公开记录中等
软件健康报告模式 0.27.0 · 指标 1.13.0 · 2026-07-27 22:26 UTC
CompOmics / ms2pip
MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.
CompOmics/ms2pip 的健康指数为 100 分中的 67 分，处于「中等」区间。 其得分最高的类别是Engineering Quality（77/100），最低的是AI Readiness（37/100）。 最近一次更新在 14 天前。 近期的大部分工作由 1 位贡献者完成。
67
总分 / 100软件健康指数
指标归入加权类别，统一采用 1–100 量表。总体分先取类别加权平均；当公开证据触发高风险司法辖区政策时，评级会按政策调整，并设置 49（有风险）的上限。AI 就绪度不计入总体分。
67
优秀85-100堪称典范；基本满足所有检验标准
良好70-84健康；仅有轻微不足
中等50-69可接受，但存在明显不足；建议进行审查
存在风险30-49存在重大薄弱环节；采用时应保持审慎
危急1-29问题严重（项目被弃置、仅有单一维护者、缺乏基本工程规范）
评分画像
每条轴代表一个类别。形状比平均值更重要——健康的对象会填满整个图形，而“一峰一谷”式画像意味着某一维度的优势正掩盖另一维度的风险。
所有权
129 关注者114 个公开仓库始于 2015年3月
该仓库由组织支持——共同承担、可问责的托管责任，可延续于任何单一维护者之后。
软件包生态系统
| 注册表 | 软件包 | 版本 | 月下载量 | 版本数 | 最近发布 | 标签 |
|---|---|---|---|---|---|---|
| PyPI | ms2pip | 4.2.0 | 2,719 | 38 | 14 天前 | ms2pipproteomicspeptide-fragmentationpeak-intensity-predictionspectrum-predictionmachine-learningspectral-libraryfasta2speclib |
按类别列示的指标
活力
项目是否仍有生命——是否仍在编写代码，是否仍在发布版本？
72
开发活跃度
64中等
评分方式
| 28.8/36 | 推送新近度 — 最近一次推送于 14 天前 |
| 8.3/36 | 提交节奏 — 52 周中有 12 周有提交 |
| 17/18 | 提交量 — 最近一年 78 次提交 |
| 10/10 | OpenSSF Scorecard：Maintained — 19 commit(s) and 4 issue activity found in the last 90 days -- score normalized to 10 |
所用输入
| commits_last_year | 78 |
| human_commit_share | 1 |
| days_since_last_push | 14 |
| active_weeks_last_year | 12 |
发布纪律
84良好
评分方式
| 27/27 | 有发布版本 — 已发布 26 个发布版本 |
| 36/36 | 发布时效 — 最近一次发布版本于 14 天前 |
| 12.6/27 | 发布节奏 — 约每 139.8 天发布一次 |
| 0/10 | OpenSSF Scorecard：Signed-Releases — 无数据 |
所用输入
| releases_count | 26 |
| latest_release_tag | v4.2.0 |
| releases_from_tags | 否 |
| days_since_latest_release | 14 |
| mean_days_between_releases | 139.8 |
已排除计分（无数据或不适用）：OpenSSF Scorecard：Signed-Releases。 其余权重已重新归一化。
社区与采用
项目是否拥有用户、下载量与关注度，并具备欢迎贡献者参与的配置？
49
流行度与采用
44存在风险
评分方式
| 27.3/60 | 星标 — 49 个星标 |
| 10.5/25 | 复刻 — 19 个复刻 |
| 6.7/15 | 关注者 — 17 位关注者 |
所用输入
| forks | 19 |
| stars | 49 |
| watchers | 17 |
| growth_state | unverified |
| growth_factor_pct | 100 |
| growth_unverified_reason | no_history |
社区健康
50中等
评分方式
| 22.5/22.5 | README |
| 22.5/22.5 | 许可证 — 可识别的许可证（Apache-2.0） |
| 0/18 | CONTRIBUTING 指南 |
| 0/13.5 | 行为准则 |
| 0/7.2 | 议题模板 |
| 0/6.3 | PR 模板 |
所用输入
| has_readme | 是 |
| has_license | 是 |
| has_contributing | 否 |
| has_issue_template | 否 |
| has_code_of_conduct | 否 |
| has_pull_request_template | 否 |
生态采用（下载量）
57中等
评分方式
| 45.8/80 | 月度下载量 — pypi 合计每月 2,719 次下载 |
| 0/20 | 注册表被依赖数 — 该生态系统不报告此项 |
所用输入
| packages | ms2pip |
| dependents | — |
| ecosystems | pypi |
| total_downloads | — |
| monthly_downloads | 2,719 |
已排除计分（无数据或不适用）：注册表被依赖数。 其余权重已重新归一化。
可持续性与治理
项目能否在其成员之外延续——巴士系数、响应能力、由谁支持，以及软件包的维护状况？
68
维护者韧性（巴士系数）
40存在风险
评分方式
| 9/54 | 巴士系数 — 1 位贡献者贡献了半数提交 |
| 7.2/22.5 | 提交分布 — 头号贡献者编写了 68% 的提交 |
| 13.5/13.5 | 贡献者广度 — 11 位贡献者 |
| 10/10 | OpenSSF Scorecard：Contributors — project has 5 contributing companies or organizations |
所用输入
| bus_factor | 1 |
| contributors_sampled | 11 |
| top_contributor_share | 0.682 |
议题与 PR 响应能力
76良好
评分方式
| 44/46.8 | 议题解决 — 94% 的议题已关闭 |
| 30.1/38.3 | PR 接受 — 已裁定的 PR 中 144/183 已合并 |
| 1.5/15 | OpenSSF Scorecard：Code-Review — Found 1/10 approved changesets -- score normalized to 1 |
所用输入
| merged_prs | 144 |
| open_issues | 5 |
| closed_issues | 81 |
| issue_closed_ratio | 0.942 |
| closed_unmerged_prs | 39 |
所有权与托管责任
70良好
评分方式
| 30/30 | 所有权背书 — 组织持有 |
| 0/20 | 已验证域名 |
| 15.2/25 | 所有者影响力 — CompOmics 有 129 位关注者 |
| 25/25 | 既往记录 — 114 个公开仓库，账户约 11 年 |
所用输入
| followers | 129 |
| owner_type | Organization |
| is_verified | — |
| owner_login | CompOmics |
| public_repos | 114 |
| account_age_days | 4,143 |
软件包维护
100优秀
评分方式
| 25/25 | 已发布且可解析 — pypi 上有 1 个软件包 |
| 35/35 | 发布时效 — 最近一次发布于 14 天前 |
| 20/20 | 版本历史 — 38 个已发布版本 |
| 20/20 | 未被弃用 — 活跃，未被弃用或撤回 |
所用输入
| packages | ms2pip |
| ecosystems | pypi |
| any_deprecated | 否 |
| min_days_since_publish | 14 |
工程质量
基础的工程与文档实践是否到位？
77
工程实践
68中等
评分方式
| 24/24 | CI 工作流 — 2 个工作流 |
| 24/24 | 存在测试 |
| 0/16 | Linter 配置 |
| 0/9.6 | Pre-commit 钩子 |
| 0/6.4 | .editorconfig |
| 20/20 | OpenSSF Scorecard：CI-Tests — 9 out of 9 merged PRs checked by a CI test -- score normalized to 10 |
所用输入
| has_ci | 是 |
| has_tests | 是 |
| has_editorconfig | 否 |
| has_linter_config | 否 |
| has_precommit_config | 否 |
文档
90优秀
评分方式
| 30/30 | README |
| 25/25 | 文档目录 |
| 15/15 | 文档 / 主页站点 — https://ms2pip.readthedocs.io |
| 10/10 | 仓库描述 |
| 10/10 | 主题标签 — 6 个主题标签 |
| 0/10 | Wiki |
所用输入
| topics | machine-learning, mass-spectrometry, peptide-identification, proteomics, spectrum-prediction, peptide-spectrum |
| has_wiki | 否 |
| homepage | https://ms2pip.readthedocs.io |
| has_readme | 是 |
| has_docs_dir | 是 |
| has_description | 是 |
安全
可见的安全与供应链实践是否稳固，且不存在未解决的高风险司法辖区暴露？
69
安全态势
61中等
评分方式
| 7.5/7.5 | Binary-Artifacts — no binaries found in the repo |
| 6/7.5 | Branch-Protection — branch protection is not maximal on development and all release branches |
| 2.5/2.5 | CI-Tests — 9 out of 9 merged PRs checked by a CI test -- score normalized to 10 |
| 0/2.5 | CII-Best-Practices — no effort to earn an OpenSSF best practices badge detected |
| 0.8/7.5 | Code-Review — Found 1/10 approved changesets -- score normalized to 1 |
| 2.5/2.5 | Contributors — project has 5 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 | 许可证 — license file detected |
| 7.5/7.5 | Maintained — 19 commit(s) and 4 issue activity found in the last 90 days -- score normalized to 10 |
| 5/5 | Packaging — packaging workflow detected |
| 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 — 无数据 |
| 0/7.5 | Token-Permissions — detected GitHub workflow tokens with excessive permissions |
| 7.5/7.5 | Vulnerabilities — 0 existing vulnerabilities detected |
所用输入
| source | openssf_scorecard |
| checks_evaluated | 17 |
| scorecard_version | v5.5.0 |
| checks_inconclusive | 1 |
| scorecard_aggregate | 6.1 |
已排除计分（无数据或不适用）：signed_releases。 其余权重已重新归一化。
依赖安全公告
100优秀
评分方式
| 35/35 | 直接依赖不含已知公告 — 没有直接依赖携带已知公告 |
| 25/25 | 间接依赖不含已知公告 — 没有间接依赖携带已知公告 |
| 0/40 | 没有长期未处理的公告 — 没有公告带有发布日期 |
所用输入
| source | osv |
| advisories | 0 |
| affected_packages | 0 |
| assessed_packages | 29 |
| unassessed_packages | 0 |
| affected_by_severity | none |
| direct_affected_packages | 0 |
已排除计分（无数据或不适用）：没有长期未处理的公告。 其余权重已重新归一化。 比对的是 pypi:ms2pip@4.2.0 的运行时依赖闭包——安装已发布的软件包时真正被拉取进来的内容——共 29 个软件包。 未对可达性进行分析。
AI 就绪度
该仓库在多大程度上具备与 AI 编码代理协同开发与维护的条件？这是一枚独立的实验性徽章——权重为 0.0，因此单独呈现，不影响总体健康评分。
37
AI 代理上下文与指引
32存在风险
评分方式
| 0/45 | 代理指令 — 没有 CLAUDE.md / AGENTS.md / 编辑器规则 |
| 0/15 | 机器可读文档（llms.txt） |
| 31.5/40 | 可读的提交历史 — 100 次人类提交中有 59 次说明了意图（结构化标题或解释性正文） |
所用输入
| has_llms_txt | 否 |
| legible_history_share | 0.59 |
| agent_instruction_files | — |
| agent_instruction_max_bytes | — |
验证循环（构建 / 测试 / 类型检查）
32存在风险
评分方式
| 0/18 | 一条命令的引导启动 |
| 22/22 | 自动化测试 |
| 0/11 | Lint / 格式化配置 |
| 0/11 | 静态类型检查 |
| 10/10 | 可复现环境 — lockfile |
| 0/10 | 已体现的代理实践 — 最近 100 次提交中没有代理编写的提交 |
| 0/8 | 自动化维护 — 未观察到自动依赖更新 |
| 0/10 | OpenSSF Scorecard：Pinned-Dependencies — dependency not pinned by hash detected -- score normalized to 0 |
所用输入
| has_nix | 否 |
| has_tests | 是 |
| lockfiles | uv.lock |
| has_dockerfile | 否 |
| typed_language | 否 |
| bootstrap_files | — |
| has_devcontainer | 否 |
| has_linter_config | 否 |
| typecheck_configs | — |
| agent_commit_share | 0 |
| toolchain_manifests | — |
| dependency_bot_commit_share | 0 |
面向模型的代码可读性
55中等
评分方式
| 0/45 | 可类型检查的代码 — HTML，未配置类型检查 |
| 55/55 | 可控的文件大小 — 采样的 25 个源文件中有 0 个超过 60KB |
所用输入
| primary_language | HTML |
| largest_source_bytes | 28,997 |
| source_files_sampled | 25 |
| oversized_source_files | 0 |
机器可读接口
40存在风险
评分方式
| 0/40 | API 模式（OpenAPI/GraphQL/proto） |
| 0/20 | MCP 服务器 |
| 40/40 | 可运行示例 — notebooks |
所用输入
| example_dirs | notebooks |
| has_mcp_signal | 否 |
| api_schema_files | — |
关键数据
49GitHub 星标
11贡献者
78最近 12 个月提交数
14距最近推送天数
26发布版本数
1巴士系数（bus factor）
5开放议题
PyPI软件包生态系统数
数据采集警告
- Star history unavailable: GitHub GraphQL error: Resource not accessible by personal access token
更多细节
Star 与 Fork 历史 0 ★ / 19 ⇿
0Star
19Fork
23发布
每颗 star 和每个 fork 的添加时间，来自 GitHub 并按天汇总。累计增长位于其构成来源——每日新增——的正上方，二者可相互对照：稳定的自然增长与短暂的突增形态截然不同。当这一差别可被衡量时，它会作为增长真实性予以报告。
主版本 1次版本 10修订 7
每个点涵盖 8 天。
OpenSSF Scorecard 6.1 / 10
6.1综合
来自开源项目 OpenSSF Scorecard 的独立、工具无关的安全评估。每项检查奖励的是安全实践本身，而非特定供应商的工具。Scorecard 无法判定的检查项标记为 不适用，并从安全评分中剔除（绝不按零分计）。
| 10 | Binary-Artifacts | no binaries found in the repo |
| 8 | Branch-Protection | branch protection is not maximal on development and all release branches |
| 10 | CI-Tests | 9 out of 9 merged PRs checked by a CI test -- score normalized to 10 |
| 0 | CII-Best-Practices | no effort to earn an OpenSSF best practices badge detected |
| 1 | Code-Review | Found 1/10 approved changesets -- score normalized to 1 |
| 10 | Contributors | project has 5 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 |
| 10 | Maintained | 19 commit(s) and 4 issue activity found in the last 90 days -- score normalized to 10 |
| 10 | Packaging | packaging workflow 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 |
| 不适用 | Signed-Releases | no releases found |
| 0 | Token-Permissions | detected GitHub workflow tokens with excessive permissions |
| 10 | Vulnerabilities | 0 existing vulnerabilities detected |
直接依赖 12
| 注册表 | 软件包 | 版本约束 | 清单文件 |
|---|---|---|---|
| PyPI | numpy | >=1.25,<3 | pyproject.toml |
| PyPI | pandas | >=1,<3 | pyproject.toml |
| PyPI | pyteomics | >=3.5,<5 | pyproject.toml |
| PyPI | sqlalchemy | >=1.4,<3 | pyproject.toml |
| PyPI | click | >=7,<9 | pyproject.toml |
| PyPI | xgboost | >=1.3,<3 | pyproject.toml |
| PyPI | lxml | >=4,<7 | pyproject.toml |
| PyPI | rich | >=13,<16 | pyproject.toml |
| PyPI | pydantic | >=2,<3 | pyproject.toml |
| PyPI | werkzeug | >=2,<4 | pyproject.toml |
| PyPI | psm_utils | >=1.5,<4 | pyproject.toml |
| PyPI | ms2rescore-rs | >=0.5.0,<2 | pyproject.toml |
全部依赖 176
来自 GitHub 依赖图的完整解析依赖集合：15 个直接依赖与 161 个间接（传递）软件包。仓库提交锁文件时，传递闭包才是完整的。
| 注册表 | 软件包 | 版本 | 关系 |
|---|---|---|---|
| PyPI | click | 8.4.2 | 直接 |
| PyPI | lxml | 6.1.1 | 直接 |
| PyPI | ms2rescore-rs | 0.5.0 | 直接 |
| PyPI | numpy | 1.15.4 | 直接 |
| PyPI | numpy | 2.4.6 | 直接 |
| PyPI | pandas | 0.23.4 | 直接 |
| PyPI | pandas | 2.3.3 | 直接 |
| PyPI | psm-utils | 1.5.5 | 直接 |
| PyPI | pydantic | 2.13.4 | 直接 |
| PyPI | pyteomics | 3.5.1 | 直接 |
| PyPI | pyteomics | 4.7.5 | 直接 |
| PyPI | rich | 14.3.4 | 直接 |
| PyPI | sqlalchemy | 2.0.51 | 直接 |
| PyPI | werkzeug | 3.1.8 | 直接 |
| PyPI | xgboost | 2.1.4 | 直接 |
| PyPI | aiohappyeyeballs | 2.7.1 | 间接 |
| PyPI | aiohttp | 3.14.1 | 间接 |
| PyPI | aiosignal | 1.4.0 | 间接 |
| PyPI | alabaster | 1.0.0 | 间接 |
| PyPI | annotated-types | 0.7.0 | 间接 |
| PyPI | anyio | 4.14.1 | 间接 |
| PyPI | appnope | 0.1.4 | 间接 |
| PyPI | asttokens | 3.0.1 | 间接 |
| PyPI | attrs | 26.1.0 | 间接 |
| PyPI | babel | 2.18.0 | 间接 |
| PyPI | biopython | 1.72 | 间接 |
| PyPI | certifi | 2026.6.17 | 间接 |
| PyPI | cffi | 2.1.0 | 间接 |
| PyPI | charset-normalizer | 3.4.9 | 间接 |
| PyPI | colorama | 0.4.6 | 间接 |
| PyPI | comm | 0.2.3 | 间接 |
| PyPI | commonmark | 0.9.2 | 间接 |
| PyPI | contourpy | 1.3.3 | 间接 |
| PyPI | cuda-bindings | 13.3.1 | 间接 |
| PyPI | cuda-pathfinder | 1.5.6 | 间接 |
| PyPI | cuda-toolkit | 13.0.3.0 | 间接 |
| PyPI | cycler | 0.12.1 | 间接 |
| PyPI | cython | 0.29.2 | 间接 |
| PyPI | debugpy | 1.8.21 | 间接 |
| PyPI | decorator | 5.3.1 | 间接 |
| PyPI | deeplc | 4.0.0b1 | 间接 |
| PyPI | docutils | 0.22.4 | 间接 |
| PyPI | executing | 2.2.1 | 间接 |
| PyPI | fastobo | 0.14.1 | 间接 |
| PyPI | filelock | 3.29.7 | 间接 |
| PyPI | fonttools | 4.63.0 | 间接 |
| PyPI | frozenlist | 1.8.0 | 间接 |
| PyPI | fsspec | 2026.6.0 | 间接 |
| PyPI | greenlet | 3.5.3 | 间接 |
| PyPI | h11 | 0.16.0 | 间接 |
| PyPI | idna | 3.18 | 间接 |
| PyPI | im2deep | 2.0.0 | 间接 |
| PyPI | imagesize | 2.0.0 | 间接 |
| PyPI | iniconfig | 2.3.0 | 间接 |
| PyPI | ipykernel | 7.3.0 | 间接 |
| PyPI | ipython | 9.15.0 | 间接 |
| PyPI | ipython-pygments-lexers | 1.1.1 | 间接 |
| PyPI | ipywidgets | 8.1.8 | 间接 |
| PyPI | jedi | 0.20.0 | 间接 |
| PyPI | jinja2 | 3.1.6 | 间接 |
| PyPI | joblib | 1.5.3 | 间接 |
| PyPI | jupyter-client | 8.9.1 | 间接 |
| PyPI | jupyter-core | 5.9.1 | 间接 |
| PyPI | jupyterlab-widgets | 3.0.16 | 间接 |
| PyPI | kiwisolver | 1.5.0 | 间接 |
| PyPI | lark | 1.3.1 | 间接 |
| PyPI | lightning | 2.6.5 | 间接 |
| PyPI | lightning-utilities | 0.15.3 | 间接 |
| PyPI | llvmlite | 0.48.0 | 间接 |
| PyPI | markdown-it-py | 4.2.0 | 间接 |
| PyPI | markupsafe | 3.0.3 | 间接 |
| PyPI | matplotlib | 3.0.2 | 间接 |
| PyPI | matplotlib | 3.11.0 | 间接 |
| PyPI | matplotlib-inline | 0.2.2 | 间接 |
| PyPI | mdurl | 0.1.2 | 间接 |
| PyPI | ml-dtypes | 0.5.4 | 间接 |
| PyPI | mpmath | 1.3.0 | 间接 |
| PyPI | multidict | 6.7.1 | 间接 |
| PyPI | narwhals | 2.23.0 | 间接 |
| PyPI | nest-asyncio2 | 1.7.2 | 间接 |
| PyPI | networkx | 3.6.1 | 间接 |
| PyPI | numba | 0.66.0 | 间接 |
| PyPI | numpydoc | 1.10.0 | 间接 |
| PyPI | nvidia-cublas | 13.1.1.3 | 间接 |
| PyPI | nvidia-cuda-cupti | 13.0.85 | 间接 |
| PyPI | nvidia-cuda-nvrtc | 13.0.88 | 间接 |
| PyPI | nvidia-cuda-runtime | 13.0.96 | 间接 |
| PyPI | nvidia-cudnn-cu13 | 9.20.0.48 | 间接 |
| PyPI | nvidia-cufft | 12.0.0.61 | 间接 |
| PyPI | nvidia-cufile | 1.15.1.6 | 间接 |
| PyPI | nvidia-curand | 10.4.0.35 | 间接 |
| PyPI | nvidia-cusolver | 12.0.4.66 | 间接 |
| PyPI | nvidia-cusparse | 12.6.3.3 | 间接 |
| PyPI | nvidia-cusparselt-cu13 | 0.8.1 | 间接 |
| PyPI | nvidia-nccl-cu12 | 2.30.7 | 间接 |
| PyPI | nvidia-nccl-cu13 | 2.29.7 | 间接 |
| PyPI | nvidia-nvjitlink | 13.3.33 | 间接 |
| PyPI | nvidia-nvshmem-cu13 | 3.4.5 | 间接 |
| PyPI | nvidia-nvtx | 13.0.85 | 间接 |
| PyPI | onnx | 1.22.0 | 间接 |
| PyPI | onnx2torch | 1.5.15 | 间接 |
| PyPI | packaging | 26.2 | 间接 |
| PyPI | parso | 0.8.7 | 间接 |
| PyPI | pexpect | 4.9.0 | 间接 |
| PyPI | pillow | 12.3.0 | 间接 |
| PyPI | pip | 26.1.2 | 间接 |
| PyPI | platformdirs | 4.10.0 | 间接 |
| PyPI | pluggy | 1.6.0 | 间接 |
| PyPI | prompt-toolkit | 3.0.52 | 间接 |
| PyPI | propcache | 0.5.2 | 间接 |
| PyPI | protobuf | 7.35.1 | 间接 |
| PyPI | psims | 1.3.6 | 间接 |
| PyPI | psutil | 7.2.2 | 间接 |
| PyPI | ptyprocess | 0.7.0 | 间接 |
| PyPI | pure-eval | 0.2.3 | 间接 |
| PyPI | pyarrow | 25.0.0 | 间接 |
| PyPI | pycparser | 3.0 | 间接 |
| PyPI | pydantic-core | 2.46.4 | 间接 |
| PyPI | pygments | 2.20.0 | 间接 |
| PyPI | pyparsing | 3.3.2 | 间接 |
| PyPI | pytest | 9.1.1 | 间接 |
| PyPI | python-dateutil | 2.9.0.post0 | 间接 |
| PyPI | pytorch-lightning | 2.6.5 | 间接 |
| PyPI | pytz | 2026.2 | 间接 |
| PyPI | pyyaml | 6.0.3 | 间接 |
| PyPI | pyzmq | 27.1.0 | 间接 |
| PyPI | recommonmark | 0.7.1 | 间接 |
| PyPI | requests | 2.34.2 | 间接 |
| PyPI | roman-numerals | 4.1.0 | 间接 |
| PyPI | ruff | 0.15.21 | 间接 |
| PyPI | scikit-learn | 1.9.0 | 间接 |
| PyPI | scipy | 1.1.0 | 间接 |
| PyPI | scipy | 1.17.1 | 间接 |
| PyPI | scipy | 1.18.0 | 间接 |
| PyPI | semver | 3.0.4 | 间接 |
| PyPI | setuptools | 83.0.0 | 间接 |
| PyPI | six | 1.17.0 | 间接 |
| PyPI | snowballstemmer | 3.1.1 | 间接 |
| PyPI | spectrum-utils | 0.5.0 | 间接 |
| PyPI | sphinx | 9.0.4 | 间接 |
| PyPI | sphinx | 9.1.0 | 间接 |
| PyPI | sphinx-autobuild | 2025.8.25 | 间接 |
| PyPI | sphinx-automodapi | 0.22.0 | 间接 |
| PyPI | sphinx-click | 6.2.0 | 间接 |
| PyPI | sphinx-rtd-theme | 3.1.0 | 间接 |
| PyPI | sphinxcontrib-applehelp | 2.0.0 | 间接 |
| PyPI | sphinxcontrib-devhelp | 2.0.0 | 间接 |
| PyPI | sphinxcontrib-htmlhelp | 2.1.0 | 间接 |
| PyPI | sphinxcontrib-jquery | 4.1 | 间接 |
| PyPI | sphinxcontrib-jsmath | 1.0.1 | 间接 |
| PyPI | sphinxcontrib-qthelp | 2.0.0 | 间接 |
| PyPI | sphinxcontrib-serializinghtml | 2.0.0 | 间接 |
| PyPI | stack-data | 0.6.3 | 间接 |
| PyPI | starlette | 1.3.1 | 间接 |
| PyPI | sympy | 1.14.0 | 间接 |
| PyPI | tables | 3.4.4 | 间接 |
| PyPI | threadpoolctl | 3.6.0 | 间接 |
| PyPI | toml | 0.10.2 | 间接 |
| PyPI | torch | 2.13.0 | 间接 |
| PyPI | torchmetrics | 1.9.0 | 间接 |
| PyPI | torchvision | 0.28.0 | 间接 |
| PyPI | tornado | 6.5.7 | 间接 |
| PyPI | tqdm | 4.68.4 | 间接 |
| PyPI | traitlets | 5.15.1 | 间接 |
| PyPI | triton | 3.7.1 | 间接 |
| PyPI | ty | 0.0.58 | 间接 |
| PyPI | typing-extensions | 4.16.0 | 间接 |
| PyPI | typing-inspection | 0.4.2 | 间接 |
| PyPI | tzdata | 2026.3 | 间接 |
| PyPI | urllib3 | 2.7.0 | 间接 |
| PyPI | uvicorn | 0.51.0 | 间接 |
| PyPI | watchfiles | 1.2.0 | 间接 |
| PyPI | wcwidth | 0.8.2 | 间接 |
| PyPI | websockets | 16.1 | 间接 |
| PyPI | widgetsnbextension | 4.0.15 | 间接 |
| PyPI | yarl | 1.24.2 | 间接 |
依赖安全公告 0
安装 pypi:ms2pip@4.2.0 会引入 29 个包（直接与传递）：其中 0 个存在已知公告，0 个为直接依赖。
没有已知公告影响已评估的依赖。
公告表示依赖图中记录的版本落入某条公告的受影响范围。可达性未经分析，且依赖图包含开发与测试的版本固定——某项发现可能只涉及工具链而非交付的软件。
原始 JSON 报告 机器可读
{
"data": {
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"machine-learning",
"mass-spectrometry",
"peptide-identification",
"proteomics",
"spectrum-prediction",
"peptide-spectrum"
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"size_kb": 110157,
"has_wiki": false,
"homepage": "https://ms2pip.readthedocs.io",
"languages": {
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"Python": 180950,
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},
"pushed_at": "2026-07-13T17:01:59Z",
"created_at": "2017-03-15T13:02:26Z",
"owner_type": "Organization",
"updated_at": "2026-07-13T17:01:11Z",
"description": "MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.",
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]
},
"owner": {
"blog": "https://www.compomics.com/",
"name": "Computational Omics and Systems Biology Group",
"type": "Organization",
"login": "CompOmics",
"company": null,
"location": "Belgium",
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},
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},
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},
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},
{
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},
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},
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{
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},
{
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},
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},
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}
],
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"body": "- Add min/max length validators to ProteomeSearchSpace\n- Fix _peptidoform_spaces empty check to use `is None` instead of truthiness\n- Add CUDA_VISIBLE_DEVICES workaround on XGBoost model load (dmlc/xgboost#11283)",
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{
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"headline": "Fix type error: wrap fasta_file in Path for ProteomeSearchSpace const…",
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{
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{
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"headline": "add functionality to parse spectra directly from ms2spectrum objects …",
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{
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{
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"detail": null,
"points": 10,
"status": "met",
"details": [],
"max_points": 10
},
{
"key": "topics",
"name": "Topics",
"detail": "6 topics",
"points": 10,
"status": "met",
"details": [
{
"code": "topics_count",
"params": {
"count": 6
}
}
],
"max_points": 10
},
{
"key": "wiki",
"name": "Wiki",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 10
}
]
}
],
"description": "Are baseline engineering and documentation practices in place?"
},
{
"key": "security",
"band": "moderate",
"name": "Security",
"value": 69,
"weight": 0.16,
"metrics": [
{
"key": "security_posture",
"band": "moderate",
"name": "Security posture",
"note": "Excluded from scoring (no data or not applicable): Signed-Releases. Remaining weights renormalized.",
"notes": [
{
"code": "excluded_no_data",
"params": {
"components": [
"signed_releases"
]
}
},
{
"code": "weights_renormalized",
"params": {}
}
],
"value": 61,
"inputs": {
"source": "openssf_scorecard",
"checks_evaluated": 17,
"scorecard_version": "v5.5.0",
"checks_inconclusive": 1,
"scorecard_aggregate": 6.1
},
"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 is not maximal on development and all release branches",
"points": 6,
"status": "partial",
"details": [],
"max_points": 7.5
},
{
"key": "ci_tests",
"name": "CI-Tests",
"detail": "9 out of 9 merged PRs checked by a CI test -- score normalized to 10",
"points": 2.5,
"status": "met",
"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 1/10 approved changesets -- score normalized to 1",
"points": 0.8,
"status": "partial",
"details": [],
"max_points": 7.5
},
{
"key": "contributors",
"name": "Contributors",
"detail": "project has 5 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": "19 commit(s) and 4 issue activity found in the last 90 days -- score normalized to 10",
"points": 7.5,
"status": "met",
"details": [],
"max_points": 7.5
},
{
"key": "packaging",
"name": "Packaging",
"detail": "packaging workflow detected",
"points": 5,
"status": "met",
"details": [],
"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": "0 existing vulnerabilities detected",
"points": 7.5,
"status": "met",
"details": [],
"max_points": 7.5
}
]
},
{
"key": "dependency_advisories",
"band": "excellent",
"name": "Dependency advisories",
"note": "Excluded from scoring (no data or not applicable): No advisories left outstanding. Remaining weights renormalized. Matched the pypi:ms2pip@4.2.0 runtime dependency closure — what installing the published package pulls in — 29 packages. Reachability is not analyzed.",
"notes": [
{
"code": "excluded_no_data",
"params": {
"components": [
"no_advisories_left_outstanding"
]
}
},
{
"code": "weights_renormalized",
"params": {}
},
{
"code": "advisories_scope_published",
"params": {
"package": "pypi:ms2pip@4.2.0",
"assessed": 29
}
},
{
"code": "advisories_reachability",
"params": {}
}
],
"value": 100,
"inputs": {
"source": "osv",
"advisories": 0,
"affected_packages": 0,
"assessed_packages": 29,
"unassessed_packages": 0,
"affected_by_severity": "none",
"direct_affected_packages": 0
},
"components": [
{
"key": "direct_dependencies_free_of_known_advisories",
"name": "Direct dependencies free of known advisories",
"detail": "no direct dependency carries a known advisory",
"points": 35,
"status": "met",
"details": [
{
"code": "no_direct_advisories",
"params": {}
}
],
"max_points": 35
},
{
"key": "indirect_dependencies_free_of_known_advisories",
"name": "Indirect dependencies free of known advisories",
"detail": "no indirect dependency carries a known advisory",
"points": 25,
"status": "met",
"details": [
{
"code": "no_indirect_advisories",
"params": {}
}
],
"max_points": 25
},
{
"key": "no_advisories_left_outstanding",
"name": "No advisories left outstanding",
"detail": "no advisory carries a publication date",
"points": 0,
"status": "excluded",
"details": [
{
"code": "advisories_no_publication_date",
"params": {}
}
],
"max_points": 40
}
]
},
{
"key": "malicious_dependencies",
"band": "excellent",
"name": "Malicious dependencies",
"note": null,
"notes": [],
"value": 100,
"inputs": {
"source": "osv",
"meaning": "reported as a malicious package by the OpenSSF corpus; the remedy is removal or moving off the compromised name, never an upgrade of the same artifact. Versions the registry has since pulled are listed but not scored",
"packages": [],
"red_flag": false,
"assessed_packages": 29,
"malicious_packages": 0,
"direct_malicious_packages": 0,
"withdrawn_malicious_packages": 0,
"installable_malicious_packages": 0
},
"components": [
{
"key": "no_dependency_reported_as_a_malicious_package",
"name": "No dependency reported as a malicious package",
"detail": "no dependency is reported as a malicious package",
"points": 100,
"status": "met",
"details": [
{
"code": "no_malicious_dependencies",
"params": {}
}
],
"max_points": 100
}
]
},
{
"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": 8
},
"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": 37,
"weight": 0,
"metrics": [
{
"key": "ai_agent_context",
"band": "at_risk",
"name": "Agent context & guidance",
"note": null,
"notes": [],
"value": 32,
"inputs": {
"has_llms_txt": false,
"legible_history_share": 0.59,
"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": "59 of 100 human commits state their intent (structured subject or explanatory body)",
"points": 31.5,
"status": "partial",
"details": [
{
"code": "legible_history",
"params": {
"legible": 59,
"sampled": 100
}
}
],
"max_points": 40
}
]
},
{
"key": "ai_verify_loop",
"band": "at_risk",
"name": "Verify loop (build / test / typecheck)",
"note": null,
"notes": [],
"value": 32,
"inputs": {
"has_nix": false,
"has_tests": true,
"lockfiles": [
"uv.lock"
],
"has_dockerfile": false,
"typed_language": false,
"bootstrap_files": [],
"has_devcontainer": false,
"has_linter_config": false,
"typecheck_configs": [],
"agent_commit_share": 0,
"toolchain_manifests": [],
"dependency_bot_commit_share": 0
},
"components": [
{
"key": "one_command_bootstrap",
"name": "One-command bootstrap",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"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": 0,
"status": "missed",
"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 agent-authored commits among the last 100",
"points": 0,
"status": "missed",
"details": [
{
"code": "no_agent_authored_commits",
"params": {
"sampled": 100
}
}
],
"max_points": 10
},
{
"key": "automated_maintenance",
"name": "Automated maintenance",
"detail": "no automated dependency updates observed",
"points": 0,
"status": "missed",
"details": [
{
"code": "no_dependency_automation",
"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": "HTML",
"largest_source_bytes": 28997,
"source_files_sampled": 25,
"oversized_source_files": 0
},
"components": [
{
"key": "type_checkable_code",
"name": "Type-checkable code",
"detail": "HTML without a type-check config",
"points": 0,
"status": "missed",
"details": [
{
"code": "no_typecheck_config_language",
"params": {
"language": "HTML"
}
}
],
"max_points": 45
},
{
"key": "manageable_file_sizes",
"name": "Manageable file sizes",
"detail": "0/25 source files over 60KB",
"points": 55,
"status": "met",
"details": [
{
"code": "oversized_source_files",
"params": {
"kb": 60,
"sampled": 25,
"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": [
"Star history unavailable: GitHub GraphQL error: Resource not accessible by personal access token"
],
"report_type": "repository",
"generated_at": "2026-07-27T22:26:51.449767Z",
"schema_version": "0.27.0",
"badge_url": "https://raw.githubusercontent.com/inspect-software/badges/main/v1/c/CompOmics/ms2pip.svg",
"full_name": "CompOmics/ms2pip",
"license_state": "standard",
"license_spdx": "Apache-2.0"
}