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README.md

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-license: mit
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+license: mit
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+# Calcium-Bridged Temporal EEG Decoder
+
+This project explores the idea of decoding EEG brain signals by modeling perception as a sequential process. Instead of treating the brain's response as a single event, this system breaks it down into distinct temporal windows, attempting to model the "chain of thought" as a visual concept crystallizes in the mind.
+
+The project consists of two main components:
+1.  **A trainer (`pkas_cal_trainer_gemini.py`)** that builds a novel neural network model using the **Alljoined1 dataset**.
+2.  **A viewer (`pkas_cal_viewer_gemini2.py`)** that loads a trained model and provides an interactive visualization of its "thought process" on new EEG samples.
+
+## Core Concept: The "Vibecoded" System
+
+The central idea of this project is a system inspired by neuromorphic computing and constraint satisfaction, which we've nicknamed the "vibecoded" system.
+
+Here’s how it works simply:
+
+1.  **Thinking in Moments:** The brain's response to an image (e.g., from 0 to 600ms) is not analyzed all at once. It's sliced into four distinct "thinking moments" or time windows based on known ERP components.
+
+2.  **A Solver for Each Moment:** Each time window is processed by a special `CalciumAttentionModule`. This module's job is to look at the EEG clues in its slice and find the best explanation that satisfies all the "constraints" in the signal.
+
+3.  **The Calcium Bridge:** This is the key. The "hunch" or "focus" (`Calcium` state) from one thinking moment is passed to the next. This creates a causal chain of thought, allowing the model to refine its predictions over time from a general gist to a more specific concept.
+
+## Requirements
+- Python 3.x
+- PyTorch
+- `datasets` (from Hugging Face)
+- `tkinter` (usually included with Python)
+- `matplotlib`
+- `pillow`
+
+You can install the main dependencies with pip:
+pip install torch datasets matplotlib pillow
+code
+Code
+## Setup and Usage
+
+### 1. Download Data and Model
+
+**Data:**
+-   **COCO Images:** Download the 2017 training/validation images from the [COCO Dataset official site](https://cocodataset.org/#download). You will need `train2017.zip` and/or `val2017.zip`. Unzip them into a known directory.
+-   **COCO Annotations:** On the same site, download the "2017 Train/Val annotations". You only need the `instances_train2017.json` file.
+-   **Alljoined1 EEG Data:** This will be downloaded automatically by the scripts on their first run.
+
+**Pre-trained Model (Recommended):**
+- You can download the pre-trained V2 model directly from its [Hugging Face Repository](https://huggingface.co/Aluode/CalciumBridgeEEGConstraintViewer/tree/main). Click on `calcium_bridge_eeg_model_v2.pth` and then click the "download" button.
+
+### 2. Viewing the Results (Using the Pre-trained Model)
+
+1.  Run the V2 viewer script:
+    ```
+    python pkas_cal_viewer_gemini2.py
+    ```
+2.  In the GUI:
+    -   Select the COCO image and annotation paths you downloaded.
+    -   Click **"Load V2 Model"** and select the `calcium_bridge_eeg_model_v2.pth` file you downloaded from Hugging Face.
+3.  Once the model is loaded, click **"Test Random Sample"** to see the model's analysis of a new brain signal.
+
+### 3. Training Your Own Model (Optional)
+
+1.  Run the V2 training script:
+    ```    python pkas_cal_trainer_gemini.py
+    ```
+2.  In the GUI, select your COCO image and annotation paths.
+3.  Click **"Train Extended Model (V2)"**.
+4.  A new file named `calcium_bridge_eeg_model_v2.pth` will be saved with the best-performing model from your training run. You can then load this file into the viewer.
+
+## A Note on Interpretation
+
+This is an exploratory research tool. The model's predictions should **not** be interpreted as literal "mind-reading."
+
+Instead, the results reflect the complex **statistical associations** learned from the multi-subject `Alljoined` dataset. When the model associates a "horse trailer" with "horse," it is because this is a strong, common conceptual link found in the aggregate brain data. The viewer is a window into the "cognitive gestalt" of an "average mind" as represented by the dataset.