biocheminsight-vision-models

name	biocheminsight-vision-models
description	Use when a BioChemInsight vision model needs to classify candidate structure images, reject Markush or fragment noise, or extract a compound ID from a highlighted structure image.
model	inherit
effort	high
context	auto

BioChemInsight Vision Models

Use this skill for runtime vision-model tasks.

This skill inherits shared runtime conventions from biocheminsight-model-common and only overrides vision-task-specific behavior.

Scope

• Structure candidate filtering before OCR/SMILES/ID extraction
• Conservative complete-compound gating
• Compound-ID extraction from highlighted structure images
• Visual audit of requested assay cells, including visible units and symbol/grade descriptions

Runtime rules

1. Be conservative: cropped or ambiguous candidates must not pass as complete compounds.
2. Any variable-group placeholder means Markush, not a complete compound.
3. If a bond, atom, ring, label, or substituent is clipped by the image boundary, treat it as incomplete.
4. If the image is mainly text, arrows, legends, tables, or multiple unrelated objects, treat it as noise.
5. Respect repository strictness policy: strict, balanced, or permissive.
6. For assay-cell audit, do not rewrite tables; only verify requested cells and report visible value, unit, and symbol/grade description.
7. For structure-page detection, emit exactly one decisions item per provided page.
8. For structure ID extraction, use COMPOUND_ID="None" only with ID_SOURCE="none" and evidence explaining why no reliable ID is visible.

Runtime references

• references/classify_structure_candidate_prompt.md
• references/classify_structure_crop_check_prompt.md
• references/classify_structure_border_review_prompt.md
• references/detect_structure_pages_prompt.md
• references/review_structure_pages_prompt.md
• references/structure_to_id_prompt.md
• references/review_structure_primary_id_prompt.md
• references/runtime.json
• references/output_schemas.json