{
  "name": "@dsh-bio/dsh-bio-genie",
  "version": "0.6.52",
  "description": "生物信息学「许愿式分析」插件：Python 执行器（bio_python：Biopython 全功能 + 出版级绘图）+ 94 个高频语义化工具（差异表达/GSEA、代谢建模/FBA、合成生物学设计、CRISPR、ML、文献检索、Addgene 质粒库、UniProt、单细胞 QC、来源审计、FASTA/GFF 批量工具箱等）+ 3 个 repair 管道工具（受控修复事件 v0：脱敏登记/只读状态/台账完整性校验）+ 52 个 skill（1 主 skill + 17 领域配方 + 21 协议 + 5 研究方法 + 8 agent 指南）+ 零依赖自举 Python 环境（uv+venv 自动下载到插件私有目录）。用户下载安装即可许愿式分析。",
  "type": "module",
  "main": "index.js",
  "exports": {
    ".": "./index.js",
    "./client": "./lib/client.js",
    "./cordis.patch.yml": "./cordis.patch.yml",
    "./package.json": "./package.json"
  },
  "files": [
    "index.js",
    "cordis.patch.yml",
    "src/**/*.js",
    "lib/**/*.js",
    "skills/**/*.md",
    "prompts/**/*.md",
    "python/**",
    "!python/**/*.pyc",
    "design/**",
    "!design/**/*.pyc",
    "!design/**/__pycache__",
    "preset/**/*",
    "scripts/install-preset.js",
    "docs/**/*.md",
    "README.md",
    "README.en.md",
    "LICENSE",
    "THIRD_PARTY_NOTICES.md",
    "SKILL-PROVENANCE.yaml"
  ],
  "keywords": [
    "dsh",
    "deepseek-harness",
    "dsh-plugin",
    "bioinformatics",
    "biology",
    "bio-analysis",
    "biology-analysis",
    "biopython",
    "genomics",
    "sequence-analysis",
    "wish-coding",
    "python"
  ],
  "license": "MIT",
  "dependencies": {
    "ajv": "8.20.0",
    "fast-deep-equal": "3.1.3",
    "fast-uri": "3.1.8",
    "json-schema-traverse": "1.0.0",
    "require-from-string": "2.0.2"
  },
  "scripts": {
    "bench": "node scripts/sync-client-version.mjs && node scripts/test-throttle.mjs && node scripts/test-log.mjs && node scripts/test-memory.mjs && node scripts/test-skills.mjs && node scripts/test-recipe-runtime.mjs && node scripts/test-addons-status.mjs && node scripts/test-ops.mjs && node test/exitcode-check.mjs && node test/runtime-jsonschema-heal.mjs && node test/design-gate.mjs && node test/design-failure-matrix.mjs && node test/design-containment.mjs && node test/design-validation.mjs && node test/design-replay-probe.mjs && node test/design-dispatch.mjs && node test/design-ingress.mjs && node test/design-envelope.mjs && node test/design-capability.mjs && node test/design-casefile.mjs && node test/design-consequence-tools.mjs && node test/design-casefile-tools.mjs && node test/design-offline.mjs && node test/design-archive-roundtrip.mjs && node test/design-prompt-fixtures.mjs && node test/design-host-fieldtest-p1.mjs && node scripts/run-python-test.mjs test/test_design_host_p1.py && node test/repair-contract.mjs && node test/repair-policy.mjs && node test/repair-capture.mjs && node test/repair-store.mjs && node test/repair-memory-boundary.mjs && node test/repair-tools.mjs && node test/repair-verify-lab.mjs && node test/repair-gen-canary.mjs && node test/repair-package-boundary.mjs && node --import ./test/register-dsh-tools.mjs test/optional-injection.mjs && node test/check-schema-dsl.mjs && node scripts/run-python-test.mjs scripts/test-blast-params.py && node scripts/run-python-test.mjs test/test_entrez_db.py && node scripts/run-python-test.mjs test/test_seq_input.py && node scripts/run-python-test.mjs test/test_seq_toolkit.py && node scripts/run-python-test.mjs test/test_plot_toolkit.py && node scripts/run-python-test.mjs test/test_collinearity.py && node scripts/run-python-test.mjs test/test_kaks.py && node scripts/run-python-test.mjs test/test_plot_synteny.py && node scripts/run-python-test.mjs test/test_plasmid_render.py && node scripts/run-python-test.mjs test/test_deg_method.py && node scripts/run-python-test.mjs test/test_deg_backends.py && node scripts/run-python-test.mjs test/test_genie_r2_contract.py && node scripts/run-python-test.mjs test/test_source_audit.py && node scripts/run-python-test.mjs test/test_differential_recipes.py && node scripts/run-python-test.mjs test/test_ml_pipeline.py && node scripts/run-python-test.mjs test/test_figview.py && node scripts/run-python-test.mjs test/test_visual_qa_layout.py && node scripts/run-python-test.mjs test/test_bridge_sanitize.py && node scripts/test-gem-adapter.mjs && node scripts/test-gem-http.mjs && node scripts/test-gem-capabilities.mjs && node scripts/test-graft-adapter.mjs && node test/hosted-capabilities.mjs && node test/crispr-tier-label.mjs && node test/fig-viewer-hello.mjs && node test/fig-viewer-refs.mjs && node scripts/test-provenance-percent.mjs && node scripts/test-provenance-nested.mjs && node scripts/test-provenance-capacity.mjs && node scripts/test-rigor-guard-lifecycle.mjs && node test/galatea-models-api.mjs && node test/domain-overview.mjs && node test/domain-overview-ui.mjs && node scripts/test-doc-counts.mjs && node scripts/test-cordis-patch-freshness.mjs",
    "test": "npm run bench",
    "install:preset": "node scripts/install-preset.js",
    "postinstall": "node scripts/install-preset.js"
  },
  "engines": {
    "node": "^22.19 || >=24"
  },
  "dsh": {
    "bundle": {
      "patch": "./cordis.patch.yml"
    },
    "client": {
      "inject": [
        "@deepseek-ai/dsh-client-ui-renderer",
        "@deepseek-ai/dsh-client-ui-settings",
        "@deepseek-ai/dsh-client-ui-conversation",
        "@deepseek-ai/dsh-client-ui-chat",
        "@deepseek-ai/dsh-client-ui-sidebar-right",
        "@deepseek-ai/dsh-client-resources",
        "@deepseek-ai/dsh-api-workspace-files"
      ],
      "platform": "web"
    }
  },
  "peerDependencies": {
    "@deepseek-ai/dsh-tools": "^0.1.0-rc.6 || ^0.2.0-rc.1",
    "@deepseek-ai/dsh-skill": "^0.1.0-rc.6 || ^0.2.0-rc.1",
    "@deepseek-ai/dsh-system-prompt": "^0.1.0-rc.6 || ^0.2.0-rc.1"
  },
  "peerDependenciesMeta": {
    "@deepseek-ai/dsh-tools": {
      "optional": true
    },
    "@deepseek-ai/dsh-skill": {
      "optional": true
    },
    "@deepseek-ai/dsh-system-prompt": {
      "optional": true
    }
  },
  "publishConfig": {
    "access": "public"
  },
  "repository": {
    "type": "git",
    "url": "https://github.com/moonbowterfly/dsh-bio-genie.git"
  },
  "homepage": "https://github.com/moonbowterfly/dsh-bio-genie",
  "bugs": {
    "url": "https://github.com/moonbowterfly/dsh-bio-genie/issues"
  }
}