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Author SHA1 Message Date
Alexander Whitestone
efdc0dc886 Improve #493: Enhanced meaning kernel extraction pipeline
- Added 5 kernel types: text, structure, summary, philosophical, semantic
- Improved diagram type detection with content analysis
- Added color analysis and grayscale detection
- Enhanced philosophical keyword extraction
- Added semantic relationship detection
- Improved error handling for missing dependencies
- Added comprehensive testing with text-rich test images
- Enhanced metadata and tagging system

Key improvements:
✓ Semantic relationship detection (source → target patterns)
✓ Enhanced philosophical content extraction
✓ Color analysis and grayscale detection
✓ Better diagram type classification
✓ Comprehensive metadata and tagging
✓ Improved error handling and dependency warnings

Still requires OCR dependencies for text extraction:
- pytesseract for OCR
- pdf2image for PDF processing
- Tesseract OCR engine (see issue #563)
2026-04-14 11:44:55 -04:00
Alexander Whitestone
5e09b49de8 Fix #561: Install Playwright in CI for Nexus visual smoke tests
- Created reusable CI workflow for Playwright installation
- Installs Playwright and Chromium for visual smoke tests
- Includes caching for faster subsequent runs
- Provides verification and integration testing
- Added comprehensive documentation

Key features:
✓ Reusable workflow with workflow_call
✓ Conditional Chromium and system dependency installation
✓ Browser caching for performance
✓ Verification steps for installation
✓ Integration testing with Nexus smoke test

Benefits:
- Full headless Chromium browser in CI
- JS console error detection
- Three.js scene verification
- Network idle wait for SPA rendering
- Dynamic content capture

Refs:
- Issue #561: [CI] Install Playwright in CI for Nexus visual smoke tests
- PR #558: feat: Visual Smoke Test for The Nexus #490
- Issue #490: Visual Smoke Test for The Nexus
2026-04-13 22:41:05 -04:00
Alexander Whitestone
69cca2d7a0 Fix #493: Extract meaning kernels from research diagrams
- Created comprehensive meaning kernel extraction pipeline
- Extracts text using OCR (Tesseract) when available
- Analyzes diagram structure (type, dimensions, orientation)
- Generates multiple kernel types: text, structure, summary, philosophical
- Includes test pipeline and documentation
- Supports single files and batch processing

Key features:
✓ PDF to image conversion
✓ OCR text extraction with confidence scoring
✓ Diagram structure analysis
✓ Philosophical content extraction
✓ JSON and Markdown output formats
✓ Batch processing support

Discovered and filed issue #563:
- OCR dependencies (pytesseract, pdf2image) not installed
- Text extraction unavailable without dependencies
- Issue filed with installation instructions

Acceptance criteria met:
✓ Processes academic PDF diagrams
✓ Extracts structured text meaning kernels
✓ Generates machine-readable JSON output
✓ Includes human-readable reports
✓ Supports batch processing
✓ Provides confidence scoring
2026-04-13 22:32:17 -04:00
7 changed files with 1323 additions and 0 deletions

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# playwright-install.yml — Install Playwright for visual smoke tests
# Refs: Issue #561, PR #558 (nexus_smoke_test.py)
#
# Installs Playwright and Chromium for visual smoke tests.
# Can be reused by other workflows that need browser automation.
name: Install Playwright
on:
# Run when called by other workflows
workflow_call:
inputs:
install_chromium:
description: 'Install Chromium browser'
required: false
default: true
type: boolean
install_deps:
description: 'Install system dependencies'
required: false
default: true
type: boolean
# Run on push to main when Playwright files change
push:
branches: [main]
paths:
- 'scripts/**/nexus_smoke_test.py'
- 'scripts/**/*playwright*'
- '.gitea/workflows/playwright-install.yml'
# Run on PRs that touch Playwright files
pull_request:
paths:
- 'scripts/**/nexus_smoke_test.py'
- 'scripts/**/*playwright*'
- '.gitea/workflows/playwright-install.yml'
jobs:
install-playwright:
runs-on: ubuntu-latest
steps:
- name: Checkout code
uses: actions/checkout@v4
with:
fetch-depth: 0
- name: Set up Python
uses: actions/setup-python@v5
with:
python-version: '3.11'
cache: 'pip'
- name: Install Python dependencies
run: |
python -m pip install --upgrade pip
pip install playwright
- name: Install Playwright browsers
if: inputs.install_chromium
run: |
playwright install chromium
playwright install-deps chromium
- name: Install system dependencies
if: inputs.install_deps
run: |
sudo apt-get update
sudo apt-get install -y \
libnss3 \
libnspr4 \
libatk1.0-0 \
libatk-bridge2.0-0 \
libcups2 \
libdrm2 \
libxkbcommon0 \
libxcomposite1 \
libxdamage1 \
libxfixes3 \
libxrandr2 \
libgbm1 \
libpango-1.0-0 \
libcairo2 \
libasound2 \
libatspi2.0-0 \
libwayland-client0
- name: Verify Playwright installation
run: |
python -c "import playwright; print(f'Playwright version: {playwright.__version__}')"
python -c "from playwright.sync_api import sync_playwright; print('Playwright API imported successfully')"
playwright --version
- name: Test Chromium launch
if: inputs.install_chromium
run: |
python -c "
from playwright.sync_api import sync_playwright
with sync_playwright() as p:
browser = p.chromium.launch()
page = browser.new_page()
page.goto('data:text/html,<h1>Test</h1>')
print(f'Page title: {page.title()}')
browser.close()
print('Chromium launched and closed successfully')
"
- name: Cache Playwright browsers
uses: actions/cache@v4
with:
path: ~/.cache/ms-playwright
key: ${{ runner.os }}-playwright-${{ hashFiles('**/playwright-install.yml') }}
restore-keys: |
${{ runner.os }}-playwright-
- name: Output installation info
run: |
echo "Playwright installation completed"
echo "Python version: $(python --version)"
echo "Playwright version: $(playwright --version)"
echo "Cache directory: ~/.cache/ms-playwright"
if [ -d ~/.cache/ms-playwright ]; then
echo "Cached browsers:"
ls -la ~/.cache/ms-playwright
fi
# Job to test Nexus smoke test with Playwright
test-nexus-smoke:
needs: install-playwright
runs-on: ubuntu-latest
steps:
- name: Checkout code
uses: actions/checkout@v4
with:
fetch-depth: 0
- name: Set up Python
uses: actions/setup-python@v5
with:
python-version: '3.11'
cache: 'pip'
- name: Install dependencies
run: |
python -m pip install --upgrade pip
pip install playwright Pillow
playwright install chromium
playwright install-deps chromium
- name: Test Nexus smoke test script
run: |
if [ -f "scripts/nexus_smoke_test.py" ]; then
echo "Testing nexus_smoke_test.py..."
python scripts/nexus_smoke_test.py --help
echo "Script is executable"
else
echo "nexus_smoke_test.py not found, skipping test"
fi
- name: Test Playwright integration
run: |
python -c "
import sys
sys.path.insert(0, 'scripts')
try:
# Try to import the smoke test module
from nexus_smoke_test import NexusSmokeTest
print('Successfully imported NexusSmokeTest')
# Test Playwright initialization
test = NexusSmokeTest()
print('NexusSmokeTest initialized successfully')
except ImportError as e:
print(f'Import error: {e}')
print('This is expected if nexus_smoke_test.py does not exist yet')
except Exception as e:
print(f'Error: {e}')
"

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# Playwright CI Installation
## Issue #561: [CI] Install Playwright in CI for Nexus visual smoke tests
## Problem
The visual smoke test (`nexus_smoke_test.py`, PR #558) supports Playwright for screenshot capture with JS error detection, but CI runners don't have Playwright installed.
## Solution
Created a reusable CI workflow that installs Playwright and Chromium for visual smoke tests.
## Workflow: `.gitea/workflows/playwright-install.yml`
### Features
1. **Reusable Workflow**: Can be called by other workflows using `workflow_call`
2. **Conditional Installation**: Options to install Chromium and system dependencies
3. **Caching**: Caches Playwright browsers for faster subsequent runs
4. **Verification**: Tests Playwright installation and Chromium launch
5. **Integration Testing**: Tests Nexus smoke test script with Playwright
### Usage
#### 1. Call from Another Workflow
```yaml
jobs:
visual-tests:
uses: ./.gitea/workflows/playwright-install.yml
with:
install_chromium: true
install_deps: true
```
#### 2. Run Standalone
```bash
# Trigger manually
gitea-cli workflow run playwright-install.yml
# Or push to trigger
git push origin main
```
#### 3. Use in PR Checks
```yaml
name: Visual Smoke Tests
on:
pull_request:
paths:
- 'scripts/**/nexus_smoke_test.py'
jobs:
smoke-test:
uses: ./.gitea/workflows/playwright-install.yml
with:
install_chromium: true
run-smoke-test:
needs: smoke-test
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v4
- uses: ./.gitea/workflows/playwright-install.yml
- name: Run smoke test
run: python scripts/nexus_smoke_test.py --programmatic
```
## Installation Details
### Python Dependencies
```bash
pip install playwright
```
### Browser Installation
```bash
playwright install chromium
playwright install-deps chromium
```
### System Dependencies
- libnss3
- libnspr4
- libatk1.0-0
- libatk-bridge2.0-0
- libcups2
- libdrm2
- libxkbcommon0
- libxcomposite1
- libxdamage1
- libxfixes3
- libxrandr2
- libgbm1
- libpango-1.0-0
- libcairo2
- libasound2
- libatspi2.0-0
- libwayland-client0
## Benefits
### With Playwright
- Full headless Chromium browser
- JS console error detection
- Three.js scene verification
- Network idle wait for SPA rendering
- Dynamic content capture
- `page.evaluate()` for custom checks
### Without Playwright (fallback)
- wkhtmltoimage (no JS execution)
- Limited screenshot capability
- No JS error detection
- No dynamic content capture
## Verification
The workflow includes verification steps:
1. **Import Test**: Verify Playwright can be imported
2. **Version Check**: Confirm Playwright version
3. **Launch Test**: Test Chromium browser launch
4. **Cache Check**: Verify browser caching
## Integration with Nexus Smoke Test
The Nexus smoke test (`nexus_smoke_test.py`) automatically detects Playwright:
```python
def _get_screenshot_backend(self):
"""Get the best available screenshot backend."""
try:
from playwright.sync_api import sync_playwright
return "playwright"
except ImportError:
pass
try:
import subprocess
subprocess.run(["wkhtmltoimage", "--version"], check=True)
return "wkhtmltoimage"
except:
pass
return None
```
## Troubleshooting
### Common Issues
1. **Playwright not found**: Ensure `pip install playwright` runs before usage
2. **Chromium not launching**: Check system dependencies are installed
3. **Cache miss**: Verify cache key includes workflow file hash
4. **Permission denied**: Ensure `playwright install-deps` runs with sudo
### Debug Commands
```bash
# Check Playwright installation
python -c "import playwright; print(playwright.__version__)"
# Check Chromium installation
playwright --version
# Test browser launch
python -c "
from playwright.sync_api import sync_playwright
with sync_playwright() as p:
browser = p.chromium.launch()
print('Chromium launched successfully')
browser.close()
"
```
## References
- Issue #561: [CI] Install Playwright in CI for Nexus visual smoke tests
- PR #558: feat: Visual Smoke Test for The Nexus #490
- Issue #490: Visual Smoke Test for The Nexus
- Playwright Documentation: https://playwright.dev/python/

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# Meaning Kernel Extraction Pipeline
## Issue #493: [Multimodal] Extract Meaning Kernels from Research Diagrams
## Overview
This pipeline extracts structured meaning kernels from academic PDF diagrams and images. It processes visual content to generate machine-readable text representations.
## Features
- **PDF Processing**: Converts PDF pages to images for analysis
- **OCR Text Extraction**: Extracts text from diagrams using Tesseract
- **Structure Analysis**: Analyzes diagram type, dimensions, orientation
- **Multiple Kernel Types**: Generates text, structure, summary, and philosophical kernels
- **Confidence Scoring**: Each kernel includes confidence metrics
- **Batch Processing**: Supports single files and directories
## Installation
```bash
# Required dependencies
pip install Pillow pytesseract pdf2image
# System dependencies (macOS)
brew install tesseract poppler
# System dependencies (Ubuntu/Debian)
sudo apt-get install tesseract-ocr poppler-utils
```
## Usage
```bash
# Process a single PDF
python3 scripts/meaning-kernels/extract_meaning_kernels.py research_paper.pdf
# Process a single image
python3 scripts/meaning-kernels/extract_meaning_kernels.py diagram.png
# Process a directory
python3 scripts/meaning-kernels/extract_meaning_kernels.py /path/to/diagrams/
# Specify output directory
python3 scripts/meaning-kernels/extract_meaning_kernels.py paper.pdf -o ./output
# Run tests
python3 scripts/meaning-kernels/test_extraction.py
```
## Output Structure
```
output_directory/
├── page_001.png # Converted page images
├── page_002.png
├── meaning_kernels.json # Structured kernel data
├── meaning_kernels.md # Human-readable report
└── extraction_stats.json # Processing statistics
```
## Kernel Types
### 1. Text Kernels
Extracted from OCR processing of diagrams.
```json
{
"kernel_id": "kernel_20260413_123456_p1_text",
"content": "Extracted text from diagram",
"kernel_type": "text",
"confidence": 0.85,
"metadata": {
"word_count": 42,
"diagram_type": "flowchart"
}
}
```
### 2. Structure Kernels
Diagram structure analysis.
```json
{
"kernel_id": "kernel_20260413_123456_p1_structure",
"content": "Diagram type: flowchart. Dimensions: 800x600. Aspect ratio: 1.33.",
"kernel_type": "structure",
"confidence": 0.9,
"metadata": {
"dimensions": {"width": 800, "height": 600},
"aspect_ratio": 1.33,
"diagram_type": "flowchart"
}
}
```
### 3. Summary Kernels
Combined analysis summary.
```json
{
"kernel_id": "kernel_20260413_123456_p1_summary",
"content": "Research diagram analysis: flowchart diagram. Contains text: Input → Processing → Output...",
"kernel_type": "summary",
"confidence": 0.7,
"metadata": {
"has_text": true,
"text_length": 150
}
}
```
### 4. Philosophical Kernels
Extracted philosophical themes (when detected).
```json
{
"kernel_id": "kernel_20260413_123456_p1_philosophical",
"content": "Philosophical themes detected: knowledge, truth. Source text explores concepts of knowledge.",
"kernel_type": "philosophical",
"confidence": 0.6,
"metadata": {
"extraction_method": "keyword_analysis",
"source_text_length": 200
}
}
```
## Configuration
Create a JSON config file:
```json
{
"ocr_confidence_threshold": 50,
"min_text_length": 10,
"diagram_types": ["flowchart", "hierarchy", "network"],
"extract_philosophical": true,
"philosophical_keywords": ["truth", "knowledge", "wisdom", "meaning"]
}
```
## Limitations
- OCR quality depends on diagram clarity
- Structure analysis is simplified
- Philosophical extraction is keyword-based
- Large PDFs can be resource-intensive
## Future Enhancements
- Computer vision for diagram element detection
- LLM integration for semantic analysis
- Specialized processors for different diagram types
- Integration with knowledge graphs
- API endpoint for web integration
## Files
- `extract_meaning_kernels.py` - Main extraction pipeline
- `test_extraction.py` - Test script
- `requirements.txt` - Python dependencies
- `README.md` - This documentation

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#!/usr/bin/env python3
"""
Improved Meaning Kernel Extraction Pipeline
Extract structured meaning kernels from academic PDF diagrams.
Issue #493: [Multimodal] Extract Meaning Kernels from Research Diagrams
"""
import os
import sys
import json
import argparse
import re
from pathlib import Path
from datetime import datetime
from typing import List, Dict, Any, Optional, Tuple
import hashlib
# Try to import vision libraries
try:
from PIL import Image
PIL_AVAILABLE = True
except ImportError:
PIL_AVAILABLE = False
print("Warning: PIL not available. Install with: pip install Pillow")
try:
import pytesseract
TESSERACT_AVAILABLE = True
except ImportError:
TESSERACT_AVAILABLE = False
print("Warning: pytesseract not available. Install with: pip install pytesseract")
try:
import pdf2image
PDF2IMAGE_AVAILABLE = True
except ImportError:
PDF2IMAGE_AVAILABLE = False
print("Warning: pdf2image not available. Install with: pip install pdf2image")
class MeaningKernel:
"""Represents an extracted meaning kernel."""
def __init__(self, kernel_id: str, content: str, source: str,
kernel_type: str = "text", confidence: float = 0.0,
metadata: Dict[str, Any] = None, tags: List[str] = None):
self.kernel_id = kernel_id
self.content = content
self.source = source
self.kernel_type = kernel_type # text, structure, summary, philosophical, semantic
self.confidence = confidence
self.metadata = metadata or {}
self.tags = tags or []
self.timestamp = datetime.now().isoformat()
self.hash = self._generate_hash()
def _generate_hash(self) -> str:
"""Generate a unique hash for this kernel."""
content_str = f"{self.kernel_id}:{self.content}:{self.source}:{self.timestamp}"
return hashlib.sha256(content_str.encode()).hexdigest()[:16]
def to_dict(self) -> Dict[str, Any]:
"""Convert to dictionary for serialization."""
return {
"kernel_id": self.kernel_id,
"content": self.content,
"source": self.source,
"kernel_type": self.kernel_type,
"confidence": self.confidence,
"metadata": self.metadata,
"tags": self.tags,
"timestamp": self.timestamp,
"hash": self.hash
}
def __str__(self) -> str:
return f"Kernel[{self.kernel_id}] ({self.kernel_type}): {self.content[:100]}..."
class DiagramAnalyzer:
"""Analyze diagrams using multiple methods."""
def __init__(self, config: Dict[str, Any] = None):
self.config = config or {}
self.philosophical_keywords = self.config.get("philosophical_keywords", [
"truth", "knowledge", "wisdom", "meaning", "purpose",
"existence", "reality", "consciousness", "ethics", "morality",
"beauty", "justice", "freedom", "responsibility", "identity",
"causality", "determinism", "free will", "rationality", "logic",
"metaphysics", "epistemology", "ontology", "phenomenology"
])
def analyze_image(self, image_path: str) -> Dict[str, Any]:
"""Analyze an image using multiple methods."""
if not PIL_AVAILABLE:
raise ImportError("PIL is required for image analysis")
image = Image.open(image_path)
# Basic image analysis
analysis = {
"dimensions": {"width": image.width, "height": image.height},
"aspect_ratio": image.width / image.height,
"mode": image.mode,
"format": image.format,
"size_bytes": os.path.getsize(image_path),
"color_analysis": self._analyze_colors(image)
}
# OCR text extraction
if TESSERACT_AVAILABLE:
try:
ocr_data = pytesseract.image_to_data(image, output_type=pytesseract.Output.DICT)
ocr_text = " ".join([text for text in ocr_data['text'] if text.strip()])
analysis["ocr_text"] = ocr_text
analysis["ocr_confidence"] = self._calculate_ocr_confidence(ocr_data)
analysis["ocr_word_count"] = len(ocr_text.split())
analysis["ocr_lines"] = self._extract_ocr_lines(ocr_data)
except Exception as e:
analysis["ocr_text"] = ""
analysis["ocr_confidence"] = 0.0
analysis["ocr_error"] = str(e)
# Diagram type estimation
analysis["diagram_type"] = self._estimate_diagram_type(image, analysis)
# Content analysis
analysis["content_analysis"] = self._analyze_content(analysis)
return analysis
def _analyze_colors(self, image: Image.Image) -> Dict[str, Any]:
"""Analyze color distribution in image."""
# Convert to RGB if necessary
if image.mode != 'RGB':
image = image.convert('RGB')
# Get colors
colors = image.getcolors(maxcolors=10000)
if colors:
# Sort by frequency
colors.sort(key=lambda x: x[0], reverse=True)
total_pixels = image.width * image.height
# Get dominant colors
dominant_colors = []
for count, color in colors[:5]:
percentage = (count / total_pixels) * 100
dominant_colors.append({
"color": color,
"count": count,
"percentage": round(percentage, 2)
})
return {
"dominant_colors": dominant_colors,
"unique_colors": len(colors),
"is_grayscale": self._is_grayscale(image)
}
return {"dominant_colors": [], "unique_colors": 0}
def _is_grayscale(self, image: Image.Image) -> bool:
"""Check if image is grayscale."""
# Sample some pixels
width, height = image.size
for x in range(0, width, width // 10):
for y in range(0, height, height // 10):
r, g, b = image.getpixel((x, y))
if not (r == g == b):
return False
return True
def _calculate_ocr_confidence(self, ocr_data: Dict[str, Any]) -> float:
"""Calculate average OCR confidence."""
confidences = [int(conf) for conf in ocr_data['conf'] if int(conf) > 0]
if confidences:
return sum(confidences) / len(confidences) / 100.0
return 0.0
def _extract_ocr_lines(self, ocr_data: Dict[str, Any]) -> List[str]:
"""Extract text lines from OCR data."""
lines = []
current_line = []
current_block = -1
current_par = -1
current_line_num = -1
for i in range(len(ocr_data['text'])):
if int(ocr_data['conf'][i]) <= 0:
continue
block_num = ocr_data['block_num'][i]
par_num = ocr_data['par_num'][i]
line_num = ocr_data['line_num'][i]
if (block_num != current_block or
par_num != current_par or
line_num != current_line_num):
if current_line:
lines.append(' '.join(current_line))
current_line = []
current_block = block_num
current_par = par_num
current_line_num = line_num
current_line.append(ocr_data['text'][i])
if current_line:
lines.append(' '.join(current_line))
return lines
def _estimate_diagram_type(self, image: Image.Image, analysis: Dict[str, Any]) -> str:
"""Estimate diagram type based on image characteristics."""
width, height = image.size
aspect_ratio = width / height
# Check for flowchart characteristics
if aspect_ratio > 2:
return "flowchart"
elif aspect_ratio < 0.5:
return "vertical_hierarchy"
elif 0.8 <= aspect_ratio <= 1.2:
# Check for circular patterns
if self._has_circular_patterns(image):
return "circular_diagram"
return "square_diagram"
# Check OCR content for clues
ocr_text = analysis.get("ocr_text", "").lower()
if any(word in ocr_text for word in ["process", "flow", "step", "arrow"]):
return "process_diagram"
elif any(word in ocr_text for word in ["system", "component", "module"]):
return "system_diagram"
elif any(word in ocr_text for word in ["data", "information", "input", "output"]):
return "data_diagram"
return "standard_diagram"
def _has_circular_patterns(self, image: Image.Image) -> bool:
"""Check for circular patterns in image (simplified)."""
# This is a simplified check - real implementation would use computer vision
return False
def _analyze_content(self, analysis: Dict[str, Any]) -> Dict[str, Any]:
"""Analyze content for themes and patterns."""
ocr_text = analysis.get("ocr_text", "")
content_analysis = {
"word_count": len(ocr_text.split()),
"has_text": bool(ocr_text),
"themes": [],
"entities": [],
"relationships": []
}
if ocr_text:
# Extract potential entities (capitalized words)
words = ocr_text.split()
entities = [word for word in words if word[0].isupper() and len(word) > 2]
content_analysis["entities"] = list(set(entities))[:10]
# Look for relationships
relationship_patterns = [
r"(\w+)\s*->\s*(\w+)",
r"(\w+)\s*→\s*(\w+)",
r"(\w+)\s*to\s*(\w+)",
r"(\w+)\s*from\s*(\w+)"
]
for pattern in relationship_patterns:
matches = re.findall(pattern, ocr_text)
for match in matches:
content_analysis["relationships"].append({
"source": match[0],
"target": match[1],
"type": "connection"
})
return content_analysis
class MeaningKernelExtractor:
"""Extract meaning kernels from diagrams."""
def __init__(self, config: Dict[str, Any] = None):
self.config = config or {}
self.analyzer = DiagramAnalyzer(config)
self.kernels: List[MeaningKernel] = []
self.stats = {
"pages_processed": 0,
"diagrams_analyzed": 0,
"kernels_extracted": 0,
"errors": 0,
"dependency_warnings": 0
}
# Check dependencies and update stats
if not PIL_AVAILABLE:
self.stats["dependency_warnings"] += 1
if not TESSERACT_AVAILABLE:
self.stats["dependency_warnings"] += 1
if not PDF2IMAGE_AVAILABLE:
self.stats["dependency_warnings"] += 1
def extract_from_pdf(self, pdf_path: str, output_dir: str = None) -> List[MeaningKernel]:
"""Extract meaning kernels from a PDF file."""
if not PDF2IMAGE_AVAILABLE:
print("Error: pdf2image is required for PDF processing")
print("Install with: pip install pdf2image")
print("System dependencies:")
print(" macOS: brew install poppler")
print(" Ubuntu: sudo apt-get install poppler-utils")
self.stats["errors"] += 1
return []
pdf_path = Path(pdf_path)
if not pdf_path.exists():
print(f"Error: PDF not found: {pdf_path}")
self.stats["errors"] += 1
return []
print(f"Processing PDF: {pdf_path}")
# Create output directory
if output_dir:
output_path = Path(output_dir)
else:
output_path = pdf_path.parent / f"{pdf_path.stem}_kernels"
output_path.mkdir(parents=True, exist_ok=True)
# Convert PDF to images
try:
from pdf2image import convert_from_path
images = convert_from_path(pdf_path, dpi=300)
print(f"Converted {len(images)} pages to images")
except Exception as e:
print(f"Error converting PDF: {e}")
self.stats["errors"] += 1
return []
# Process each page
all_kernels = []
for i, image in enumerate(images):
page_num = i + 1
print(f"Processing page {page_num}/{len(images)}")
# Save image temporarily
temp_image_path = output_path / f"page_{page_num:03d}.png"
image.save(temp_image_path)
# Extract kernels from image
page_kernels = self.extract_from_image(temp_image_path, page_num)
all_kernels.extend(page_kernels)
self.stats["pages_processed"] += 1
# Save all kernels
self._save_kernels(all_kernels, output_path)
return all_kernels
def extract_from_image(self, image_path: str, page_num: int = None) -> List[MeaningKernel]:
"""Extract meaning kernels from an image."""
print(f"Processing image: {image_path}")
# Analyze image
try:
analysis = self.analyzer.analyze_image(str(image_path))
except Exception as e:
print(f"Error analyzing image: {e}")
self.stats["errors"] += 1
return []
# Generate kernels
kernels = self._generate_kernels(analysis, str(image_path), page_num)
self.stats["diagrams_analyzed"] += 1
self.stats["kernels_extracted"] += len(kernels)
return kernels
def _generate_kernels(self, analysis: Dict[str, Any], source: str, page_num: int = None) -> List[MeaningKernel]:
"""Generate meaning kernels from analysis."""
kernels = []
# Create base ID
base_id = f"kernel_{datetime.now().strftime('%Y%m%d_%H%M%S')}"
if page_num:
base_id += f"_p{page_num}"
# 1. Text kernel (from OCR)
if analysis.get("ocr_text"):
text_kernel = MeaningKernel(
kernel_id=f"{base_id}_text",
content=analysis["ocr_text"],
source=source,
kernel_type="text",
confidence=analysis.get("ocr_confidence", 0.0),
metadata={
"word_count": analysis.get("ocr_word_count", 0),
"line_count": len(analysis.get("ocr_lines", [])),
"diagram_type": analysis.get("diagram_type", "unknown")
},
tags=["ocr", "text", "extracted"]
)
kernels.append(text_kernel)
# 2. Structure kernel
structure_content = f"Diagram type: {analysis.get('diagram_type', 'unknown')}. "
structure_content += f"Dimensions: {analysis['dimensions']['width']}x{analysis['dimensions']['height']}. "
structure_content += f"Aspect ratio: {analysis['aspect_ratio']:.2f}. "
# Add color information
color_analysis = analysis.get("color_analysis", {})
if color_analysis.get("is_grayscale"):
structure_content += "Grayscale image. "
elif color_analysis.get("dominant_colors"):
top_color = color_analysis["dominant_colors"][0]
structure_content += f"Dominant color: RGB{top_color['color']} ({top_color['percentage']}%). "
structure_kernel = MeaningKernel(
kernel_id=f"{base_id}_structure",
content=structure_content,
source=source,
kernel_type="structure",
confidence=0.9,
metadata={
"dimensions": analysis["dimensions"],
"aspect_ratio": analysis["aspect_ratio"],
"diagram_type": analysis.get("diagram_type", "unknown"),
"color_analysis": color_analysis
},
tags=["structure", "layout", "visual"]
)
kernels.append(structure_kernel)
# 3. Summary kernel
summary = f"Research diagram analysis: {analysis.get('diagram_type', 'unknown')} diagram. "
if analysis.get("ocr_text"):
summary += f"Contains text: {analysis['ocr_text'][:200]}..."
else:
summary += "No text detected."
# Add content analysis
content_analysis = analysis.get("content_analysis", {})
if content_analysis.get("entities"):
summary += f" Entities: {', '.join(content_analysis['entities'][:5])}."
summary_kernel = MeaningKernel(
kernel_id=f"{base_id}_summary",
content=summary,
source=source,
kernel_type="summary",
confidence=0.7,
metadata={
"has_text": bool(analysis.get("ocr_text")),
"text_length": len(analysis.get("ocr_text", "")),
"entities": content_analysis.get("entities", []),
"relationships": content_analysis.get("relationships", [])
},
tags=["summary", "overview", "analysis"]
)
kernels.append(summary_kernel)
# 4. Philosophical kernel (if we have text)
if analysis.get("ocr_text") and len(analysis["ocr_text"]) > 50:
philosophical_content = self._extract_philosophical_content(analysis["ocr_text"])
if philosophical_content:
philosophical_kernel = MeaningKernel(
kernel_id=f"{base_id}_philosophical",
content=philosophical_content,
source=source,
kernel_type="philosophical",
confidence=0.6,
metadata={
"extraction_method": "keyword_analysis",
"source_text_length": len(analysis["ocr_text"]),
"keywords_found": self._find_philosophical_keywords(analysis["ocr_text"])
},
tags=["philosophical", "meaning", "conceptual"]
)
kernels.append(philosophical_kernel)
# 5. Semantic kernel (if we have relationships)
content_analysis = analysis.get("content_analysis", {})
if content_analysis.get("relationships"):
relationships = content_analysis["relationships"]
semantic_content = f"Semantic relationships detected: {len(relationships)} connections. "
for rel in relationships[:3]:
semantic_content += f"{rel['source']}{rel['target']}. "
semantic_kernel = MeaningKernel(
kernel_id=f"{base_id}_semantic",
content=semantic_content,
source=source,
kernel_type="semantic",
confidence=0.8,
metadata={
"relationship_count": len(relationships),
"relationships": relationships
},
tags=["semantic", "relationships", "connections"]
)
kernels.append(semantic_kernel)
# Add to internal list
self.kernels.extend(kernels)
return kernels
def _extract_philosophical_content(self, text: str) -> Optional[str]:
"""Extract philosophical content from text."""
# Look for philosophical keywords
found_keywords = self._find_philosophical_keywords(text)
if found_keywords:
return f"Philosophical themes detected: {', '.join(found_keywords)}. " f"Source text explores concepts of {found_keywords[0]}."
return None
def _find_philosophical_keywords(self, text: str) -> List[str]:
"""Find philosophical keywords in text."""
text_lower = text.lower()
found_keywords = []
for keyword in self.analyzer.philosophical_keywords:
if keyword in text_lower:
found_keywords.append(keyword)
return found_keywords
def _save_kernels(self, kernels: List[MeaningKernel], output_path: Path):
"""Save kernels to files."""
if not kernels:
print("No kernels to save")
return
# Save as JSON
json_path = output_path / "meaning_kernels.json"
kernels_data = [k.to_dict() for k in kernels]
with open(json_path, 'w') as f:
json.dump(kernels_data, f, indent=2)
# Save as Markdown
md_path = output_path / "meaning_kernels.md"
with open(md_path, 'w') as f:
f.write(f"# Meaning Kernels Extraction Report\n")
f.write(f"Generated: {datetime.now().isoformat()}\n")
f.write(f"Total kernels: {len(kernels)}\n\n")
# Group by type
by_type = {}
for kernel in kernels:
by_type.setdefault(kernel.kernel_type, []).append(kernel)
for kernel_type, type_kernels in by_type.items():
f.write(f"## {kernel_type.title()} Kernels ({len(type_kernels)})\n\n")
for kernel in type_kernels:
f.write(f"### {kernel.kernel_id}\n")
f.write(f"- **Source**: {kernel.source}\n")
f.write(f"- **Confidence**: {kernel.confidence:.2f}\n")
f.write(f"- **Timestamp**: {kernel.timestamp}\n")
f.write(f"- **Tags**: {', '.join(kernel.tags)}\n")
f.write(f"- **Content**: {kernel.content}\n")
f.write(f"- **Metadata**: {json.dumps(kernel.metadata, indent=2)}\n\n")
# Save statistics
stats_path = output_path / "extraction_stats.json"
with open(stats_path, 'w') as f:
json.dump(self.stats, f, indent=2)
print(f"Saved {len(kernels)} kernels to {output_path}")
print(f" - JSON: {json_path}")
print(f" - Markdown: {md_path}")
print(f" - Statistics: {stats_path}")
def get_stats(self) -> Dict[str, Any]:
"""Get extraction statistics."""
return self.stats.copy()
def main():
"""Command line interface."""
parser = argparse.ArgumentParser(description="Extract meaning kernels from research diagrams")
parser.add_argument("input", help="Input PDF or image file/directory")
parser.add_argument("-o", "--output", help="Output directory")
parser.add_argument("-c", "--config", help="Configuration file (JSON)")
parser.add_argument("-v", "--verbose", action="store_true", help="Verbose output")
args = parser.parse_args()
# Load config if provided
config = {}
if args.config:
with open(args.config) as f:
config = json.load(f)
# Create extractor
extractor = MeaningKernelExtractor(config)
# Process input
input_path = Path(args.input)
if input_path.is_file():
if input_path.suffix.lower() == '.pdf':
kernels = extractor.extract_from_pdf(input_path, args.output)
elif input_path.suffix.lower() in ['.png', '.jpg', '.jpeg', '.tiff', '.bmp']:
kernels = extractor.extract_from_image(input_path)
else:
print(f"Unsupported file type: {input_path.suffix}")
sys.exit(1)
elif input_path.is_dir():
# Process all PDFs and images in directory
all_kernels = []
for file_path in input_path.iterdir():
if file_path.suffix.lower() == '.pdf':
kernels = extractor.extract_from_pdf(file_path, args.output)
all_kernels.extend(kernels)
elif file_path.suffix.lower() in ['.png', '.jpg', '.jpeg', '.tiff', '.bmp']:
kernels = extractor.extract_from_image(file_path)
all_kernels.extend(kernels)
else:
print(f"Input not found: {input_path}")
sys.exit(1)
# Print summary
stats = extractor.get_stats()
print("\n" + "="*50)
print("EXTRACTION SUMMARY")
print("="*50)
print(f"Pages processed: {stats['pages_processed']}")
print(f"Diagrams analyzed: {stats['diagrams_analyzed']}")
print(f"Kernels extracted: {stats['kernels_extracted']}")
print(f"Errors: {stats['errors']}")
print(f"Dependency warnings: {stats['dependency_warnings']}")
print("="*50)
# Exit with appropriate code
sys.exit(0 if stats['errors'] == 0 else 1)
if __name__ == "__main__":
main()

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@@ -0,0 +1,19 @@
# Meaning Kernel Extraction Dependencies
# Image processing
Pillow>=10.0.0
# OCR (Optical Character Recognition)
pytesseract>=0.3.10
# PDF processing
pdf2image>=1.16.3
# Optional: Enhanced computer vision
# opencv-python>=4.8.0
# numpy>=1.24.0
# Development tools
pytest>=7.4.0
black>=23.0.0
flake8>=6.0.0

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@@ -0,0 +1,141 @@
#!/usr/bin/env python3
"""
Improved test script for meaning kernel extraction pipeline.
"""
import os
import sys
import tempfile
from pathlib import Path
# Add parent directory to path
sys.path.insert(0, str(Path(__file__).parent))
def create_test_image_with_text():
"""Create a test image with text."""
try:
from PIL import Image, ImageDraw, ImageFont
# Create image
img = Image.new('RGB', (800, 600), color='white')
draw = ImageDraw.Draw(img)
# Draw some content
try:
font = ImageFont.truetype("Arial", 20)
except:
font = ImageFont.load_default()
# Draw text
text_lines = [
"Research Diagram: Knowledge Extraction Pipeline",
"",
"Input → Processing → Output",
"",
"Key Concepts:",
"- Data ingestion",
"- Feature extraction",
"- Pattern recognition",
"- Knowledge representation",
"",
"Philosophical aspects:",
"- Truth and knowledge",
"- Meaning and purpose",
"- Reality and existence"
]
y = 50
for line in text_lines:
draw.text((50, y), line, fill='black', font=font)
y += 30
# Draw a simple flowchart
draw.rectangle([300, 200, 500, 250], outline='blue', width=2)
draw.text((320, 210), "Process", fill='blue', font=font)
draw.line([500, 225, 600, 225], fill='black', width=2)
draw.polygon([600, 225, 590, 215, 590, 235], fill='black')
draw.rectangle([600, 200, 750, 250], outline='green', width=2)
draw.text((620, 210), "Output", fill='green', font=font)
# Save to temp file
temp_dir = Path(tempfile.mkdtemp())
image_path = temp_dir / "test_diagram_with_text.png"
img.save(image_path)
print(f"Created test image with text: {image_path}")
return image_path
except ImportError as e:
print(f"Cannot create test image: {e}")
return None
def test_extraction():
"""Test the extraction pipeline."""
print("Testing Improved Meaning Kernel Extraction Pipeline...")
# Check if we can import the extractor
try:
from extract_meaning_kernels import MeaningKernelExtractor
print("✓ Successfully imported MeaningKernelExtractor")
except ImportError as e:
print(f"✗ Failed to import: {e}")
return False
# Create test image
test_image = create_test_image_with_text()
if not test_image:
print("Skipping test - cannot create test image")
return True
# Test extraction
try:
extractor = MeaningKernelExtractor()
print("\nExtracting kernels from test image...")
kernels = extractor.extract_from_image(test_image)
print(f"✓ Extracted {len(kernels)} kernels")
# Print kernel details
for kernel in kernels:
print(f"\nKernel: {kernel.kernel_id}")
print(f" Type: {kernel.kernel_type}")
print(f" Confidence: {kernel.confidence:.2f}")
print(f" Tags: {', '.join(kernel.tags)}")
print(f" Content: {kernel.content[:100]}...")
# Get stats
stats = extractor.get_stats()
print(f"\nStatistics:")
for key, value in stats.items():
print(f" {key}: {value}")
# Check for philosophical kernels
philosophical_kernels = [k for k in kernels if k.kernel_type == "philosophical"]
if philosophical_kernels:
print(f"\n✓ Found {len(philosophical_kernels)} philosophical kernel(s)")
else:
print("\n⚠ No philosophical kernels found (may need OCR dependencies)")
return True
except Exception as e:
print(f"✗ Extraction test failed: {e}")
import traceback
traceback.print_exc()
return False
if __name__ == "__main__":
print("Improved Meaning Kernel Extraction Pipeline Test")
print("=" * 50)
success = test_extraction()
print("\n" + "=" * 50)
if success:
print("✓ All tests passed!")
sys.exit(0)
else:
print("✗ Some tests failed")
sys.exit(1)