644 Binary files a/paper_emergent_individuality.pdf and b/paper_emergent_individuality.pdf differ diff --git a/paper_figures/fig10_eyes.png b/paper_figures/fig10_eyes.png index c1f9ff7..c99fc48 100644 Binary files a/paper_figures/fig10_eyes.png and b/paper_figures/fig10_eyes.png differ diff --git a/paper_figures/fig1_architecture.png b/paper_figures/fig1_architecture.png index a2666e2..5a230ea 100644 Binary files a/paper_figures/fig1_architecture.png and b/paper_figures/fig1_architecture.png differ diff --git a/paper_figures/fig2_ci_timelines.png b/paper_figures/fig2_ci_timelines.png index 49ac025..4a6c352 100644 Binary files a/paper_figures/fig2_ci_timelines.png and b/paper_figures/fig2_ci_timelines.png differ diff --git a/paper_figures/fig3_ci_by_mode.png b/paper_figures/fig3_ci_by_mode.png index 7ee3bd0..e22c638 100644 Binary files a/paper_figures/fig3_ci_by_mode.png and b/paper_figures/fig3_ci_by_mode.png differ diff --git a/paper_figures/fig4_components.png b/paper_figures/fig4_components.png index fec5157..b981986 100644 Binary files a/paper_figures/fig4_components.png and b/paper_figures/fig4_components.png differ diff --git a/paper_figures/fig5_evolution.png b/paper_figures/fig5_evolution.png index 5fbea4d..e0381a4 100644 Binary files a/paper_figures/fig5_evolution.png and b/paper_figures/fig5_evolution.png differ diff --git a/paper_figures/fig6_plasticity.png b/paper_figures/fig6_plasticity.png index 44f2f86..a4c053c 100644 Binary files a/paper_figures/fig6_plasticity.png and b/paper_figures/fig6_plasticity.png differ diff --git a/paper_figures/fig7_crosscorr.png b/paper_figures/fig7_crosscorr.png index 0909ba1..667d188 100644 Binary files a/paper_figures/fig7_crosscorr.png and b/paper_figures/fig7_crosscorr.png differ diff --git a/paper_figures/fig8_comparison.png b/paper_figures/fig8_comparison.png index 985e3b3..e062216 100644 Binary files a/paper_figures/fig8_comparison.png and b/paper_figures/fig8_comparison.png differ diff --git a/paper_figures/fig9_behavior.png b/paper_figures/fig9_behavior.png index bae72b1..959fdd6 100644 Binary files a/paper_figures/fig9_behavior.png and b/paper_figures/fig9_behavior.png differ