@yeyuan98/opencode-bioresearcher-plugin 1.3.1 → 1.4.1

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (36) hide show
  1. package/README.md +14 -0
  2. package/dist/index.js +4 -1
  3. package/dist/misc-tools/index.d.ts +3 -0
  4. package/dist/misc-tools/index.js +3 -0
  5. package/dist/misc-tools/json-extract.d.ts +13 -0
  6. package/dist/misc-tools/json-extract.js +394 -0
  7. package/dist/misc-tools/json-infer.d.ts +13 -0
  8. package/dist/misc-tools/json-infer.js +199 -0
  9. package/dist/misc-tools/json-tools.d.ts +33 -0
  10. package/dist/misc-tools/json-tools.js +187 -0
  11. package/dist/misc-tools/json-validate.d.ts +13 -0
  12. package/dist/misc-tools/json-validate.js +228 -0
  13. package/dist/skills/bioresearcher-core/README.md +210 -0
  14. package/dist/skills/bioresearcher-core/SKILL.md +128 -0
  15. package/dist/skills/bioresearcher-core/examples/contexts.json +29 -0
  16. package/dist/skills/bioresearcher-core/examples/data-exchange-example.md +303 -0
  17. package/dist/skills/bioresearcher-core/examples/template.md +49 -0
  18. package/dist/skills/bioresearcher-core/patterns/calculator.md +215 -0
  19. package/dist/skills/bioresearcher-core/patterns/data-exchange.md +406 -0
  20. package/dist/skills/bioresearcher-core/patterns/json-tools.md +263 -0
  21. package/dist/skills/bioresearcher-core/patterns/progress.md +127 -0
  22. package/dist/skills/bioresearcher-core/patterns/retry.md +110 -0
  23. package/dist/skills/bioresearcher-core/patterns/shell-commands.md +79 -0
  24. package/dist/skills/bioresearcher-core/patterns/subagent-waves.md +186 -0
  25. package/dist/skills/bioresearcher-core/patterns/table-tools.md +260 -0
  26. package/dist/skills/bioresearcher-core/patterns/user-confirmation.md +187 -0
  27. package/dist/skills/bioresearcher-core/python/template.md +273 -0
  28. package/dist/skills/bioresearcher-core/python/template.py +323 -0
  29. package/dist/skills/long-table-summary/SKILL.md +374 -0
  30. package/dist/skills/long-table-summary/__init__.py +3 -0
  31. package/dist/skills/long-table-summary/combine_outputs.py +345 -0
  32. package/dist/skills/long-table-summary/pyproject.toml +11 -0
  33. package/dist/skills/pubmed-weekly/SKILL.md +329 -329
  34. package/dist/skills/pubmed-weekly/pubmed_weekly.py +411 -411
  35. package/dist/skills/pubmed-weekly/pyproject.toml +8 -8
  36. package/package.json +7 -2
package/dist/skills/pubmed-weekly/pyproject.toml CHANGED
@@ -1,8 +1,8 @@
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- [project]
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- name = "pubmed-weekly"
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- version = "1.0.0"
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- description = "PubMed weekly daily updates downloader and processor"
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- requires-python = ">=3.10"
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- dependencies = [
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- "openpyxl>=3.1.0",
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- ]
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+ [project]
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+ name = "pubmed-weekly"
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+ version = "1.0.0"
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+ description = "PubMed weekly daily updates downloader and processor"
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+ requires-python = ">=3.10"
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+ dependencies = [
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+ "openpyxl>=3.1.0",
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+ ]
package/package.json CHANGED
@@ -1,6 +1,6 @@
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  {
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  "name": "@yeyuan98/opencode-bioresearcher-plugin",
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- "version": "1.3.1",
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+ "version": "1.4.1",
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  "description": "OpenCode plugin that adds a bioresearcher agent",
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  "main": "dist/index.js",
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  "types": "dist/index.d.ts",
@@ -34,11 +34,16 @@
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  "fast-xml-parser": "^5.3.5",
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  "xdg-basedir": "^5.1.0",
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  "xlsx": "^0.18.5",
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- "zod": "^4.1.8"
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+ "zod": "^4.3.6"
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  },
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  "devDependencies": {
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  "@types/bun": "^1.2.0",
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  "@types/node": "^20.0.0",
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  "typescript": "^5.9.3"
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+ },
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+ "overrides": {
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+ "@opencode-ai/plugin": {
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+ "zod": "^4.3.6"
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+ }
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  }
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  }