sci-figure

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Extracts figures and sub-figures from academic PDF papers. Supports Fig/Figure, Scheme, Chart, Supplementary Figure, Extended Data Figure (Nature), and Chinese equivalents (图/方案/示意图/附图/补充图). Sub-figure label recognition supports (a)/(A)/a)/(i)/(1)/a. formats. High-quality PNG output at configurable DPI. Use when user asks to "extract figure", "截取文献图片", "提取子图", "get figure from paper", "Scheme", "方案图", "补充图", "Supplementary Figure", or "Extended Data".

2installs

Sourceshzhao27208/aut_sci_write

Added on2026-05-16

NPX Install

npx skill4agent add shzhao27208/aut_sci_write sci-figure

SKILL.md Content

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Sci-Figure — Scientific Figure Extractor

Precisely extract figures and sub-figures from academic PDF papers.

Installation

Install the package from the skill directory before first use:

bash

cd ${SKILL_DIR}
pip install -e .

This registers the

sh-sci-fig

CLI command. Requires Tesseract OCR:

Windows:
```
winget install UB-Mannheim.TesseractOCR
```
Linux:
```
apt install tesseract-ocr
```
macOS:
```
brew install tesseract
```

Preferences (EXTEND.md)

Use Bash to check EXTEND.md existence (priority order):

bash

# Check project-level first
test -f .baoyu-skills/sci-figure/EXTEND.md && echo "project"

# Then user-level (cross-platform: $HOME works on macOS/Linux/WSL)
test -f "$HOME/.baoyu-skills/sci-figure/EXTEND.md" && echo "user"

EXTEND.md Supports: Default DPI | Default output format | Tesseract path

Usage

bash

sh-sci-fig <input.pdf> [options]

Options

Option	Short	Description	Default
`<input>`		PDF file path	Required
`--figure`	`-f`	Figure number (1, 2, 3...)	Required (except --list/--all)
`--subfigure`	`-s`	Sub-figure label (a, b, c...)	None (returns whole figure)
`--output`	`-o`	Output directory	Current directory
`--dpi`	`-d`	Output resolution	600
`--list`	`-l`	List all available figure numbers	false
`--all`		Extract all figures	false
`--format`		Output format (png/jpg)	png
`--quiet`	`-q`	Suppress info messages	false

Examples

bash

# Extract Figure 2, sub-figure c
sh-sci-fig paper.pdf -f 2 -s c

# Extract entire Figure 3
sh-sci-fig paper.pdf -f 3

# List all available figures in a PDF
sh-sci-fig paper.pdf --list

# Extract all figures
sh-sci-fig paper.pdf --all

# Custom output directory and DPI
sh-sci-fig paper.pdf -f 2 -s c -o ./output/ -d 300

Output:

Extracted: figure_2c.png (1920x1080, 600 DPI)

Error Handling

Scenario	Behavior
Figure number not found	Error + list all available figure numbers
OCR recognition failed	Return entire figure region
Sub-figure split failed	Return entire figure region
No sub-figure labels found	Return entire figure region

Tech Stack

Library	Role
pdfplumber	Text + coordinate extraction (locate "Figure X" labels)
PyMuPDF (fitz)	PDF → high-quality image rendering (600 DPI)
opencv-python	Boundary detection, contour analysis
Pillow	Final cropping, format conversion
pytesseract	OCR for sub-figure label recognition

Detected Figure Fields

Field	Type	Description
`number`	int	Figure number
`page`	int	Page index (0-based)
`bbox`	tuple	Crop region in pixels
`bbox_pdf`	tuple	Crop region in PDF points
`caption`	str	Caption text (truncated to 200 chars)
`caption_full`	str	Full caption text (no truncation)
`caption_bbox_pdf`	tuple	Caption bounding box in PDF points
`sublabels`	list[str]	Sub-figure labels, e.g. `["a","b","c"]`
`sublabel_details`	list[dict]	Labels with detected format, e.g. `{"label":"a","format":"(a)"}`
`figure_type`	str	One of: `figure` , `scheme` , `chart` , `supplementary` , `extended_data`
`is_supplementary`	bool	True for `supplementary` and `extended_data` types
`image`	ndarray	Cropped figure image (numpy array)

Extension Support

Custom configurations via EXTEND.md. See Preferences section for paths and supported options.

Aut_Sci_Write — Autonomous Scientific Writer

Author: Shuo Zhao
License: MIT License
Original Work: This is an original work created by the author. No reproduction, redistribution, or commercial use without explicit permission. Permission is hereby granted, free of charge, to any person obtaining a copy of this software... (See the LICENSE file in the root directory for the full MIT terms.)

sci-figure

NPX Install

Tags

SKILL.md Content

Sci-Figure — Scientific Figure Extractor

Installation

Preferences (EXTEND.md)

Usage

Options

Examples

Error Handling

Tech Stack

Detected Figure Fields

Extension Support

© License & Copyright

This skill is part of the Aut_Sci_Write suite. For full license terms, see the LICENSE file in the project root.