Public recordModerate
Software health reportschema 0.11.0 · metrics 1.13.0 · 2026-07-15 11:44 UTC
a-r-j / ProteinWorkshop
Benchmarking framework for protein representation learning. Includes a large number of pre-training and downstream task datasets, models and training/task utilities. (ICLR 2024)
a-r-j/ProteinWorkshop holds a health index of 54 out of 100, placing it in the Moderate band. It scores highest on Engineering Quality (84/100) and lowest on Vitality (25/100). It was last updated 443 days ago. 2 contributors account for most of its recent work.
54
overall / 100Software health index
Metrics are grouped into weighted categories on one standardized 1–100 scale. Overall starts as their weighted mean; when public evidence triggers the High-Risk Jurisdiction Policy, the rating is adjusted and receives an At risk ceiling of 49. AI Readiness sits outside the overall score.
54
Excellent85-100Exemplary; meets essentially all checked criteria
Good70-84Healthy; minor gaps
Moderate50-69Acceptable with notable gaps; review recommended
At risk30-49Significant weaknesses; adoption warrants caution
Critical1-29Severe problems (abandoned, single-maintainer, no hygiene)
Score profile
Each axis is a category. The shape matters more than the average — a healthy subject fills the whole shape, while a spike-and-crater profile means strength in one dimension is masking risk in another.
Ownership
Arian JamasbPersonal account
238 followers34 public repossince Nov 2016University of Cambridge
This repository is owned by a personal account. A single-owner project carries more continuity risk than an organization-backed one.
Package ecosystems
| Registry | Package | Version | Downloads / mo | Versions | Last publish | Tags |
|---|---|---|---|---|---|---|
| PyPI | proteinworkshop | 0.2.5 | - | 7 | 928 days ago | proteinsdeep-learningdatasetsbenchmarks |
Metrics by category
Vitality
Is the project alive — is code being written and are releases shipping?
25
Development activity
1Critical
How it's scored
| 0/36 | Push recency — last push 443 days ago |
| 0/36 | Commit cadence — 0/52 weeks with commits |
| 0/18 | Commit volume — 0 commits in the last year |
| 0/10 | OpenSSF Scorecard: Maintained — 0 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 0 |
Inputs used
| commits_last_year | 0 |
| human_commit_share | — |
| days_since_last_push | 443 |
| active_weeks_last_year | 0 |
Release discipline
60Moderate
How it's scored
| 27/27 | Ships releases — 6 releases published |
| 0/36 | Release recency — latest release 928 days ago |
| 27/27 | Release cadence — a release every ~24.6 days |
| 0/10 | OpenSSF Scorecard: Signed-Releases — no data |
Inputs used
| releases_count | 6 |
| latest_release_tag | v0.2.5 |
| releases_from_tags | no |
| days_since_latest_release | 928 |
| mean_days_between_releases | 24.6 |
Excluded from scoring (no data or not applicable): OpenSSF Scorecard: Signed-Releases. Remaining weights renormalized.
Community & Adoption
Does the project have users, downloads, attention, and a welcoming setup for contributors?
52
Popularity & adoption
54Moderate
How it's scored
| 39.5/60 | Stars — 275 stars |
| 11/25 | Forks — 22 forks |
| 3.9/15 | Watchers — 6 watchers |
Inputs used
| forks | 22 |
| stars | 275 |
| watchers | 6 |
| growth_state | unverified |
| growth_factor_pct | 100 |
| growth_unverified_reason | no_history |
Community health
50Moderate
How it's scored
| 22.5/22.5 | README |
| 22.5/22.5 | License — recognized license (MIT) |
| 0/18 | CONTRIBUTING guide |
| 0/13.5 | Code of conduct |
| 0/7.2 | Issue template |
| 0/6.3 | PR template |
Inputs used
| has_readme | yes |
| has_license | yes |
| has_contributing | no |
| has_issue_template | no |
| has_code_of_conduct | no |
| has_pull_request_template | no |
Sustainability & Governance
Will the project survive its people — bus factor, responsiveness, who backs it, and package upkeep?
69
Maintainer resilience (bus factor)
64Moderate
How it's scored
| 25.2/54 | Bus factor — 2 contributor(s) cover half of all commits |
| 14.9/22.5 | Commit distribution — top contributor authored 34% of commits |
| 13.5/13.5 | Contributor breadth — 10 contributors |
| 10/10 | OpenSSF Scorecard: Contributors — project has 8 contributing companies or organizations |
Inputs used
| bus_factor | 2 |
| contributors_sampled | 10 |
| top_contributor_share | 0.339 |
How it's scored
| 36.4/46.8 | Issue resolution — 78% of issues closed |
| 33.7/38.3 | PR acceptance — 67/76 decided PRs merged |
| 12/15 | OpenSSF Scorecard: Code-Review — Found 9/11 approved changesets -- score normalized to 8 |
Inputs used
| merged_prs | 67 |
| open_issues | 6 |
| closed_issues | 21 |
| issue_closed_ratio | 0.778 |
| closed_unmerged_prs | 9 |
Ownership & stewardship
63Moderate
How it's scored
| 10/30 | Ownership backing — personal (user) account |
| 0/20 | Verified domain — not applicable to user accounts |
| 17.1/25 | Owner reach — 238 followers of a-r-j |
| 23.2/25 | Track record — 34 public repos, account ~9 yr old |
Inputs used
| followers | 238 |
| owner_type | User |
| is_verified | — |
| owner_login | a-r-j |
| public_repos | 34 |
| account_age_days | 3,520 |
Excluded from scoring (no data or not applicable): Verified domain. Remaining weights renormalized.
Package maintenance
69Moderate
How it's scored
| 25/25 | Published & resolvable — 1 package(s) on pypi |
| 4/35 | Publish recency — latest publish 928 days ago |
| 20/20 | Version history — 7 published versions |
| 20/20 | Not deprecated — active, not deprecated or yanked |
Inputs used
| packages | proteinworkshop |
| ecosystems | pypi |
| any_deprecated | no |
| min_days_since_publish | 928 |
Engineering Quality
Are baseline engineering and documentation practices in place?
84
Engineering practices
74Good
How it's scored
| 24/24 | CI workflows — 2 workflow(s) |
| 24/24 | Tests present |
| 16/16 | Linter config |
| 9.6/9.6 | Pre-commit hooks |
| 0/6.4 | .editorconfig |
| 0/20 | OpenSSF Scorecard: CI-Tests — 0 out of 11 merged PRs checked by a CI test -- score normalized to 0 |
Inputs used
| has_ci | yes |
| has_tests | yes |
| has_editorconfig | no |
| has_linter_config | yes |
| has_precommit_config | yes |
Documentation
100Excellent
How it's scored
| 30/30 | README |
| 25/25 | Documentation directory |
| 15/15 | Documentation / homepage site — https://proteins.sh/ |
| 10/10 | Repository description |
| 10/10 | Topics — 8 topics |
| 10/10 | Wiki |
Inputs used
| topics | benchmark, dataset, deep-learning, lightning, pretraining, protein, protein-structure, pytorch |
| has_wiki | yes |
| homepage | https://proteins.sh/ |
| has_readme | yes |
| has_docs_dir | yes |
| has_description | yes |
Security
Are visible security and supply-chain practices strong, without unresolved high-risk jurisdiction exposure?
39
Security posture
39At risk
How it's scored
| 7.5/7.5 | Binary-Artifacts — no binaries found in the repo |
| 0/7.5 | Branch-Protection — branch protection not enabled on development/release branches |
| 0/2.5 | CI-Tests — 0 out of 11 merged PRs checked by a CI test -- score normalized to 0 |
| 0/2.5 | CII-Best-Practices — no effort to earn an OpenSSF best practices badge detected |
| 6/7.5 | Code-Review — Found 9/11 approved changesets -- score normalized to 8 |
| 2.5/2.5 | Contributors — project has 8 contributing companies or organizations |
| 10/10 | Dangerous-Workflow — no dangerous workflow patterns detected |
| 7.5/7.5 | Dependency-Update-Tool — update tool detected |
| 0/5 | Fuzzing — project is not fuzzed |
| 2.5/2.5 | License — license file detected |
| 0/7.5 | Maintained — 0 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 0 |
| 0/5 | Packaging — no data |
| 0/5 | Pinned-Dependencies — dependency not pinned by hash detected -- score normalized to 0 |
| 0/5 | SAST — SAST tool is not run on all commits -- score normalized to 0 |
| 0/5 | Security-Policy — security policy file not detected |
| 0/7.5 | Signed-Releases — no data |
| 0/7.5 | Token-Permissions — detected GitHub workflow tokens with excessive permissions |
| 0/7.5 | Vulnerabilities — 161 existing vulnerabilities detected |
Inputs used
| source | openssf_scorecard |
| checks_evaluated | 16 |
| scorecard_version | v5.5.0 |
| checks_inconclusive | 2 |
| scorecard_aggregate | 3.9 |
Excluded from scoring (no data or not applicable): packaging, signed_releases. Remaining weights renormalized.
AI Readiness
How well is the repo equipped to be developed and maintained with AI coding agents? An independent, experimental badge — weight 0.0, so it is surfaced on its own and does not affect the overall health score.
44
Agent context & guidance
1Critical
How it's scored
| 0/45 | Agent instructions — no CLAUDE.md / AGENTS.md / editor rules |
| 0/15 | Machine-readable docs (llms.txt) |
| 0/40 | Legible commit history — no data |
Inputs used
| has_llms_txt | no |
| legible_history_share | — |
| agent_instruction_files | — |
| agent_instruction_max_bytes | — |
Excluded from scoring (no data or not applicable): Legible commit history. Remaining weights renormalized.
How it's scored
| 18/18 | One-command bootstrap — docs/Makefile |
| 22/22 | Automated tests |
| 11/11 | Lint / format config |
| 0/11 | Static type checking |
| 10/10 | Reproducible environment — lockfile |
| 0/10 | Demonstrated agent practice — no data |
| 0/8 | Automated maintenance — no data |
| 0/10 | OpenSSF Scorecard: Pinned-Dependencies — dependency not pinned by hash detected -- score normalized to 0 |
Inputs used
| has_nix | no |
| has_tests | yes |
| lockfiles | poetry.lock |
| has_dockerfile | no |
| typed_language | no |
| bootstrap_files | docs/Makefile |
| has_devcontainer | no |
| has_linter_config | yes |
| typecheck_configs | — |
| agent_commit_share | — |
| toolchain_manifests | — |
| dependency_bot_commit_share | — |
Excluded from scoring (no data or not applicable): Demonstrated agent practice, Automated maintenance. Remaining weights renormalized.
Code legibility for models
55Moderate
How it's scored
| 0/45 | Type-checkable code — Python without a type-check config |
| 55/55 | Manageable file sizes — 0/130 source files over 60KB |
Inputs used
| primary_language | Python |
| largest_source_bytes | 42,094 |
| source_files_sampled | 130 |
| oversized_source_files | 0 |
Machine-readable interfaces
40At risk
How it's scored
| 0/40 | API schema (OpenAPI/GraphQL/proto) |
| 0/20 | MCP server |
| 40/40 | Runnable examples — notebooks |
Inputs used
| example_dirs | notebooks |
| has_mcp_signal | no |
| api_schema_files | — |
Key facts
275GitHub stars
10contributors
0commits, last 12 months
443days since last push
6releases
2bus factor
6open issues
PyPIpackage ecosystems
More detail
OpenSSF Scorecard 3.9 / 10
3.9aggregate
Independent, tool-agnostic security assessment from the open-source OpenSSF Scorecard. Each check rewards a security practice, not a specific vendor's tool. Checks Scorecard could not determine are marked n/a and excluded from the security score (never counted as zero).
| 10 | Binary-Artifacts | no binaries found in the repo |
| 0 | Branch-Protection | branch protection not enabled on development/release branches |
| 0 | CI-Tests | 0 out of 11 merged PRs checked by a CI test -- score normalized to 0 |
| 0 | CII-Best-Practices | no effort to earn an OpenSSF best practices badge detected |
| 8 | Code-Review | Found 9/11 approved changesets -- score normalized to 8 |
| 10 | Contributors | project has 8 contributing companies or organizations |
| 10 | Dangerous-Workflow | no dangerous workflow patterns detected |
| 10 | Dependency-Update-Tool | update tool detected |
| 0 | Fuzzing | project is not fuzzed |
| 10 | License | license file detected |
| 0 | Maintained | 0 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 0 |
| n/a | Packaging | packaging workflow not detected |
| 0 | Pinned-Dependencies | dependency not pinned by hash detected -- score normalized to 0 |
| 0 | SAST | SAST tool is not run on all commits -- score normalized to 0 |
| 0 | Security-Policy | security policy file not detected |
| n/a | Signed-Releases | no releases found |
| 0 | Token-Permissions | detected GitHub workflow tokens with excessive permissions |
| 0 | Vulnerabilities | 161 existing vulnerabilities detected |
Direct dependencies 32
| Registry | Package | Version constraint | Manifest |
|---|---|---|---|
| PyPI | graphein | ^1.7.5 | pyproject.toml |
| PyPI | loguru | ^0.7.0 | pyproject.toml |
| PyPI | fair-esm | ^2.0.0 | pyproject.toml |
| PyPI | hydra-core | ^1.3.2 | pyproject.toml |
| PyPI | biotite | ^0.37.0 | pyproject.toml |
| PyPI | e3nn | ^0.5.1 | pyproject.toml |
| PyPI | einops | ^0.6.1 | pyproject.toml |
| PyPI | beartype | ^0.15.0 | pyproject.toml |
| PyPI | rich | ^13.5.2 | pyproject.toml |
| PyPI | pytdc | ^0.4.1 | pyproject.toml |
| PyPI | wandb | ^0.15.8 | pyproject.toml |
| PyPI | torchmetrics | ^1.2.0 | pyproject.toml |
| PyPI | lovely-tensors | ^0.1.15 | pyproject.toml |
| PyPI | psutil | ^5.9.5 | pyproject.toml |
| PyPI | tqdm | ^4.66.1 | pyproject.toml |
| PyPI | jaxtyping | ^0.2.24 | pyproject.toml |
| PyPI | omegaconf | ^2.3.0 | pyproject.toml |
| PyPI | pytorch-lightning | ^2.0.7 | pyproject.toml |
| PyPI | lightning | ^2.0.7 | pyproject.toml |
| PyPI | python-dotenv | ^1.0.0 | pyproject.toml |
| PyPI | wget | ^3.2 | pyproject.toml |
| PyPI | opt-einsum | ^3.3.0 | pyproject.toml |
| PyPI | torch | ^2.1.2 | pyproject.toml |
| PyPI | pyrootutils | ^1.0.4 | pyproject.toml |
| PyPI | torch-geometric | ^2.4.0 | pyproject.toml |
| PyPI | hydra-colorlog | ^1.2.0 | pyproject.toml |
| PyPI | foldcomp | ^0.0.5 | pyproject.toml |
| PyPI | captum | ^0.6.0 | pyproject.toml |
| PyPI | umap-learn | ^0.5.4 | pyproject.toml |
| PyPI | matplotlib | ^3.7.2 | pyproject.toml |
| PyPI | datashader | ^0.16.0 | pyproject.toml |
| PyPI | holoviews | ^1.18.0 | pyproject.toml |
All dependencies 240
Full resolved dependency set from the GitHub dependency graph: 31 direct and 209 indirect (transitive) packages. The transitive closure is complete when the repository commits a lockfile.
| Registry | Package | Version | Relation |
|---|---|---|---|
| PyPI | beartype | 0.15.0 | direct |
| PyPI | biotite | 0.37.0 | direct |
| PyPI | captum | 0.6.0 | direct |
| PyPI | datashader | 0.16.0 | direct |
| PyPI | e3nn | 0.5.1 | direct |
| PyPI | einops | 0.6.1 | direct |
| PyPI | fair-esm | 2.0.0 | direct |
| PyPI | foldcomp | 0.0.5 | direct |
| PyPI | graphein | 1.7.6 | direct |
| PyPI | holoviews | 1.18.3 | direct |
| PyPI | hydra-colorlog | 1.2.0 | direct |
| PyPI | hydra-core | 1.3.2 | direct |
| PyPI | jaxtyping | 0.2.28 | direct |
| PyPI | lightning | 2.2.1 | direct |
| PyPI | loguru | 0.7.2 | direct |
| PyPI | lovely-tensors | 0.1.15 | direct |
| PyPI | matplotlib | 3.8.3 | direct |
| PyPI | omegaconf | 2.3.0 | direct |
| PyPI | opt-einsum | 3.3.0 | direct |
| PyPI | psutil | 5.9.8 | direct |
| PyPI | pyrootutils | 1.0.4 | direct |
| PyPI | pytdc | 0.4.1 | direct |
| PyPI | python-dotenv | 1.0.1 | direct |
| PyPI | pytorch-lightning | 2.2.1 | direct |
| PyPI | rich | 13.7.1 | direct |
| PyPI | torch-geometric | 2.5.2 | direct |
| PyPI | torchmetrics | 1.3.2 | direct |
| PyPI | tqdm | 4.66.2 | direct |
| PyPI | umap-learn | 0.5.5 | direct |
| PyPI | wandb | 0.15.12 | direct |
| PyPI | wget | 3.2 | direct |
| PyPI | aiohttp | 3.9.3 | indirect |
| PyPI | aiosignal | 1.3.1 | indirect |
| PyPI | alabaster | 0.7.16 | indirect |
| PyPI | antlr4-python3-runtime | 4.9.3 | indirect |
| PyPI | anyio | 4.3.0 | indirect |
| PyPI | appdirs | 1.4.4 | indirect |
| PyPI | asttokens | 2.4.1 | indirect |
| PyPI | async-timeout | 4.0.3 | indirect |
| PyPI | attrs | 23.2.0 | indirect |
| PyPI | babel | 2.14.0 | indirect |
| PyPI | beautifulsoup4 | 4.12.3 | indirect |
| PyPI | biopandas | 0.5.1.dev0 | indirect |
| PyPI | biopython | 1.83 | indirect |
| PyPI | bioservices | 1.11.2 | indirect |
| PyPI | black | 23.12.1 | indirect |
| PyPI | bleach | 6.1.0 | indirect |
| PyPI | bokeh | 3.3.4 | indirect |
| PyPI | cattrs | 23.2.3 | indirect |
| PyPI | certifi | 2024.2.2 | indirect |
| PyPI | cffi | 1.16.0 | indirect |
| PyPI | cfgv | 3.4.0 | indirect |
| PyPI | charset-normalizer | 3.3.2 | indirect |
| PyPI | click | 8.1.7 | indirect |
| PyPI | cloudpickle | 3.0.0 | indirect |
| PyPI | colorama | 0.4.6 | indirect |
| PyPI | colorcet | 3.1.0 | indirect |
| PyPI | colorlog | 6.8.2 | indirect |
| PyPI | contourpy | 1.2.0 | indirect |
| PyPI | cycler | 0.12.1 | indirect |
| PyPI | dask | 2024.3.1 | indirect |
| PyPI | dataclasses | 0.6 | indirect |
| PyPI | decorator | 5.1.1 | indirect |
| PyPI | deepdiff | 6.7.1 | indirect |
| PyPI | defusedxml | 0.7.1 | indirect |
| PyPI | distlib | 0.3.8 | indirect |
| PyPI | docker-pycreds | 0.4.0 | indirect |
| PyPI | docutils | 0.20.1 | indirect |
| PyPI | easydev | 0.13.1 | indirect |
| PyPI | emoji | 2.11.0 | indirect |
| PyPI | entrypoints | 0.4 | indirect |
| PyPI | exceptiongroup | 1.2.0 | indirect |
| PyPI | executing | 2.0.1 | indirect |
| PyPI | fastcore | 1.5.29 | indirect |
| PyPI | fastjsonschema | 2.19.1 | indirect |
| PyPI | filelock | 3.13.3 | indirect |
| PyPI | fonttools | 4.50.0 | indirect |
| PyPI | frozenlist | 1.4.1 | indirect |
| PyPI | fsspec | 2024.3.1 | indirect |
| PyPI | furo | 2023.9.10 | indirect |
| PyPI | fuzzywuzzy | 0.18.0 | indirect |
| PyPI | gevent | 24.2.1 | indirect |
| PyPI | gitdb | 4.0.11 | indirect |
| PyPI | gitpython | 3.1.42 | indirect |
| PyPI | greenlet | 3.0.3 | indirect |
| PyPI | grequests | 0.7.0 | indirect |
| PyPI | h11 | 0.14.0 | indirect |
| PyPI | httpcore | 1.0.4 | indirect |
| PyPI | httpx | 0.27.0 | indirect |
| PyPI | huggingface-hub | 0.22.1 | indirect |
| PyPI | identify | 2.5.35 | indirect |
| PyPI | idna | 3.6 | indirect |
| PyPI | imagesize | 1.4.1 | indirect |
| PyPI | importlib-metadata | 7.1.0 | indirect |
| PyPI | importlib-resources | 6.4.0 | indirect |
| PyPI | iniconfig | 2.0.0 | indirect |
| PyPI | ipython | 8.18.1 | indirect |
| PyPI | isort | 5.13.2 | indirect |
| PyPI | jedi | 0.19.1 | indirect |
| PyPI | jinja2 | 3.1.3 | indirect |
| PyPI | joblib | 1.3.2 | indirect |
| PyPI | jsonschema | 4.21.1 | indirect |
| PyPI | jsonschema-specifications | 2023.12.1 | indirect |
| PyPI | jupyter-client | 8.6.1 | indirect |
| PyPI | jupyter-core | 5.7.2 | indirect |
| PyPI | jupyterlab-pygments | 0.3.0 | indirect |
| PyPI | kiwisolver | 1.4.5 | indirect |
| PyPI | lightning-utilities | 0.11.1 | indirect |
| PyPI | line-profiler | 4.1.2 | indirect |
| PyPI | linkify-it-py | 2.0.3 | indirect |
| PyPI | llvmlite | 0.42.0 | indirect |
| PyPI | locket | 1.0.0 | indirect |
| PyPI | looseversion | 1.1.2 | indirect |
| PyPI | lovely-numpy | 0.2.11 | indirect |
| PyPI | lxml | 5.1.0 | indirect |
| PyPI | m2r2 | 0.3.3.post2 | indirect |
| PyPI | markdown | 3.6 | indirect |
| PyPI | markdown-it-py | 3.0.0 | indirect |
| PyPI | markupsafe | 2.1.5 | indirect |
| PyPI | matplotlib-inline | 0.1.6 | indirect |
| PyPI | mdit-py-plugins | 0.4.0 | indirect |
| PyPI | mdurl | 0.1.2 | indirect |
| PyPI | mistune | 0.8.4 | indirect |
| PyPI | mmtf-python | 1.1.3 | indirect |
| PyPI | mpmath | 1.3.0 | indirect |
| PyPI | msgpack | 1.0.8 | indirect |
| PyPI | multidict | 6.0.5 | indirect |
| PyPI | multipledispatch | 1.0.0 | indirect |
| PyPI | mypy-extensions | 1.0.0 | indirect |
| PyPI | nbclient | 0.10.0 | indirect |
| PyPI | nbconvert | 6.5.4 | indirect |
| PyPI | nbformat | 5.10.3 | indirect |
| PyPI | nbsphinx | 0.9.3 | indirect |
| PyPI | nbsphinx-link | 1.3.0 | indirect |
| PyPI | nbstripout | 0.6.2 | indirect |
| PyPI | networkx | 3.2.1 | indirect |
| PyPI | nodeenv | 1.8.0 | indirect |
| PyPI | numba | 0.59.1 | indirect |
| PyPI | numpy | 1.23.5 | indirect |
| PyPI | opt-einsum-fx | 0.1.4 | indirect |
| PyPI | ordered-set | 4.1.0 | indirect |
| PyPI | packaging | 24.0 | indirect |
| PyPI | pandas | 1.5.3 | indirect |
| PyPI | pandoc | 2.3 | indirect |
| PyPI | pandocfilters | 1.5.1 | indirect |
| PyPI | panel | 1.3.8 | indirect |
| PyPI | param | 2.1.0 | indirect |
| PyPI | parso | 0.8.3 | indirect |
| PyPI | partd | 1.4.1 | indirect |
| PyPI | pastel | 0.2.1 | indirect |
| PyPI | pathspec | 0.12.1 | indirect |
| PyPI | pathtools | 0.1.2 | indirect |
| PyPI | pexpect | 4.9.0 | indirect |
| PyPI | pillow | 10.2.0 | indirect |
| PyPI | pip | 24.0 | indirect |
| PyPI | platformdirs | 4.2.0 | indirect |
| PyPI | plotly | 5.20.0 | indirect |
| PyPI | pluggy | 1.4.0 | indirect |
| PyPI | plumbum | 1.8.2 | indirect |
| PyPI | ply | 3.11 | indirect |
| PyPI | poethepoet | 0.22.1 | indirect |
| PyPI | pre-commit | 3.7.0 | indirect |
| PyPI | prompt-toolkit | 3.0.43 | indirect |
| PyPI | protobuf | 4.25.3 | indirect |
| PyPI | ptyprocess | 0.7.0 | indirect |
| PyPI | pure-eval | 0.2.2 | indirect |
| PyPI | pycparser | 2.21 | indirect |
| PyPI | pyct | 0.5.0 | indirect |
| PyPI | pydantic | 1.10.14 | indirect |
| PyPI | pydocstyle | 6.3.0 | indirect |
| PyPI | pygments | 2.17.2 | indirect |
| PyPI | pynndescent | 0.5.11 | indirect |
| PyPI | pyparsing | 3.1.2 | indirect |
| PyPI | pytest | 8.1.1 | indirect |
| PyPI | python-dateutil | 2.9.0.post0 | indirect |
| PyPI | pytz | 2024.1 | indirect |
| PyPI | pyviz-comms | 3.0.2 | indirect |
| PyPI | pywin32 | 306 | indirect |
| PyPI | pyyaml | 6.0.1 | indirect |
| PyPI | pyzmq | 25.1.2 | indirect |
| PyPI | rdkit-pypi | 2022.9.5 | indirect |
| PyPI | referencing | 0.34.0 | indirect |
| PyPI | requests | 2.31.0 | indirect |
| PyPI | requests-cache | 1.2.0 | indirect |
| PyPI | rich-click | 1.7.4 | indirect |
| PyPI | rpds-py | 0.18.0 | indirect |
| PyPI | ruff | 0.1.15 | indirect |
| PyPI | scikit-learn | 1.4.1.post1 | indirect |
| PyPI | scipy | 1.12.0 | indirect |
| PyPI | seaborn | 0.13.2 | indirect |
| PyPI | sentry-sdk | 1.43.0 | indirect |
| PyPI | setproctitle | 1.3.3 | indirect |
| PyPI | setuptools | 69.2.0 | indirect |
| PyPI | six | 1.16.0 | indirect |
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{
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{
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{
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{
"key": "wiki",
"name": "Wiki",
"detail": null,
"points": 10,
"status": "met",
"details": [],
"max_points": 10
}
]
}
],
"description": "Are baseline engineering and documentation practices in place?"
},
{
"key": "security",
"band": "at_risk",
"name": "Security",
"value": 39,
"weight": 0.16,
"metrics": [
{
"key": "security_posture",
"band": "at_risk",
"name": "Security posture",
"note": "Excluded from scoring (no data or not applicable): Packaging, Signed-Releases. Remaining weights renormalized.",
"notes": [
{
"code": "excluded_no_data",
"params": {
"components": [
"packaging",
"signed_releases"
]
}
},
{
"code": "weights_renormalized",
"params": {}
}
],
"value": 39,
"inputs": {
"source": "openssf_scorecard",
"checks_evaluated": 16,
"scorecard_version": "v5.5.0",
"checks_inconclusive": 2,
"scorecard_aggregate": 3.9
},
"components": [
{
"key": "binary_artifacts",
"name": "Binary-Artifacts",
"detail": "no binaries found in the repo",
"points": 7.5,
"status": "met",
"details": [],
"max_points": 7.5
},
{
"key": "branch_protection",
"name": "Branch-Protection",
"detail": "branch protection not enabled on development/release branches",
"points": 0,
"status": "missed",
"details": [],
"max_points": 7.5
},
{
"key": "ci_tests",
"name": "CI-Tests",
"detail": "0 out of 11 merged PRs checked by a CI test -- score normalized to 0",
"points": 0,
"status": "missed",
"details": [],
"max_points": 2.5
},
{
"key": "cii_best_practices",
"name": "CII-Best-Practices",
"detail": "no effort to earn an OpenSSF best practices badge detected",
"points": 0,
"status": "missed",
"details": [],
"max_points": 2.5
},
{
"key": "code_review",
"name": "Code-Review",
"detail": "Found 9/11 approved changesets -- score normalized to 8",
"points": 6,
"status": "partial",
"details": [],
"max_points": 7.5
},
{
"key": "contributors",
"name": "Contributors",
"detail": "project has 8 contributing companies or organizations",
"points": 2.5,
"status": "met",
"details": [],
"max_points": 2.5
},
{
"key": "dangerous_workflow",
"name": "Dangerous-Workflow",
"detail": "no dangerous workflow patterns detected",
"points": 10,
"status": "met",
"details": [],
"max_points": 10
},
{
"key": "dependency_update_tool",
"name": "Dependency-Update-Tool",
"detail": "update tool detected",
"points": 7.5,
"status": "met",
"details": [],
"max_points": 7.5
},
{
"key": "fuzzing",
"name": "Fuzzing",
"detail": "project is not fuzzed",
"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "license",
"name": "License",
"detail": "license file detected",
"points": 2.5,
"status": "met",
"details": [],
"max_points": 2.5
},
{
"key": "maintained",
"name": "Maintained",
"detail": "0 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 0",
"points": 0,
"status": "missed",
"details": [],
"max_points": 7.5
},
{
"key": "packaging",
"name": "Packaging",
"detail": "packaging workflow not detected",
"points": 0,
"status": "excluded",
"details": [
{
"code": "no_data",
"params": {}
}
],
"max_points": 5
},
{
"key": "pinned_dependencies",
"name": "Pinned-Dependencies",
"detail": "dependency not pinned by hash detected -- score normalized to 0",
"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "sast",
"name": "SAST",
"detail": "SAST tool is not run on all commits -- score normalized to 0",
"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "security_policy",
"name": "Security-Policy",
"detail": "security policy file not detected",
"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "signed_releases",
"name": "Signed-Releases",
"detail": "no releases found",
"points": 0,
"status": "excluded",
"details": [
{
"code": "no_data",
"params": {}
}
],
"max_points": 7.5
},
{
"key": "token_permissions",
"name": "Token-Permissions",
"detail": "detected GitHub workflow tokens with excessive permissions",
"points": 0,
"status": "missed",
"details": [],
"max_points": 7.5
},
{
"key": "vulnerabilities",
"name": "Vulnerabilities",
"detail": "161 existing vulnerabilities detected",
"points": 0,
"status": "missed",
"details": [],
"max_points": 7.5
}
]
},
{
"key": "high_risk_jurisdiction_exposure",
"band": "excellent",
"name": "High-Risk Jurisdiction Exposure",
"note": "Only high-confidence self-published location evidence affects this multiplier. Ambiguous matches are review-only; country evidence is not proof of nationality, citizenship, legal registration, malicious intent, or sanctions status.",
"notes": [
{
"code": "jurisdiction_evidence_limits",
"params": {}
}
],
"value": 100,
"inputs": {
"meaning": "self-published location evidence; not nationality or citizenship",
"red_flag": false,
"exposures": [],
"policy_countries": [
"Russia",
"Iran",
"North Korea"
],
"review_only_matches": 0,
"assessed_self_published_locations": 9
},
"components": [
{
"key": "policy_exposure_multiplier",
"name": "Policy exposure multiplier",
"detail": "no confirmed policy-scope location match",
"points": 100,
"status": "met",
"details": [
{
"code": "jurisdiction_no_match",
"params": {}
}
],
"max_points": 100
}
]
}
],
"description": "Are visible security and supply-chain practices strong, with no malicious dependency and no unresolved high-risk jurisdiction exposure?"
},
{
"key": "ai_readiness",
"band": "at_risk",
"name": "AI Readiness",
"value": 44,
"weight": 0,
"metrics": [
{
"key": "ai_agent_context",
"band": "critical",
"name": "Agent context & guidance",
"note": "Excluded from scoring (no data or not applicable): Legible commit history. Remaining weights renormalized.",
"notes": [
{
"code": "excluded_no_data",
"params": {
"components": [
"legible_commit_history"
]
}
},
{
"code": "weights_renormalized",
"params": {}
}
],
"value": 1,
"inputs": {
"has_llms_txt": false,
"legible_history_share": null,
"agent_instruction_files": [],
"agent_instruction_max_bytes": null
},
"components": [
{
"key": "agent_instructions",
"name": "Agent instructions",
"detail": "no CLAUDE.md / AGENTS.md / editor rules",
"points": 0,
"status": "missed",
"details": [
{
"code": "no_agent_instructions",
"params": {}
}
],
"max_points": 45
},
{
"key": "machine_readable_docs_llms_txt",
"name": "Machine-readable docs (llms.txt)",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 15
},
{
"key": "legible_commit_history",
"name": "Legible commit history",
"detail": "no data",
"points": 0,
"status": "excluded",
"details": [
{
"code": "no_data",
"params": {}
}
],
"max_points": 40
}
]
},
{
"key": "ai_verify_loop",
"band": "good",
"name": "Verify loop (build / test / typecheck)",
"note": "Excluded from scoring (no data or not applicable): Demonstrated agent practice, Automated maintenance. Remaining weights renormalized.",
"notes": [
{
"code": "excluded_no_data",
"params": {
"components": [
"demonstrated_agent_practice",
"automated_maintenance"
]
}
},
{
"code": "weights_renormalized",
"params": {}
}
],
"value": 74,
"inputs": {
"has_nix": false,
"has_tests": true,
"lockfiles": [
"poetry.lock"
],
"has_dockerfile": false,
"typed_language": false,
"bootstrap_files": [
"docs/Makefile"
],
"has_devcontainer": false,
"has_linter_config": true,
"typecheck_configs": [],
"agent_commit_share": null,
"toolchain_manifests": [],
"dependency_bot_commit_share": null
},
"components": [
{
"key": "one_command_bootstrap",
"name": "One-command bootstrap",
"detail": "docs/Makefile",
"points": 18,
"status": "met",
"details": [
{
"code": "file_list",
"params": {
"files": "docs/Makefile"
}
}
],
"max_points": 18
},
{
"key": "automated_tests",
"name": "Automated tests",
"detail": null,
"points": 22,
"status": "met",
"details": [],
"max_points": 22
},
{
"key": "lint_format_config",
"name": "Lint / format config",
"detail": null,
"points": 11,
"status": "met",
"details": [],
"max_points": 11
},
{
"key": "static_type_checking",
"name": "Static type checking",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 11
},
{
"key": "reproducible_environment",
"name": "Reproducible environment",
"detail": "lockfile",
"points": 10,
"status": "met",
"details": [
{
"code": "file_list",
"params": {
"files": "lockfile"
}
}
],
"max_points": 10
},
{
"key": "demonstrated_agent_practice",
"name": "Demonstrated agent practice",
"detail": "no data",
"points": 0,
"status": "excluded",
"details": [
{
"code": "no_data",
"params": {}
}
],
"max_points": 10
},
{
"key": "automated_maintenance",
"name": "Automated maintenance",
"detail": "no data",
"points": 0,
"status": "excluded",
"details": [
{
"code": "no_data",
"params": {}
}
],
"max_points": 8
},
{
"key": "openssf_scorecard_pinned_dependencies",
"name": "OpenSSF Scorecard: Pinned-Dependencies",
"detail": "dependency not pinned by hash detected -- score normalized to 0",
"points": 0,
"status": "missed",
"details": [],
"max_points": 10
}
]
},
{
"key": "ai_code_legibility",
"band": "moderate",
"name": "Code legibility for models",
"note": null,
"notes": [],
"value": 55,
"inputs": {
"primary_language": "Python",
"largest_source_bytes": 42094,
"source_files_sampled": 130,
"oversized_source_files": 0
},
"components": [
{
"key": "type_checkable_code",
"name": "Type-checkable code",
"detail": "Python without a type-check config",
"points": 0,
"status": "missed",
"details": [
{
"code": "no_typecheck_config_language",
"params": {
"language": "Python"
}
}
],
"max_points": 45
},
{
"key": "manageable_file_sizes",
"name": "Manageable file sizes",
"detail": "0/130 source files over 60KB",
"points": 55,
"status": "met",
"details": [
{
"code": "oversized_source_files",
"params": {
"kb": 60,
"sampled": 130,
"oversized": 0
}
}
],
"max_points": 55
}
]
},
{
"key": "ai_interfaces",
"band": "at_risk",
"name": "Machine-readable interfaces",
"note": null,
"notes": [],
"value": 40,
"inputs": {
"example_dirs": [
"notebooks"
],
"has_mcp_signal": false,
"api_schema_files": []
},
"components": [
{
"key": "api_schema_openapi_graphql_proto",
"name": "API schema (OpenAPI/GraphQL/proto)",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 40
},
{
"key": "mcp_server",
"name": "MCP server",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 20
},
{
"key": "runnable_examples",
"name": "Runnable examples",
"detail": "notebooks",
"points": 40,
"status": "met",
"details": [
{
"code": "file_list",
"params": {
"files": "notebooks"
}
}
],
"max_points": 40
}
]
}
],
"description": "How well is the repo equipped to be developed and maintained with AI coding agents? An independent, experimental badge — weight 0.0, so it is surfaced on its own and does not affect the overall health score."
}
],
"metrics_version": "1.13.0"
},
"warnings": [],
"report_type": "repository",
"generated_at": "2026-07-15T11:44:55.281007Z",
"schema_version": "0.11.0",
"badge_url": "https://raw.githubusercontent.com/inspect-software/badges/main/v1/a/a-r-j/ProteinWorkshop.svg",
"full_name": "a-r-j/ProteinWorkshop",
"license_state": "standard",
"license_spdx": "MIT"
}Scores are signals, not warranties. They reflect publicly visible practices on GitHub — not a code audit, and not a security guarantee.
Missing data is excluded and weights renormalized, never scored as zero. Methodology is versioned and open: metrics v1.13.0, schema v0.11.0 — full methodology · metrics wiki.
How one result sits in the wider record: aggregate statistics — PyPI.