pathml
No security findings. Scanned 1 time, most recently 2026-10-21.
Second scanner: NVIDIA SkillSpector
Independent static run, no language model, over the same files as the Cisco scan above. How the two scanners compare across the whole corpus: Two scanners, one corpus.
What this skill does
Supports local computational pathology research with PathML: slide loading and tiling, preprocessing and QC, h5path storage, multiplex quantification, spatial graphs, and bounded model inference. Use for whole-slide H&E, CODEX, Vectra, Mesmer, HoVer-Net, and HACTNet workflows.
- Package
- 13 files, 162 KB
- SKILL.md
- 1519 words, 12+ sections
- Code
- Python (6)
- Allowed tools
ReadWriteEditBashGlob- License
- MIT
- Compatibility
- Requires Python 3.10-3.12 for the PathML 3.0.8 dependency stack, native OpenSlide, a JDK/compiler for python-javabridge, and Bio-Formats. Network needed for installation and optional model/dataset downloads. Bundled Python 3.10+ planners and validators need only the standard library; optional metadata/image inspection needs its reader package.
SKILL.md covers: PathML · Scope and safety boundary · Version baseline, reviewed 2026-10-01 · Reproducible installation · Debian/Ubuntu · macOS · Windows OpenSlide option documented upstream · Stable minimal workflow · Research workflow · No-network default and explicit consent gate · Model-code security · Bundled local CLIs
Findings
No findings. SAFE
What is in the package
| File | Kind | Size |
|---|---|---|
SKILL.md | doc | 13 KB |
references/data_management.md | doc | 13 KB |
references/graphs.md | doc | 11 KB |
references/image_loading.md | doc | 11 KB |
references/machine_learning.md | doc | 14 KB |
references/multiparametric.md | doc | 14 KB |
references/preprocessing.md | doc | 12 KB |
scripts/_common.py | script | 12 KB |
scripts/image_qc.py | script | 11 KB |
scripts/plan_inference.py | script | 9.5 KB |
scripts/plan_pipeline.py | script | 11 KB |
scripts/slide_manifest.py | script | 14 KB |
scripts/validate_spatial_schema.py | script | 16 KB |
External hosts referenced
github.com pathml.readthedocs.io doi.org huggingface.co arxiv.org openslide.org docs.openmicroscopy.org export.arxiv.org onnxruntime.ai proceedings.mlr.press pypi.org warwick.ac.uk zenodo.org
Hostnames that appear in the skill's files. Referencing a host is not a finding; compare against the findings above and the skill's stated purpose.
Environment variables referenced
JAVA_HOME
Package contents recorded 2026-10-22 at commit 593377bb0487. The scan above ran against the version current at scan time; the two can differ if the skill has since been updated.
What we checked
- Static analyzer. Pattern rules over SKILL.md and bundled files: known-bad commands, exfiltration URLs, secrets, obfuscation.
- Bytecode analyzer.
- Pipeline analyzer.
- Correlation analyzer.
- Behavioral analyzer. Checks what the skill asks the agent to do against what its description claims it does.
- Trigger analyzer. Looks for instructions that fire on conditions the user did not ask for.
What we did not check
- Runtime behaviour. The skill was not executed; findings come from reading its files.
- Anything fetched at install or run time, including remote scripts, package dependencies, and URLs the skill tells the agent to open.
- Content the analyzers cannot read: images, binaries, and some non-English text.
- Known scanner bypass classes. See the methodology and limitations page.
Sources
- Repository: https://github.com/K-Dense-AI/scientific-agent-skills
- Raw scan result: skills-pathml-scan.json
- Badge for your README:
- Request a re-scan