sk-claudecode 1.0.0
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.
- package/.claude-plugin/marketplace.json +29 -0
- package/.claude-plugin/plugin.json +22 -0
- package/.mcp.json +16 -0
- package/LICENSE +21 -0
- package/README.md +171 -0
- package/agents/analyst.md +126 -0
- package/agents/architect-low.md +88 -0
- package/agents/architect-medium.md +147 -0
- package/agents/architect.md +302 -0
- package/agents/backend-developer.md +99 -0
- package/agents/build-fixer-low.md +82 -0
- package/agents/build-fixer.md +249 -0
- package/agents/code-reviewer-low.md +82 -0
- package/agents/code-reviewer.md +206 -0
- package/agents/critic.md +173 -0
- package/agents/database-reviewer.md +654 -0
- package/agents/designer-high.md +112 -0
- package/agents/designer-low.md +88 -0
- package/agents/designer.md +94 -0
- package/agents/doc-updater.md +452 -0
- package/agents/domain-expert-us.md +155 -0
- package/agents/domain-expert.md +132 -0
- package/agents/e2e-runner.md +797 -0
- package/agents/executor-high.md +189 -0
- package/agents/executor-low.md +95 -0
- package/agents/executor.md +79 -0
- package/agents/explore-high.md +234 -0
- package/agents/explore-medium.md +146 -0
- package/agents/explore.md +101 -0
- package/agents/financial-execution-agent.md +148 -0
- package/agents/financial-expert.md +117 -0
- package/agents/git-master.md +121 -0
- package/agents/go-build-resolver.md +368 -0
- package/agents/go-reviewer.md +267 -0
- package/agents/mobile-developer-high.md +126 -0
- package/agents/mobile-developer-low.md +43 -0
- package/agents/mobile-developer.md +189 -0
- package/agents/ontology-developer.md +130 -0
- package/agents/planner.md +119 -0
- package/agents/python-reviewer.md +469 -0
- package/agents/qa-tester-high.md +140 -0
- package/agents/qa-tester.md +266 -0
- package/agents/refactor-cleaner.md +306 -0
- package/agents/researcher-low.md +84 -0
- package/agents/researcher.md +70 -0
- package/agents/scientist-high.md +1023 -0
- package/agents/scientist-low.md +258 -0
- package/agents/scientist.md +1302 -0
- package/agents/security-reviewer-low.md +83 -0
- package/agents/security-reviewer.md +545 -0
- package/agents/tdd-guide-low.md +80 -0
- package/agents/tdd-guide.md +280 -0
- package/agents/ultra-code-reviewer.md +48 -0
- package/agents/ultra-executor.md +364 -0
- package/agents/ultra-ontology.md +227 -0
- package/agents/vision.md +39 -0
- package/agents/writer.md +171 -0
- package/bridge/__pycache__/gyoshu_bridge.cpython-310.pyc +0 -0
- package/bridge/codex-server.cjs +15011 -0
- package/bridge/gemini-server.cjs +15010 -0
- package/bridge/gyoshu_bridge.py +846 -0
- package/bridge/mcp-server.cjs +22699 -0
- package/bridge/run-mcp-server.sh +13 -0
- package/commands/.gitkeep +0 -0
- package/commands/analyze.md +45 -0
- package/commands/autopilot.md +175 -0
- package/commands/build-fix.md +55 -0
- package/commands/cancel.md +75 -0
- package/commands/code-review.md +47 -0
- package/commands/deepinit.md +319 -0
- package/commands/deepsearch.md +37 -0
- package/commands/doctor.md +190 -0
- package/commands/ecomode.md +73 -0
- package/commands/help.md +64 -0
- package/commands/hud.md +295 -0
- package/commands/learner.md +134 -0
- package/commands/mcp-setup.md +195 -0
- package/commands/note.md +61 -0
- package/commands/pipeline.md +231 -0
- package/commands/plan.md +35 -0
- package/commands/psm.md +180 -0
- package/commands/ralph-init.md +59 -0
- package/commands/ralph.md +123 -0
- package/commands/ralplan.md +277 -0
- package/commands/release.md +82 -0
- package/commands/research.md +99 -0
- package/commands/review.md +35 -0
- package/commands/security-review.md +47 -0
- package/commands/skc-setup.md +481 -0
- package/commands/swarm.md +694 -0
- package/commands/tdd.md +54 -0
- package/commands/ultrapilot.md +154 -0
- package/commands/ultraqa.md +121 -0
- package/commands/ultrawork.md +105 -0
- package/dist/__tests__/agent-registry.test.d.ts +2 -0
- package/dist/__tests__/agent-registry.test.d.ts.map +1 -0
- package/dist/__tests__/agent-registry.test.js +39 -0
- package/dist/__tests__/agent-registry.test.js.map +1 -0
- package/dist/__tests__/analytics/backfill-dedup.test.d.ts +2 -0
- package/dist/__tests__/analytics/backfill-dedup.test.d.ts.map +1 -0
- package/dist/__tests__/analytics/backfill-dedup.test.js +179 -0
- package/dist/__tests__/analytics/backfill-dedup.test.js.map +1 -0
- package/dist/__tests__/analytics/backfill-engine.test.d.ts +2 -0
- package/dist/__tests__/analytics/backfill-engine.test.d.ts.map +1 -0
- package/dist/__tests__/analytics/backfill-engine.test.js +362 -0
- package/dist/__tests__/analytics/backfill-engine.test.js.map +1 -0
- package/dist/__tests__/analytics/output-estimator.test.d.ts +2 -0
- package/dist/__tests__/analytics/output-estimator.test.d.ts.map +1 -0
- package/dist/__tests__/analytics/output-estimator.test.js +124 -0
- package/dist/__tests__/analytics/output-estimator.test.js.map +1 -0
- package/dist/__tests__/analytics/token-extractor.test.d.ts +2 -0
- package/dist/__tests__/analytics/token-extractor.test.d.ts.map +1 -0
- package/dist/__tests__/analytics/token-extractor.test.js +165 -0
- package/dist/__tests__/analytics/token-extractor.test.js.map +1 -0
- package/dist/__tests__/analytics/token-tracker.test.d.ts +2 -0
- package/dist/__tests__/analytics/token-tracker.test.d.ts.map +1 -0
- package/dist/__tests__/analytics/token-tracker.test.js +189 -0
- package/dist/__tests__/analytics/token-tracker.test.js.map +1 -0
- package/dist/__tests__/analytics/tokscale-adapter.test.d.ts +2 -0
- package/dist/__tests__/analytics/tokscale-adapter.test.d.ts.map +1 -0
- package/dist/__tests__/analytics/tokscale-adapter.test.js +79 -0
- package/dist/__tests__/analytics/tokscale-adapter.test.js.map +1 -0
- package/dist/__tests__/analytics/transcript-parser.test.d.ts +2 -0
- package/dist/__tests__/analytics/transcript-parser.test.d.ts.map +1 -0
- package/dist/__tests__/analytics/transcript-parser.test.js +285 -0
- package/dist/__tests__/analytics/transcript-parser.test.js.map +1 -0
- package/dist/__tests__/analytics/transcript-scanner.test.d.ts +2 -0
- package/dist/__tests__/analytics/transcript-scanner.test.d.ts.map +1 -0
- package/dist/__tests__/analytics/transcript-scanner.test.js +443 -0
- package/dist/__tests__/analytics/transcript-scanner.test.js.map +1 -0
- package/dist/__tests__/analytics/transcript-token-extractor.test.d.ts +2 -0
- package/dist/__tests__/analytics/transcript-token-extractor.test.d.ts.map +1 -0
- package/dist/__tests__/analytics/transcript-token-extractor.test.js +177 -0
- package/dist/__tests__/analytics/transcript-token-extractor.test.js.map +1 -0
- package/dist/__tests__/bash-history.test.d.ts +5 -0
- package/dist/__tests__/bash-history.test.d.ts.map +1 -0
- package/dist/__tests__/bash-history.test.js +78 -0
- package/dist/__tests__/bash-history.test.js.map +1 -0
- package/dist/__tests__/compatibility-security.test.d.ts +13 -0
- package/dist/__tests__/compatibility-security.test.d.ts.map +1 -0
- package/dist/__tests__/compatibility-security.test.js +403 -0
- package/dist/__tests__/compatibility-security.test.js.map +1 -0
- package/dist/__tests__/compatibility.test.d.ts +7 -0
- package/dist/__tests__/compatibility.test.d.ts.map +1 -0
- package/dist/__tests__/compatibility.test.js +484 -0
- package/dist/__tests__/compatibility.test.js.map +1 -0
- package/dist/__tests__/delegation-enforcement-levels.test.d.ts +9 -0
- package/dist/__tests__/delegation-enforcement-levels.test.d.ts.map +1 -0
- package/dist/__tests__/delegation-enforcement-levels.test.js +549 -0
- package/dist/__tests__/delegation-enforcement-levels.test.js.map +1 -0
- package/dist/__tests__/delegation-enforcer-integration.test.d.ts +10 -0
- package/dist/__tests__/delegation-enforcer-integration.test.d.ts.map +1 -0
- package/dist/__tests__/delegation-enforcer-integration.test.js +140 -0
- package/dist/__tests__/delegation-enforcer-integration.test.js.map +1 -0
- package/dist/__tests__/delegation-enforcer.test.d.ts +5 -0
- package/dist/__tests__/delegation-enforcer.test.d.ts.map +1 -0
- package/dist/__tests__/delegation-enforcer.test.js +208 -0
- package/dist/__tests__/delegation-enforcer.test.js.map +1 -0
- package/dist/__tests__/example.test.d.ts +2 -0
- package/dist/__tests__/example.test.d.ts.map +1 -0
- package/dist/__tests__/example.test.js +20 -0
- package/dist/__tests__/example.test.js.map +1 -0
- package/dist/__tests__/hooks/learner/bridge.test.d.ts +11 -0
- package/dist/__tests__/hooks/learner/bridge.test.d.ts.map +1 -0
- package/dist/__tests__/hooks/learner/bridge.test.js +217 -0
- package/dist/__tests__/hooks/learner/bridge.test.js.map +1 -0
- package/dist/__tests__/hooks/learner/parser.test.d.ts +5 -0
- package/dist/__tests__/hooks/learner/parser.test.d.ts.map +1 -0
- package/dist/__tests__/hooks/learner/parser.test.js +219 -0
- package/dist/__tests__/hooks/learner/parser.test.js.map +1 -0
- package/dist/__tests__/hooks.test.d.ts +2 -0
- package/dist/__tests__/hooks.test.d.ts.map +1 -0
- package/dist/__tests__/hooks.test.js +1154 -0
- package/dist/__tests__/hooks.test.js.map +1 -0
- package/dist/__tests__/hud/analytics-display.test.d.ts +2 -0
- package/dist/__tests__/hud/analytics-display.test.d.ts.map +1 -0
- package/dist/__tests__/hud/analytics-display.test.js +236 -0
- package/dist/__tests__/hud/analytics-display.test.js.map +1 -0
- package/dist/__tests__/hud/cwd.test.d.ts +2 -0
- package/dist/__tests__/hud/cwd.test.d.ts.map +1 -0
- package/dist/__tests__/hud/cwd.test.js +62 -0
- package/dist/__tests__/hud/cwd.test.js.map +1 -0
- package/dist/__tests__/hud/defaults.test.d.ts +2 -0
- package/dist/__tests__/hud/defaults.test.d.ts.map +1 -0
- package/dist/__tests__/hud/defaults.test.js +39 -0
- package/dist/__tests__/hud/defaults.test.js.map +1 -0
- package/dist/__tests__/hud/git.test.d.ts +2 -0
- package/dist/__tests__/hud/git.test.d.ts.map +1 -0
- package/dist/__tests__/hud/git.test.js +110 -0
- package/dist/__tests__/hud/git.test.js.map +1 -0
- package/dist/__tests__/hud/model.test.d.ts +2 -0
- package/dist/__tests__/hud/model.test.d.ts.map +1 -0
- package/dist/__tests__/hud/model.test.js +36 -0
- package/dist/__tests__/hud/model.test.js.map +1 -0
- package/dist/__tests__/hud/render.test.d.ts +2 -0
- package/dist/__tests__/hud/render.test.d.ts.map +1 -0
- package/dist/__tests__/hud/render.test.js +141 -0
- package/dist/__tests__/hud/render.test.js.map +1 -0
- package/dist/__tests__/hud/sanitize.test.d.ts +10 -0
- package/dist/__tests__/hud/sanitize.test.d.ts.map +1 -0
- package/dist/__tests__/hud/sanitize.test.js +138 -0
- package/dist/__tests__/hud/sanitize.test.js.map +1 -0
- package/dist/__tests__/hud/state.test.d.ts +2 -0
- package/dist/__tests__/hud/state.test.d.ts.map +1 -0
- package/dist/__tests__/hud/state.test.js +162 -0
- package/dist/__tests__/hud/state.test.js.map +1 -0
- package/dist/__tests__/hud/thinking.test.d.ts +2 -0
- package/dist/__tests__/hud/thinking.test.d.ts.map +1 -0
- package/dist/__tests__/hud/thinking.test.js +32 -0
- package/dist/__tests__/hud/thinking.test.js.map +1 -0
- package/dist/__tests__/hud/top-agents.test.d.ts +8 -0
- package/dist/__tests__/hud/top-agents.test.d.ts.map +1 -0
- package/dist/__tests__/hud/top-agents.test.js +158 -0
- package/dist/__tests__/hud/top-agents.test.js.map +1 -0
- package/dist/__tests__/hud-agents.test.d.ts +7 -0
- package/dist/__tests__/hud-agents.test.d.ts.map +1 -0
- package/dist/__tests__/hud-agents.test.js +366 -0
- package/dist/__tests__/hud-agents.test.js.map +1 -0
- package/dist/__tests__/hud-windows.test.d.ts +2 -0
- package/dist/__tests__/hud-windows.test.d.ts.map +1 -0
- package/dist/__tests__/hud-windows.test.js +95 -0
- package/dist/__tests__/hud-windows.test.js.map +1 -0
- package/dist/__tests__/installer.test.d.ts +2 -0
- package/dist/__tests__/installer.test.d.ts.map +1 -0
- package/dist/__tests__/installer.test.js +494 -0
- package/dist/__tests__/installer.test.js.map +1 -0
- package/dist/__tests__/job-management.test.d.ts +2 -0
- package/dist/__tests__/job-management.test.d.ts.map +1 -0
- package/dist/__tests__/job-management.test.js +296 -0
- package/dist/__tests__/job-management.test.js.map +1 -0
- package/dist/__tests__/learner/auto-learner.test.d.ts +7 -0
- package/dist/__tests__/learner/auto-learner.test.d.ts.map +1 -0
- package/dist/__tests__/learner/auto-learner.test.js +507 -0
- package/dist/__tests__/learner/auto-learner.test.js.map +1 -0
- package/dist/__tests__/learner/matcher.test.d.ts +2 -0
- package/dist/__tests__/learner/matcher.test.d.ts.map +1 -0
- package/dist/__tests__/learner/matcher.test.js +330 -0
- package/dist/__tests__/learner/matcher.test.js.map +1 -0
- package/dist/__tests__/live-data.test.d.ts +2 -0
- package/dist/__tests__/live-data.test.d.ts.map +1 -0
- package/dist/__tests__/live-data.test.js +331 -0
- package/dist/__tests__/live-data.test.js.map +1 -0
- package/dist/__tests__/load-agent-prompt.test.d.ts +2 -0
- package/dist/__tests__/load-agent-prompt.test.d.ts.map +1 -0
- package/dist/__tests__/load-agent-prompt.test.js +68 -0
- package/dist/__tests__/load-agent-prompt.test.js.map +1 -0
- package/dist/__tests__/lsp-servers.test.d.ts +2 -0
- package/dist/__tests__/lsp-servers.test.d.ts.map +1 -0
- package/dist/__tests__/lsp-servers.test.js +118 -0
- package/dist/__tests__/lsp-servers.test.js.map +1 -0
- package/dist/__tests__/mcp-server-workflows.test.d.ts +2 -0
- package/dist/__tests__/mcp-server-workflows.test.d.ts.map +1 -0
- package/dist/__tests__/mcp-server-workflows.test.js +301 -0
- package/dist/__tests__/mcp-server-workflows.test.js.map +1 -0
- package/dist/__tests__/mnemosyne/config.test.d.ts +2 -0
- package/dist/__tests__/mnemosyne/config.test.d.ts.map +1 -0
- package/dist/__tests__/mnemosyne/config.test.js +37 -0
- package/dist/__tests__/mnemosyne/config.test.js.map +1 -0
- package/dist/__tests__/mnemosyne/detector.test.d.ts +2 -0
- package/dist/__tests__/mnemosyne/detector.test.d.ts.map +1 -0
- package/dist/__tests__/mnemosyne/detector.test.js +99 -0
- package/dist/__tests__/mnemosyne/detector.test.js.map +1 -0
- package/dist/__tests__/mnemosyne/finder.test.d.ts +2 -0
- package/dist/__tests__/mnemosyne/finder.test.d.ts.map +1 -0
- package/dist/__tests__/mnemosyne/finder.test.js +105 -0
- package/dist/__tests__/mnemosyne/finder.test.js.map +1 -0
- package/dist/__tests__/mnemosyne/loader.test.d.ts +2 -0
- package/dist/__tests__/mnemosyne/loader.test.d.ts.map +1 -0
- package/dist/__tests__/mnemosyne/loader.test.js +73 -0
- package/dist/__tests__/mnemosyne/loader.test.js.map +1 -0
- package/dist/__tests__/mnemosyne/parser.test.d.ts +2 -0
- package/dist/__tests__/mnemosyne/parser.test.d.ts.map +1 -0
- package/dist/__tests__/mnemosyne/parser.test.js +81 -0
- package/dist/__tests__/mnemosyne/parser.test.js.map +1 -0
- package/dist/__tests__/mnemosyne/validator.test.d.ts +2 -0
- package/dist/__tests__/mnemosyne/validator.test.d.ts.map +1 -0
- package/dist/__tests__/mnemosyne/validator.test.js +85 -0
- package/dist/__tests__/mnemosyne/validator.test.js.map +1 -0
- package/dist/__tests__/model-routing.test.d.ts +2 -0
- package/dist/__tests__/model-routing.test.d.ts.map +1 -0
- package/dist/__tests__/model-routing.test.js +785 -0
- package/dist/__tests__/model-routing.test.js.map +1 -0
- package/dist/__tests__/multi-model-mcp-integration.test.d.ts +2 -0
- package/dist/__tests__/multi-model-mcp-integration.test.d.ts.map +1 -0
- package/dist/__tests__/multi-model-mcp-integration.test.js +69 -0
- package/dist/__tests__/multi-model-mcp-integration.test.js.map +1 -0
- package/dist/__tests__/multi-model-mcp.test.d.ts +2 -0
- package/dist/__tests__/multi-model-mcp.test.d.ts.map +1 -0
- package/dist/__tests__/multi-model-mcp.test.js +145 -0
- package/dist/__tests__/multi-model-mcp.test.js.map +1 -0
- package/dist/__tests__/notepad.test.d.ts +2 -0
- package/dist/__tests__/notepad.test.d.ts.map +1 -0
- package/dist/__tests__/notepad.test.js +374 -0
- package/dist/__tests__/notepad.test.js.map +1 -0
- package/dist/__tests__/omc-tools-server.test.d.ts +2 -0
- package/dist/__tests__/omc-tools-server.test.d.ts.map +1 -0
- package/dist/__tests__/omc-tools-server.test.js +61 -0
- package/dist/__tests__/omc-tools-server.test.js.map +1 -0
- package/dist/__tests__/prompt-file-only.test.d.ts +2 -0
- package/dist/__tests__/prompt-file-only.test.d.ts.map +1 -0
- package/dist/__tests__/prompt-file-only.test.js +77 -0
- package/dist/__tests__/prompt-file-only.test.js.map +1 -0
- package/dist/__tests__/prompt-injection.test.d.ts +2 -0
- package/dist/__tests__/prompt-injection.test.d.ts.map +1 -0
- package/dist/__tests__/prompt-injection.test.js +175 -0
- package/dist/__tests__/prompt-injection.test.js.map +1 -0
- package/dist/__tests__/ralph-prd.test.d.ts +2 -0
- package/dist/__tests__/ralph-prd.test.d.ts.map +1 -0
- package/dist/__tests__/ralph-prd.test.js +308 -0
- package/dist/__tests__/ralph-prd.test.js.map +1 -0
- package/dist/__tests__/ralph-progress.test.d.ts +2 -0
- package/dist/__tests__/ralph-progress.test.d.ts.map +1 -0
- package/dist/__tests__/ralph-progress.test.js +312 -0
- package/dist/__tests__/ralph-progress.test.js.map +1 -0
- package/dist/__tests__/rate-limit-wait/daemon.test.d.ts +5 -0
- package/dist/__tests__/rate-limit-wait/daemon.test.d.ts.map +1 -0
- package/dist/__tests__/rate-limit-wait/daemon.test.js +313 -0
- package/dist/__tests__/rate-limit-wait/daemon.test.js.map +1 -0
- package/dist/__tests__/rate-limit-wait/integration.test.d.ts +8 -0
- package/dist/__tests__/rate-limit-wait/integration.test.d.ts.map +1 -0
- package/dist/__tests__/rate-limit-wait/integration.test.js +329 -0
- package/dist/__tests__/rate-limit-wait/integration.test.js.map +1 -0
- package/dist/__tests__/rate-limit-wait/rate-limit-monitor.test.d.ts +5 -0
- package/dist/__tests__/rate-limit-wait/rate-limit-monitor.test.d.ts.map +1 -0
- package/dist/__tests__/rate-limit-wait/rate-limit-monitor.test.js +167 -0
- package/dist/__tests__/rate-limit-wait/rate-limit-monitor.test.js.map +1 -0
- package/dist/__tests__/rate-limit-wait/tmux-detector.test.d.ts +5 -0
- package/dist/__tests__/rate-limit-wait/tmux-detector.test.d.ts.map +1 -0
- package/dist/__tests__/rate-limit-wait/tmux-detector.test.js +295 -0
- package/dist/__tests__/rate-limit-wait/tmux-detector.test.js.map +1 -0
- package/dist/__tests__/skills.test.d.ts +2 -0
- package/dist/__tests__/skills.test.d.ts.map +1 -0
- package/dist/__tests__/skills.test.js +149 -0
- package/dist/__tests__/skills.test.js.map +1 -0
- package/dist/__tests__/task-continuation.test.d.ts +2 -0
- package/dist/__tests__/task-continuation.test.d.ts.map +1 -0
- package/dist/__tests__/task-continuation.test.js +743 -0
- package/dist/__tests__/task-continuation.test.js.map +1 -0
- package/dist/__tests__/tools/skills-tools.test.d.ts +2 -0
- package/dist/__tests__/tools/skills-tools.test.d.ts.map +1 -0
- package/dist/__tests__/tools/skills-tools.test.js +63 -0
- package/dist/__tests__/tools/skills-tools.test.js.map +1 -0
- package/dist/__tests__/types.test.d.ts +2 -0
- package/dist/__tests__/types.test.d.ts.map +1 -0
- package/dist/__tests__/types.test.js +77 -0
- package/dist/__tests__/types.test.js.map +1 -0
- package/dist/agents/analyst.d.ts +11 -0
- package/dist/agents/analyst.d.ts.map +1 -0
- package/dist/agents/analyst.js +40 -0
- package/dist/agents/analyst.js.map +1 -0
- package/dist/agents/architect.d.ts +12 -0
- package/dist/agents/architect.d.ts.map +1 -0
- package/dist/agents/architect.js +44 -0
- package/dist/agents/architect.js.map +1 -0
- package/dist/agents/coordinator-deprecated.d.ts +18 -0
- package/dist/agents/coordinator-deprecated.d.ts.map +1 -0
- package/dist/agents/coordinator-deprecated.js +38 -0
- package/dist/agents/coordinator-deprecated.js.map +1 -0
- package/dist/agents/critic.d.ts +11 -0
- package/dist/agents/critic.d.ts.map +1 -0
- package/dist/agents/critic.js +39 -0
- package/dist/agents/critic.js.map +1 -0
- package/dist/agents/deep-executor.d.ts +15 -0
- package/dist/agents/deep-executor.d.ts.map +1 -0
- package/dist/agents/deep-executor.js +45 -0
- package/dist/agents/deep-executor.js.map +1 -0
- package/dist/agents/definitions.d.ts +139 -0
- package/dist/agents/definitions.d.ts.map +1 -0
- package/dist/agents/definitions.js +438 -0
- package/dist/agents/definitions.js.map +1 -0
- package/dist/agents/delegation-validator.d.ts +31 -0
- package/dist/agents/delegation-validator.d.ts.map +1 -0
- package/dist/agents/delegation-validator.js +75 -0
- package/dist/agents/delegation-validator.js.map +1 -0
- package/dist/agents/designer.d.ts +11 -0
- package/dist/agents/designer.d.ts.map +1 -0
- package/dist/agents/designer.js +44 -0
- package/dist/agents/designer.js.map +1 -0
- package/dist/agents/executor.d.ts +13 -0
- package/dist/agents/executor.d.ts.map +1 -0
- package/dist/agents/executor.js +40 -0
- package/dist/agents/executor.js.map +1 -0
- package/dist/agents/explore.d.ts +12 -0
- package/dist/agents/explore.d.ts.map +1 -0
- package/dist/agents/explore.js +41 -0
- package/dist/agents/explore.js.map +1 -0
- package/dist/agents/index.d.ts +26 -0
- package/dist/agents/index.d.ts.map +1 -0
- package/dist/agents/index.js +33 -0
- package/dist/agents/index.js.map +1 -0
- package/dist/agents/planner.d.ts +11 -0
- package/dist/agents/planner.d.ts.map +1 -0
- package/dist/agents/planner.js +39 -0
- package/dist/agents/planner.js.map +1 -0
- package/dist/agents/preamble.d.ts +14 -0
- package/dist/agents/preamble.d.ts.map +1 -0
- package/dist/agents/preamble.js +26 -0
- package/dist/agents/preamble.js.map +1 -0
- package/dist/agents/prompt-generator.d.ts +96 -0
- package/dist/agents/prompt-generator.d.ts.map +1 -0
- package/dist/agents/prompt-generator.js +141 -0
- package/dist/agents/prompt-generator.js.map +1 -0
- package/dist/agents/prompt-sections/index.d.ts +44 -0
- package/dist/agents/prompt-sections/index.d.ts.map +1 -0
- package/dist/agents/prompt-sections/index.js +196 -0
- package/dist/agents/prompt-sections/index.js.map +1 -0
- package/dist/agents/qa-tester.d.ts +16 -0
- package/dist/agents/qa-tester.d.ts.map +1 -0
- package/dist/agents/qa-tester.js +45 -0
- package/dist/agents/qa-tester.js.map +1 -0
- package/dist/agents/researcher.d.ts +12 -0
- package/dist/agents/researcher.d.ts.map +1 -0
- package/dist/agents/researcher.js +40 -0
- package/dist/agents/researcher.js.map +1 -0
- package/dist/agents/scientist.d.ts +16 -0
- package/dist/agents/scientist.d.ts.map +1 -0
- package/dist/agents/scientist.js +53 -0
- package/dist/agents/scientist.js.map +1 -0
- package/dist/agents/types.d.ts +126 -0
- package/dist/agents/types.d.ts.map +1 -0
- package/dist/agents/types.js +38 -0
- package/dist/agents/types.js.map +1 -0
- package/dist/agents/ultra-executor.d.ts +15 -0
- package/dist/agents/ultra-executor.d.ts.map +1 -0
- package/dist/agents/ultra-executor.js +45 -0
- package/dist/agents/ultra-executor.js.map +1 -0
- package/dist/agents/utils.d.ts +60 -0
- package/dist/agents/utils.d.ts.map +1 -0
- package/dist/agents/utils.js +247 -0
- package/dist/agents/utils.js.map +1 -0
- package/dist/agents/vision.d.ts +11 -0
- package/dist/agents/vision.d.ts.map +1 -0
- package/dist/agents/vision.js +40 -0
- package/dist/agents/vision.js.map +1 -0
- package/dist/agents/writer.d.ts +11 -0
- package/dist/agents/writer.d.ts.map +1 -0
- package/dist/agents/writer.js +40 -0
- package/dist/agents/writer.js.map +1 -0
- package/dist/analytics/analytics-summary.d.ts +47 -0
- package/dist/analytics/analytics-summary.d.ts.map +1 -0
- package/dist/analytics/analytics-summary.js +171 -0
- package/dist/analytics/analytics-summary.js.map +1 -0
- package/dist/analytics/backfill-dedup.d.ts +49 -0
- package/dist/analytics/backfill-dedup.d.ts.map +1 -0
- package/dist/analytics/backfill-dedup.js +115 -0
- package/dist/analytics/backfill-dedup.js.map +1 -0
- package/dist/analytics/backfill-engine.d.ts +59 -0
- package/dist/analytics/backfill-engine.d.ts.map +1 -0
- package/dist/analytics/backfill-engine.js +172 -0
- package/dist/analytics/backfill-engine.js.map +1 -0
- package/dist/analytics/cost-estimator.d.ts +29 -0
- package/dist/analytics/cost-estimator.d.ts.map +1 -0
- package/dist/analytics/cost-estimator.js +135 -0
- package/dist/analytics/cost-estimator.js.map +1 -0
- package/dist/analytics/export.d.ts +7 -0
- package/dist/analytics/export.d.ts.map +1 -0
- package/dist/analytics/export.js +93 -0
- package/dist/analytics/export.js.map +1 -0
- package/dist/analytics/index.d.ts +23 -0
- package/dist/analytics/index.d.ts.map +1 -0
- package/dist/analytics/index.js +28 -0
- package/dist/analytics/index.js.map +1 -0
- package/dist/analytics/metrics-collector.d.ts +30 -0
- package/dist/analytics/metrics-collector.d.ts.map +1 -0
- package/dist/analytics/metrics-collector.js +96 -0
- package/dist/analytics/metrics-collector.js.map +1 -0
- package/dist/analytics/output-estimator.d.ts +26 -0
- package/dist/analytics/output-estimator.d.ts.map +1 -0
- package/dist/analytics/output-estimator.js +65 -0
- package/dist/analytics/output-estimator.js.map +1 -0
- package/dist/analytics/query-engine.d.ts +35 -0
- package/dist/analytics/query-engine.d.ts.map +1 -0
- package/dist/analytics/query-engine.js +239 -0
- package/dist/analytics/query-engine.js.map +1 -0
- package/dist/analytics/session-manager.d.ts +50 -0
- package/dist/analytics/session-manager.d.ts.map +1 -0
- package/dist/analytics/session-manager.js +290 -0
- package/dist/analytics/session-manager.js.map +1 -0
- package/dist/analytics/session-types.d.ts +37 -0
- package/dist/analytics/session-types.d.ts.map +1 -0
- package/dist/analytics/session-types.js +2 -0
- package/dist/analytics/session-types.js.map +1 -0
- package/dist/analytics/token-extractor.d.ts +31 -0
- package/dist/analytics/token-extractor.d.ts.map +1 -0
- package/dist/analytics/token-extractor.js +57 -0
- package/dist/analytics/token-extractor.js.map +1 -0
- package/dist/analytics/token-tracker.d.ts +33 -0
- package/dist/analytics/token-tracker.d.ts.map +1 -0
- package/dist/analytics/token-tracker.js +440 -0
- package/dist/analytics/token-tracker.js.map +1 -0
- package/dist/analytics/tokscale-adapter.d.ts +71 -0
- package/dist/analytics/tokscale-adapter.d.ts.map +1 -0
- package/dist/analytics/tokscale-adapter.js +223 -0
- package/dist/analytics/tokscale-adapter.js.map +1 -0
- package/dist/analytics/transcript-parser.d.ts +42 -0
- package/dist/analytics/transcript-parser.d.ts.map +1 -0
- package/dist/analytics/transcript-parser.js +90 -0
- package/dist/analytics/transcript-parser.js.map +1 -0
- package/dist/analytics/transcript-scanner.d.ts +51 -0
- package/dist/analytics/transcript-scanner.d.ts.map +1 -0
- package/dist/analytics/transcript-scanner.js +279 -0
- package/dist/analytics/transcript-scanner.js.map +1 -0
- package/dist/analytics/transcript-token-extractor.d.ts +35 -0
- package/dist/analytics/transcript-token-extractor.d.ts.map +1 -0
- package/dist/analytics/transcript-token-extractor.js +136 -0
- package/dist/analytics/transcript-token-extractor.js.map +1 -0
- package/dist/analytics/types.d.ts +119 -0
- package/dist/analytics/types.d.ts.map +1 -0
- package/dist/analytics/types.js +26 -0
- package/dist/analytics/types.js.map +1 -0
- package/dist/cli/analytics.d.ts +3 -0
- package/dist/cli/analytics.d.ts.map +1 -0
- package/dist/cli/analytics.js +105 -0
- package/dist/cli/analytics.js.map +1 -0
- package/dist/cli/commands/agents.d.ts +5 -0
- package/dist/cli/commands/agents.d.ts.map +1 -0
- package/dist/cli/commands/agents.js +31 -0
- package/dist/cli/commands/agents.js.map +1 -0
- package/dist/cli/commands/backfill.d.ts +15 -0
- package/dist/cli/commands/backfill.d.ts.map +1 -0
- package/dist/cli/commands/backfill.js +146 -0
- package/dist/cli/commands/backfill.js.map +1 -0
- package/dist/cli/commands/cleanup.d.ts +4 -0
- package/dist/cli/commands/cleanup.d.ts.map +1 -0
- package/dist/cli/commands/cleanup.js +17 -0
- package/dist/cli/commands/cleanup.js.map +1 -0
- package/dist/cli/commands/cost.d.ts +4 -0
- package/dist/cli/commands/cost.d.ts.map +1 -0
- package/dist/cli/commands/cost.js +53 -0
- package/dist/cli/commands/cost.js.map +1 -0
- package/dist/cli/commands/doctor-conflicts.d.ts +55 -0
- package/dist/cli/commands/doctor-conflicts.d.ts.map +1 -0
- package/dist/cli/commands/doctor-conflicts.js +265 -0
- package/dist/cli/commands/doctor-conflicts.js.map +1 -0
- package/dist/cli/commands/export.d.ts +5 -0
- package/dist/cli/commands/export.d.ts.map +1 -0
- package/dist/cli/commands/export.js +30 -0
- package/dist/cli/commands/export.js.map +1 -0
- package/dist/cli/commands/sessions.d.ts +5 -0
- package/dist/cli/commands/sessions.d.ts.map +1 -0
- package/dist/cli/commands/sessions.js +37 -0
- package/dist/cli/commands/sessions.js.map +1 -0
- package/dist/cli/commands/stats.d.ts +5 -0
- package/dist/cli/commands/stats.d.ts.map +1 -0
- package/dist/cli/commands/stats.js +84 -0
- package/dist/cli/commands/stats.js.map +1 -0
- package/dist/cli/commands/teleport.d.ts +37 -0
- package/dist/cli/commands/teleport.d.ts.map +1 -0
- package/dist/cli/commands/teleport.js +439 -0
- package/dist/cli/commands/teleport.js.map +1 -0
- package/dist/cli/commands/wait.d.ts +52 -0
- package/dist/cli/commands/wait.d.ts.map +1 -0
- package/dist/cli/commands/wait.js +229 -0
- package/dist/cli/commands/wait.js.map +1 -0
- package/dist/cli/index.d.ts +13 -0
- package/dist/cli/index.d.ts.map +1 -0
- package/dist/cli/index.js +1051 -0
- package/dist/cli/index.js.map +1 -0
- package/dist/cli/utils/formatting.d.ts +22 -0
- package/dist/cli/utils/formatting.d.ts.map +1 -0
- package/dist/cli/utils/formatting.js +70 -0
- package/dist/cli/utils/formatting.js.map +1 -0
- package/dist/cli/utils/tokscale-launcher.d.ts +25 -0
- package/dist/cli/utils/tokscale-launcher.d.ts.map +1 -0
- package/dist/cli/utils/tokscale-launcher.js +70 -0
- package/dist/cli/utils/tokscale-launcher.js.map +1 -0
- package/dist/commands/index.d.ts +78 -0
- package/dist/commands/index.d.ts.map +1 -0
- package/dist/commands/index.js +148 -0
- package/dist/commands/index.js.map +1 -0
- package/dist/compatibility/discovery.d.ts +58 -0
- package/dist/compatibility/discovery.d.ts.map +1 -0
- package/dist/compatibility/discovery.js +620 -0
- package/dist/compatibility/discovery.js.map +1 -0
- package/dist/compatibility/index.d.ts +51 -0
- package/dist/compatibility/index.d.ts.map +1 -0
- package/dist/compatibility/index.js +72 -0
- package/dist/compatibility/index.js.map +1 -0
- package/dist/compatibility/mcp-bridge.d.ts +138 -0
- package/dist/compatibility/mcp-bridge.d.ts.map +1 -0
- package/dist/compatibility/mcp-bridge.js +524 -0
- package/dist/compatibility/mcp-bridge.js.map +1 -0
- package/dist/compatibility/permission-adapter.d.ts +79 -0
- package/dist/compatibility/permission-adapter.d.ts.map +1 -0
- package/dist/compatibility/permission-adapter.js +369 -0
- package/dist/compatibility/permission-adapter.js.map +1 -0
- package/dist/compatibility/registry.d.ts +161 -0
- package/dist/compatibility/registry.d.ts.map +1 -0
- package/dist/compatibility/registry.js +389 -0
- package/dist/compatibility/registry.js.map +1 -0
- package/dist/compatibility/types.d.ts +249 -0
- package/dist/compatibility/types.d.ts.map +1 -0
- package/dist/compatibility/types.js +8 -0
- package/dist/compatibility/types.js.map +1 -0
- package/dist/config/index.d.ts +5 -0
- package/dist/config/index.d.ts.map +1 -0
- package/dist/config/index.js +5 -0
- package/dist/config/index.js.map +1 -0
- package/dist/config/loader.d.ts +49 -0
- package/dist/config/loader.d.ts.map +1 -0
- package/dist/config/loader.js +385 -0
- package/dist/config/loader.js.map +1 -0
- package/dist/features/auto-update.d.ts +251 -0
- package/dist/features/auto-update.d.ts.map +1 -0
- package/dist/features/auto-update.js +524 -0
- package/dist/features/auto-update.js.map +1 -0
- package/dist/features/background-agent/concurrency.d.ts +53 -0
- package/dist/features/background-agent/concurrency.d.ts.map +1 -0
- package/dist/features/background-agent/concurrency.js +121 -0
- package/dist/features/background-agent/concurrency.js.map +1 -0
- package/dist/features/background-agent/index.d.ts +12 -0
- package/dist/features/background-agent/index.d.ts.map +1 -0
- package/dist/features/background-agent/index.js +12 -0
- package/dist/features/background-agent/index.js.map +1 -0
- package/dist/features/background-agent/manager.d.ts +144 -0
- package/dist/features/background-agent/manager.d.ts.map +1 -0
- package/dist/features/background-agent/manager.js +495 -0
- package/dist/features/background-agent/manager.js.map +1 -0
- package/dist/features/background-agent/types.d.ts +128 -0
- package/dist/features/background-agent/types.d.ts.map +1 -0
- package/dist/features/background-agent/types.js +9 -0
- package/dist/features/background-agent/types.js.map +1 -0
- package/dist/features/background-tasks.d.ts +99 -0
- package/dist/features/background-tasks.d.ts.map +1 -0
- package/dist/features/background-tasks.js +265 -0
- package/dist/features/background-tasks.js.map +1 -0
- package/dist/features/boulder-state/constants.d.ts +20 -0
- package/dist/features/boulder-state/constants.d.ts.map +1 -0
- package/dist/features/boulder-state/constants.js +21 -0
- package/dist/features/boulder-state/constants.js.map +1 -0
- package/dist/features/boulder-state/index.d.ts +12 -0
- package/dist/features/boulder-state/index.d.ts.map +1 -0
- package/dist/features/boulder-state/index.js +13 -0
- package/dist/features/boulder-state/index.js.map +1 -0
- package/dist/features/boulder-state/storage.d.ts +58 -0
- package/dist/features/boulder-state/storage.d.ts.map +1 -0
- package/dist/features/boulder-state/storage.js +175 -0
- package/dist/features/boulder-state/storage.js.map +1 -0
- package/dist/features/boulder-state/types.d.ts +48 -0
- package/dist/features/boulder-state/types.d.ts.map +1 -0
- package/dist/features/boulder-state/types.js +10 -0
- package/dist/features/boulder-state/types.js.map +1 -0
- package/dist/features/builtin-skills/index.d.ts +11 -0
- package/dist/features/builtin-skills/index.d.ts.map +1 -0
- package/dist/features/builtin-skills/index.js +10 -0
- package/dist/features/builtin-skills/index.js.map +1 -0
- package/dist/features/builtin-skills/skills.d.ts +74 -0
- package/dist/features/builtin-skills/skills.d.ts.map +1 -0
- package/dist/features/builtin-skills/skills.js +288 -0
- package/dist/features/builtin-skills/skills.js.map +1 -0
- package/dist/features/builtin-skills/types.d.ts +60 -0
- package/dist/features/builtin-skills/types.d.ts.map +1 -0
- package/dist/features/builtin-skills/types.js +9 -0
- package/dist/features/builtin-skills/types.js.map +1 -0
- package/dist/features/context-injector/collector.d.ts +56 -0
- package/dist/features/context-injector/collector.d.ts.map +1 -0
- package/dist/features/context-injector/collector.js +122 -0
- package/dist/features/context-injector/collector.js.map +1 -0
- package/dist/features/context-injector/index.d.ts +12 -0
- package/dist/features/context-injector/index.d.ts.map +1 -0
- package/dist/features/context-injector/index.js +13 -0
- package/dist/features/context-injector/index.js.map +1 -0
- package/dist/features/context-injector/injector.d.ts +47 -0
- package/dist/features/context-injector/injector.d.ts.map +1 -0
- package/dist/features/context-injector/injector.js +103 -0
- package/dist/features/context-injector/injector.js.map +1 -0
- package/dist/features/context-injector/types.d.ts +103 -0
- package/dist/features/context-injector/types.d.ts.map +1 -0
- package/dist/features/context-injector/types.js +11 -0
- package/dist/features/context-injector/types.js.map +1 -0
- package/dist/features/continuation-enforcement.d.ts +36 -0
- package/dist/features/continuation-enforcement.d.ts.map +1 -0
- package/dist/features/continuation-enforcement.js +175 -0
- package/dist/features/continuation-enforcement.js.map +1 -0
- package/dist/features/delegation-categories/index.d.ts +116 -0
- package/dist/features/delegation-categories/index.d.ts.map +1 -0
- package/dist/features/delegation-categories/index.js +287 -0
- package/dist/features/delegation-categories/index.js.map +1 -0
- package/dist/features/delegation-categories/test-categories.d.ts +7 -0
- package/dist/features/delegation-categories/test-categories.d.ts.map +1 -0
- package/dist/features/delegation-categories/test-categories.js +88 -0
- package/dist/features/delegation-categories/test-categories.js.map +1 -0
- package/dist/features/delegation-categories/types.d.ts +51 -0
- package/dist/features/delegation-categories/types.d.ts.map +1 -0
- package/dist/features/delegation-categories/types.js +8 -0
- package/dist/features/delegation-categories/types.js.map +1 -0
- package/dist/features/delegation-enforcer.d.ts +71 -0
- package/dist/features/delegation-enforcer.d.ts.map +1 -0
- package/dist/features/delegation-enforcer.js +128 -0
- package/dist/features/delegation-enforcer.js.map +1 -0
- package/dist/features/index.d.ts +17 -0
- package/dist/features/index.d.ts.map +1 -0
- package/dist/features/index.js +77 -0
- package/dist/features/index.js.map +1 -0
- package/dist/features/magic-keywords.d.ts +28 -0
- package/dist/features/magic-keywords.d.ts.map +1 -0
- package/dist/features/magic-keywords.js +421 -0
- package/dist/features/magic-keywords.js.map +1 -0
- package/dist/features/model-routing/index.d.ts +34 -0
- package/dist/features/model-routing/index.d.ts.map +1 -0
- package/dist/features/model-routing/index.js +48 -0
- package/dist/features/model-routing/index.js.map +1 -0
- package/dist/features/model-routing/prompts/haiku.d.ts +54 -0
- package/dist/features/model-routing/prompts/haiku.d.ts.map +1 -0
- package/dist/features/model-routing/prompts/haiku.js +141 -0
- package/dist/features/model-routing/prompts/haiku.js.map +1 -0
- package/dist/features/model-routing/prompts/index.d.ts +47 -0
- package/dist/features/model-routing/prompts/index.d.ts.map +1 -0
- package/dist/features/model-routing/prompts/index.js +122 -0
- package/dist/features/model-routing/prompts/index.js.map +1 -0
- package/dist/features/model-routing/prompts/opus.d.ts +34 -0
- package/dist/features/model-routing/prompts/opus.d.ts.map +1 -0
- package/dist/features/model-routing/prompts/opus.js +153 -0
- package/dist/features/model-routing/prompts/opus.js.map +1 -0
- package/dist/features/model-routing/prompts/sonnet.d.ts +38 -0
- package/dist/features/model-routing/prompts/sonnet.d.ts.map +1 -0
- package/dist/features/model-routing/prompts/sonnet.js +149 -0
- package/dist/features/model-routing/prompts/sonnet.js.map +1 -0
- package/dist/features/model-routing/router.d.ts +78 -0
- package/dist/features/model-routing/router.d.ts.map +1 -0
- package/dist/features/model-routing/router.js +236 -0
- package/dist/features/model-routing/router.js.map +1 -0
- package/dist/features/model-routing/rules.d.ts +32 -0
- package/dist/features/model-routing/rules.d.ts.map +1 -0
- package/dist/features/model-routing/rules.js +216 -0
- package/dist/features/model-routing/rules.js.map +1 -0
- package/dist/features/model-routing/scorer.d.ts +35 -0
- package/dist/features/model-routing/scorer.d.ts.map +1 -0
- package/dist/features/model-routing/scorer.js +241 -0
- package/dist/features/model-routing/scorer.js.map +1 -0
- package/dist/features/model-routing/signals.d.ts +26 -0
- package/dist/features/model-routing/signals.d.ts.map +1 -0
- package/dist/features/model-routing/signals.js +283 -0
- package/dist/features/model-routing/signals.js.map +1 -0
- package/dist/features/model-routing/types.d.ts +194 -0
- package/dist/features/model-routing/types.d.ts.map +1 -0
- package/dist/features/model-routing/types.js +82 -0
- package/dist/features/model-routing/types.js.map +1 -0
- package/dist/features/notepad-wisdom/extractor.d.ts +30 -0
- package/dist/features/notepad-wisdom/extractor.d.ts.map +1 -0
- package/dist/features/notepad-wisdom/extractor.js +68 -0
- package/dist/features/notepad-wisdom/extractor.js.map +1 -0
- package/dist/features/notepad-wisdom/index.d.ts +39 -0
- package/dist/features/notepad-wisdom/index.d.ts.map +1 -0
- package/dist/features/notepad-wisdom/index.js +169 -0
- package/dist/features/notepad-wisdom/index.js.map +1 -0
- package/dist/features/notepad-wisdom/types.d.ts +18 -0
- package/dist/features/notepad-wisdom/types.d.ts.map +1 -0
- package/dist/features/notepad-wisdom/types.js +7 -0
- package/dist/features/notepad-wisdom/types.js.map +1 -0
- package/dist/features/rate-limit-wait/daemon.d.ts +52 -0
- package/dist/features/rate-limit-wait/daemon.d.ts.map +1 -0
- package/dist/features/rate-limit-wait/daemon.js +588 -0
- package/dist/features/rate-limit-wait/daemon.js.map +1 -0
- package/dist/features/rate-limit-wait/index.d.ts +16 -0
- package/dist/features/rate-limit-wait/index.d.ts.map +1 -0
- package/dist/features/rate-limit-wait/index.js +18 -0
- package/dist/features/rate-limit-wait/index.js.map +1 -0
- package/dist/features/rate-limit-wait/rate-limit-monitor.d.ts +22 -0
- package/dist/features/rate-limit-wait/rate-limit-monitor.d.ts.map +1 -0
- package/dist/features/rate-limit-wait/rate-limit-monitor.js +99 -0
- package/dist/features/rate-limit-wait/rate-limit-monitor.js.map +1 -0
- package/dist/features/rate-limit-wait/tmux-detector.d.ts +59 -0
- package/dist/features/rate-limit-wait/tmux-detector.d.ts.map +1 -0
- package/dist/features/rate-limit-wait/tmux-detector.js +304 -0
- package/dist/features/rate-limit-wait/tmux-detector.js.map +1 -0
- package/dist/features/rate-limit-wait/types.d.ts +121 -0
- package/dist/features/rate-limit-wait/types.d.ts.map +1 -0
- package/dist/features/rate-limit-wait/types.js +8 -0
- package/dist/features/rate-limit-wait/types.js.map +1 -0
- package/dist/features/state-manager/index.d.ts +100 -0
- package/dist/features/state-manager/index.d.ts.map +1 -0
- package/dist/features/state-manager/index.js +417 -0
- package/dist/features/state-manager/index.js.map +1 -0
- package/dist/features/state-manager/types.d.ts +147 -0
- package/dist/features/state-manager/types.d.ts.map +1 -0
- package/dist/features/state-manager/types.js +30 -0
- package/dist/features/state-manager/types.js.map +1 -0
- package/dist/features/task-decomposer/index.d.ts +33 -0
- package/dist/features/task-decomposer/index.d.ts.map +1 -0
- package/dist/features/task-decomposer/index.js +695 -0
- package/dist/features/task-decomposer/index.js.map +1 -0
- package/dist/features/task-decomposer/types.d.ts +133 -0
- package/dist/features/task-decomposer/types.d.ts.map +1 -0
- package/dist/features/task-decomposer/types.js +8 -0
- package/dist/features/task-decomposer/types.js.map +1 -0
- package/dist/features/verification/example.d.ts +49 -0
- package/dist/features/verification/example.d.ts.map +1 -0
- package/dist/features/verification/example.js +237 -0
- package/dist/features/verification/example.js.map +1 -0
- package/dist/features/verification/index.d.ts +97 -0
- package/dist/features/verification/index.d.ts.map +1 -0
- package/dist/features/verification/index.js +439 -0
- package/dist/features/verification/index.js.map +1 -0
- package/dist/features/verification/types.d.ts +142 -0
- package/dist/features/verification/types.d.ts.map +1 -0
- package/dist/features/verification/types.js +7 -0
- package/dist/features/verification/types.js.map +1 -0
- package/dist/hooks/__tests__/background-process-guard.test.d.ts +2 -0
- package/dist/hooks/__tests__/background-process-guard.test.d.ts.map +1 -0
- package/dist/hooks/__tests__/background-process-guard.test.js +233 -0
- package/dist/hooks/__tests__/background-process-guard.test.js.map +1 -0
- package/dist/hooks/__tests__/bridge-pkill.test.d.ts +8 -0
- package/dist/hooks/__tests__/bridge-pkill.test.d.ts.map +1 -0
- package/dist/hooks/__tests__/bridge-pkill.test.js +188 -0
- package/dist/hooks/__tests__/bridge-pkill.test.js.map +1 -0
- package/dist/hooks/__tests__/bridge.test.d.ts +2 -0
- package/dist/hooks/__tests__/bridge.test.d.ts.map +1 -0
- package/dist/hooks/__tests__/bridge.test.js +199 -0
- package/dist/hooks/__tests__/bridge.test.js.map +1 -0
- package/dist/hooks/agent-usage-reminder/constants.d.ts +17 -0
- package/dist/hooks/agent-usage-reminder/constants.d.ts.map +1 -0
- package/dist/hooks/agent-usage-reminder/constants.js +57 -0
- package/dist/hooks/agent-usage-reminder/constants.js.map +1 -0
- package/dist/hooks/agent-usage-reminder/index.d.ts +36 -0
- package/dist/hooks/agent-usage-reminder/index.d.ts.map +1 -0
- package/dist/hooks/agent-usage-reminder/index.js +89 -0
- package/dist/hooks/agent-usage-reminder/index.js.map +1 -0
- package/dist/hooks/agent-usage-reminder/storage.d.ts +12 -0
- package/dist/hooks/agent-usage-reminder/storage.d.ts.map +1 -0
- package/dist/hooks/agent-usage-reminder/storage.js +39 -0
- package/dist/hooks/agent-usage-reminder/storage.js.map +1 -0
- package/dist/hooks/agent-usage-reminder/types.d.ts +14 -0
- package/dist/hooks/agent-usage-reminder/types.d.ts.map +1 -0
- package/dist/hooks/agent-usage-reminder/types.js +9 -0
- package/dist/hooks/agent-usage-reminder/types.js.map +1 -0
- package/dist/hooks/auto-slash-command/constants.d.ts +19 -0
- package/dist/hooks/auto-slash-command/constants.d.ts.map +1 -0
- package/dist/hooks/auto-slash-command/constants.js +32 -0
- package/dist/hooks/auto-slash-command/constants.js.map +1 -0
- package/dist/hooks/auto-slash-command/detector.d.ts +33 -0
- package/dist/hooks/auto-slash-command/detector.d.ts.map +1 -0
- package/dist/hooks/auto-slash-command/detector.js +73 -0
- package/dist/hooks/auto-slash-command/detector.js.map +1 -0
- package/dist/hooks/auto-slash-command/executor.d.ts +29 -0
- package/dist/hooks/auto-slash-command/executor.d.ts.map +1 -0
- package/dist/hooks/auto-slash-command/executor.js +216 -0
- package/dist/hooks/auto-slash-command/executor.js.map +1 -0
- package/dist/hooks/auto-slash-command/index.d.ts +53 -0
- package/dist/hooks/auto-slash-command/index.d.ts.map +1 -0
- package/dist/hooks/auto-slash-command/index.js +105 -0
- package/dist/hooks/auto-slash-command/index.js.map +1 -0
- package/dist/hooks/auto-slash-command/live-data.d.ts +27 -0
- package/dist/hooks/auto-slash-command/live-data.d.ts.map +1 -0
- package/dist/hooks/auto-slash-command/live-data.js +459 -0
- package/dist/hooks/auto-slash-command/live-data.js.map +1 -0
- package/dist/hooks/auto-slash-command/types.d.ts +77 -0
- package/dist/hooks/auto-slash-command/types.d.ts.map +1 -0
- package/dist/hooks/auto-slash-command/types.js +9 -0
- package/dist/hooks/auto-slash-command/types.js.map +1 -0
- package/dist/hooks/autopilot/__tests__/cancel.test.d.ts +2 -0
- package/dist/hooks/autopilot/__tests__/cancel.test.d.ts.map +1 -0
- package/dist/hooks/autopilot/__tests__/cancel.test.js +407 -0
- package/dist/hooks/autopilot/__tests__/cancel.test.js.map +1 -0
- package/dist/hooks/autopilot/__tests__/prompts.test.d.ts +2 -0
- package/dist/hooks/autopilot/__tests__/prompts.test.d.ts.map +1 -0
- package/dist/hooks/autopilot/__tests__/prompts.test.js +74 -0
- package/dist/hooks/autopilot/__tests__/prompts.test.js.map +1 -0
- package/dist/hooks/autopilot/__tests__/state.test.d.ts +2 -0
- package/dist/hooks/autopilot/__tests__/state.test.d.ts.map +1 -0
- package/dist/hooks/autopilot/__tests__/state.test.js +76 -0
- package/dist/hooks/autopilot/__tests__/state.test.js.map +1 -0
- package/dist/hooks/autopilot/__tests__/summary.test.d.ts +2 -0
- package/dist/hooks/autopilot/__tests__/summary.test.d.ts.map +1 -0
- package/dist/hooks/autopilot/__tests__/summary.test.js +324 -0
- package/dist/hooks/autopilot/__tests__/summary.test.js.map +1 -0
- package/dist/hooks/autopilot/__tests__/transition.test.d.ts +2 -0
- package/dist/hooks/autopilot/__tests__/transition.test.d.ts.map +1 -0
- package/dist/hooks/autopilot/__tests__/transition.test.js +58 -0
- package/dist/hooks/autopilot/__tests__/transition.test.js.map +1 -0
- package/dist/hooks/autopilot/__tests__/validation.test.d.ts +2 -0
- package/dist/hooks/autopilot/__tests__/validation.test.d.ts.map +1 -0
- package/dist/hooks/autopilot/__tests__/validation.test.js +450 -0
- package/dist/hooks/autopilot/__tests__/validation.test.js.map +1 -0
- package/dist/hooks/autopilot/cancel.d.ts +42 -0
- package/dist/hooks/autopilot/cancel.d.ts.map +1 -0
- package/dist/hooks/autopilot/cancel.js +156 -0
- package/dist/hooks/autopilot/cancel.js.map +1 -0
- package/dist/hooks/autopilot/enforcement.d.ts +44 -0
- package/dist/hooks/autopilot/enforcement.d.ts.map +1 -0
- package/dist/hooks/autopilot/enforcement.js +227 -0
- package/dist/hooks/autopilot/enforcement.js.map +1 -0
- package/dist/hooks/autopilot/index.d.ts +14 -0
- package/dist/hooks/autopilot/index.d.ts.map +1 -0
- package/dist/hooks/autopilot/index.js +18 -0
- package/dist/hooks/autopilot/index.js.map +1 -0
- package/dist/hooks/autopilot/prompts.d.ts +37 -0
- package/dist/hooks/autopilot/prompts.d.ts.map +1 -0
- package/dist/hooks/autopilot/prompts.js +367 -0
- package/dist/hooks/autopilot/prompts.js.map +1 -0
- package/dist/hooks/autopilot/state.d.ts +101 -0
- package/dist/hooks/autopilot/state.d.ts.map +1 -0
- package/dist/hooks/autopilot/state.js +466 -0
- package/dist/hooks/autopilot/state.js.map +1 -0
- package/dist/hooks/autopilot/types.d.ts +213 -0
- package/dist/hooks/autopilot/types.d.ts.map +1 -0
- package/dist/hooks/autopilot/types.js +30 -0
- package/dist/hooks/autopilot/types.js.map +1 -0
- package/dist/hooks/autopilot/validation.d.ts +66 -0
- package/dist/hooks/autopilot/validation.d.ts.map +1 -0
- package/dist/hooks/autopilot/validation.js +350 -0
- package/dist/hooks/autopilot/validation.js.map +1 -0
- package/dist/hooks/background-notification/index.d.ts +60 -0
- package/dist/hooks/background-notification/index.d.ts.map +1 -0
- package/dist/hooks/background-notification/index.js +180 -0
- package/dist/hooks/background-notification/index.js.map +1 -0
- package/dist/hooks/background-notification/types.d.ts +64 -0
- package/dist/hooks/background-notification/types.d.ts.map +1 -0
- package/dist/hooks/background-notification/types.js +8 -0
- package/dist/hooks/background-notification/types.js.map +1 -0
- package/dist/hooks/beads-context/__tests__/index.test.d.ts +2 -0
- package/dist/hooks/beads-context/__tests__/index.test.d.ts.map +1 -0
- package/dist/hooks/beads-context/__tests__/index.test.js +150 -0
- package/dist/hooks/beads-context/__tests__/index.test.js.map +1 -0
- package/dist/hooks/beads-context/constants.d.ts +3 -0
- package/dist/hooks/beads-context/constants.d.ts.map +1 -0
- package/dist/hooks/beads-context/constants.js +35 -0
- package/dist/hooks/beads-context/constants.js.map +1 -0
- package/dist/hooks/beads-context/index.d.ts +21 -0
- package/dist/hooks/beads-context/index.d.ts.map +1 -0
- package/dist/hooks/beads-context/index.js +62 -0
- package/dist/hooks/beads-context/index.js.map +1 -0
- package/dist/hooks/beads-context/types.d.ts +7 -0
- package/dist/hooks/beads-context/types.d.ts.map +1 -0
- package/dist/hooks/beads-context/types.js +2 -0
- package/dist/hooks/beads-context/types.js.map +1 -0
- package/dist/hooks/bridge.d.ts +72 -0
- package/dist/hooks/bridge.d.ts.map +1 -0
- package/dist/hooks/bridge.js +589 -0
- package/dist/hooks/bridge.js.map +1 -0
- package/dist/hooks/comment-checker/constants.d.ts +28 -0
- package/dist/hooks/comment-checker/constants.d.ts.map +1 -0
- package/dist/hooks/comment-checker/constants.js +189 -0
- package/dist/hooks/comment-checker/constants.js.map +1 -0
- package/dist/hooks/comment-checker/filters.d.ts +39 -0
- package/dist/hooks/comment-checker/filters.d.ts.map +1 -0
- package/dist/hooks/comment-checker/filters.js +126 -0
- package/dist/hooks/comment-checker/filters.js.map +1 -0
- package/dist/hooks/comment-checker/index.d.ts +58 -0
- package/dist/hooks/comment-checker/index.d.ts.map +1 -0
- package/dist/hooks/comment-checker/index.js +298 -0
- package/dist/hooks/comment-checker/index.js.map +1 -0
- package/dist/hooks/comment-checker/types.d.ts +88 -0
- package/dist/hooks/comment-checker/types.d.ts.map +1 -0
- package/dist/hooks/comment-checker/types.js +9 -0
- package/dist/hooks/comment-checker/types.js.map +1 -0
- package/dist/hooks/directory-readme-injector/constants.d.ts +15 -0
- package/dist/hooks/directory-readme-injector/constants.d.ts.map +1 -0
- package/dist/hooks/directory-readme-injector/constants.js +17 -0
- package/dist/hooks/directory-readme-injector/constants.js.map +1 -0
- package/dist/hooks/directory-readme-injector/index.d.ts +41 -0
- package/dist/hooks/directory-readme-injector/index.d.ts.map +1 -0
- package/dist/hooks/directory-readme-injector/index.js +162 -0
- package/dist/hooks/directory-readme-injector/index.js.map +1 -0
- package/dist/hooks/directory-readme-injector/storage.d.ts +20 -0
- package/dist/hooks/directory-readme-injector/storage.d.ts.map +1 -0
- package/dist/hooks/directory-readme-injector/storage.js +56 -0
- package/dist/hooks/directory-readme-injector/storage.js.map +1 -0
- package/dist/hooks/directory-readme-injector/types.d.ts +20 -0
- package/dist/hooks/directory-readme-injector/types.d.ts.map +1 -0
- package/dist/hooks/directory-readme-injector/types.js +9 -0
- package/dist/hooks/directory-readme-injector/types.js.map +1 -0
- package/dist/hooks/empty-message-sanitizer/__tests__/index.test.d.ts +2 -0
- package/dist/hooks/empty-message-sanitizer/__tests__/index.test.d.ts.map +1 -0
- package/dist/hooks/empty-message-sanitizer/__tests__/index.test.js +416 -0
- package/dist/hooks/empty-message-sanitizer/__tests__/index.test.js.map +1 -0
- package/dist/hooks/empty-message-sanitizer/constants.d.ts +33 -0
- package/dist/hooks/empty-message-sanitizer/constants.d.ts.map +1 -0
- package/dist/hooks/empty-message-sanitizer/constants.js +37 -0
- package/dist/hooks/empty-message-sanitizer/constants.js.map +1 -0
- package/dist/hooks/empty-message-sanitizer/index.d.ts +59 -0
- package/dist/hooks/empty-message-sanitizer/index.d.ts.map +1 -0
- package/dist/hooks/empty-message-sanitizer/index.js +171 -0
- package/dist/hooks/empty-message-sanitizer/index.js.map +1 -0
- package/dist/hooks/empty-message-sanitizer/types.d.ts +79 -0
- package/dist/hooks/empty-message-sanitizer/types.d.ts.map +1 -0
- package/dist/hooks/empty-message-sanitizer/types.js +10 -0
- package/dist/hooks/empty-message-sanitizer/types.js.map +1 -0
- package/dist/hooks/index.d.ts +46 -0
- package/dist/hooks/index.d.ts.map +1 -0
- package/dist/hooks/index.js +140 -0
- package/dist/hooks/index.js.map +1 -0
- package/dist/hooks/keyword-detector/__tests__/index.test.d.ts +2 -0
- package/dist/hooks/keyword-detector/__tests__/index.test.d.ts.map +1 -0
- package/dist/hooks/keyword-detector/__tests__/index.test.js +551 -0
- package/dist/hooks/keyword-detector/__tests__/index.test.js.map +1 -0
- package/dist/hooks/keyword-detector/index.d.ts +44 -0
- package/dist/hooks/keyword-detector/index.d.ts.map +1 -0
- package/dist/hooks/keyword-detector/index.js +164 -0
- package/dist/hooks/keyword-detector/index.js.map +1 -0
- package/dist/hooks/learner/auto-invoke.d.ts +82 -0
- package/dist/hooks/learner/auto-invoke.d.ts.map +1 -0
- package/dist/hooks/learner/auto-invoke.js +232 -0
- package/dist/hooks/learner/auto-invoke.js.map +1 -0
- package/dist/hooks/learner/auto-learner.d.ts +55 -0
- package/dist/hooks/learner/auto-learner.d.ts.map +1 -0
- package/dist/hooks/learner/auto-learner.js +364 -0
- package/dist/hooks/learner/auto-learner.js.map +1 -0
- package/dist/hooks/learner/bridge.d.ts +84 -0
- package/dist/hooks/learner/bridge.d.ts.map +1 -0
- package/dist/hooks/learner/bridge.js +536 -0
- package/dist/hooks/learner/bridge.js.map +1 -0
- package/dist/hooks/learner/config.d.ts +53 -0
- package/dist/hooks/learner/config.d.ts.map +1 -0
- package/dist/hooks/learner/config.js +103 -0
- package/dist/hooks/learner/config.js.map +1 -0
- package/dist/hooks/learner/constants.d.ts +28 -0
- package/dist/hooks/learner/constants.d.ts.map +1 -0
- package/dist/hooks/learner/constants.js +31 -0
- package/dist/hooks/learner/constants.js.map +1 -0
- package/dist/hooks/learner/detection-hook.d.ts +39 -0
- package/dist/hooks/learner/detection-hook.d.ts.map +1 -0
- package/dist/hooks/learner/detection-hook.js +83 -0
- package/dist/hooks/learner/detection-hook.js.map +1 -0
- package/dist/hooks/learner/detector.d.ts +30 -0
- package/dist/hooks/learner/detector.d.ts.map +1 -0
- package/dist/hooks/learner/detector.js +254 -0
- package/dist/hooks/learner/detector.js.map +1 -0
- package/dist/hooks/learner/finder.d.ts +23 -0
- package/dist/hooks/learner/finder.d.ts.map +1 -0
- package/dist/hooks/learner/finder.js +155 -0
- package/dist/hooks/learner/finder.js.map +1 -0
- package/dist/hooks/learner/index.d.ts +65 -0
- package/dist/hooks/learner/index.d.ts.map +1 -0
- package/dist/hooks/learner/index.js +141 -0
- package/dist/hooks/learner/index.js.map +1 -0
- package/dist/hooks/learner/loader.d.ts +20 -0
- package/dist/hooks/learner/loader.d.ts.map +1 -0
- package/dist/hooks/learner/loader.js +112 -0
- package/dist/hooks/learner/loader.js.map +1 -0
- package/dist/hooks/learner/matcher.d.ts +40 -0
- package/dist/hooks/learner/matcher.d.ts.map +1 -0
- package/dist/hooks/learner/matcher.js +230 -0
- package/dist/hooks/learner/matcher.js.map +1 -0
- package/dist/hooks/learner/parser.d.ts +21 -0
- package/dist/hooks/learner/parser.d.ts.map +1 -0
- package/dist/hooks/learner/parser.js +200 -0
- package/dist/hooks/learner/parser.js.map +1 -0
- package/dist/hooks/learner/promotion.d.ts +29 -0
- package/dist/hooks/learner/promotion.d.ts.map +1 -0
- package/dist/hooks/learner/promotion.js +87 -0
- package/dist/hooks/learner/promotion.js.map +1 -0
- package/dist/hooks/learner/types.d.ts +111 -0
- package/dist/hooks/learner/types.d.ts.map +1 -0
- package/dist/hooks/learner/types.js +8 -0
- package/dist/hooks/learner/types.js.map +1 -0
- package/dist/hooks/learner/validator.d.ts +15 -0
- package/dist/hooks/learner/validator.d.ts.map +1 -0
- package/dist/hooks/learner/validator.js +87 -0
- package/dist/hooks/learner/validator.js.map +1 -0
- package/dist/hooks/learner/writer.d.ts +27 -0
- package/dist/hooks/learner/writer.d.ts.map +1 -0
- package/dist/hooks/learner/writer.js +126 -0
- package/dist/hooks/learner/writer.js.map +1 -0
- package/dist/hooks/mode-registry/index.d.ts +144 -0
- package/dist/hooks/mode-registry/index.d.ts.map +1 -0
- package/dist/hooks/mode-registry/index.js +443 -0
- package/dist/hooks/mode-registry/index.js.map +1 -0
- package/dist/hooks/mode-registry/types.d.ts +31 -0
- package/dist/hooks/mode-registry/types.d.ts.map +1 -0
- package/dist/hooks/mode-registry/types.js +7 -0
- package/dist/hooks/mode-registry/types.js.map +1 -0
- package/dist/hooks/non-interactive-env/constants.d.ts +35 -0
- package/dist/hooks/non-interactive-env/constants.d.ts.map +1 -0
- package/dist/hooks/non-interactive-env/constants.js +69 -0
- package/dist/hooks/non-interactive-env/constants.js.map +1 -0
- package/dist/hooks/non-interactive-env/detector.d.ts +2 -0
- package/dist/hooks/non-interactive-env/detector.d.ts.map +1 -0
- package/dist/hooks/non-interactive-env/detector.js +16 -0
- package/dist/hooks/non-interactive-env/detector.js.map +1 -0
- package/dist/hooks/non-interactive-env/index.d.ts +14 -0
- package/dist/hooks/non-interactive-env/index.d.ts.map +1 -0
- package/dist/hooks/non-interactive-env/index.js +72 -0
- package/dist/hooks/non-interactive-env/index.js.map +1 -0
- package/dist/hooks/non-interactive-env/types.d.ts +14 -0
- package/dist/hooks/non-interactive-env/types.d.ts.map +1 -0
- package/dist/hooks/non-interactive-env/types.js +2 -0
- package/dist/hooks/non-interactive-env/types.js.map +1 -0
- package/dist/hooks/notepad/index.d.ts +114 -0
- package/dist/hooks/notepad/index.d.ts.map +1 -0
- package/dist/hooks/notepad/index.js +378 -0
- package/dist/hooks/notepad/index.js.map +1 -0
- package/dist/hooks/omc-orchestrator/audit.d.ts +31 -0
- package/dist/hooks/omc-orchestrator/audit.d.ts.map +1 -0
- package/dist/hooks/omc-orchestrator/audit.js +67 -0
- package/dist/hooks/omc-orchestrator/audit.js.map +1 -0
- package/dist/hooks/omc-orchestrator/constants.d.ts +27 -0
- package/dist/hooks/omc-orchestrator/constants.d.ts.map +1 -0
- package/dist/hooks/omc-orchestrator/constants.js +178 -0
- package/dist/hooks/omc-orchestrator/constants.js.map +1 -0
- package/dist/hooks/omc-orchestrator/index.d.ts +124 -0
- package/dist/hooks/omc-orchestrator/index.d.ts.map +1 -0
- package/dist/hooks/omc-orchestrator/index.js +442 -0
- package/dist/hooks/omc-orchestrator/index.js.map +1 -0
- package/dist/hooks/permission-handler/__tests__/index.test.d.ts +2 -0
- package/dist/hooks/permission-handler/__tests__/index.test.d.ts.map +1 -0
- package/dist/hooks/permission-handler/__tests__/index.test.js +291 -0
- package/dist/hooks/permission-handler/__tests__/index.test.js.map +1 -0
- package/dist/hooks/permission-handler/index.d.ts +42 -0
- package/dist/hooks/permission-handler/index.d.ts.map +1 -0
- package/dist/hooks/permission-handler/index.js +109 -0
- package/dist/hooks/permission-handler/index.js.map +1 -0
- package/dist/hooks/persistent-mode/__tests__/error-handling.test.d.ts +6 -0
- package/dist/hooks/persistent-mode/__tests__/error-handling.test.d.ts.map +1 -0
- package/dist/hooks/persistent-mode/__tests__/error-handling.test.js +71 -0
- package/dist/hooks/persistent-mode/__tests__/error-handling.test.js.map +1 -0
- package/dist/hooks/persistent-mode/__tests__/tool-error.test.d.ts +6 -0
- package/dist/hooks/persistent-mode/__tests__/tool-error.test.d.ts.map +1 -0
- package/dist/hooks/persistent-mode/__tests__/tool-error.test.js +335 -0
- package/dist/hooks/persistent-mode/__tests__/tool-error.test.js.map +1 -0
- package/dist/hooks/persistent-mode/index.d.ts +72 -0
- package/dist/hooks/persistent-mode/index.d.ts.map +1 -0
- package/dist/hooks/persistent-mode/index.js +473 -0
- package/dist/hooks/persistent-mode/index.js.map +1 -0
- package/dist/hooks/persistent-mode/session-isolation.test.d.ts +2 -0
- package/dist/hooks/persistent-mode/session-isolation.test.d.ts.map +1 -0
- package/dist/hooks/persistent-mode/session-isolation.test.js +210 -0
- package/dist/hooks/persistent-mode/session-isolation.test.js.map +1 -0
- package/dist/hooks/plugin-patterns/index.d.ts +112 -0
- package/dist/hooks/plugin-patterns/index.d.ts.map +1 -0
- package/dist/hooks/plugin-patterns/index.js +314 -0
- package/dist/hooks/plugin-patterns/index.js.map +1 -0
- package/dist/hooks/pre-compact/index.d.ts +95 -0
- package/dist/hooks/pre-compact/index.d.ts.map +1 -0
- package/dist/hooks/pre-compact/index.js +341 -0
- package/dist/hooks/pre-compact/index.js.map +1 -0
- package/dist/hooks/preemptive-compaction/constants.d.ts +48 -0
- package/dist/hooks/preemptive-compaction/constants.d.ts.map +1 -0
- package/dist/hooks/preemptive-compaction/constants.js +90 -0
- package/dist/hooks/preemptive-compaction/constants.js.map +1 -0
- package/dist/hooks/preemptive-compaction/index.d.ts +55 -0
- package/dist/hooks/preemptive-compaction/index.d.ts.map +1 -0
- package/dist/hooks/preemptive-compaction/index.js +227 -0
- package/dist/hooks/preemptive-compaction/index.js.map +1 -0
- package/dist/hooks/preemptive-compaction/types.d.ts +76 -0
- package/dist/hooks/preemptive-compaction/types.d.ts.map +1 -0
- package/dist/hooks/preemptive-compaction/types.js +9 -0
- package/dist/hooks/preemptive-compaction/types.js.map +1 -0
- package/dist/hooks/project-memory/__tests__/detector.test.d.ts +5 -0
- package/dist/hooks/project-memory/__tests__/detector.test.d.ts.map +1 -0
- package/dist/hooks/project-memory/__tests__/detector.test.js +165 -0
- package/dist/hooks/project-memory/__tests__/detector.test.js.map +1 -0
- package/dist/hooks/project-memory/__tests__/formatter.test.d.ts +5 -0
- package/dist/hooks/project-memory/__tests__/formatter.test.d.ts.map +1 -0
- package/dist/hooks/project-memory/__tests__/formatter.test.js +262 -0
- package/dist/hooks/project-memory/__tests__/formatter.test.js.map +1 -0
- package/dist/hooks/project-memory/__tests__/integration.test.d.ts +5 -0
- package/dist/hooks/project-memory/__tests__/integration.test.d.ts.map +1 -0
- package/dist/hooks/project-memory/__tests__/integration.test.js +154 -0
- package/dist/hooks/project-memory/__tests__/integration.test.js.map +1 -0
- package/dist/hooks/project-memory/__tests__/learner.test.d.ts +5 -0
- package/dist/hooks/project-memory/__tests__/learner.test.d.ts.map +1 -0
- package/dist/hooks/project-memory/__tests__/learner.test.js +159 -0
- package/dist/hooks/project-memory/__tests__/learner.test.js.map +1 -0
- package/dist/hooks/project-memory/__tests__/storage.test.d.ts +5 -0
- package/dist/hooks/project-memory/__tests__/storage.test.d.ts.map +1 -0
- package/dist/hooks/project-memory/__tests__/storage.test.js +207 -0
- package/dist/hooks/project-memory/__tests__/storage.test.js.map +1 -0
- package/dist/hooks/project-memory/constants.d.ts +33 -0
- package/dist/hooks/project-memory/constants.d.ts.map +1 -0
- package/dist/hooks/project-memory/constants.js +134 -0
- package/dist/hooks/project-memory/constants.js.map +1 -0
- package/dist/hooks/project-memory/detector.d.ts +10 -0
- package/dist/hooks/project-memory/detector.d.ts.map +1 -0
- package/dist/hooks/project-memory/detector.js +481 -0
- package/dist/hooks/project-memory/detector.js.map +1 -0
- package/dist/hooks/project-memory/directive-detector.d.ts +22 -0
- package/dist/hooks/project-memory/directive-detector.d.ts.map +1 -0
- package/dist/hooks/project-memory/directive-detector.js +149 -0
- package/dist/hooks/project-memory/directive-detector.js.map +1 -0
- package/dist/hooks/project-memory/directory-mapper.d.ts +14 -0
- package/dist/hooks/project-memory/directory-mapper.d.ts.map +1 -0
- package/dist/hooks/project-memory/directory-mapper.js +156 -0
- package/dist/hooks/project-memory/directory-mapper.js.map +1 -0
- package/dist/hooks/project-memory/formatter.d.ts +15 -0
- package/dist/hooks/project-memory/formatter.d.ts.map +1 -0
- package/dist/hooks/project-memory/formatter.js +166 -0
- package/dist/hooks/project-memory/formatter.js.map +1 -0
- package/dist/hooks/project-memory/hot-path-tracker.d.ts +18 -0
- package/dist/hooks/project-memory/hot-path-tracker.d.ts.map +1 -0
- package/dist/hooks/project-memory/hot-path-tracker.js +81 -0
- package/dist/hooks/project-memory/hot-path-tracker.js.map +1 -0
- package/dist/hooks/project-memory/index.d.ts +37 -0
- package/dist/hooks/project-memory/index.d.ts.map +1 -0
- package/dist/hooks/project-memory/index.js +103 -0
- package/dist/hooks/project-memory/index.js.map +1 -0
- package/dist/hooks/project-memory/learner.d.ts +23 -0
- package/dist/hooks/project-memory/learner.d.ts.map +1 -0
- package/dist/hooks/project-memory/learner.js +203 -0
- package/dist/hooks/project-memory/learner.js.map +1 -0
- package/dist/hooks/project-memory/pre-compact.d.ts +23 -0
- package/dist/hooks/project-memory/pre-compact.d.ts.map +1 -0
- package/dist/hooks/project-memory/pre-compact.js +51 -0
- package/dist/hooks/project-memory/pre-compact.js.map +1 -0
- package/dist/hooks/project-memory/storage.d.ts +28 -0
- package/dist/hooks/project-memory/storage.d.ts.map +1 -0
- package/dist/hooks/project-memory/storage.js +72 -0
- package/dist/hooks/project-memory/storage.js.map +1 -0
- package/dist/hooks/project-memory/types.d.ts +101 -0
- package/dist/hooks/project-memory/types.d.ts.map +1 -0
- package/dist/hooks/project-memory/types.js +6 -0
- package/dist/hooks/project-memory/types.js.map +1 -0
- package/dist/hooks/ralph/index.d.ts +11 -0
- package/dist/hooks/ralph/index.d.ts.map +1 -0
- package/dist/hooks/ralph/index.js +53 -0
- package/dist/hooks/ralph/index.js.map +1 -0
- package/dist/hooks/ralph/loop.d.ts +110 -0
- package/dist/hooks/ralph/loop.d.ts.map +1 -0
- package/dist/hooks/ralph/loop.js +291 -0
- package/dist/hooks/ralph/loop.js.map +1 -0
- package/dist/hooks/ralph/prd.d.ts +130 -0
- package/dist/hooks/ralph/prd.d.ts.map +1 -0
- package/dist/hooks/ralph/prd.js +310 -0
- package/dist/hooks/ralph/prd.js.map +1 -0
- package/dist/hooks/ralph/progress.d.ts +102 -0
- package/dist/hooks/ralph/progress.d.ts.map +1 -0
- package/dist/hooks/ralph/progress.js +408 -0
- package/dist/hooks/ralph/progress.js.map +1 -0
- package/dist/hooks/ralph/verifier.d.ts +71 -0
- package/dist/hooks/ralph/verifier.d.ts.map +1 -0
- package/dist/hooks/ralph/verifier.js +220 -0
- package/dist/hooks/ralph/verifier.js.map +1 -0
- package/dist/hooks/recovery/constants.d.ts +114 -0
- package/dist/hooks/recovery/constants.d.ts.map +1 -0
- package/dist/hooks/recovery/constants.js +227 -0
- package/dist/hooks/recovery/constants.js.map +1 -0
- package/dist/hooks/recovery/context-window.d.ts +24 -0
- package/dist/hooks/recovery/context-window.d.ts.map +1 -0
- package/dist/hooks/recovery/context-window.js +321 -0
- package/dist/hooks/recovery/context-window.js.map +1 -0
- package/dist/hooks/recovery/edit-error.d.ts +24 -0
- package/dist/hooks/recovery/edit-error.d.ts.map +1 -0
- package/dist/hooks/recovery/edit-error.js +56 -0
- package/dist/hooks/recovery/edit-error.js.map +1 -0
- package/dist/hooks/recovery/index.d.ts +102 -0
- package/dist/hooks/recovery/index.d.ts.map +1 -0
- package/dist/hooks/recovery/index.js +166 -0
- package/dist/hooks/recovery/index.js.map +1 -0
- package/dist/hooks/recovery/session-recovery.d.ts +24 -0
- package/dist/hooks/recovery/session-recovery.d.ts.map +1 -0
- package/dist/hooks/recovery/session-recovery.js +281 -0
- package/dist/hooks/recovery/session-recovery.js.map +1 -0
- package/dist/hooks/recovery/storage.d.ts +75 -0
- package/dist/hooks/recovery/storage.d.ts.map +1 -0
- package/dist/hooks/recovery/storage.js +382 -0
- package/dist/hooks/recovery/storage.js.map +1 -0
- package/dist/hooks/recovery/types.d.ts +196 -0
- package/dist/hooks/recovery/types.d.ts.map +1 -0
- package/dist/hooks/recovery/types.js +32 -0
- package/dist/hooks/recovery/types.js.map +1 -0
- package/dist/hooks/rules-injector/constants.d.ts +25 -0
- package/dist/hooks/rules-injector/constants.d.ts.map +1 -0
- package/dist/hooks/rules-injector/constants.js +40 -0
- package/dist/hooks/rules-injector/constants.js.map +1 -0
- package/dist/hooks/rules-injector/finder.d.ts +24 -0
- package/dist/hooks/rules-injector/finder.d.ts.map +1 -0
- package/dist/hooks/rules-injector/finder.js +215 -0
- package/dist/hooks/rules-injector/finder.js.map +1 -0
- package/dist/hooks/rules-injector/index.d.ts +45 -0
- package/dist/hooks/rules-injector/index.d.ts.map +1 -0
- package/dist/hooks/rules-injector/index.js +187 -0
- package/dist/hooks/rules-injector/index.js.map +1 -0
- package/dist/hooks/rules-injector/matcher.d.ts +25 -0
- package/dist/hooks/rules-injector/matcher.d.ts.map +1 -0
- package/dist/hooks/rules-injector/matcher.js +70 -0
- package/dist/hooks/rules-injector/matcher.js.map +1 -0
- package/dist/hooks/rules-injector/parser.d.ts +20 -0
- package/dist/hooks/rules-injector/parser.d.ts.map +1 -0
- package/dist/hooks/rules-injector/parser.js +181 -0
- package/dist/hooks/rules-injector/parser.js.map +1 -0
- package/dist/hooks/rules-injector/storage.d.ts +26 -0
- package/dist/hooks/rules-injector/storage.d.ts.map +1 -0
- package/dist/hooks/rules-injector/storage.js +61 -0
- package/dist/hooks/rules-injector/storage.js.map +1 -0
- package/dist/hooks/rules-injector/types.d.ts +101 -0
- package/dist/hooks/rules-injector/types.d.ts.map +1 -0
- package/dist/hooks/rules-injector/types.js +10 -0
- package/dist/hooks/rules-injector/types.js.map +1 -0
- package/dist/hooks/session-end/__tests__/callbacks.test.d.ts +2 -0
- package/dist/hooks/session-end/__tests__/callbacks.test.d.ts.map +1 -0
- package/dist/hooks/session-end/__tests__/callbacks.test.js +337 -0
- package/dist/hooks/session-end/__tests__/callbacks.test.js.map +1 -0
- package/dist/hooks/session-end/callbacks.d.ts +26 -0
- package/dist/hooks/session-end/callbacks.d.ts.map +1 -0
- package/dist/hooks/session-end/callbacks.js +189 -0
- package/dist/hooks/session-end/callbacks.js.map +1 -0
- package/dist/hooks/session-end/index.d.ts +57 -0
- package/dist/hooks/session-end/index.d.ts.map +1 -0
- package/dist/hooks/session-end/index.js +285 -0
- package/dist/hooks/session-end/index.js.map +1 -0
- package/dist/hooks/setup/index.d.ts +66 -0
- package/dist/hooks/setup/index.d.ts.map +1 -0
- package/dist/hooks/setup/index.js +306 -0
- package/dist/hooks/setup/index.js.map +1 -0
- package/dist/hooks/setup/types.d.ts +25 -0
- package/dist/hooks/setup/types.d.ts.map +1 -0
- package/dist/hooks/setup/types.js +5 -0
- package/dist/hooks/setup/types.js.map +1 -0
- package/dist/hooks/skc-orchestrator/audit.d.ts +31 -0
- package/dist/hooks/skc-orchestrator/audit.d.ts.map +1 -0
- package/dist/hooks/skc-orchestrator/audit.js +67 -0
- package/dist/hooks/skc-orchestrator/audit.js.map +1 -0
- package/dist/hooks/skc-orchestrator/constants.d.ts +27 -0
- package/dist/hooks/skc-orchestrator/constants.d.ts.map +1 -0
- package/dist/hooks/skc-orchestrator/constants.js +178 -0
- package/dist/hooks/skc-orchestrator/constants.js.map +1 -0
- package/dist/hooks/skc-orchestrator/index.d.ts +124 -0
- package/dist/hooks/skc-orchestrator/index.d.ts.map +1 -0
- package/dist/hooks/skc-orchestrator/index.js +442 -0
- package/dist/hooks/skc-orchestrator/index.js.map +1 -0
- package/dist/hooks/skill-bridge.cjs +457 -0
- package/dist/hooks/subagent-tracker/__tests__/index.test.d.ts +2 -0
- package/dist/hooks/subagent-tracker/__tests__/index.test.d.ts.map +1 -0
- package/dist/hooks/subagent-tracker/__tests__/index.test.js +818 -0
- package/dist/hooks/subagent-tracker/__tests__/index.test.js.map +1 -0
- package/dist/hooks/subagent-tracker/__tests__/session-replay.test.d.ts +2 -0
- package/dist/hooks/subagent-tracker/__tests__/session-replay.test.d.ts.map +1 -0
- package/dist/hooks/subagent-tracker/__tests__/session-replay.test.js +139 -0
- package/dist/hooks/subagent-tracker/__tests__/session-replay.test.js.map +1 -0
- package/dist/hooks/subagent-tracker/index.d.ts +242 -0
- package/dist/hooks/subagent-tracker/index.d.ts.map +1 -0
- package/dist/hooks/subagent-tracker/index.js +885 -0
- package/dist/hooks/subagent-tracker/index.js.map +1 -0
- package/dist/hooks/subagent-tracker/session-replay.d.ts +97 -0
- package/dist/hooks/subagent-tracker/session-replay.d.ts.map +1 -0
- package/dist/hooks/subagent-tracker/session-replay.js +285 -0
- package/dist/hooks/subagent-tracker/session-replay.js.map +1 -0
- package/dist/hooks/swarm/__tests__/addMoreTasks.test.d.ts +2 -0
- package/dist/hooks/swarm/__tests__/addMoreTasks.test.d.ts.map +1 -0
- package/dist/hooks/swarm/__tests__/addMoreTasks.test.js +203 -0
- package/dist/hooks/swarm/__tests__/addMoreTasks.test.js.map +1 -0
- package/dist/hooks/swarm/__tests__/aggressive-swarm.integration.test.d.ts +2 -0
- package/dist/hooks/swarm/__tests__/aggressive-swarm.integration.test.d.ts.map +1 -0
- package/dist/hooks/swarm/__tests__/aggressive-swarm.integration.test.js +273 -0
- package/dist/hooks/swarm/__tests__/aggressive-swarm.integration.test.js.map +1 -0
- package/dist/hooks/swarm/__tests__/claiming.test.d.ts +2 -0
- package/dist/hooks/swarm/__tests__/claiming.test.d.ts.map +1 -0
- package/dist/hooks/swarm/__tests__/claiming.test.js +170 -0
- package/dist/hooks/swarm/__tests__/claiming.test.js.map +1 -0
- package/dist/hooks/swarm/__tests__/index.test.d.ts +2 -0
- package/dist/hooks/swarm/__tests__/index.test.d.ts.map +1 -0
- package/dist/hooks/swarm/__tests__/index.test.js +157 -0
- package/dist/hooks/swarm/__tests__/index.test.js.map +1 -0
- package/dist/hooks/swarm/__tests__/migration.test.d.ts +2 -0
- package/dist/hooks/swarm/__tests__/migration.test.d.ts.map +1 -0
- package/dist/hooks/swarm/__tests__/migration.test.js +140 -0
- package/dist/hooks/swarm/__tests__/migration.test.js.map +1 -0
- package/dist/hooks/swarm/__tests__/mode-registry.test.d.ts +2 -0
- package/dist/hooks/swarm/__tests__/mode-registry.test.d.ts.map +1 -0
- package/dist/hooks/swarm/__tests__/mode-registry.test.js +177 -0
- package/dist/hooks/swarm/__tests__/mode-registry.test.js.map +1 -0
- package/dist/hooks/swarm/__tests__/priority-claiming.test.d.ts +2 -0
- package/dist/hooks/swarm/__tests__/priority-claiming.test.d.ts.map +1 -0
- package/dist/hooks/swarm/__tests__/priority-claiming.test.js +122 -0
- package/dist/hooks/swarm/__tests__/priority-claiming.test.js.map +1 -0
- package/dist/hooks/swarm/__tests__/types.test.d.ts +2 -0
- package/dist/hooks/swarm/__tests__/types.test.d.ts.map +1 -0
- package/dist/hooks/swarm/__tests__/types.test.js +73 -0
- package/dist/hooks/swarm/__tests__/types.test.js.map +1 -0
- package/dist/hooks/swarm/claiming.d.ts +123 -0
- package/dist/hooks/swarm/claiming.d.ts.map +1 -0
- package/dist/hooks/swarm/claiming.js +639 -0
- package/dist/hooks/swarm/claiming.js.map +1 -0
- package/dist/hooks/swarm/index.d.ts +261 -0
- package/dist/hooks/swarm/index.d.ts.map +1 -0
- package/dist/hooks/swarm/index.js +485 -0
- package/dist/hooks/swarm/index.js.map +1 -0
- package/dist/hooks/swarm/state.d.ts +131 -0
- package/dist/hooks/swarm/state.d.ts.map +1 -0
- package/dist/hooks/swarm/state.js +690 -0
- package/dist/hooks/swarm/state.js.map +1 -0
- package/dist/hooks/swarm/types.d.ts +138 -0
- package/dist/hooks/swarm/types.d.ts.map +1 -0
- package/dist/hooks/swarm/types.js +22 -0
- package/dist/hooks/swarm/types.js.map +1 -0
- package/dist/hooks/think-mode/__tests__/index.test.d.ts +2 -0
- package/dist/hooks/think-mode/__tests__/index.test.d.ts.map +1 -0
- package/dist/hooks/think-mode/__tests__/index.test.js +556 -0
- package/dist/hooks/think-mode/__tests__/index.test.js.map +1 -0
- package/dist/hooks/think-mode/detector.d.ts +28 -0
- package/dist/hooks/think-mode/detector.d.ts.map +1 -0
- package/dist/hooks/think-mode/detector.js +105 -0
- package/dist/hooks/think-mode/detector.js.map +1 -0
- package/dist/hooks/think-mode/index.d.ts +70 -0
- package/dist/hooks/think-mode/index.d.ts.map +1 -0
- package/dist/hooks/think-mode/index.js +144 -0
- package/dist/hooks/think-mode/index.js.map +1 -0
- package/dist/hooks/think-mode/switcher.d.ts +39 -0
- package/dist/hooks/think-mode/switcher.d.ts.map +1 -0
- package/dist/hooks/think-mode/switcher.js +180 -0
- package/dist/hooks/think-mode/switcher.js.map +1 -0
- package/dist/hooks/think-mode/types.d.ts +60 -0
- package/dist/hooks/think-mode/types.d.ts.map +1 -0
- package/dist/hooks/think-mode/types.js +9 -0
- package/dist/hooks/think-mode/types.js.map +1 -0
- package/dist/hooks/thinking-block-validator/constants.d.ts +37 -0
- package/dist/hooks/thinking-block-validator/constants.d.ts.map +1 -0
- package/dist/hooks/thinking-block-validator/constants.js +50 -0
- package/dist/hooks/thinking-block-validator/constants.js.map +1 -0
- package/dist/hooks/thinking-block-validator/index.d.ts +35 -0
- package/dist/hooks/thinking-block-validator/index.d.ts.map +1 -0
- package/dist/hooks/thinking-block-validator/index.js +156 -0
- package/dist/hooks/thinking-block-validator/index.js.map +1 -0
- package/dist/hooks/thinking-block-validator/types.d.ts +67 -0
- package/dist/hooks/thinking-block-validator/types.d.ts.map +1 -0
- package/dist/hooks/thinking-block-validator/types.js +9 -0
- package/dist/hooks/thinking-block-validator/types.js.map +1 -0
- package/dist/hooks/todo-continuation/__tests__/isUserAbort.test.d.ts +2 -0
- package/dist/hooks/todo-continuation/__tests__/isUserAbort.test.d.ts.map +1 -0
- package/dist/hooks/todo-continuation/__tests__/isUserAbort.test.js +119 -0
- package/dist/hooks/todo-continuation/__tests__/isUserAbort.test.js.map +1 -0
- package/dist/hooks/todo-continuation/index.d.ts +186 -0
- package/dist/hooks/todo-continuation/index.d.ts.map +1 -0
- package/dist/hooks/todo-continuation/index.js +358 -0
- package/dist/hooks/todo-continuation/index.js.map +1 -0
- package/dist/hooks/ultrapilot/decomposer.d.ts +141 -0
- package/dist/hooks/ultrapilot/decomposer.d.ts.map +1 -0
- package/dist/hooks/ultrapilot/decomposer.js +377 -0
- package/dist/hooks/ultrapilot/decomposer.js.map +1 -0
- package/dist/hooks/ultrapilot/index.d.ts +121 -0
- package/dist/hooks/ultrapilot/index.d.ts.map +1 -0
- package/dist/hooks/ultrapilot/index.js +351 -0
- package/dist/hooks/ultrapilot/index.js.map +1 -0
- package/dist/hooks/ultrapilot/state.d.ts +72 -0
- package/dist/hooks/ultrapilot/state.d.ts.map +1 -0
- package/dist/hooks/ultrapilot/state.js +266 -0
- package/dist/hooks/ultrapilot/state.js.map +1 -0
- package/dist/hooks/ultrapilot/types.d.ts +115 -0
- package/dist/hooks/ultrapilot/types.d.ts.map +1 -0
- package/dist/hooks/ultrapilot/types.js +36 -0
- package/dist/hooks/ultrapilot/types.js.map +1 -0
- package/dist/hooks/ultraqa/index.d.ts +96 -0
- package/dist/hooks/ultraqa/index.d.ts.map +1 -0
- package/dist/hooks/ultraqa/index.js +217 -0
- package/dist/hooks/ultraqa/index.js.map +1 -0
- package/dist/hooks/ultrawork/index.d.ts +64 -0
- package/dist/hooks/ultrawork/index.d.ts.map +1 -0
- package/dist/hooks/ultrawork/index.js +168 -0
- package/dist/hooks/ultrawork/index.js.map +1 -0
- package/dist/hooks/ultrawork/session-isolation.test.d.ts +2 -0
- package/dist/hooks/ultrawork/session-isolation.test.d.ts.map +1 -0
- package/dist/hooks/ultrawork/session-isolation.test.js +241 -0
- package/dist/hooks/ultrawork/session-isolation.test.js.map +1 -0
- package/dist/hud/analytics-display.d.ts +60 -0
- package/dist/hud/analytics-display.d.ts.map +1 -0
- package/dist/hud/analytics-display.js +188 -0
- package/dist/hud/analytics-display.js.map +1 -0
- package/dist/hud/background-cleanup.d.ts +28 -0
- package/dist/hud/background-cleanup.d.ts.map +1 -0
- package/dist/hud/background-cleanup.js +92 -0
- package/dist/hud/background-cleanup.js.map +1 -0
- package/dist/hud/background-tasks.d.ts +26 -0
- package/dist/hud/background-tasks.d.ts.map +1 -0
- package/dist/hud/background-tasks.js +116 -0
- package/dist/hud/background-tasks.js.map +1 -0
- package/dist/hud/colors.d.ts +54 -0
- package/dist/hud/colors.d.ts.map +1 -0
- package/dist/hud/colors.js +156 -0
- package/dist/hud/colors.js.map +1 -0
- package/dist/hud/elements/agents.d.ts +73 -0
- package/dist/hud/elements/agents.d.ts.map +1 -0
- package/dist/hud/elements/agents.js +407 -0
- package/dist/hud/elements/agents.js.map +1 -0
- package/dist/hud/elements/autopilot.d.ts +29 -0
- package/dist/hud/elements/autopilot.d.ts.map +1 -0
- package/dist/hud/elements/autopilot.js +97 -0
- package/dist/hud/elements/autopilot.js.map +1 -0
- package/dist/hud/elements/background.d.ts +20 -0
- package/dist/hud/elements/background.d.ts.map +1 -0
- package/dist/hud/elements/background.js +71 -0
- package/dist/hud/elements/background.js.map +1 -0
- package/dist/hud/elements/context.d.ts +19 -0
- package/dist/hud/elements/context.d.ts.map +1 -0
- package/dist/hud/elements/context.js +58 -0
- package/dist/hud/elements/context.js.map +1 -0
- package/dist/hud/elements/cwd.d.ts +15 -0
- package/dist/hud/elements/cwd.d.ts.map +1 -0
- package/dist/hud/elements/cwd.js +39 -0
- package/dist/hud/elements/cwd.js.map +1 -0
- package/dist/hud/elements/git.d.ts +37 -0
- package/dist/hud/elements/git.d.ts.map +1 -0
- package/dist/hud/elements/git.js +80 -0
- package/dist/hud/elements/git.js.map +1 -0
- package/dist/hud/elements/index.d.ts +21 -0
- package/dist/hud/elements/index.d.ts.map +1 -0
- package/dist/hud/elements/index.js +21 -0
- package/dist/hud/elements/index.js.map +1 -0
- package/dist/hud/elements/limits.d.ts +25 -0
- package/dist/hud/elements/limits.d.ts.map +1 -0
- package/dist/hud/elements/limits.js +118 -0
- package/dist/hud/elements/limits.js.map +1 -0
- package/dist/hud/elements/model.d.ts +15 -0
- package/dist/hud/elements/model.d.ts.map +1 -0
- package/dist/hud/elements/model.js +34 -0
- package/dist/hud/elements/model.js.map +1 -0
- package/dist/hud/elements/permission.d.ts +13 -0
- package/dist/hud/elements/permission.d.ts.map +1 -0
- package/dist/hud/elements/permission.js +20 -0
- package/dist/hud/elements/permission.js.map +1 -0
- package/dist/hud/elements/prd.d.ts +20 -0
- package/dist/hud/elements/prd.d.ts.map +1 -0
- package/dist/hud/elements/prd.js +52 -0
- package/dist/hud/elements/prd.js.map +1 -0
- package/dist/hud/elements/ralph.d.ts +14 -0
- package/dist/hud/elements/ralph.d.ts.map +1 -0
- package/dist/hud/elements/ralph.js +36 -0
- package/dist/hud/elements/ralph.js.map +1 -0
- package/dist/hud/elements/session.d.ts +13 -0
- package/dist/hud/elements/session.d.ts.map +1 -0
- package/dist/hud/elements/session.js +24 -0
- package/dist/hud/elements/session.js.map +1 -0
- package/dist/hud/elements/skills.d.ts +24 -0
- package/dist/hud/elements/skills.d.ts.map +1 -0
- package/dist/hud/elements/skills.js +83 -0
- package/dist/hud/elements/skills.js.map +1 -0
- package/dist/hud/elements/thinking.d.ts +15 -0
- package/dist/hud/elements/thinking.d.ts.map +1 -0
- package/dist/hud/elements/thinking.js +31 -0
- package/dist/hud/elements/thinking.js.map +1 -0
- package/dist/hud/elements/todos.d.ts +20 -0
- package/dist/hud/elements/todos.d.ts.map +1 -0
- package/dist/hud/elements/todos.js +71 -0
- package/dist/hud/elements/todos.js.map +1 -0
- package/dist/hud/index.d.ts +9 -0
- package/dist/hud/index.d.ts.map +1 -0
- package/dist/hud/index.js +313 -0
- package/dist/hud/index.js.map +1 -0
- package/dist/hud/omc-state.d.ts +38 -0
- package/dist/hud/omc-state.d.ts.map +1 -0
- package/dist/hud/omc-state.js +197 -0
- package/dist/hud/omc-state.js.map +1 -0
- package/dist/hud/render.d.ts +20 -0
- package/dist/hud/render.d.ts.map +1 -0
- package/dist/hud/render.js +294 -0
- package/dist/hud/render.js.map +1 -0
- package/dist/hud/sanitize.d.ts +54 -0
- package/dist/hud/sanitize.d.ts.map +1 -0
- package/dist/hud/sanitize.js +88 -0
- package/dist/hud/sanitize.js.map +1 -0
- package/dist/hud/skc-state.d.ts +38 -0
- package/dist/hud/skc-state.d.ts.map +1 -0
- package/dist/hud/skc-state.js +197 -0
- package/dist/hud/skc-state.js.map +1 -0
- package/dist/hud/state.d.ts +49 -0
- package/dist/hud/state.d.ts.map +1 -0
- package/dist/hud/state.js +227 -0
- package/dist/hud/state.js.map +1 -0
- package/dist/hud/stdin.d.ts +22 -0
- package/dist/hud/stdin.d.ts.map +1 -0
- package/dist/hud/stdin.js +65 -0
- package/dist/hud/stdin.js.map +1 -0
- package/dist/hud/transcript.d.ts +35 -0
- package/dist/hud/transcript.d.ts.map +1 -0
- package/dist/hud/transcript.js +367 -0
- package/dist/hud/transcript.js.map +1 -0
- package/dist/hud/types.d.ts +234 -0
- package/dist/hud/types.d.ts.map +1 -0
- package/dist/hud/types.js +222 -0
- package/dist/hud/types.js.map +1 -0
- package/dist/hud/usage-api.d.ts +24 -0
- package/dist/hud/usage-api.d.ts.map +1 -0
- package/dist/hud/usage-api.js +419 -0
- package/dist/hud/usage-api.js.map +1 -0
- package/dist/index.d.ts +118 -0
- package/dist/index.d.ts.map +1 -0
- package/dist/index.js +193 -0
- package/dist/index.js.map +1 -0
- package/dist/installer/__tests__/claude-md-merge.test.d.ts +6 -0
- package/dist/installer/__tests__/claude-md-merge.test.d.ts.map +1 -0
- package/dist/installer/__tests__/claude-md-merge.test.js +220 -0
- package/dist/installer/__tests__/claude-md-merge.test.js.map +1 -0
- package/dist/installer/__tests__/safe-installer.test.d.ts +6 -0
- package/dist/installer/__tests__/safe-installer.test.d.ts.map +1 -0
- package/dist/installer/__tests__/safe-installer.test.js +172 -0
- package/dist/installer/__tests__/safe-installer.test.js.map +1 -0
- package/dist/installer/hooks.d.ts +122 -0
- package/dist/installer/hooks.d.ts.map +1 -0
- package/dist/installer/hooks.js +382 -0
- package/dist/installer/hooks.js.map +1 -0
- package/dist/installer/index.d.ts +123 -0
- package/dist/installer/index.d.ts.map +1 -0
- package/dist/installer/index.js +686 -0
- package/dist/installer/index.js.map +1 -0
- package/dist/lib/__tests__/worktree-paths.test.d.ts +2 -0
- package/dist/lib/__tests__/worktree-paths.test.d.ts.map +1 -0
- package/dist/lib/__tests__/worktree-paths.test.js +113 -0
- package/dist/lib/__tests__/worktree-paths.test.js.map +1 -0
- package/dist/lib/atomic-write.d.ts +56 -0
- package/dist/lib/atomic-write.d.ts.map +1 -0
- package/dist/lib/atomic-write.js +242 -0
- package/dist/lib/atomic-write.js.map +1 -0
- package/dist/lib/worktree-paths.d.ts +121 -0
- package/dist/lib/worktree-paths.d.ts.map +1 -0
- package/dist/lib/worktree-paths.js +260 -0
- package/dist/lib/worktree-paths.js.map +1 -0
- package/dist/mcp/cli-detection.d.ts +26 -0
- package/dist/mcp/cli-detection.d.ts.map +1 -0
- package/dist/mcp/cli-detection.js +80 -0
- package/dist/mcp/cli-detection.js.map +1 -0
- package/dist/mcp/codex-core.d.ts +67 -0
- package/dist/mcp/codex-core.d.ts.map +1 -0
- package/dist/mcp/codex-core.js +633 -0
- package/dist/mcp/codex-core.js.map +1 -0
- package/dist/mcp/codex-server.d.ts +20 -0
- package/dist/mcp/codex-server.d.ts.map +1 -0
- package/dist/mcp/codex-server.js +67 -0
- package/dist/mcp/codex-server.js.map +1 -0
- package/dist/mcp/codex-standalone-server.d.ts +8 -0
- package/dist/mcp/codex-standalone-server.d.ts.map +1 -0
- package/dist/mcp/codex-standalone-server.js +71 -0
- package/dist/mcp/codex-standalone-server.js.map +1 -0
- package/dist/mcp/gemini-core.d.ts +69 -0
- package/dist/mcp/gemini-core.d.ts.map +1 -0
- package/dist/mcp/gemini-core.js +628 -0
- package/dist/mcp/gemini-core.js.map +1 -0
- package/dist/mcp/gemini-server.d.ts +20 -0
- package/dist/mcp/gemini-server.d.ts.map +1 -0
- package/dist/mcp/gemini-server.js +67 -0
- package/dist/mcp/gemini-server.js.map +1 -0
- package/dist/mcp/gemini-standalone-server.d.ts +8 -0
- package/dist/mcp/gemini-standalone-server.d.ts.map +1 -0
- package/dist/mcp/gemini-standalone-server.js +71 -0
- package/dist/mcp/gemini-standalone-server.js.map +1 -0
- package/dist/mcp/index.d.ts +14 -0
- package/dist/mcp/index.d.ts.map +1 -0
- package/dist/mcp/index.js +19 -0
- package/dist/mcp/index.js.map +1 -0
- package/dist/mcp/job-management.d.ts +151 -0
- package/dist/mcp/job-management.d.ts.map +1 -0
- package/dist/mcp/job-management.js +451 -0
- package/dist/mcp/job-management.js.map +1 -0
- package/dist/mcp/omc-tools-server.d.ts +29 -0
- package/dist/mcp/omc-tools-server.d.ts.map +1 -0
- package/dist/mcp/omc-tools-server.js +65 -0
- package/dist/mcp/omc-tools-server.js.map +1 -0
- package/dist/mcp/prompt-injection.d.ts +28 -0
- package/dist/mcp/prompt-injection.d.ts.map +1 -0
- package/dist/mcp/prompt-injection.js +72 -0
- package/dist/mcp/prompt-injection.js.map +1 -0
- package/dist/mcp/prompt-persistence.d.ts +151 -0
- package/dist/mcp/prompt-persistence.d.ts.map +1 -0
- package/dist/mcp/prompt-persistence.js +324 -0
- package/dist/mcp/prompt-persistence.js.map +1 -0
- package/dist/mcp/servers.d.ts +61 -0
- package/dist/mcp/servers.d.ts.map +1 -0
- package/dist/mcp/servers.js +90 -0
- package/dist/mcp/servers.js.map +1 -0
- package/dist/mcp/skc-tools-server.d.ts +29 -0
- package/dist/mcp/skc-tools-server.d.ts.map +1 -0
- package/dist/mcp/skc-tools-server.js +65 -0
- package/dist/mcp/skc-tools-server.js.map +1 -0
- package/dist/mcp/standalone-server.d.ts +11 -0
- package/dist/mcp/standalone-server.d.ts.map +1 -0
- package/dist/mcp/standalone-server.js +163 -0
- package/dist/mcp/standalone-server.js.map +1 -0
- package/dist/platform/index.d.ts +16 -0
- package/dist/platform/index.d.ts.map +1 -0
- package/dist/platform/index.js +29 -0
- package/dist/platform/index.js.map +1 -0
- package/dist/platform/process-utils.d.ts +26 -0
- package/dist/platform/process-utils.d.ts.map +1 -0
- package/dist/platform/process-utils.js +157 -0
- package/dist/platform/process-utils.js.map +1 -0
- package/dist/shared/index.d.ts +5 -0
- package/dist/shared/index.d.ts.map +1 -0
- package/dist/shared/index.js +5 -0
- package/dist/shared/index.js.map +1 -0
- package/dist/shared/types.d.ts +160 -0
- package/dist/shared/types.d.ts.map +1 -0
- package/dist/shared/types.js +5 -0
- package/dist/shared/types.js.map +1 -0
- package/dist/tools/__tests__/state-tools.test.d.ts +2 -0
- package/dist/tools/__tests__/state-tools.test.d.ts.map +1 -0
- package/dist/tools/__tests__/state-tools.test.js +102 -0
- package/dist/tools/__tests__/state-tools.test.js.map +1 -0
- package/dist/tools/ast-tools.d.ts +63 -0
- package/dist/tools/ast-tools.d.ts.map +1 -0
- package/dist/tools/ast-tools.js +498 -0
- package/dist/tools/ast-tools.js.map +1 -0
- package/dist/tools/diagnostics/index.d.ts +29 -0
- package/dist/tools/diagnostics/index.d.ts.map +1 -0
- package/dist/tools/diagnostics/index.js +118 -0
- package/dist/tools/diagnostics/index.js.map +1 -0
- package/dist/tools/diagnostics/lsp-aggregator.d.ts +26 -0
- package/dist/tools/diagnostics/lsp-aggregator.d.ts.map +1 -0
- package/dist/tools/diagnostics/lsp-aggregator.js +99 -0
- package/dist/tools/diagnostics/lsp-aggregator.js.map +1 -0
- package/dist/tools/diagnostics/tsc-runner.d.ts +26 -0
- package/dist/tools/diagnostics/tsc-runner.d.ts.map +1 -0
- package/dist/tools/diagnostics/tsc-runner.js +70 -0
- package/dist/tools/diagnostics/tsc-runner.js.map +1 -0
- package/dist/tools/index.d.ts +53 -0
- package/dist/tools/index.d.ts.map +1 -0
- package/dist/tools/index.js +123 -0
- package/dist/tools/index.js.map +1 -0
- package/dist/tools/lsp/client.d.ts +201 -0
- package/dist/tools/lsp/client.d.ts.map +1 -0
- package/dist/tools/lsp/client.js +475 -0
- package/dist/tools/lsp/client.js.map +1 -0
- package/dist/tools/lsp/index.d.ts +9 -0
- package/dist/tools/lsp/index.d.ts.map +1 -0
- package/dist/tools/lsp/index.js +7 -0
- package/dist/tools/lsp/index.js.map +1 -0
- package/dist/tools/lsp/servers.d.ts +37 -0
- package/dist/tools/lsp/servers.d.ts.map +1 -0
- package/dist/tools/lsp/servers.js +210 -0
- package/dist/tools/lsp/servers.js.map +1 -0
- package/dist/tools/lsp/utils.d.ts +58 -0
- package/dist/tools/lsp/utils.d.ts.map +1 -0
- package/dist/tools/lsp/utils.js +242 -0
- package/dist/tools/lsp/utils.js.map +1 -0
- package/dist/tools/lsp-tools.d.ts +151 -0
- package/dist/tools/lsp-tools.d.ts.map +1 -0
- package/dist/tools/lsp-tools.js +400 -0
- package/dist/tools/lsp-tools.js.map +1 -0
- package/dist/tools/memory-tools.d.ts +48 -0
- package/dist/tools/memory-tools.d.ts.map +1 -0
- package/dist/tools/memory-tools.js +230 -0
- package/dist/tools/memory-tools.js.map +1 -0
- package/dist/tools/notepad-tools.d.ts +49 -0
- package/dist/tools/notepad-tools.d.ts.map +1 -0
- package/dist/tools/notepad-tools.js +303 -0
- package/dist/tools/notepad-tools.js.map +1 -0
- package/dist/tools/python-repl/bridge-manager.d.ts +65 -0
- package/dist/tools/python-repl/bridge-manager.d.ts.map +1 -0
- package/dist/tools/python-repl/bridge-manager.js +453 -0
- package/dist/tools/python-repl/bridge-manager.js.map +1 -0
- package/dist/tools/python-repl/index.d.ts +40 -0
- package/dist/tools/python-repl/index.d.ts.map +1 -0
- package/dist/tools/python-repl/index.js +36 -0
- package/dist/tools/python-repl/index.js.map +1 -0
- package/dist/tools/python-repl/paths.d.ts +84 -0
- package/dist/tools/python-repl/paths.d.ts.map +1 -0
- package/dist/tools/python-repl/paths.js +218 -0
- package/dist/tools/python-repl/paths.js.map +1 -0
- package/dist/tools/python-repl/session-lock.d.ts +111 -0
- package/dist/tools/python-repl/session-lock.d.ts.map +1 -0
- package/dist/tools/python-repl/session-lock.js +474 -0
- package/dist/tools/python-repl/session-lock.js.map +1 -0
- package/dist/tools/python-repl/socket-client.d.ts +42 -0
- package/dist/tools/python-repl/socket-client.d.ts.map +1 -0
- package/dist/tools/python-repl/socket-client.js +157 -0
- package/dist/tools/python-repl/socket-client.js.map +1 -0
- package/dist/tools/python-repl/tool.d.ts +100 -0
- package/dist/tools/python-repl/tool.d.ts.map +1 -0
- package/dist/tools/python-repl/tool.js +575 -0
- package/dist/tools/python-repl/tool.js.map +1 -0
- package/dist/tools/python-repl/types.d.ts +95 -0
- package/dist/tools/python-repl/types.d.ts.map +1 -0
- package/dist/tools/python-repl/types.js +2 -0
- package/dist/tools/python-repl/types.js.map +1 -0
- package/dist/tools/resume-session.d.ts +63 -0
- package/dist/tools/resume-session.d.ts.map +1 -0
- package/dist/tools/resume-session.js +106 -0
- package/dist/tools/resume-session.js.map +1 -0
- package/dist/tools/skills-tools.d.ts +75 -0
- package/dist/tools/skills-tools.d.ts.map +1 -0
- package/dist/tools/skills-tools.js +151 -0
- package/dist/tools/skills-tools.js.map +1 -0
- package/dist/tools/state-tools.d.ts +65 -0
- package/dist/tools/state-tools.d.ts.map +1 -0
- package/dist/tools/state-tools.js +404 -0
- package/dist/tools/state-tools.js.map +1 -0
- package/dist/tools/types.d.ts +28 -0
- package/dist/tools/types.d.ts.map +1 -0
- package/dist/tools/types.js +8 -0
- package/dist/tools/types.js.map +1 -0
- package/dist/utils/__tests__/paths.test.d.ts +2 -0
- package/dist/utils/__tests__/paths.test.d.ts.map +1 -0
- package/dist/utils/__tests__/paths.test.js +88 -0
- package/dist/utils/__tests__/paths.test.js.map +1 -0
- package/dist/utils/__tests__/string-width.test.d.ts +6 -0
- package/dist/utils/__tests__/string-width.test.d.ts.map +1 -0
- package/dist/utils/__tests__/string-width.test.js +173 -0
- package/dist/utils/__tests__/string-width.test.js.map +1 -0
- package/dist/utils/paths.d.ts +41 -0
- package/dist/utils/paths.d.ts.map +1 -0
- package/dist/utils/paths.js +87 -0
- package/dist/utils/paths.js.map +1 -0
- package/dist/utils/string-width.d.ts +80 -0
- package/dist/utils/string-width.d.ts.map +1 -0
- package/dist/utils/string-width.js +219 -0
- package/dist/utils/string-width.js.map +1 -0
- package/dist/verification/tier-selector.d.ts +40 -0
- package/dist/verification/tier-selector.d.ts.map +1 -0
- package/dist/verification/tier-selector.js +95 -0
- package/dist/verification/tier-selector.js.map +1 -0
- package/dist/verification/tier-selector.test.d.ts +2 -0
- package/dist/verification/tier-selector.test.d.ts.map +1 -0
- package/dist/verification/tier-selector.test.js +282 -0
- package/dist/verification/tier-selector.test.js.map +1 -0
- package/hooks/context-hooks/agents-injector/constants.ts +9 -0
- package/hooks/context-hooks/agents-injector/index.ts +153 -0
- package/hooks/context-hooks/agents-injector/storage.ts +8 -0
- package/hooks/context-hooks/context-window-monitor.ts +99 -0
- package/hooks/context-hooks/empty-task-response-detector.ts +27 -0
- package/hooks/context-hooks/index.ts +40 -0
- package/hooks/context-hooks/keyword/analyze/default.ts +27 -0
- package/hooks/context-hooks/keyword/analyze/index.ts +1 -0
- package/hooks/context-hooks/keyword/constants.ts +31 -0
- package/hooks/context-hooks/keyword/detector.ts +53 -0
- package/hooks/context-hooks/keyword/index.test.ts +728 -0
- package/hooks/context-hooks/keyword/index.ts +109 -0
- package/hooks/context-hooks/keyword/search/default.ts +20 -0
- package/hooks/context-hooks/keyword/search/index.ts +1 -0
- package/hooks/context-hooks/keyword/types.ts +4 -0
- package/hooks/context-hooks/keyword/ultrawork/default.ts +276 -0
- package/hooks/context-hooks/keyword/ultrawork/gpt5.2.ts +151 -0
- package/hooks/context-hooks/keyword/ultrawork/index.ts +36 -0
- package/hooks/context-hooks/keyword/ultrawork/planner.ts +142 -0
- package/hooks/context-hooks/keyword/ultrawork/utils.ts +49 -0
- package/hooks/context-hooks/preemptive-compaction.test.ts +97 -0
- package/hooks/context-hooks/preemptive-compaction.ts +103 -0
- package/hooks/context-hooks/session/constants.ts +10 -0
- package/hooks/context-hooks/session/index.test.ts +223 -0
- package/hooks/context-hooks/session/index.ts +436 -0
- package/hooks/context-hooks/session/storage.ts +390 -0
- package/hooks/context-hooks/session/types.ts +98 -0
- package/hooks/context-hooks/session-notification-utils.ts +49 -0
- package/hooks/context-hooks/session-notification.test.ts +361 -0
- package/hooks/context-hooks/session-notification.ts +337 -0
- package/hooks/context-hooks/todo-continuation-enforcer.test.ts +1262 -0
- package/hooks/context-hooks/todo-continuation-enforcer.ts +517 -0
- package/hooks/context-hooks/tool-output-truncator.test.ts +168 -0
- package/hooks/context-hooks/tool-output-truncator.ts +62 -0
- package/hooks/memory-hooks/CLAUDE.md +35 -0
- package/hooks/memory-hooks/bugfixes-2026-01-10.md +92 -0
- package/hooks/memory-hooks/hooks.json +93 -0
- package/package.json +90 -0
- package/scripts/build-codex-server.mjs +51 -0
- package/scripts/build-gemini-server.mjs +51 -0
- package/scripts/build-mcp-server.mjs +51 -0
- package/scripts/build-skill-bridge.mjs +32 -0
- package/scripts/compose-docs.mjs +44 -0
- package/scripts/keyword-detector.mjs +396 -0
- package/scripts/lib/stdin.mjs +64 -0
- package/scripts/permission-handler.mjs +23 -0
- package/scripts/persistent-mode.cjs +527 -0
- package/scripts/persistent-mode.mjs +527 -0
- package/scripts/plugin-setup.mjs +129 -0
- package/scripts/post-tool-verifier.mjs +352 -0
- package/scripts/pre-compact.mjs +23 -0
- package/scripts/pre-tool-enforcer.mjs +151 -0
- package/scripts/project-memory-posttool.mjs +64 -0
- package/scripts/project-memory-precompact.mjs +42 -0
- package/scripts/project-memory-session.mjs +82 -0
- package/scripts/session-end.mjs +23 -0
- package/scripts/session-start.mjs +421 -0
- package/scripts/setup-init.mjs +23 -0
- package/scripts/setup-maintenance.mjs +23 -0
- package/scripts/setup.mjs +49 -0
- package/scripts/skill-injector.mjs +289 -0
- package/scripts/subagent-tracker.mjs +35 -0
- package/scripts/sync-metadata.ts +363 -0
- package/scripts/test-max-attempts.ts +94 -0
- package/scripts/test-mutual-exclusion.ts +152 -0
- package/scripts/test-notepad-integration.ts +495 -0
- package/scripts/test-pr25.sh +525 -0
- package/scripts/test-remember-tags.ts +121 -0
- package/scripts/test-session-injection.ts +41 -0
- package/scripts/uninstall.sh +168 -0
- package/skills/AGENTS.md +202 -0
- package/skills/agents/observer.md +137 -0
- package/skills/agents/start-observer.sh +134 -0
- package/skills/analyze/SKILL.md +90 -0
- package/skills/android-patterns/SKILL.md +584 -0
- package/skills/autopilot/SKILL.md +202 -0
- package/skills/backend/SKILL.md +645 -0
- package/skills/build-fix/SKILL.md +123 -0
- package/skills/cancel/SKILL.md +661 -0
- package/skills/clickhouse-io/SKILL.md +429 -0
- package/skills/cloud-security/SKILL.md +361 -0
- package/skills/code-review/SKILL.md +206 -0
- package/skills/coding-standards/SKILL.md +520 -0
- package/skills/configure-ecc/SKILL.md +298 -0
- package/skills/continuous-learning/SKILL.md +110 -0
- package/skills/continuous-learning/config.json +18 -0
- package/skills/continuous-learning/evaluate-session.sh +60 -0
- package/skills/continuous-learning-v2/SKILL.md +284 -0
- package/skills/continuous-learning-v2/agents/observer.md +137 -0
- package/skills/continuous-learning-v2/agents/start-observer.sh +134 -0
- package/skills/continuous-learning-v2/config.json +41 -0
- package/skills/continuous-learning-v2/hooks/observe.sh +153 -0
- package/skills/continuous-learning-v2/scripts/instinct-cli.py +494 -0
- package/skills/deepinit/SKILL.md +320 -0
- package/skills/deepsearch/SKILL.md +38 -0
- package/skills/django-patterns/SKILL.md +733 -0
- package/skills/django-security/SKILL.md +592 -0
- package/skills/django-tdd/SKILL.md +728 -0
- package/skills/django-verification/SKILL.md +460 -0
- package/skills/docs/SKILL.md +97 -0
- package/skills/doctor/SKILL.md +191 -0
- package/skills/ecomode/SKILL.md +109 -0
- package/skills/eval-harness/SKILL.md +227 -0
- package/skills/execution-modes/autopilot/SKILL.md +183 -0
- package/skills/execution-modes/ecomode/SKILL.md +109 -0
- package/skills/execution-modes/pipeline/SKILL.md +430 -0
- package/skills/execution-modes/ralph/SKILL.md +225 -0
- package/skills/execution-modes/swarm/SKILL.md +673 -0
- package/skills/execution-modes/ultrapilot/SKILL.md +632 -0
- package/skills/execution-modes/ultraqa/SKILL.md +135 -0
- package/skills/execution-modes/ultrawork/SKILL.md +95 -0
- package/skills/exploration/analyze/SKILL.md +63 -0
- package/skills/exploration/deepinit/SKILL.md +320 -0
- package/skills/exploration/research/SKILL.md +510 -0
- package/skills/exploration/ultra-research/SKILL.md +38 -0
- package/skills/flutter-patterns/SKILL.md +633 -0
- package/skills/frontend-ui-ux/SKILL.md +285 -0
- package/skills/git-master/SKILL.md +57 -0
- package/skills/golang-patterns/SKILL.md +673 -0
- package/skills/golang-testing/SKILL.md +719 -0
- package/skills/help/SKILL.md +65 -0
- package/skills/hooks/observe.sh +153 -0
- package/skills/hud/SKILL.md +295 -0
- package/skills/intro/SKILL.md +87 -0
- package/skills/ios-patterns/SKILL.md +454 -0
- package/skills/iterative-retrieval/SKILL.md +202 -0
- package/skills/java-coding-standards/SKILL.md +138 -0
- package/skills/jpa-patterns/SKILL.md +141 -0
- package/skills/learn-about-skc/SKILL.md +128 -0
- package/skills/learner/SKILL.md +135 -0
- package/skills/local-skills-setup/SKILL.md +465 -0
- package/skills/market-kr/SKILL.md +46 -0
- package/skills/market-us/SKILL.md +44 -0
- package/skills/mcp-setup/SKILL.md +185 -0
- package/skills/memory/SKILL.md +42 -0
- package/skills/memory/modes/code--ar.json +24 -0
- package/skills/memory/modes/code--bn.json +24 -0
- package/skills/memory/modes/code--chill.json +8 -0
- package/skills/memory/modes/code--cs.json +24 -0
- package/skills/memory/modes/code--da.json +24 -0
- package/skills/memory/modes/code--de.json +24 -0
- package/skills/memory/modes/code--el.json +24 -0
- package/skills/memory/modes/code--es.json +24 -0
- package/skills/memory/modes/code--fi.json +24 -0
- package/skills/memory/modes/code--fr.json +24 -0
- package/skills/memory/modes/code--he.json +24 -0
- package/skills/memory/modes/code--hi.json +24 -0
- package/skills/memory/modes/code--hu.json +24 -0
- package/skills/memory/modes/code--id.json +24 -0
- package/skills/memory/modes/code--it.json +24 -0
- package/skills/memory/modes/code--ja.json +24 -0
- package/skills/memory/modes/code--ko.json +24 -0
- package/skills/memory/modes/code--nl.json +24 -0
- package/skills/memory/modes/code--no.json +24 -0
- package/skills/memory/modes/code--pl.json +24 -0
- package/skills/memory/modes/code--pt-br.json +24 -0
- package/skills/memory/modes/code--ro.json +24 -0
- package/skills/memory/modes/code--ru.json +24 -0
- package/skills/memory/modes/code--sv.json +24 -0
- package/skills/memory/modes/code--th.json +24 -0
- package/skills/memory/modes/code--tr.json +24 -0
- package/skills/memory/modes/code--uk.json +24 -0
- package/skills/memory/modes/code--vi.json +24 -0
- package/skills/memory/modes/code--zh.json +24 -0
- package/skills/memory/modes/code.json +125 -0
- package/skills/memory/modes/email-investigation.json +120 -0
- package/skills/mobile/SKILL.md +79 -0
- package/skills/note/SKILL.md +62 -0
- package/skills/ontology/SKILL.md +117 -0
- package/skills/ontology-actions/SKILL.md +236 -0
- package/skills/ontology-functions/SKILL.md +243 -0
- package/skills/ontology-links/SKILL.md +278 -0
- package/skills/ontology-object-types/SKILL.md +241 -0
- package/skills/ontology-palantir/SKILL.md +232 -0
- package/skills/ontology-storage/SKILL.md +284 -0
- package/skills/ontology-traditional/SKILL.md +190 -0
- package/skills/orchestrate/SKILL.md +408 -0
- package/skills/pipeline/SKILL.md +430 -0
- package/skills/plan/SKILL.md +217 -0
- package/skills/postgres-patterns/SKILL.md +146 -0
- package/skills/project-guidelines-example/SKILL.md +345 -0
- package/skills/project-session-manager/SKILL.md +560 -0
- package/skills/project-session-manager/lib/config.sh +135 -0
- package/skills/project-session-manager/lib/parse.sh +175 -0
- package/skills/project-session-manager/lib/providers/github.sh +52 -0
- package/skills/project-session-manager/lib/providers/interface.sh +76 -0
- package/skills/project-session-manager/lib/providers/jira.sh +79 -0
- package/skills/project-session-manager/lib/session.sh +169 -0
- package/skills/project-session-manager/lib/tmux.sh +103 -0
- package/skills/project-session-manager/lib/worktree.sh +204 -0
- package/skills/project-session-manager/psm.sh +694 -0
- package/skills/project-session-manager/templates/feature.md +56 -0
- package/skills/project-session-manager/templates/issue-fix.md +57 -0
- package/skills/project-session-manager/templates/pr-review.md +65 -0
- package/skills/project-session-manager/templates/projects.json +19 -0
- package/skills/python-patterns/SKILL.md +749 -0
- package/skills/python-testing/SKILL.md +815 -0
- package/skills/quality/SKILL.md +35 -0
- package/skills/quality/build-fix/SKILL.md +123 -0
- package/skills/quality/code-review/SKILL.md +179 -0
- package/skills/quality/security-review/SKILL.md +254 -0
- package/skills/quality/tdd/SKILL.md +79 -0
- package/skills/quality/ultra-code-review/SKILL.md +213 -0
- package/skills/quality/ultra-code-review/code-reviewer.md +146 -0
- package/skills/quality/ultratdd/SKILL.md +371 -0
- package/skills/quality/ultratdd/testing-anti-patterns.md +299 -0
- package/skills/quant/SKILL.md +67 -0
- package/skills/ralph/SKILL.md +245 -0
- package/skills/ralph-init/SKILL.md +60 -0
- package/skills/ralplan/SKILL.md +49 -0
- package/skills/release/SKILL.md +83 -0
- package/skills/research/SKILL.md +510 -0
- package/skills/review/SKILL.md +59 -0
- package/skills/scientific/adaptyv/SKILL.md +114 -0
- package/skills/scientific/adaptyv/reference/api_reference.md +308 -0
- package/skills/scientific/adaptyv/reference/examples.md +913 -0
- package/skills/scientific/adaptyv/reference/experiments.md +360 -0
- package/skills/scientific/adaptyv/reference/protein_optimization.md +637 -0
- package/skills/scientific/aeon/SKILL.md +374 -0
- package/skills/scientific/aeon/references/anomaly_detection.md +154 -0
- package/skills/scientific/aeon/references/classification.md +144 -0
- package/skills/scientific/aeon/references/clustering.md +123 -0
- package/skills/scientific/aeon/references/datasets_benchmarking.md +387 -0
- package/skills/scientific/aeon/references/distances.md +256 -0
- package/skills/scientific/aeon/references/forecasting.md +140 -0
- package/skills/scientific/aeon/references/networks.md +289 -0
- package/skills/scientific/aeon/references/regression.md +118 -0
- package/skills/scientific/aeon/references/segmentation.md +163 -0
- package/skills/scientific/aeon/references/similarity_search.md +187 -0
- package/skills/scientific/aeon/references/transformations.md +246 -0
- package/skills/scientific/alphafold-database/SKILL.md +513 -0
- package/skills/scientific/alphafold-database/references/api_reference.md +423 -0
- package/skills/scientific/anndata/SKILL.md +400 -0
- package/skills/scientific/anndata/references/best_practices.md +525 -0
- package/skills/scientific/anndata/references/concatenation.md +396 -0
- package/skills/scientific/anndata/references/data_structure.md +314 -0
- package/skills/scientific/anndata/references/io_operations.md +404 -0
- package/skills/scientific/anndata/references/manipulation.md +516 -0
- package/skills/scientific/arboreto/SKILL.md +243 -0
- package/skills/scientific/arboreto/references/algorithms.md +138 -0
- package/skills/scientific/arboreto/references/basic_inference.md +151 -0
- package/skills/scientific/arboreto/references/distributed_computing.md +242 -0
- package/skills/scientific/arboreto/scripts/basic_grn_inference.py +97 -0
- package/skills/scientific/astropy/SKILL.md +331 -0
- package/skills/scientific/astropy/references/coordinates.md +273 -0
- package/skills/scientific/astropy/references/cosmology.md +307 -0
- package/skills/scientific/astropy/references/fits.md +396 -0
- package/skills/scientific/astropy/references/tables.md +489 -0
- package/skills/scientific/astropy/references/time.md +404 -0
- package/skills/scientific/astropy/references/units.md +178 -0
- package/skills/scientific/astropy/references/wcs_and_other_modules.md +373 -0
- package/skills/scientific/benchling-integration/SKILL.md +480 -0
- package/skills/scientific/benchling-integration/references/api_endpoints.md +883 -0
- package/skills/scientific/benchling-integration/references/authentication.md +379 -0
- package/skills/scientific/benchling-integration/references/sdk_reference.md +774 -0
- package/skills/scientific/biopython/SKILL.md +443 -0
- package/skills/scientific/biopython/references/advanced.md +577 -0
- package/skills/scientific/biopython/references/alignment.md +362 -0
- package/skills/scientific/biopython/references/blast.md +455 -0
- package/skills/scientific/biopython/references/databases.md +484 -0
- package/skills/scientific/biopython/references/phylogenetics.md +566 -0
- package/skills/scientific/biopython/references/sequence_io.md +285 -0
- package/skills/scientific/biopython/references/structure.md +564 -0
- package/skills/scientific/biorxiv-database/SKILL.md +483 -0
- package/skills/scientific/biorxiv-database/references/api_reference.md +280 -0
- package/skills/scientific/biorxiv-database/scripts/biorxiv_search.py +445 -0
- package/skills/scientific/bioservices/SKILL.md +361 -0
- package/skills/scientific/bioservices/references/identifier_mapping.md +685 -0
- package/skills/scientific/bioservices/references/services_reference.md +636 -0
- package/skills/scientific/bioservices/references/workflow_patterns.md +811 -0
- package/skills/scientific/bioservices/scripts/batch_id_converter.py +347 -0
- package/skills/scientific/bioservices/scripts/compound_cross_reference.py +378 -0
- package/skills/scientific/bioservices/scripts/pathway_analysis.py +309 -0
- package/skills/scientific/bioservices/scripts/protein_analysis_workflow.py +408 -0
- package/skills/scientific/brenda-database/SKILL.md +719 -0
- package/skills/scientific/brenda-database/references/api_reference.md +537 -0
- package/skills/scientific/brenda-database/scripts/brenda_queries.py +844 -0
- package/skills/scientific/brenda-database/scripts/brenda_visualization.py +772 -0
- package/skills/scientific/brenda-database/scripts/enzyme_pathway_builder.py +1053 -0
- package/skills/scientific/cellxgene-census/SKILL.md +511 -0
- package/skills/scientific/cellxgene-census/references/census_schema.md +182 -0
- package/skills/scientific/cellxgene-census/references/common_patterns.md +351 -0
- package/skills/scientific/chembl-database/SKILL.md +389 -0
- package/skills/scientific/chembl-database/references/api_reference.md +272 -0
- package/skills/scientific/chembl-database/scripts/example_queries.py +278 -0
- package/skills/scientific/cirq/SKILL.md +346 -0
- package/skills/scientific/cirq/references/building.md +307 -0
- package/skills/scientific/cirq/references/experiments.md +572 -0
- package/skills/scientific/cirq/references/hardware.md +515 -0
- package/skills/scientific/cirq/references/noise.md +515 -0
- package/skills/scientific/cirq/references/simulation.md +350 -0
- package/skills/scientific/cirq/references/transformation.md +416 -0
- package/skills/scientific/citation-management/SKILL.md +1115 -0
- package/skills/scientific/citation-management/assets/bibtex_template.bib +264 -0
- package/skills/scientific/citation-management/assets/citation_checklist.md +386 -0
- package/skills/scientific/citation-management/references/bibtex_formatting.md +908 -0
- package/skills/scientific/citation-management/references/citation_validation.md +794 -0
- package/skills/scientific/citation-management/references/google_scholar_search.md +725 -0
- package/skills/scientific/citation-management/references/metadata_extraction.md +870 -0
- package/skills/scientific/citation-management/references/pubmed_search.md +839 -0
- package/skills/scientific/citation-management/scripts/doi_to_bibtex.py +204 -0
- package/skills/scientific/citation-management/scripts/extract_metadata.py +569 -0
- package/skills/scientific/citation-management/scripts/format_bibtex.py +349 -0
- package/skills/scientific/citation-management/scripts/search_google_scholar.py +282 -0
- package/skills/scientific/citation-management/scripts/search_pubmed.py +398 -0
- package/skills/scientific/citation-management/scripts/validate_citations.py +497 -0
- package/skills/scientific/clinical-decision-support/SKILL.md +512 -0
- package/skills/scientific/clinical-decision-support/assets/biomarker_report_template.tex +380 -0
- package/skills/scientific/clinical-decision-support/assets/clinical_pathway_template.tex +222 -0
- package/skills/scientific/clinical-decision-support/assets/cohort_analysis_template.tex +359 -0
- package/skills/scientific/clinical-decision-support/assets/color_schemes.tex +149 -0
- package/skills/scientific/clinical-decision-support/assets/example_gbm_cohort.md +208 -0
- package/skills/scientific/clinical-decision-support/assets/recommendation_strength_guide.md +328 -0
- package/skills/scientific/clinical-decision-support/assets/treatment_recommendation_template.tex +529 -0
- package/skills/scientific/clinical-decision-support/references/README.md +129 -0
- package/skills/scientific/clinical-decision-support/references/biomarker_classification.md +719 -0
- package/skills/scientific/clinical-decision-support/references/clinical_decision_algorithms.md +604 -0
- package/skills/scientific/clinical-decision-support/references/evidence_synthesis.md +840 -0
- package/skills/scientific/clinical-decision-support/references/outcome_analysis.md +640 -0
- package/skills/scientific/clinical-decision-support/references/patient_cohort_analysis.md +427 -0
- package/skills/scientific/clinical-decision-support/references/treatment_recommendations.md +521 -0
- package/skills/scientific/clinical-decision-support/scripts/biomarker_classifier.py +384 -0
- package/skills/scientific/clinical-decision-support/scripts/build_decision_tree.py +447 -0
- package/skills/scientific/clinical-decision-support/scripts/create_cohort_tables.py +524 -0
- package/skills/scientific/clinical-decision-support/scripts/generate_survival_analysis.py +422 -0
- package/skills/scientific/clinical-decision-support/scripts/validate_cds_document.py +335 -0
- package/skills/scientific/clinical-reports/SKILL.md +1133 -0
- package/skills/scientific/clinical-reports/assets/case_report_template.md +352 -0
- package/skills/scientific/clinical-reports/assets/clinical_trial_csr_template.md +353 -0
- package/skills/scientific/clinical-reports/assets/clinical_trial_sae_template.md +359 -0
- package/skills/scientific/clinical-reports/assets/consult_note_template.md +305 -0
- package/skills/scientific/clinical-reports/assets/discharge_summary_template.md +453 -0
- package/skills/scientific/clinical-reports/assets/hipaa_compliance_checklist.md +395 -0
- package/skills/scientific/clinical-reports/assets/history_physical_template.md +305 -0
- package/skills/scientific/clinical-reports/assets/lab_report_template.md +309 -0
- package/skills/scientific/clinical-reports/assets/pathology_report_template.md +249 -0
- package/skills/scientific/clinical-reports/assets/quality_checklist.md +338 -0
- package/skills/scientific/clinical-reports/assets/radiology_report_template.md +318 -0
- package/skills/scientific/clinical-reports/assets/soap_note_template.md +253 -0
- package/skills/scientific/clinical-reports/references/README.md +236 -0
- package/skills/scientific/clinical-reports/references/case_report_guidelines.md +570 -0
- package/skills/scientific/clinical-reports/references/clinical_trial_reporting.md +693 -0
- package/skills/scientific/clinical-reports/references/data_presentation.md +530 -0
- package/skills/scientific/clinical-reports/references/diagnostic_reports_standards.md +629 -0
- package/skills/scientific/clinical-reports/references/medical_terminology.md +588 -0
- package/skills/scientific/clinical-reports/references/patient_documentation.md +744 -0
- package/skills/scientific/clinical-reports/references/peer_review_standards.md +585 -0
- package/skills/scientific/clinical-reports/references/regulatory_compliance.md +577 -0
- package/skills/scientific/clinical-reports/scripts/check_deidentification.py +346 -0
- package/skills/scientific/clinical-reports/scripts/compliance_checker.py +78 -0
- package/skills/scientific/clinical-reports/scripts/extract_clinical_data.py +102 -0
- package/skills/scientific/clinical-reports/scripts/format_adverse_events.py +103 -0
- package/skills/scientific/clinical-reports/scripts/generate_report_template.py +163 -0
- package/skills/scientific/clinical-reports/scripts/terminology_validator.py +133 -0
- package/skills/scientific/clinical-reports/scripts/validate_case_report.py +334 -0
- package/skills/scientific/clinical-reports/scripts/validate_trial_report.py +89 -0
- package/skills/scientific/clinicaltrials-database/SKILL.md +507 -0
- package/skills/scientific/clinicaltrials-database/references/api_reference.md +358 -0
- package/skills/scientific/clinicaltrials-database/scripts/query_clinicaltrials.py +215 -0
- package/skills/scientific/clinpgx-database/SKILL.md +638 -0
- package/skills/scientific/clinpgx-database/references/api_reference.md +757 -0
- package/skills/scientific/clinpgx-database/scripts/query_clinpgx.py +518 -0
- package/skills/scientific/clinvar-database/SKILL.md +362 -0
- package/skills/scientific/clinvar-database/references/api_reference.md +227 -0
- package/skills/scientific/clinvar-database/references/clinical_significance.md +218 -0
- package/skills/scientific/clinvar-database/references/data_formats.md +358 -0
- package/skills/scientific/cobrapy/SKILL.md +463 -0
- package/skills/scientific/cobrapy/references/api_quick_reference.md +655 -0
- package/skills/scientific/cobrapy/references/workflows.md +593 -0
- package/skills/scientific/cosmic-database/SKILL.md +336 -0
- package/skills/scientific/cosmic-database/references/cosmic_data_reference.md +220 -0
- package/skills/scientific/cosmic-database/scripts/download_cosmic.py +231 -0
- package/skills/scientific/dask/SKILL.md +456 -0
- package/skills/scientific/dask/references/arrays.md +497 -0
- package/skills/scientific/dask/references/bags.md +468 -0
- package/skills/scientific/dask/references/best-practices.md +277 -0
- package/skills/scientific/dask/references/dataframes.md +368 -0
- package/skills/scientific/dask/references/futures.md +541 -0
- package/skills/scientific/dask/references/schedulers.md +504 -0
- package/skills/scientific/datacommons-client/SKILL.md +255 -0
- package/skills/scientific/datacommons-client/references/getting_started.md +417 -0
- package/skills/scientific/datacommons-client/references/node.md +250 -0
- package/skills/scientific/datacommons-client/references/observation.md +185 -0
- package/skills/scientific/datacommons-client/references/resolve.md +246 -0
- package/skills/scientific/datamol/SKILL.md +706 -0
- package/skills/scientific/datamol/references/conformers_module.md +131 -0
- package/skills/scientific/datamol/references/core_api.md +130 -0
- package/skills/scientific/datamol/references/descriptors_viz.md +195 -0
- package/skills/scientific/datamol/references/fragments_scaffolds.md +174 -0
- package/skills/scientific/datamol/references/io_module.md +109 -0
- package/skills/scientific/datamol/references/reactions_data.md +218 -0
- package/skills/scientific/deepchem/SKILL.md +597 -0
- package/skills/scientific/deepchem/references/api_reference.md +303 -0
- package/skills/scientific/deepchem/references/workflows.md +491 -0
- package/skills/scientific/deepchem/scripts/graph_neural_network.py +338 -0
- package/skills/scientific/deepchem/scripts/predict_solubility.py +224 -0
- package/skills/scientific/deepchem/scripts/transfer_learning.py +375 -0
- package/skills/scientific/deeptools/SKILL.md +531 -0
- package/skills/scientific/deeptools/assets/quick_reference.md +58 -0
- package/skills/scientific/deeptools/references/effective_genome_sizes.md +116 -0
- package/skills/scientific/deeptools/references/normalization_methods.md +410 -0
- package/skills/scientific/deeptools/references/tools_reference.md +533 -0
- package/skills/scientific/deeptools/references/workflows.md +474 -0
- package/skills/scientific/deeptools/scripts/validate_files.py +195 -0
- package/skills/scientific/deeptools/scripts/workflow_generator.py +454 -0
- package/skills/scientific/denario/SKILL.md +215 -0
- package/skills/scientific/denario/references/examples.md +494 -0
- package/skills/scientific/denario/references/installation.md +213 -0
- package/skills/scientific/denario/references/llm_configuration.md +265 -0
- package/skills/scientific/denario/references/research_pipeline.md +471 -0
- package/skills/scientific/diffdock/SKILL.md +483 -0
- package/skills/scientific/diffdock/assets/batch_template.csv +4 -0
- package/skills/scientific/diffdock/assets/custom_inference_config.yaml +90 -0
- package/skills/scientific/diffdock/references/confidence_and_limitations.md +182 -0
- package/skills/scientific/diffdock/references/parameters_reference.md +163 -0
- package/skills/scientific/diffdock/references/workflows_examples.md +392 -0
- package/skills/scientific/diffdock/scripts/analyze_results.py +334 -0
- package/skills/scientific/diffdock/scripts/prepare_batch_csv.py +254 -0
- package/skills/scientific/diffdock/scripts/setup_check.py +278 -0
- package/skills/scientific/dnanexus-integration/SKILL.md +383 -0
- package/skills/scientific/dnanexus-integration/references/app-development.md +247 -0
- package/skills/scientific/dnanexus-integration/references/configuration.md +646 -0
- package/skills/scientific/dnanexus-integration/references/data-operations.md +400 -0
- package/skills/scientific/dnanexus-integration/references/job-execution.md +412 -0
- package/skills/scientific/dnanexus-integration/references/python-sdk.md +523 -0
- package/skills/scientific/document-skills/docx/LICENSE.txt +30 -0
- package/skills/scientific/document-skills/docx/SKILL.md +233 -0
- package/skills/scientific/document-skills/docx/docx-js.md +350 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/dml-chart.xsd +1499 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/dml-chartDrawing.xsd +146 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/dml-diagram.xsd +1085 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/dml-lockedCanvas.xsd +11 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/dml-main.xsd +3081 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/dml-picture.xsd +23 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/dml-spreadsheetDrawing.xsd +185 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/dml-wordprocessingDrawing.xsd +287 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/pml.xsd +1676 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/shared-additionalCharacteristics.xsd +28 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/shared-bibliography.xsd +144 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/shared-commonSimpleTypes.xsd +174 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/shared-customXmlDataProperties.xsd +25 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/shared-customXmlSchemaProperties.xsd +18 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/shared-documentPropertiesCustom.xsd +59 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/shared-documentPropertiesExtended.xsd +56 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/shared-documentPropertiesVariantTypes.xsd +195 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/shared-math.xsd +582 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/shared-relationshipReference.xsd +25 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/sml.xsd +4439 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/vml-main.xsd +570 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/vml-officeDrawing.xsd +509 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/vml-presentationDrawing.xsd +12 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/vml-spreadsheetDrawing.xsd +108 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/vml-wordprocessingDrawing.xsd +96 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/wml.xsd +3646 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/xml.xsd +116 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ecma/fouth-edition/opc-contentTypes.xsd +42 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ecma/fouth-edition/opc-coreProperties.xsd +50 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ecma/fouth-edition/opc-digSig.xsd +49 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/ecma/fouth-edition/opc-relationships.xsd +33 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/mce/mc.xsd +75 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/microsoft/wml-2010.xsd +560 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/microsoft/wml-2012.xsd +67 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/microsoft/wml-2018.xsd +14 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/microsoft/wml-cex-2018.xsd +20 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/microsoft/wml-cid-2016.xsd +13 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/microsoft/wml-sdtdatahash-2020.xsd +4 -0
- package/skills/scientific/document-skills/docx/ooxml/schemas/microsoft/wml-symex-2015.xsd +8 -0
- package/skills/scientific/document-skills/docx/ooxml/scripts/pack.py +159 -0
- package/skills/scientific/document-skills/docx/ooxml/scripts/unpack.py +29 -0
- package/skills/scientific/document-skills/docx/ooxml/scripts/validate.py +69 -0
- package/skills/scientific/document-skills/docx/ooxml/scripts/validation/__init__.py +15 -0
- package/skills/scientific/document-skills/docx/ooxml/scripts/validation/base.py +951 -0
- package/skills/scientific/document-skills/docx/ooxml/scripts/validation/docx.py +274 -0
- package/skills/scientific/document-skills/docx/ooxml/scripts/validation/pptx.py +315 -0
- package/skills/scientific/document-skills/docx/ooxml/scripts/validation/redlining.py +279 -0
- package/skills/scientific/document-skills/docx/ooxml.md +610 -0
- package/skills/scientific/document-skills/docx/scripts/__init__.py +1 -0
- package/skills/scientific/document-skills/docx/scripts/document.py +1276 -0
- package/skills/scientific/document-skills/docx/scripts/templates/comments.xml +3 -0
- package/skills/scientific/document-skills/docx/scripts/templates/commentsExtended.xml +3 -0
- package/skills/scientific/document-skills/docx/scripts/templates/commentsExtensible.xml +3 -0
- package/skills/scientific/document-skills/docx/scripts/templates/commentsIds.xml +3 -0
- package/skills/scientific/document-skills/docx/scripts/templates/people.xml +3 -0
- package/skills/scientific/document-skills/docx/scripts/utilities.py +374 -0
- package/skills/scientific/document-skills/pdf/LICENSE.txt +30 -0
- package/skills/scientific/document-skills/pdf/SKILL.md +330 -0
- package/skills/scientific/document-skills/pdf/forms.md +205 -0
- package/skills/scientific/document-skills/pdf/reference.md +612 -0
- package/skills/scientific/document-skills/pdf/scripts/check_bounding_boxes.py +70 -0
- package/skills/scientific/document-skills/pdf/scripts/check_bounding_boxes_test.py +226 -0
- package/skills/scientific/document-skills/pdf/scripts/check_fillable_fields.py +12 -0
- package/skills/scientific/document-skills/pdf/scripts/convert_pdf_to_images.py +35 -0
- package/skills/scientific/document-skills/pdf/scripts/create_validation_image.py +41 -0
- package/skills/scientific/document-skills/pdf/scripts/extract_form_field_info.py +152 -0
- package/skills/scientific/document-skills/pdf/scripts/fill_fillable_fields.py +114 -0
- package/skills/scientific/document-skills/pdf/scripts/fill_pdf_form_with_annotations.py +108 -0
- package/skills/scientific/document-skills/pptx/LICENSE.txt +30 -0
- package/skills/scientific/document-skills/pptx/SKILL.md +520 -0
- package/skills/scientific/document-skills/pptx/html2pptx.md +625 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/dml-chart.xsd +1499 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/dml-chartDrawing.xsd +146 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/dml-diagram.xsd +1085 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/dml-lockedCanvas.xsd +11 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/dml-main.xsd +3081 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/dml-picture.xsd +23 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/dml-spreadsheetDrawing.xsd +185 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/dml-wordprocessingDrawing.xsd +287 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/pml.xsd +1676 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/shared-additionalCharacteristics.xsd +28 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/shared-bibliography.xsd +144 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/shared-commonSimpleTypes.xsd +174 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/shared-customXmlDataProperties.xsd +25 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/shared-customXmlSchemaProperties.xsd +18 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/shared-documentPropertiesCustom.xsd +59 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/shared-documentPropertiesExtended.xsd +56 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/shared-documentPropertiesVariantTypes.xsd +195 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/shared-math.xsd +582 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/shared-relationshipReference.xsd +25 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/sml.xsd +4439 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/vml-main.xsd +570 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/vml-officeDrawing.xsd +509 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/vml-presentationDrawing.xsd +12 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/vml-spreadsheetDrawing.xsd +108 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/vml-wordprocessingDrawing.xsd +96 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/wml.xsd +3646 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ISO-IEC29500-4_2016/xml.xsd +116 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ecma/fouth-edition/opc-contentTypes.xsd +42 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ecma/fouth-edition/opc-coreProperties.xsd +50 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ecma/fouth-edition/opc-digSig.xsd +49 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/ecma/fouth-edition/opc-relationships.xsd +33 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/mce/mc.xsd +75 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/microsoft/wml-2010.xsd +560 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/microsoft/wml-2012.xsd +67 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/microsoft/wml-2018.xsd +14 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/microsoft/wml-cex-2018.xsd +20 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/microsoft/wml-cid-2016.xsd +13 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/microsoft/wml-sdtdatahash-2020.xsd +4 -0
- package/skills/scientific/document-skills/pptx/ooxml/schemas/microsoft/wml-symex-2015.xsd +8 -0
- package/skills/scientific/document-skills/pptx/ooxml/scripts/pack.py +159 -0
- package/skills/scientific/document-skills/pptx/ooxml/scripts/unpack.py +29 -0
- package/skills/scientific/document-skills/pptx/ooxml/scripts/validate.py +69 -0
- package/skills/scientific/document-skills/pptx/ooxml/scripts/validation/__init__.py +15 -0
- package/skills/scientific/document-skills/pptx/ooxml/scripts/validation/base.py +951 -0
- package/skills/scientific/document-skills/pptx/ooxml/scripts/validation/docx.py +274 -0
- package/skills/scientific/document-skills/pptx/ooxml/scripts/validation/pptx.py +315 -0
- package/skills/scientific/document-skills/pptx/ooxml/scripts/validation/redlining.py +279 -0
- package/skills/scientific/document-skills/pptx/ooxml.md +427 -0
- package/skills/scientific/document-skills/pptx/scripts/html2pptx.js +979 -0
- package/skills/scientific/document-skills/pptx/scripts/inventory.py +1020 -0
- package/skills/scientific/document-skills/pptx/scripts/rearrange.py +231 -0
- package/skills/scientific/document-skills/pptx/scripts/replace.py +385 -0
- package/skills/scientific/document-skills/pptx/scripts/thumbnail.py +450 -0
- package/skills/scientific/document-skills/xlsx/LICENSE.txt +30 -0
- package/skills/scientific/document-skills/xlsx/SKILL.md +325 -0
- package/skills/scientific/document-skills/xlsx/recalc.py +178 -0
- package/skills/scientific/drugbank-database/SKILL.md +190 -0
- package/skills/scientific/drugbank-database/references/chemical-analysis.md +590 -0
- package/skills/scientific/drugbank-database/references/data-access.md +242 -0
- package/skills/scientific/drugbank-database/references/drug-queries.md +386 -0
- package/skills/scientific/drugbank-database/references/interactions.md +425 -0
- package/skills/scientific/drugbank-database/references/targets-pathways.md +518 -0
- package/skills/scientific/drugbank-database/scripts/drugbank_helper.py +350 -0
- package/skills/scientific/ena-database/SKILL.md +204 -0
- package/skills/scientific/ena-database/references/api_reference.md +490 -0
- package/skills/scientific/ensembl-database/SKILL.md +311 -0
- package/skills/scientific/ensembl-database/references/api_endpoints.md +346 -0
- package/skills/scientific/ensembl-database/scripts/ensembl_query.py +427 -0
- package/skills/scientific/esm/SKILL.md +306 -0
- package/skills/scientific/esm/references/esm-c-api.md +583 -0
- package/skills/scientific/esm/references/esm3-api.md +452 -0
- package/skills/scientific/esm/references/forge-api.md +657 -0
- package/skills/scientific/esm/references/workflows.md +685 -0
- package/skills/scientific/etetoolkit/SKILL.md +623 -0
- package/skills/scientific/etetoolkit/references/api_reference.md +583 -0
- package/skills/scientific/etetoolkit/references/visualization.md +783 -0
- package/skills/scientific/etetoolkit/references/workflows.md +774 -0
- package/skills/scientific/etetoolkit/scripts/quick_visualize.py +214 -0
- package/skills/scientific/etetoolkit/scripts/tree_operations.py +229 -0
- package/skills/scientific/exploratory-data-analysis/SKILL.md +446 -0
- package/skills/scientific/exploratory-data-analysis/assets/report_template.md +196 -0
- package/skills/scientific/exploratory-data-analysis/references/bioinformatics_genomics_formats.md +664 -0
- package/skills/scientific/exploratory-data-analysis/references/chemistry_molecular_formats.md +664 -0
- package/skills/scientific/exploratory-data-analysis/references/general_scientific_formats.md +518 -0
- package/skills/scientific/exploratory-data-analysis/references/microscopy_imaging_formats.md +620 -0
- package/skills/scientific/exploratory-data-analysis/references/proteomics_metabolomics_formats.md +517 -0
- package/skills/scientific/exploratory-data-analysis/references/spectroscopy_analytical_formats.md +633 -0
- package/skills/scientific/exploratory-data-analysis/scripts/eda_analyzer.py +547 -0
- package/skills/scientific/fda-database/SKILL.md +518 -0
- package/skills/scientific/fda-database/references/animal_veterinary.md +377 -0
- package/skills/scientific/fda-database/references/api_basics.md +687 -0
- package/skills/scientific/fda-database/references/devices.md +632 -0
- package/skills/scientific/fda-database/references/drugs.md +468 -0
- package/skills/scientific/fda-database/references/foods.md +374 -0
- package/skills/scientific/fda-database/references/other.md +472 -0
- package/skills/scientific/fda-database/scripts/fda_examples.py +335 -0
- package/skills/scientific/fda-database/scripts/fda_query.py +440 -0
- package/skills/scientific/flowio/SKILL.md +608 -0
- package/skills/scientific/flowio/references/api_reference.md +372 -0
- package/skills/scientific/fluidsim/SKILL.md +349 -0
- package/skills/scientific/fluidsim/references/advanced_features.md +398 -0
- package/skills/scientific/fluidsim/references/installation.md +68 -0
- package/skills/scientific/fluidsim/references/output_analysis.md +283 -0
- package/skills/scientific/fluidsim/references/parameters.md +198 -0
- package/skills/scientific/fluidsim/references/simulation_workflow.md +172 -0
- package/skills/scientific/fluidsim/references/solvers.md +94 -0
- package/skills/scientific/fred-economic-data/SKILL.md +433 -0
- package/skills/scientific/fred-economic-data/references/api_basics.md +212 -0
- package/skills/scientific/fred-economic-data/references/categories.md +442 -0
- package/skills/scientific/fred-economic-data/references/geofred.md +588 -0
- package/skills/scientific/fred-economic-data/references/releases.md +642 -0
- package/skills/scientific/fred-economic-data/references/series.md +584 -0
- package/skills/scientific/fred-economic-data/references/sources.md +423 -0
- package/skills/scientific/fred-economic-data/references/tags.md +485 -0
- package/skills/scientific/fred-economic-data/scripts/fred_examples.py +354 -0
- package/skills/scientific/fred-economic-data/scripts/fred_query.py +590 -0
- package/skills/scientific/gene-database/SKILL.md +179 -0
- package/skills/scientific/gene-database/references/api_reference.md +404 -0
- package/skills/scientific/gene-database/references/common_workflows.md +428 -0
- package/skills/scientific/gene-database/scripts/batch_gene_lookup.py +298 -0
- package/skills/scientific/gene-database/scripts/fetch_gene_data.py +277 -0
- package/skills/scientific/gene-database/scripts/query_gene.py +251 -0
- package/skills/scientific/generate-image/SKILL.md +185 -0
- package/skills/scientific/generate-image/scripts/generate_image.py +281 -0
- package/skills/scientific/geniml/SKILL.md +318 -0
- package/skills/scientific/geniml/references/bedspace.md +127 -0
- package/skills/scientific/geniml/references/consensus_peaks.md +238 -0
- package/skills/scientific/geniml/references/region2vec.md +90 -0
- package/skills/scientific/geniml/references/scembed.md +197 -0
- package/skills/scientific/geniml/references/utilities.md +385 -0
- package/skills/scientific/geo-database/SKILL.md +815 -0
- package/skills/scientific/geo-database/references/geo_reference.md +829 -0
- package/skills/scientific/geopandas/SKILL.md +251 -0
- package/skills/scientific/geopandas/references/crs-management.md +243 -0
- package/skills/scientific/geopandas/references/data-io.md +165 -0
- package/skills/scientific/geopandas/references/data-structures.md +70 -0
- package/skills/scientific/geopandas/references/geometric-operations.md +221 -0
- package/skills/scientific/geopandas/references/spatial-analysis.md +184 -0
- package/skills/scientific/geopandas/references/visualization.md +243 -0
- package/skills/scientific/get-available-resources/SKILL.md +277 -0
- package/skills/scientific/get-available-resources/scripts/detect_resources.py +401 -0
- package/skills/scientific/gget/SKILL.md +871 -0
- package/skills/scientific/gget/references/database_info.md +300 -0
- package/skills/scientific/gget/references/module_reference.md +467 -0
- package/skills/scientific/gget/references/workflows.md +814 -0
- package/skills/scientific/gget/scripts/batch_sequence_analysis.py +191 -0
- package/skills/scientific/gget/scripts/enrichment_pipeline.py +235 -0
- package/skills/scientific/gget/scripts/gene_analysis.py +161 -0
- package/skills/scientific/gtars/SKILL.md +285 -0
- package/skills/scientific/gtars/references/cli.md +222 -0
- package/skills/scientific/gtars/references/coverage.md +172 -0
- package/skills/scientific/gtars/references/overlap.md +156 -0
- package/skills/scientific/gtars/references/python-api.md +211 -0
- package/skills/scientific/gtars/references/refget.md +147 -0
- package/skills/scientific/gtars/references/tokenizers.md +103 -0
- package/skills/scientific/gwas-database/SKILL.md +608 -0
- package/skills/scientific/gwas-database/references/api_reference.md +793 -0
- package/skills/scientific/histolab/SKILL.md +678 -0
- package/skills/scientific/histolab/references/filters_preprocessing.md +514 -0
- package/skills/scientific/histolab/references/slide_management.md +172 -0
- package/skills/scientific/histolab/references/tile_extraction.md +421 -0
- package/skills/scientific/histolab/references/tissue_masks.md +251 -0
- package/skills/scientific/histolab/references/visualization.md +547 -0
- package/skills/scientific/hmdb-database/SKILL.md +196 -0
- package/skills/scientific/hmdb-database/references/hmdb_data_fields.md +267 -0
- package/skills/scientific/hypogenic/SKILL.md +655 -0
- package/skills/scientific/hypogenic/references/config_template.yaml +150 -0
- package/skills/scientific/hypothesis-generation/SKILL.md +299 -0
- package/skills/scientific/hypothesis-generation/assets/FORMATTING_GUIDE.md +672 -0
- package/skills/scientific/hypothesis-generation/assets/hypothesis_generation.sty +307 -0
- package/skills/scientific/hypothesis-generation/assets/hypothesis_report_template.tex +572 -0
- package/skills/scientific/hypothesis-generation/references/experimental_design_patterns.md +329 -0
- package/skills/scientific/hypothesis-generation/references/hypothesis_quality_criteria.md +198 -0
- package/skills/scientific/hypothesis-generation/references/literature_search_strategies.md +618 -0
- package/skills/scientific/imaging-data-commons/SKILL.md +1150 -0
- package/skills/scientific/imaging-data-commons/references/bigquery_guide.md +289 -0
- package/skills/scientific/imaging-data-commons/references/dicomweb_guide.md +308 -0
- package/skills/scientific/iso-13485-certification/SKILL.md +680 -0
- package/skills/scientific/iso-13485-certification/assets/templates/procedures/CAPA-procedure-template.md +453 -0
- package/skills/scientific/iso-13485-certification/assets/templates/procedures/document-control-procedure-template.md +567 -0
- package/skills/scientific/iso-13485-certification/assets/templates/quality-manual-template.md +521 -0
- package/skills/scientific/iso-13485-certification/references/gap-analysis-checklist.md +568 -0
- package/skills/scientific/iso-13485-certification/references/iso-13485-requirements.md +610 -0
- package/skills/scientific/iso-13485-certification/references/mandatory-documents.md +606 -0
- package/skills/scientific/iso-13485-certification/references/quality-manual-guide.md +688 -0
- package/skills/scientific/iso-13485-certification/scripts/gap_analyzer.py +440 -0
- package/skills/scientific/kegg-database/SKILL.md +377 -0
- package/skills/scientific/kegg-database/references/kegg_reference.md +326 -0
- package/skills/scientific/kegg-database/scripts/kegg_api.py +251 -0
- package/skills/scientific/labarchive-integration/SKILL.md +268 -0
- package/skills/scientific/labarchive-integration/references/api_reference.md +342 -0
- package/skills/scientific/labarchive-integration/references/authentication_guide.md +357 -0
- package/skills/scientific/labarchive-integration/references/integrations.md +425 -0
- package/skills/scientific/labarchive-integration/scripts/entry_operations.py +334 -0
- package/skills/scientific/labarchive-integration/scripts/notebook_operations.py +269 -0
- package/skills/scientific/labarchive-integration/scripts/setup_config.py +205 -0
- package/skills/scientific/lamindb/SKILL.md +390 -0
- package/skills/scientific/lamindb/references/annotation-validation.md +513 -0
- package/skills/scientific/lamindb/references/core-concepts.md +380 -0
- package/skills/scientific/lamindb/references/data-management.md +433 -0
- package/skills/scientific/lamindb/references/integrations.md +642 -0
- package/skills/scientific/lamindb/references/ontologies.md +497 -0
- package/skills/scientific/lamindb/references/setup-deployment.md +733 -0
- package/skills/scientific/latchbio-integration/SKILL.md +353 -0
- package/skills/scientific/latchbio-integration/references/data-management.md +427 -0
- package/skills/scientific/latchbio-integration/references/resource-configuration.md +429 -0
- package/skills/scientific/latchbio-integration/references/verified-workflows.md +487 -0
- package/skills/scientific/latchbio-integration/references/workflow-creation.md +254 -0
- package/skills/scientific/latex-posters/SKILL.md +964 -0
- package/skills/scientific/latex-posters/assets/baposter_template.tex +257 -0
- package/skills/scientific/latex-posters/assets/beamerposter_template.tex +244 -0
- package/skills/scientific/latex-posters/assets/poster_quality_checklist.md +358 -0
- package/skills/scientific/latex-posters/assets/tikzposter_template.tex +251 -0
- package/skills/scientific/latex-posters/references/README.md +417 -0
- package/skills/scientific/latex-posters/references/latex_poster_packages.md +745 -0
- package/skills/scientific/latex-posters/references/poster_content_guide.md +748 -0
- package/skills/scientific/latex-posters/references/poster_design_principles.md +806 -0
- package/skills/scientific/latex-posters/references/poster_layout_design.md +900 -0
- package/skills/scientific/latex-posters/scripts/review_poster.sh +214 -0
- package/skills/scientific/literature-review/SKILL.md +639 -0
- package/skills/scientific/literature-review/assets/review_template.md +412 -0
- package/skills/scientific/literature-review/references/citation_styles.md +166 -0
- package/skills/scientific/literature-review/references/database_strategies.md +450 -0
- package/skills/scientific/literature-review/scripts/generate_pdf.py +176 -0
- package/skills/scientific/literature-review/scripts/search_databases.py +303 -0
- package/skills/scientific/literature-review/scripts/verify_citations.py +222 -0
- package/skills/scientific/market-research-reports/SKILL.md +907 -0
- package/skills/scientific/market-research-reports/assets/FORMATTING_GUIDE.md +428 -0
- package/skills/scientific/market-research-reports/assets/market_report_template.tex +1380 -0
- package/skills/scientific/market-research-reports/assets/market_research.sty +564 -0
- package/skills/scientific/market-research-reports/references/data_analysis_patterns.md +548 -0
- package/skills/scientific/market-research-reports/references/report_structure_guide.md +999 -0
- package/skills/scientific/market-research-reports/references/visual_generation_guide.md +1077 -0
- package/skills/scientific/market-research-reports/scripts/generate_market_visuals.py +529 -0
- package/skills/scientific/markitdown/SKILL.md +490 -0
- package/skills/scientific/markitdown/assets/example_usage.md +463 -0
- package/skills/scientific/markitdown/references/api_reference.md +396 -0
- package/skills/scientific/markitdown/references/file_formats.md +542 -0
- package/skills/scientific/markitdown/scripts/batch_convert.py +228 -0
- package/skills/scientific/markitdown/scripts/convert_literature.py +283 -0
- package/skills/scientific/markitdown/scripts/convert_with_ai.py +240 -0
- package/skills/scientific/matchms/SKILL.md +203 -0
- package/skills/scientific/matchms/references/filtering.md +288 -0
- package/skills/scientific/matchms/references/importing_exporting.md +416 -0
- package/skills/scientific/matchms/references/similarity.md +380 -0
- package/skills/scientific/matchms/references/workflows.md +647 -0
- package/skills/scientific/matlab/SKILL.md +376 -0
- package/skills/scientific/matlab/references/data-import-export.md +479 -0
- package/skills/scientific/matlab/references/executing-scripts.md +444 -0
- package/skills/scientific/matlab/references/graphics-visualization.md +579 -0
- package/skills/scientific/matlab/references/mathematics.md +553 -0
- package/skills/scientific/matlab/references/matrices-arrays.md +349 -0
- package/skills/scientific/matlab/references/octave-compatibility.md +544 -0
- package/skills/scientific/matlab/references/programming.md +672 -0
- package/skills/scientific/matlab/references/python-integration.md +433 -0
- package/skills/scientific/matplotlib/SKILL.md +361 -0
- package/skills/scientific/matplotlib/references/api_reference.md +412 -0
- package/skills/scientific/matplotlib/references/common_issues.md +563 -0
- package/skills/scientific/matplotlib/references/plot_types.md +476 -0
- package/skills/scientific/matplotlib/references/styling_guide.md +589 -0
- package/skills/scientific/matplotlib/scripts/plot_template.py +401 -0
- package/skills/scientific/matplotlib/scripts/style_configurator.py +409 -0
- package/skills/scientific/medchem/SKILL.md +406 -0
- package/skills/scientific/medchem/references/api_guide.md +600 -0
- package/skills/scientific/medchem/references/rules_catalog.md +604 -0
- package/skills/scientific/medchem/scripts/filter_molecules.py +418 -0
- package/skills/scientific/metabolomics-workbench-database/SKILL.md +259 -0
- package/skills/scientific/metabolomics-workbench-database/references/api_reference.md +494 -0
- package/skills/scientific/modal/SKILL.md +383 -0
- package/skills/scientific/modal/references/api_reference.md +34 -0
- package/skills/scientific/modal/references/examples.md +433 -0
- package/skills/scientific/modal/references/functions.md +274 -0
- package/skills/scientific/modal/references/getting-started.md +92 -0
- package/skills/scientific/modal/references/gpu.md +168 -0
- package/skills/scientific/modal/references/images.md +261 -0
- package/skills/scientific/modal/references/resources.md +129 -0
- package/skills/scientific/modal/references/scaling.md +230 -0
- package/skills/scientific/modal/references/scheduled-jobs.md +303 -0
- package/skills/scientific/modal/references/secrets.md +180 -0
- package/skills/scientific/modal/references/volumes.md +303 -0
- package/skills/scientific/modal/references/web-endpoints.md +337 -0
- package/skills/scientific/molfeat/SKILL.md +511 -0
- package/skills/scientific/molfeat/references/api_reference.md +428 -0
- package/skills/scientific/molfeat/references/available_featurizers.md +333 -0
- package/skills/scientific/molfeat/references/examples.md +723 -0
- package/skills/scientific/networkx/SKILL.md +437 -0
- package/skills/scientific/networkx/references/algorithms.md +383 -0
- package/skills/scientific/networkx/references/generators.md +378 -0
- package/skills/scientific/networkx/references/graph-basics.md +283 -0
- package/skills/scientific/networkx/references/io.md +441 -0
- package/skills/scientific/networkx/references/visualization.md +529 -0
- package/skills/scientific/neurokit2/SKILL.md +356 -0
- package/skills/scientific/neurokit2/references/bio_module.md +417 -0
- package/skills/scientific/neurokit2/references/complexity.md +715 -0
- package/skills/scientific/neurokit2/references/ecg_cardiac.md +355 -0
- package/skills/scientific/neurokit2/references/eda.md +497 -0
- package/skills/scientific/neurokit2/references/eeg.md +506 -0
- package/skills/scientific/neurokit2/references/emg.md +408 -0
- package/skills/scientific/neurokit2/references/eog.md +407 -0
- package/skills/scientific/neurokit2/references/epochs_events.md +471 -0
- package/skills/scientific/neurokit2/references/hrv.md +480 -0
- package/skills/scientific/neurokit2/references/ppg.md +413 -0
- package/skills/scientific/neurokit2/references/rsp.md +510 -0
- package/skills/scientific/neurokit2/references/signal_processing.md +648 -0
- package/skills/scientific/neuropixels-analysis/SKILL.md +350 -0
- package/skills/scientific/neuropixels-analysis/assets/analysis_template.py +271 -0
- package/skills/scientific/neuropixels-analysis/references/AI_CURATION.md +345 -0
- package/skills/scientific/neuropixels-analysis/references/ANALYSIS.md +392 -0
- package/skills/scientific/neuropixels-analysis/references/AUTOMATED_CURATION.md +358 -0
- package/skills/scientific/neuropixels-analysis/references/MOTION_CORRECTION.md +323 -0
- package/skills/scientific/neuropixels-analysis/references/PREPROCESSING.md +273 -0
- package/skills/scientific/neuropixels-analysis/references/QUALITY_METRICS.md +359 -0
- package/skills/scientific/neuropixels-analysis/references/SPIKE_SORTING.md +339 -0
- package/skills/scientific/neuropixels-analysis/references/api_reference.md +415 -0
- package/skills/scientific/neuropixels-analysis/references/plotting_guide.md +454 -0
- package/skills/scientific/neuropixels-analysis/references/standard_workflow.md +385 -0
- package/skills/scientific/neuropixels-analysis/scripts/compute_metrics.py +178 -0
- package/skills/scientific/neuropixels-analysis/scripts/explore_recording.py +168 -0
- package/skills/scientific/neuropixels-analysis/scripts/export_to_phy.py +79 -0
- package/skills/scientific/neuropixels-analysis/scripts/neuropixels_pipeline.py +432 -0
- package/skills/scientific/neuropixels-analysis/scripts/preprocess_recording.py +122 -0
- package/skills/scientific/neuropixels-analysis/scripts/run_sorting.py +98 -0
- package/skills/scientific/offer-k-dense-web/SKILL.md +21 -0
- package/skills/scientific/omero-integration/SKILL.md +251 -0
- package/skills/scientific/omero-integration/references/advanced.md +631 -0
- package/skills/scientific/omero-integration/references/connection.md +369 -0
- package/skills/scientific/omero-integration/references/data_access.md +544 -0
- package/skills/scientific/omero-integration/references/image_processing.md +665 -0
- package/skills/scientific/omero-integration/references/metadata.md +688 -0
- package/skills/scientific/omero-integration/references/rois.md +648 -0
- package/skills/scientific/omero-integration/references/scripts.md +637 -0
- package/skills/scientific/omero-integration/references/tables.md +532 -0
- package/skills/scientific/openalex-database/SKILL.md +494 -0
- package/skills/scientific/openalex-database/references/api_guide.md +371 -0
- package/skills/scientific/openalex-database/references/common_queries.md +381 -0
- package/skills/scientific/openalex-database/scripts/openalex_client.py +337 -0
- package/skills/scientific/openalex-database/scripts/query_helpers.py +306 -0
- package/skills/scientific/opentargets-database/SKILL.md +373 -0
- package/skills/scientific/opentargets-database/references/api_reference.md +249 -0
- package/skills/scientific/opentargets-database/references/evidence_types.md +306 -0
- package/skills/scientific/opentargets-database/references/target_annotations.md +401 -0
- package/skills/scientific/opentargets-database/scripts/query_opentargets.py +403 -0
- package/skills/scientific/opentrons-integration/SKILL.md +573 -0
- package/skills/scientific/opentrons-integration/references/api_reference.md +366 -0
- package/skills/scientific/opentrons-integration/scripts/basic_protocol_template.py +67 -0
- package/skills/scientific/opentrons-integration/scripts/pcr_setup_template.py +154 -0
- package/skills/scientific/opentrons-integration/scripts/serial_dilution_template.py +96 -0
- package/skills/scientific/paper-2-web/SKILL.md +497 -0
- package/skills/scientific/paper-2-web/references/installation.md +141 -0
- package/skills/scientific/paper-2-web/references/paper2poster.md +346 -0
- package/skills/scientific/paper-2-web/references/paper2video.md +305 -0
- package/skills/scientific/paper-2-web/references/paper2web.md +187 -0
- package/skills/scientific/paper-2-web/references/usage_examples.md +436 -0
- package/skills/scientific/pathml/SKILL.md +166 -0
- package/skills/scientific/pathml/references/data_management.md +742 -0
- package/skills/scientific/pathml/references/graphs.md +653 -0
- package/skills/scientific/pathml/references/image_loading.md +448 -0
- package/skills/scientific/pathml/references/machine_learning.md +725 -0
- package/skills/scientific/pathml/references/multiparametric.md +686 -0
- package/skills/scientific/pathml/references/preprocessing.md +722 -0
- package/skills/scientific/pdb-database/SKILL.md +309 -0
- package/skills/scientific/pdb-database/references/api_reference.md +617 -0
- package/skills/scientific/peer-review/SKILL.md +571 -0
- package/skills/scientific/peer-review/references/common_issues.md +552 -0
- package/skills/scientific/peer-review/references/reporting_standards.md +290 -0
- package/skills/scientific/pennylane/SKILL.md +226 -0
- package/skills/scientific/pennylane/references/advanced_features.md +667 -0
- package/skills/scientific/pennylane/references/devices_backends.md +596 -0
- package/skills/scientific/pennylane/references/getting_started.md +227 -0
- package/skills/scientific/pennylane/references/optimization.md +671 -0
- package/skills/scientific/pennylane/references/quantum_chemistry.md +567 -0
- package/skills/scientific/pennylane/references/quantum_circuits.md +437 -0
- package/skills/scientific/pennylane/references/quantum_ml.md +571 -0
- package/skills/scientific/perplexity-search/SKILL.md +448 -0
- package/skills/scientific/perplexity-search/assets/.env.example +16 -0
- package/skills/scientific/perplexity-search/references/model_comparison.md +386 -0
- package/skills/scientific/perplexity-search/references/openrouter_setup.md +454 -0
- package/skills/scientific/perplexity-search/references/search_strategies.md +258 -0
- package/skills/scientific/perplexity-search/scripts/perplexity_search.py +277 -0
- package/skills/scientific/perplexity-search/scripts/setup_env.py +171 -0
- package/skills/scientific/plotly/SKILL.md +267 -0
- package/skills/scientific/plotly/references/chart-types.md +488 -0
- package/skills/scientific/plotly/references/export-interactivity.md +453 -0
- package/skills/scientific/plotly/references/graph-objects.md +302 -0
- package/skills/scientific/plotly/references/layouts-styling.md +457 -0
- package/skills/scientific/plotly/references/plotly-express.md +213 -0
- package/skills/scientific/polars/SKILL.md +387 -0
- package/skills/scientific/polars/references/best_practices.md +649 -0
- package/skills/scientific/polars/references/core_concepts.md +378 -0
- package/skills/scientific/polars/references/io_guide.md +557 -0
- package/skills/scientific/polars/references/operations.md +602 -0
- package/skills/scientific/polars/references/pandas_migration.md +417 -0
- package/skills/scientific/polars/references/transformations.md +549 -0
- package/skills/scientific/pptx-posters/SKILL.md +416 -0
- package/skills/scientific/pptx-posters/assets/poster_html_template.html +257 -0
- package/skills/scientific/pptx-posters/assets/poster_quality_checklist.md +358 -0
- package/skills/scientific/pptx-posters/references/poster_content_guide.md +748 -0
- package/skills/scientific/pptx-posters/references/poster_design_principles.md +806 -0
- package/skills/scientific/pptx-posters/references/poster_layout_design.md +900 -0
- package/skills/scientific/protocolsio-integration/SKILL.md +421 -0
- package/skills/scientific/protocolsio-integration/references/additional_features.md +387 -0
- package/skills/scientific/protocolsio-integration/references/authentication.md +100 -0
- package/skills/scientific/protocolsio-integration/references/discussions.md +225 -0
- package/skills/scientific/protocolsio-integration/references/file_manager.md +412 -0
- package/skills/scientific/protocolsio-integration/references/protocols_api.md +294 -0
- package/skills/scientific/protocolsio-integration/references/workspaces.md +293 -0
- package/skills/scientific/pubchem-database/SKILL.md +574 -0
- package/skills/scientific/pubchem-database/references/api_reference.md +440 -0
- package/skills/scientific/pubchem-database/scripts/bioactivity_query.py +367 -0
- package/skills/scientific/pubchem-database/scripts/compound_search.py +297 -0
- package/skills/scientific/pubmed-database/SKILL.md +460 -0
- package/skills/scientific/pubmed-database/references/api_reference.md +298 -0
- package/skills/scientific/pubmed-database/references/common_queries.md +453 -0
- package/skills/scientific/pubmed-database/references/search_syntax.md +436 -0
- package/skills/scientific/pufferlib/SKILL.md +436 -0
- package/skills/scientific/pufferlib/references/environments.md +508 -0
- package/skills/scientific/pufferlib/references/integration.md +621 -0
- package/skills/scientific/pufferlib/references/policies.md +653 -0
- package/skills/scientific/pufferlib/references/training.md +360 -0
- package/skills/scientific/pufferlib/references/vectorization.md +557 -0
- package/skills/scientific/pufferlib/scripts/env_template.py +340 -0
- package/skills/scientific/pufferlib/scripts/train_template.py +239 -0
- package/skills/scientific/pydeseq2/SKILL.md +559 -0
- package/skills/scientific/pydeseq2/references/api_reference.md +228 -0
- package/skills/scientific/pydeseq2/references/workflow_guide.md +582 -0
- package/skills/scientific/pydeseq2/scripts/run_deseq2_analysis.py +353 -0
- package/skills/scientific/pydicom/SKILL.md +434 -0
- package/skills/scientific/pydicom/references/common_tags.md +228 -0
- package/skills/scientific/pydicom/references/transfer_syntaxes.md +352 -0
- package/skills/scientific/pydicom/scripts/anonymize_dicom.py +137 -0
- package/skills/scientific/pydicom/scripts/dicom_to_image.py +172 -0
- package/skills/scientific/pydicom/scripts/extract_metadata.py +173 -0
- package/skills/scientific/pyhealth/SKILL.md +491 -0
- package/skills/scientific/pyhealth/references/datasets.md +178 -0
- package/skills/scientific/pyhealth/references/medical_coding.md +284 -0
- package/skills/scientific/pyhealth/references/models.md +594 -0
- package/skills/scientific/pyhealth/references/preprocessing.md +638 -0
- package/skills/scientific/pyhealth/references/tasks.md +379 -0
- package/skills/scientific/pyhealth/references/training_evaluation.md +648 -0
- package/skills/scientific/pylabrobot/SKILL.md +185 -0
- package/skills/scientific/pylabrobot/references/analytical-equipment.md +464 -0
- package/skills/scientific/pylabrobot/references/hardware-backends.md +480 -0
- package/skills/scientific/pylabrobot/references/liquid-handling.md +403 -0
- package/skills/scientific/pylabrobot/references/material-handling.md +620 -0
- package/skills/scientific/pylabrobot/references/resources.md +489 -0
- package/skills/scientific/pylabrobot/references/visualization.md +532 -0
- package/skills/scientific/pymatgen/SKILL.md +691 -0
- package/skills/scientific/pymatgen/references/analysis_modules.md +530 -0
- package/skills/scientific/pymatgen/references/core_classes.md +318 -0
- package/skills/scientific/pymatgen/references/io_formats.md +469 -0
- package/skills/scientific/pymatgen/references/materials_project_api.md +517 -0
- package/skills/scientific/pymatgen/references/transformations_workflows.md +591 -0
- package/skills/scientific/pymatgen/scripts/phase_diagram_generator.py +233 -0
- package/skills/scientific/pymatgen/scripts/structure_analyzer.py +266 -0
- package/skills/scientific/pymatgen/scripts/structure_converter.py +169 -0
- package/skills/scientific/pymc/SKILL.md +572 -0
- package/skills/scientific/pymc/assets/hierarchical_model_template.py +333 -0
- package/skills/scientific/pymc/assets/linear_regression_template.py +241 -0
- package/skills/scientific/pymc/references/distributions.md +320 -0
- package/skills/scientific/pymc/references/sampling_inference.md +424 -0
- package/skills/scientific/pymc/references/workflows.md +526 -0
- package/skills/scientific/pymc/scripts/model_comparison.py +387 -0
- package/skills/scientific/pymc/scripts/model_diagnostics.py +350 -0
- package/skills/scientific/pymoo/SKILL.md +571 -0
- package/skills/scientific/pymoo/references/algorithms.md +180 -0
- package/skills/scientific/pymoo/references/constraints_mcdm.md +417 -0
- package/skills/scientific/pymoo/references/operators.md +345 -0
- package/skills/scientific/pymoo/references/problems.md +265 -0
- package/skills/scientific/pymoo/references/visualization.md +353 -0
- package/skills/scientific/pymoo/scripts/custom_problem_example.py +181 -0
- package/skills/scientific/pymoo/scripts/decision_making_example.py +161 -0
- package/skills/scientific/pymoo/scripts/many_objective_example.py +72 -0
- package/skills/scientific/pymoo/scripts/multi_objective_example.py +63 -0
- package/skills/scientific/pymoo/scripts/single_objective_example.py +59 -0
- package/skills/scientific/pyopenms/SKILL.md +217 -0
- package/skills/scientific/pyopenms/references/data_structures.md +497 -0
- package/skills/scientific/pyopenms/references/feature_detection.md +410 -0
- package/skills/scientific/pyopenms/references/file_io.md +349 -0
- package/skills/scientific/pyopenms/references/identification.md +422 -0
- package/skills/scientific/pyopenms/references/metabolomics.md +482 -0
- package/skills/scientific/pyopenms/references/signal_processing.md +433 -0
- package/skills/scientific/pysam/SKILL.md +265 -0
- package/skills/scientific/pysam/references/alignment_files.md +280 -0
- package/skills/scientific/pysam/references/common_workflows.md +520 -0
- package/skills/scientific/pysam/references/sequence_files.md +407 -0
- package/skills/scientific/pysam/references/variant_files.md +365 -0
- package/skills/scientific/pytdc/SKILL.md +460 -0
- package/skills/scientific/pytdc/references/datasets.md +246 -0
- package/skills/scientific/pytdc/references/oracles.md +400 -0
- package/skills/scientific/pytdc/references/utilities.md +684 -0
- package/skills/scientific/pytdc/scripts/benchmark_evaluation.py +327 -0
- package/skills/scientific/pytdc/scripts/load_and_split_data.py +214 -0
- package/skills/scientific/pytdc/scripts/molecular_generation.py +404 -0
- package/skills/scientific/pytorch-lightning/SKILL.md +174 -0
- package/skills/scientific/pytorch-lightning/references/best_practices.md +724 -0
- package/skills/scientific/pytorch-lightning/references/callbacks.md +564 -0
- package/skills/scientific/pytorch-lightning/references/data_module.md +565 -0
- package/skills/scientific/pytorch-lightning/references/distributed_training.md +643 -0
- package/skills/scientific/pytorch-lightning/references/lightning_module.md +487 -0
- package/skills/scientific/pytorch-lightning/references/logging.md +654 -0
- package/skills/scientific/pytorch-lightning/references/trainer.md +641 -0
- package/skills/scientific/pytorch-lightning/scripts/quick_trainer_setup.py +454 -0
- package/skills/scientific/pytorch-lightning/scripts/template_datamodule.py +328 -0
- package/skills/scientific/pytorch-lightning/scripts/template_lightning_module.py +219 -0
- package/skills/scientific/qiskit/SKILL.md +275 -0
- package/skills/scientific/qiskit/references/algorithms.md +607 -0
- package/skills/scientific/qiskit/references/backends.md +433 -0
- package/skills/scientific/qiskit/references/circuits.md +197 -0
- package/skills/scientific/qiskit/references/patterns.md +533 -0
- package/skills/scientific/qiskit/references/primitives.md +277 -0
- package/skills/scientific/qiskit/references/setup.md +99 -0
- package/skills/scientific/qiskit/references/transpilation.md +286 -0
- package/skills/scientific/qiskit/references/visualization.md +415 -0
- package/skills/scientific/qutip/SKILL.md +318 -0
- package/skills/scientific/qutip/references/advanced.md +555 -0
- package/skills/scientific/qutip/references/analysis.md +523 -0
- package/skills/scientific/qutip/references/core_concepts.md +293 -0
- package/skills/scientific/qutip/references/time_evolution.md +348 -0
- package/skills/scientific/qutip/references/visualization.md +431 -0
- package/skills/scientific/rdkit/SKILL.md +780 -0
- package/skills/scientific/rdkit/references/api_reference.md +432 -0
- package/skills/scientific/rdkit/references/descriptors_reference.md +595 -0
- package/skills/scientific/rdkit/references/smarts_patterns.md +668 -0
- package/skills/scientific/rdkit/scripts/molecular_properties.py +243 -0
- package/skills/scientific/rdkit/scripts/similarity_search.py +297 -0
- package/skills/scientific/rdkit/scripts/substructure_filter.py +386 -0
- package/skills/scientific/reactome-database/SKILL.md +278 -0
- package/skills/scientific/reactome-database/references/api_reference.md +465 -0
- package/skills/scientific/reactome-database/scripts/reactome_query.py +286 -0
- package/skills/scientific/research-grants/SKILL.md +957 -0
- package/skills/scientific/research-grants/assets/budget_justification_template.md +453 -0
- package/skills/scientific/research-grants/assets/nih_specific_aims_template.md +166 -0
- package/skills/scientific/research-grants/assets/nsf_project_summary_template.md +92 -0
- package/skills/scientific/research-grants/references/README.md +285 -0
- package/skills/scientific/research-grants/references/broader_impacts.md +392 -0
- package/skills/scientific/research-grants/references/darpa_guidelines.md +636 -0
- package/skills/scientific/research-grants/references/doe_guidelines.md +586 -0
- package/skills/scientific/research-grants/references/nih_guidelines.md +851 -0
- package/skills/scientific/research-grants/references/nsf_guidelines.md +570 -0
- package/skills/scientific/research-grants/references/nstc_guidelines.md +733 -0
- package/skills/scientific/research-grants/references/specific_aims_guide.md +458 -0
- package/skills/scientific/research-lookup/SKILL.md +508 -0
- package/skills/scientific/research-lookup/scripts/examples.py +174 -0
- package/skills/scientific/research-lookup/scripts/lookup.py +187 -0
- package/skills/scientific/research-lookup/scripts/research_lookup.py +474 -0
- package/skills/scientific/rowan/SKILL.md +427 -0
- package/skills/scientific/rowan/references/api_reference.md +413 -0
- package/skills/scientific/rowan/references/molecule_handling.md +429 -0
- package/skills/scientific/rowan/references/proteins_and_organization.md +499 -0
- package/skills/scientific/rowan/references/rdkit_native.md +438 -0
- package/skills/scientific/rowan/references/results_interpretation.md +481 -0
- package/skills/scientific/rowan/references/workflow_types.md +591 -0
- package/skills/scientific/scanpy/SKILL.md +386 -0
- package/skills/scientific/scanpy/assets/analysis_template.py +295 -0
- package/skills/scientific/scanpy/references/api_reference.md +251 -0
- package/skills/scientific/scanpy/references/plotting_guide.md +352 -0
- package/skills/scientific/scanpy/references/standard_workflow.md +206 -0
- package/skills/scientific/scanpy/scripts/qc_analysis.py +200 -0
- package/skills/scientific/scholar-evaluation/SKILL.md +300 -0
- package/skills/scientific/scholar-evaluation/references/evaluation_framework.md +663 -0
- package/skills/scientific/scholar-evaluation/scripts/calculate_scores.py +378 -0
- package/skills/scientific/scientific-brainstorming/SKILL.md +191 -0
- package/skills/scientific/scientific-brainstorming/references/brainstorming_methods.md +326 -0
- package/skills/scientific/scientific-critical-thinking/SKILL.md +572 -0
- package/skills/scientific/scientific-critical-thinking/references/common_biases.md +364 -0
- package/skills/scientific/scientific-critical-thinking/references/evidence_hierarchy.md +484 -0
- package/skills/scientific/scientific-critical-thinking/references/experimental_design.md +496 -0
- package/skills/scientific/scientific-critical-thinking/references/logical_fallacies.md +478 -0
- package/skills/scientific/scientific-critical-thinking/references/scientific_method.md +169 -0
- package/skills/scientific/scientific-critical-thinking/references/statistical_pitfalls.md +506 -0
- package/skills/scientific/scientific-schematics/SKILL.md +621 -0
- package/skills/scientific/scientific-schematics/references/QUICK_REFERENCE.md +207 -0
- package/skills/scientific/scientific-schematics/references/README.md +327 -0
- package/skills/scientific/scientific-schematics/references/best_practices.md +559 -0
- package/skills/scientific/scientific-schematics/scripts/example_usage.sh +89 -0
- package/skills/scientific/scientific-schematics/scripts/generate_schematic.py +139 -0
- package/skills/scientific/scientific-schematics/scripts/generate_schematic_ai.py +838 -0
- package/skills/scientific/scientific-slides/SKILL.md +1156 -0
- package/skills/scientific/scientific-slides/assets/beamer_template_conference.tex +407 -0
- package/skills/scientific/scientific-slides/assets/beamer_template_defense.tex +906 -0
- package/skills/scientific/scientific-slides/assets/beamer_template_seminar.tex +870 -0
- package/skills/scientific/scientific-slides/assets/powerpoint_design_guide.md +662 -0
- package/skills/scientific/scientific-slides/assets/timing_guidelines.md +597 -0
- package/skills/scientific/scientific-slides/references/beamer_guide.md +1019 -0
- package/skills/scientific/scientific-slides/references/data_visualization_slides.md +708 -0
- package/skills/scientific/scientific-slides/references/presentation_structure.md +642 -0
- package/skills/scientific/scientific-slides/references/slide_design_principles.md +849 -0
- package/skills/scientific/scientific-slides/references/talk_types_guide.md +687 -0
- package/skills/scientific/scientific-slides/references/visual_review_workflow.md +775 -0
- package/skills/scientific/scientific-slides/scripts/generate_slide_image.py +140 -0
- package/skills/scientific/scientific-slides/scripts/generate_slide_image_ai.py +763 -0
- package/skills/scientific/scientific-slides/scripts/pdf_to_images.py +221 -0
- package/skills/scientific/scientific-slides/scripts/slides_to_pdf.py +235 -0
- package/skills/scientific/scientific-slides/scripts/validate_presentation.py +403 -0
- package/skills/scientific/scientific-visualization/SKILL.md +779 -0
- package/skills/scientific/scientific-visualization/assets/color_palettes.py +197 -0
- package/skills/scientific/scientific-visualization/assets/nature.mplstyle +63 -0
- package/skills/scientific/scientific-visualization/assets/presentation.mplstyle +61 -0
- package/skills/scientific/scientific-visualization/assets/publication.mplstyle +68 -0
- package/skills/scientific/scientific-visualization/references/color_palettes.md +348 -0
- package/skills/scientific/scientific-visualization/references/journal_requirements.md +320 -0
- package/skills/scientific/scientific-visualization/references/matplotlib_examples.md +620 -0
- package/skills/scientific/scientific-visualization/references/publication_guidelines.md +205 -0
- package/skills/scientific/scientific-visualization/scripts/figure_export.py +343 -0
- package/skills/scientific/scientific-visualization/scripts/style_presets.py +416 -0
- package/skills/scientific/scientific-writing/SKILL.md +720 -0
- package/skills/scientific/scientific-writing/assets/REPORT_FORMATTING_GUIDE.md +574 -0
- package/skills/scientific/scientific-writing/assets/scientific_report.sty +606 -0
- package/skills/scientific/scientific-writing/assets/scientific_report_template.tex +449 -0
- package/skills/scientific/scientific-writing/references/citation_styles.md +720 -0
- package/skills/scientific/scientific-writing/references/figures_tables.md +806 -0
- package/skills/scientific/scientific-writing/references/imrad_structure.md +658 -0
- package/skills/scientific/scientific-writing/references/professional_report_formatting.md +664 -0
- package/skills/scientific/scientific-writing/references/reporting_guidelines.md +748 -0
- package/skills/scientific/scientific-writing/references/writing_principles.md +824 -0
- package/skills/scientific/scikit-bio/SKILL.md +437 -0
- package/skills/scientific/scikit-bio/references/api_reference.md +749 -0
- package/skills/scientific/scikit-learn/SKILL.md +521 -0
- package/skills/scientific/scikit-learn/references/model_evaluation.md +592 -0
- package/skills/scientific/scikit-learn/references/pipelines_and_composition.md +612 -0
- package/skills/scientific/scikit-learn/references/preprocessing.md +606 -0
- package/skills/scientific/scikit-learn/references/quick_reference.md +433 -0
- package/skills/scientific/scikit-learn/references/supervised_learning.md +378 -0
- package/skills/scientific/scikit-learn/references/unsupervised_learning.md +505 -0
- package/skills/scientific/scikit-learn/scripts/classification_pipeline.py +257 -0
- package/skills/scientific/scikit-learn/scripts/clustering_analysis.py +386 -0
- package/skills/scientific/scikit-survival/SKILL.md +399 -0
- package/skills/scientific/scikit-survival/references/competing-risks.md +397 -0
- package/skills/scientific/scikit-survival/references/cox-models.md +182 -0
- package/skills/scientific/scikit-survival/references/data-handling.md +494 -0
- package/skills/scientific/scikit-survival/references/ensemble-models.md +327 -0
- package/skills/scientific/scikit-survival/references/evaluation-metrics.md +378 -0
- package/skills/scientific/scikit-survival/references/svm-models.md +411 -0
- package/skills/scientific/scvi-tools/SKILL.md +190 -0
- package/skills/scientific/scvi-tools/references/differential-expression.md +581 -0
- package/skills/scientific/scvi-tools/references/models-atac-seq.md +321 -0
- package/skills/scientific/scvi-tools/references/models-multimodal.md +367 -0
- package/skills/scientific/scvi-tools/references/models-scrna-seq.md +330 -0
- package/skills/scientific/scvi-tools/references/models-spatial.md +438 -0
- package/skills/scientific/scvi-tools/references/models-specialized.md +408 -0
- package/skills/scientific/scvi-tools/references/theoretical-foundations.md +438 -0
- package/skills/scientific/scvi-tools/references/workflows.md +546 -0
- package/skills/scientific/seaborn/SKILL.md +673 -0
- package/skills/scientific/seaborn/references/examples.md +822 -0
- package/skills/scientific/seaborn/references/function_reference.md +770 -0
- package/skills/scientific/seaborn/references/objects_interface.md +964 -0
- package/skills/scientific/shap/SKILL.md +566 -0
- package/skills/scientific/shap/references/explainers.md +339 -0
- package/skills/scientific/shap/references/plots.md +507 -0
- package/skills/scientific/shap/references/theory.md +449 -0
- package/skills/scientific/shap/references/workflows.md +605 -0
- package/skills/scientific/simpy/SKILL.md +429 -0
- package/skills/scientific/simpy/references/events.md +374 -0
- package/skills/scientific/simpy/references/monitoring.md +475 -0
- package/skills/scientific/simpy/references/process-interaction.md +424 -0
- package/skills/scientific/simpy/references/real-time.md +395 -0
- package/skills/scientific/simpy/references/resources.md +275 -0
- package/skills/scientific/simpy/scripts/basic_simulation_template.py +193 -0
- package/skills/scientific/simpy/scripts/resource_monitor.py +345 -0
- package/skills/scientific/stable-baselines3/SKILL.md +299 -0
- package/skills/scientific/stable-baselines3/references/algorithms.md +333 -0
- package/skills/scientific/stable-baselines3/references/callbacks.md +556 -0
- package/skills/scientific/stable-baselines3/references/custom_environments.md +526 -0
- package/skills/scientific/stable-baselines3/references/vectorized_envs.md +568 -0
- package/skills/scientific/stable-baselines3/scripts/custom_env_template.py +314 -0
- package/skills/scientific/stable-baselines3/scripts/evaluate_agent.py +245 -0
- package/skills/scientific/stable-baselines3/scripts/train_rl_agent.py +165 -0
- package/skills/scientific/statistical-analysis/SKILL.md +632 -0
- package/skills/scientific/statistical-analysis/references/assumptions_and_diagnostics.md +369 -0
- package/skills/scientific/statistical-analysis/references/bayesian_statistics.md +661 -0
- package/skills/scientific/statistical-analysis/references/effect_sizes_and_power.md +581 -0
- package/skills/scientific/statistical-analysis/references/reporting_standards.md +469 -0
- package/skills/scientific/statistical-analysis/references/test_selection_guide.md +129 -0
- package/skills/scientific/statistical-analysis/scripts/assumption_checks.py +539 -0
- package/skills/scientific/statsmodels/SKILL.md +614 -0
- package/skills/scientific/statsmodels/references/discrete_choice.md +669 -0
- package/skills/scientific/statsmodels/references/glm.md +619 -0
- package/skills/scientific/statsmodels/references/linear_models.md +447 -0
- package/skills/scientific/statsmodels/references/stats_diagnostics.md +859 -0
- package/skills/scientific/statsmodels/references/time_series.md +716 -0
- package/skills/scientific/string-database/SKILL.md +534 -0
- package/skills/scientific/string-database/references/string_reference.md +455 -0
- package/skills/scientific/string-database/scripts/string_api.py +369 -0
- package/skills/scientific/sympy/SKILL.md +500 -0
- package/skills/scientific/sympy/references/advanced-topics.md +635 -0
- package/skills/scientific/sympy/references/code-generation-printing.md +599 -0
- package/skills/scientific/sympy/references/core-capabilities.md +348 -0
- package/skills/scientific/sympy/references/matrices-linear-algebra.md +526 -0
- package/skills/scientific/sympy/references/physics-mechanics.md +592 -0
- package/skills/scientific/torch_geometric/SKILL.md +676 -0
- package/skills/scientific/torch_geometric/references/datasets_reference.md +574 -0
- package/skills/scientific/torch_geometric/references/layers_reference.md +485 -0
- package/skills/scientific/torch_geometric/references/transforms_reference.md +679 -0
- package/skills/scientific/torch_geometric/scripts/benchmark_model.py +309 -0
- package/skills/scientific/torch_geometric/scripts/create_gnn_template.py +529 -0
- package/skills/scientific/torch_geometric/scripts/visualize_graph.py +313 -0
- package/skills/scientific/torchdrug/SKILL.md +450 -0
- package/skills/scientific/torchdrug/references/core_concepts.md +565 -0
- package/skills/scientific/torchdrug/references/datasets.md +380 -0
- package/skills/scientific/torchdrug/references/knowledge_graphs.md +320 -0
- package/skills/scientific/torchdrug/references/models_architectures.md +541 -0
- package/skills/scientific/torchdrug/references/molecular_generation.md +352 -0
- package/skills/scientific/torchdrug/references/molecular_property_prediction.md +169 -0
- package/skills/scientific/torchdrug/references/protein_modeling.md +272 -0
- package/skills/scientific/torchdrug/references/retrosynthesis.md +436 -0
- package/skills/scientific/transformers/SKILL.md +164 -0
- package/skills/scientific/transformers/references/generation.md +467 -0
- package/skills/scientific/transformers/references/models.md +361 -0
- package/skills/scientific/transformers/references/pipelines.md +335 -0
- package/skills/scientific/transformers/references/tokenizers.md +447 -0
- package/skills/scientific/transformers/references/training.md +500 -0
- package/skills/scientific/treatment-plans/SKILL.md +1582 -0
- package/skills/scientific/treatment-plans/assets/STYLING_QUICK_REFERENCE.md +185 -0
- package/skills/scientific/treatment-plans/assets/chronic_disease_management_plan.tex +665 -0
- package/skills/scientific/treatment-plans/assets/general_medical_treatment_plan.tex +547 -0
- package/skills/scientific/treatment-plans/assets/medical_treatment_plan.sty +222 -0
- package/skills/scientific/treatment-plans/assets/mental_health_treatment_plan.tex +774 -0
- package/skills/scientific/treatment-plans/assets/one_page_treatment_plan.tex +193 -0
- package/skills/scientific/treatment-plans/assets/pain_management_plan.tex +799 -0
- package/skills/scientific/treatment-plans/assets/perioperative_care_plan.tex +753 -0
- package/skills/scientific/treatment-plans/assets/quality_checklist.md +471 -0
- package/skills/scientific/treatment-plans/assets/rehabilitation_treatment_plan.tex +756 -0
- package/skills/scientific/treatment-plans/references/README.md +488 -0
- package/skills/scientific/treatment-plans/references/goal_setting_frameworks.md +411 -0
- package/skills/scientific/treatment-plans/references/intervention_guidelines.md +507 -0
- package/skills/scientific/treatment-plans/references/regulatory_compliance.md +476 -0
- package/skills/scientific/treatment-plans/references/specialty_specific_guidelines.md +655 -0
- package/skills/scientific/treatment-plans/references/treatment_plan_standards.md +485 -0
- package/skills/scientific/treatment-plans/scripts/check_completeness.py +318 -0
- package/skills/scientific/treatment-plans/scripts/generate_template.py +244 -0
- package/skills/scientific/treatment-plans/scripts/timeline_generator.py +369 -0
- package/skills/scientific/treatment-plans/scripts/validate_treatment_plan.py +367 -0
- package/skills/scientific/umap-learn/SKILL.md +479 -0
- package/skills/scientific/umap-learn/references/api_reference.md +532 -0
- package/skills/scientific/uniprot-database/SKILL.md +195 -0
- package/skills/scientific/uniprot-database/references/api_examples.md +413 -0
- package/skills/scientific/uniprot-database/references/api_fields.md +275 -0
- package/skills/scientific/uniprot-database/references/id_mapping_databases.md +285 -0
- package/skills/scientific/uniprot-database/references/query_syntax.md +256 -0
- package/skills/scientific/uniprot-database/scripts/uniprot_client.py +341 -0
- package/skills/scientific/uspto-database/SKILL.md +607 -0
- package/skills/scientific/uspto-database/references/additional_apis.md +394 -0
- package/skills/scientific/uspto-database/references/patentsearch_api.md +266 -0
- package/skills/scientific/uspto-database/references/peds_api.md +212 -0
- package/skills/scientific/uspto-database/references/trademark_api.md +358 -0
- package/skills/scientific/uspto-database/scripts/patent_search.py +290 -0
- package/skills/scientific/uspto-database/scripts/peds_client.py +285 -0
- package/skills/scientific/uspto-database/scripts/trademark_client.py +311 -0
- package/skills/scientific/vaex/SKILL.md +182 -0
- package/skills/scientific/vaex/references/core_dataframes.md +367 -0
- package/skills/scientific/vaex/references/data_processing.md +555 -0
- package/skills/scientific/vaex/references/io_operations.md +703 -0
- package/skills/scientific/vaex/references/machine_learning.md +728 -0
- package/skills/scientific/vaex/references/performance.md +571 -0
- package/skills/scientific/vaex/references/visualization.md +613 -0
- package/skills/scientific/venue-templates/SKILL.md +690 -0
- package/skills/scientific/venue-templates/assets/examples/cell_summary_example.md +247 -0
- package/skills/scientific/venue-templates/assets/examples/medical_structured_abstract.md +313 -0
- package/skills/scientific/venue-templates/assets/examples/nature_abstract_examples.md +213 -0
- package/skills/scientific/venue-templates/assets/examples/neurips_introduction_example.md +245 -0
- package/skills/scientific/venue-templates/assets/grants/nih_specific_aims.tex +235 -0
- package/skills/scientific/venue-templates/assets/grants/nsf_proposal_template.tex +375 -0
- package/skills/scientific/venue-templates/assets/journals/nature_article.tex +171 -0
- package/skills/scientific/venue-templates/assets/journals/neurips_article.tex +283 -0
- package/skills/scientific/venue-templates/assets/journals/plos_one.tex +317 -0
- package/skills/scientific/venue-templates/assets/posters/beamerposter_academic.tex +311 -0
- package/skills/scientific/venue-templates/references/cell_press_style.md +483 -0
- package/skills/scientific/venue-templates/references/conferences_formatting.md +564 -0
- package/skills/scientific/venue-templates/references/cs_conference_style.md +463 -0
- package/skills/scientific/venue-templates/references/grants_requirements.md +787 -0
- package/skills/scientific/venue-templates/references/journals_formatting.md +486 -0
- package/skills/scientific/venue-templates/references/medical_journal_styles.md +535 -0
- package/skills/scientific/venue-templates/references/ml_conference_style.md +556 -0
- package/skills/scientific/venue-templates/references/nature_science_style.md +405 -0
- package/skills/scientific/venue-templates/references/posters_guidelines.md +628 -0
- package/skills/scientific/venue-templates/references/reviewer_expectations.md +417 -0
- package/skills/scientific/venue-templates/references/venue_writing_styles.md +321 -0
- package/skills/scientific/venue-templates/scripts/customize_template.py +206 -0
- package/skills/scientific/venue-templates/scripts/query_template.py +260 -0
- package/skills/scientific/venue-templates/scripts/validate_format.py +255 -0
- package/skills/scientific/zarr-python/SKILL.md +779 -0
- package/skills/scientific/zarr-python/references/api_reference.md +515 -0
- package/skills/scientific/zinc-database/SKILL.md +404 -0
- package/skills/scientific/zinc-database/references/api_reference.md +692 -0
- package/skills/scripts/instinct-cli.py +494 -0
- package/skills/security-review/SKILL.md +494 -0
- package/skills/security-review/cloud-infrastructure-security.md +361 -0
- package/skills/setup/SKILL.md +966 -0
- package/skills/skc-setup/SKILL.md +935 -0
- package/skills/skill/SKILL.md +406 -0
- package/skills/springboot-patterns/SKILL.md +304 -0
- package/skills/springboot-security/SKILL.md +119 -0
- package/skills/springboot-tdd/SKILL.md +157 -0
- package/skills/springboot-verification/SKILL.md +100 -0
- package/skills/strategic-compact/SKILL.md +63 -0
- package/skills/strategic-compact/suggest-compact.sh +52 -0
- package/skills/subagent/SKILL.md +180 -0
- package/skills/swarm/SKILL.md +673 -0
- package/skills/tdd/SKILL.md +104 -0
- package/skills/tdd-workflow/SKILL.md +409 -0
- package/skills/trading/SKILL.md +85 -0
- package/skills/ultra-brainstorm/SKILL.md +54 -0
- package/skills/ultra-debugging/CREATION-LOG.md +119 -0
- package/skills/ultra-debugging/SKILL.md +296 -0
- package/skills/ultra-debugging/condition-based-waiting-example.ts +158 -0
- package/skills/ultra-debugging/condition-based-waiting.md +115 -0
- package/skills/ultra-debugging/defense-in-depth.md +122 -0
- package/skills/ultra-debugging/find-polluter.sh +63 -0
- package/skills/ultra-debugging/root-cause-tracing.md +169 -0
- package/skills/ultra-debugging/test-academic.md +14 -0
- package/skills/ultra-debugging/test-pressure-1.md +58 -0
- package/skills/ultra-debugging/test-pressure-2.md +68 -0
- package/skills/ultra-debugging/test-pressure-3.md +69 -0
- package/skills/ultra-execute/SKILL.md +84 -0
- package/skills/ultra-executor/SKILL.md +72 -0
- package/skills/ultra-finish/SKILL.md +200 -0
- package/skills/ultra-git/SKILL.md +218 -0
- package/skills/ultra-plan/SKILL.md +116 -0
- package/skills/ultra-skill-writing/SKILL.md +655 -0
- package/skills/ultra-skill-writing/anthropic-best-practices.md +1150 -0
- package/skills/ultra-skill-writing/examples/CLAUDE_MD_TESTING.md +189 -0
- package/skills/ultra-skill-writing/graphviz-conventions.dot +172 -0
- package/skills/ultra-skill-writing/persuasion-principles.md +187 -0
- package/skills/ultra-skill-writing/render-graphs.js +168 -0
- package/skills/ultra-skill-writing/testing-skills-with-subagents.md +384 -0
- package/skills/ultra-subagent/SKILL.md +242 -0
- package/skills/ultra-subagent/code-quality-reviewer-prompt.md +20 -0
- package/skills/ultra-subagent/implementer-prompt.md +78 -0
- package/skills/ultra-subagent/spec-reviewer-prompt.md +61 -0
- package/skills/ultrapilot/SKILL.md +632 -0
- package/skills/ultraqa/SKILL.md +135 -0
- package/skills/ultrawork/SKILL.md +95 -0
- package/skills/verification-loop/SKILL.md +120 -0
- package/skills/verify/SKILL.md +139 -0
- package/skills/writer-memory/SKILL.md +443 -0
- package/skills/writer-memory/lib/character-tracker.ts +338 -0
- package/skills/writer-memory/lib/memory-manager.ts +804 -0
- package/skills/writer-memory/lib/relationship-graph.ts +400 -0
- package/skills/writer-memory/lib/scene-organizer.ts +544 -0
- package/skills/writer-memory/lib/synopsis-builder.ts +339 -0
- package/skills/writer-memory/templates/synopsis-template.md +46 -0
- package/templates/hooks/keyword-detector.mjs +394 -0
- package/templates/hooks/lib/atomic-write.mjs +93 -0
- package/templates/hooks/lib/stdin.mjs +62 -0
- package/templates/hooks/persistent-mode.mjs +819 -0
- package/templates/hooks/post-tool-use-failure.mjs +165 -0
- package/templates/hooks/post-tool-use.mjs +135 -0
- package/templates/hooks/pre-tool-use.mjs +160 -0
- package/templates/hooks/session-start.mjs +306 -0
- package/templates/hooks/stop-continuation.mjs +14 -0
- package/templates/rules/README.md +40 -0
- package/templates/rules/coding-style.md +74 -0
- package/templates/rules/git-workflow.md +41 -0
- package/templates/rules/performance.md +40 -0
- package/templates/rules/security.md +41 -0
- package/templates/rules/testing.md +42 -0
|
@@ -0,0 +1,1276 @@
|
|
|
1
|
+
#!/usr/bin/env python3
|
|
2
|
+
"""
|
|
3
|
+
Library for working with Word documents: comments, tracked changes, and editing.
|
|
4
|
+
|
|
5
|
+
Usage:
|
|
6
|
+
from skills.docx.scripts.document import Document
|
|
7
|
+
|
|
8
|
+
# Initialize
|
|
9
|
+
doc = Document('workspace/unpacked')
|
|
10
|
+
doc = Document('workspace/unpacked', author="John Doe", initials="JD")
|
|
11
|
+
|
|
12
|
+
# Find nodes
|
|
13
|
+
node = doc["word/document.xml"].get_node(tag="w:del", attrs={"w:id": "1"})
|
|
14
|
+
node = doc["word/document.xml"].get_node(tag="w:p", line_number=10)
|
|
15
|
+
|
|
16
|
+
# Add comments
|
|
17
|
+
doc.add_comment(start=node, end=node, text="Comment text")
|
|
18
|
+
doc.reply_to_comment(parent_comment_id=0, text="Reply text")
|
|
19
|
+
|
|
20
|
+
# Suggest tracked changes
|
|
21
|
+
doc["word/document.xml"].suggest_deletion(node) # Delete content
|
|
22
|
+
doc["word/document.xml"].revert_insertion(ins_node) # Reject insertion
|
|
23
|
+
doc["word/document.xml"].revert_deletion(del_node) # Reject deletion
|
|
24
|
+
|
|
25
|
+
# Save
|
|
26
|
+
doc.save()
|
|
27
|
+
"""
|
|
28
|
+
|
|
29
|
+
import html
|
|
30
|
+
import random
|
|
31
|
+
import shutil
|
|
32
|
+
import tempfile
|
|
33
|
+
from datetime import datetime, timezone
|
|
34
|
+
from pathlib import Path
|
|
35
|
+
|
|
36
|
+
from defusedxml import minidom
|
|
37
|
+
from ooxml.scripts.pack import pack_document
|
|
38
|
+
from ooxml.scripts.validation.docx import DOCXSchemaValidator
|
|
39
|
+
from ooxml.scripts.validation.redlining import RedliningValidator
|
|
40
|
+
|
|
41
|
+
from .utilities import XMLEditor
|
|
42
|
+
|
|
43
|
+
# Path to template files
|
|
44
|
+
TEMPLATE_DIR = Path(__file__).parent / "templates"
|
|
45
|
+
|
|
46
|
+
|
|
47
|
+
class DocxXMLEditor(XMLEditor):
|
|
48
|
+
"""XMLEditor that automatically applies RSID, author, and date to new elements.
|
|
49
|
+
|
|
50
|
+
Automatically adds attributes to elements that support them when inserting new content:
|
|
51
|
+
- w:rsidR, w:rsidRDefault, w:rsidP (for w:p and w:r elements)
|
|
52
|
+
- w:author and w:date (for w:ins, w:del, w:comment elements)
|
|
53
|
+
- w:id (for w:ins and w:del elements)
|
|
54
|
+
|
|
55
|
+
Attributes:
|
|
56
|
+
dom (defusedxml.minidom.Document): The DOM document for direct manipulation
|
|
57
|
+
"""
|
|
58
|
+
|
|
59
|
+
def __init__(
|
|
60
|
+
self, xml_path, rsid: str, author: str = "Scientific-Writer", initials: str = "SW"
|
|
61
|
+
):
|
|
62
|
+
"""Initialize with required RSID and optional author.
|
|
63
|
+
|
|
64
|
+
Args:
|
|
65
|
+
xml_path: Path to XML file to edit
|
|
66
|
+
rsid: RSID to automatically apply to new elements
|
|
67
|
+
author: Author name for tracked changes and comments (default: "Scientific-Writer")
|
|
68
|
+
initials: Author initials (default: "SW")
|
|
69
|
+
"""
|
|
70
|
+
super().__init__(xml_path)
|
|
71
|
+
self.rsid = rsid
|
|
72
|
+
self.author = author
|
|
73
|
+
self.initials = initials
|
|
74
|
+
|
|
75
|
+
def _get_next_change_id(self):
|
|
76
|
+
"""Get the next available change ID by checking all tracked change elements."""
|
|
77
|
+
max_id = -1
|
|
78
|
+
for tag in ("w:ins", "w:del"):
|
|
79
|
+
elements = self.dom.getElementsByTagName(tag)
|
|
80
|
+
for elem in elements:
|
|
81
|
+
change_id = elem.getAttribute("w:id")
|
|
82
|
+
if change_id:
|
|
83
|
+
try:
|
|
84
|
+
max_id = max(max_id, int(change_id))
|
|
85
|
+
except ValueError:
|
|
86
|
+
pass
|
|
87
|
+
return max_id + 1
|
|
88
|
+
|
|
89
|
+
def _ensure_w16du_namespace(self):
|
|
90
|
+
"""Ensure w16du namespace is declared on the root element."""
|
|
91
|
+
root = self.dom.documentElement
|
|
92
|
+
if not root.hasAttribute("xmlns:w16du"): # type: ignore
|
|
93
|
+
root.setAttribute( # type: ignore
|
|
94
|
+
"xmlns:w16du",
|
|
95
|
+
"http://schemas.microsoft.com/office/word/2023/wordml/word16du",
|
|
96
|
+
)
|
|
97
|
+
|
|
98
|
+
def _ensure_w16cex_namespace(self):
|
|
99
|
+
"""Ensure w16cex namespace is declared on the root element."""
|
|
100
|
+
root = self.dom.documentElement
|
|
101
|
+
if not root.hasAttribute("xmlns:w16cex"): # type: ignore
|
|
102
|
+
root.setAttribute( # type: ignore
|
|
103
|
+
"xmlns:w16cex",
|
|
104
|
+
"http://schemas.microsoft.com/office/word/2018/wordml/cex",
|
|
105
|
+
)
|
|
106
|
+
|
|
107
|
+
def _ensure_w14_namespace(self):
|
|
108
|
+
"""Ensure w14 namespace is declared on the root element."""
|
|
109
|
+
root = self.dom.documentElement
|
|
110
|
+
if not root.hasAttribute("xmlns:w14"): # type: ignore
|
|
111
|
+
root.setAttribute( # type: ignore
|
|
112
|
+
"xmlns:w14",
|
|
113
|
+
"http://schemas.microsoft.com/office/word/2010/wordml",
|
|
114
|
+
)
|
|
115
|
+
|
|
116
|
+
def _inject_attributes_to_nodes(self, nodes):
|
|
117
|
+
"""Inject RSID, author, and date attributes into DOM nodes where applicable.
|
|
118
|
+
|
|
119
|
+
Adds attributes to elements that support them:
|
|
120
|
+
- w:r: gets w:rsidR (or w:rsidDel if inside w:del)
|
|
121
|
+
- w:p: gets w:rsidR, w:rsidRDefault, w:rsidP, w14:paraId, w14:textId
|
|
122
|
+
- w:t: gets xml:space="preserve" if text has leading/trailing whitespace
|
|
123
|
+
- w:ins, w:del: get w:id, w:author, w:date, w16du:dateUtc
|
|
124
|
+
- w:comment: gets w:author, w:date, w:initials
|
|
125
|
+
- w16cex:commentExtensible: gets w16cex:dateUtc
|
|
126
|
+
|
|
127
|
+
Args:
|
|
128
|
+
nodes: List of DOM nodes to process
|
|
129
|
+
"""
|
|
130
|
+
from datetime import datetime, timezone
|
|
131
|
+
|
|
132
|
+
timestamp = datetime.now(timezone.utc).strftime("%Y-%m-%dT%H:%M:%SZ")
|
|
133
|
+
|
|
134
|
+
def is_inside_deletion(elem):
|
|
135
|
+
"""Check if element is inside a w:del element."""
|
|
136
|
+
parent = elem.parentNode
|
|
137
|
+
while parent:
|
|
138
|
+
if parent.nodeType == parent.ELEMENT_NODE and parent.tagName == "w:del":
|
|
139
|
+
return True
|
|
140
|
+
parent = parent.parentNode
|
|
141
|
+
return False
|
|
142
|
+
|
|
143
|
+
def add_rsid_to_p(elem):
|
|
144
|
+
if not elem.hasAttribute("w:rsidR"):
|
|
145
|
+
elem.setAttribute("w:rsidR", self.rsid)
|
|
146
|
+
if not elem.hasAttribute("w:rsidRDefault"):
|
|
147
|
+
elem.setAttribute("w:rsidRDefault", self.rsid)
|
|
148
|
+
if not elem.hasAttribute("w:rsidP"):
|
|
149
|
+
elem.setAttribute("w:rsidP", self.rsid)
|
|
150
|
+
# Add w14:paraId and w14:textId if not present
|
|
151
|
+
if not elem.hasAttribute("w14:paraId"):
|
|
152
|
+
self._ensure_w14_namespace()
|
|
153
|
+
elem.setAttribute("w14:paraId", _generate_hex_id())
|
|
154
|
+
if not elem.hasAttribute("w14:textId"):
|
|
155
|
+
self._ensure_w14_namespace()
|
|
156
|
+
elem.setAttribute("w14:textId", _generate_hex_id())
|
|
157
|
+
|
|
158
|
+
def add_rsid_to_r(elem):
|
|
159
|
+
# Use w:rsidDel for <w:r> inside <w:del>, otherwise w:rsidR
|
|
160
|
+
if is_inside_deletion(elem):
|
|
161
|
+
if not elem.hasAttribute("w:rsidDel"):
|
|
162
|
+
elem.setAttribute("w:rsidDel", self.rsid)
|
|
163
|
+
else:
|
|
164
|
+
if not elem.hasAttribute("w:rsidR"):
|
|
165
|
+
elem.setAttribute("w:rsidR", self.rsid)
|
|
166
|
+
|
|
167
|
+
def add_tracked_change_attrs(elem):
|
|
168
|
+
# Auto-assign w:id if not present
|
|
169
|
+
if not elem.hasAttribute("w:id"):
|
|
170
|
+
elem.setAttribute("w:id", str(self._get_next_change_id()))
|
|
171
|
+
if not elem.hasAttribute("w:author"):
|
|
172
|
+
elem.setAttribute("w:author", self.author)
|
|
173
|
+
if not elem.hasAttribute("w:date"):
|
|
174
|
+
elem.setAttribute("w:date", timestamp)
|
|
175
|
+
# Add w16du:dateUtc for tracked changes (same as w:date since we generate UTC timestamps)
|
|
176
|
+
if elem.tagName in ("w:ins", "w:del") and not elem.hasAttribute(
|
|
177
|
+
"w16du:dateUtc"
|
|
178
|
+
):
|
|
179
|
+
self._ensure_w16du_namespace()
|
|
180
|
+
elem.setAttribute("w16du:dateUtc", timestamp)
|
|
181
|
+
|
|
182
|
+
def add_comment_attrs(elem):
|
|
183
|
+
if not elem.hasAttribute("w:author"):
|
|
184
|
+
elem.setAttribute("w:author", self.author)
|
|
185
|
+
if not elem.hasAttribute("w:date"):
|
|
186
|
+
elem.setAttribute("w:date", timestamp)
|
|
187
|
+
if not elem.hasAttribute("w:initials"):
|
|
188
|
+
elem.setAttribute("w:initials", self.initials)
|
|
189
|
+
|
|
190
|
+
def add_comment_extensible_date(elem):
|
|
191
|
+
# Add w16cex:dateUtc for comment extensible elements
|
|
192
|
+
if not elem.hasAttribute("w16cex:dateUtc"):
|
|
193
|
+
self._ensure_w16cex_namespace()
|
|
194
|
+
elem.setAttribute("w16cex:dateUtc", timestamp)
|
|
195
|
+
|
|
196
|
+
def add_xml_space_to_t(elem):
|
|
197
|
+
# Add xml:space="preserve" to w:t if text has leading/trailing whitespace
|
|
198
|
+
if (
|
|
199
|
+
elem.firstChild
|
|
200
|
+
and elem.firstChild.nodeType == elem.firstChild.TEXT_NODE
|
|
201
|
+
):
|
|
202
|
+
text = elem.firstChild.data
|
|
203
|
+
if text and (text[0].isspace() or text[-1].isspace()):
|
|
204
|
+
if not elem.hasAttribute("xml:space"):
|
|
205
|
+
elem.setAttribute("xml:space", "preserve")
|
|
206
|
+
|
|
207
|
+
for node in nodes:
|
|
208
|
+
if node.nodeType != node.ELEMENT_NODE:
|
|
209
|
+
continue
|
|
210
|
+
|
|
211
|
+
# Handle the node itself
|
|
212
|
+
if node.tagName == "w:p":
|
|
213
|
+
add_rsid_to_p(node)
|
|
214
|
+
elif node.tagName == "w:r":
|
|
215
|
+
add_rsid_to_r(node)
|
|
216
|
+
elif node.tagName == "w:t":
|
|
217
|
+
add_xml_space_to_t(node)
|
|
218
|
+
elif node.tagName in ("w:ins", "w:del"):
|
|
219
|
+
add_tracked_change_attrs(node)
|
|
220
|
+
elif node.tagName == "w:comment":
|
|
221
|
+
add_comment_attrs(node)
|
|
222
|
+
elif node.tagName == "w16cex:commentExtensible":
|
|
223
|
+
add_comment_extensible_date(node)
|
|
224
|
+
|
|
225
|
+
# Process descendants (getElementsByTagName doesn't return the element itself)
|
|
226
|
+
for elem in node.getElementsByTagName("w:p"):
|
|
227
|
+
add_rsid_to_p(elem)
|
|
228
|
+
for elem in node.getElementsByTagName("w:r"):
|
|
229
|
+
add_rsid_to_r(elem)
|
|
230
|
+
for elem in node.getElementsByTagName("w:t"):
|
|
231
|
+
add_xml_space_to_t(elem)
|
|
232
|
+
for tag in ("w:ins", "w:del"):
|
|
233
|
+
for elem in node.getElementsByTagName(tag):
|
|
234
|
+
add_tracked_change_attrs(elem)
|
|
235
|
+
for elem in node.getElementsByTagName("w:comment"):
|
|
236
|
+
add_comment_attrs(elem)
|
|
237
|
+
for elem in node.getElementsByTagName("w16cex:commentExtensible"):
|
|
238
|
+
add_comment_extensible_date(elem)
|
|
239
|
+
|
|
240
|
+
def replace_node(self, elem, new_content):
|
|
241
|
+
"""Replace node with automatic attribute injection."""
|
|
242
|
+
nodes = super().replace_node(elem, new_content)
|
|
243
|
+
self._inject_attributes_to_nodes(nodes)
|
|
244
|
+
return nodes
|
|
245
|
+
|
|
246
|
+
def insert_after(self, elem, xml_content):
|
|
247
|
+
"""Insert after with automatic attribute injection."""
|
|
248
|
+
nodes = super().insert_after(elem, xml_content)
|
|
249
|
+
self._inject_attributes_to_nodes(nodes)
|
|
250
|
+
return nodes
|
|
251
|
+
|
|
252
|
+
def insert_before(self, elem, xml_content):
|
|
253
|
+
"""Insert before with automatic attribute injection."""
|
|
254
|
+
nodes = super().insert_before(elem, xml_content)
|
|
255
|
+
self._inject_attributes_to_nodes(nodes)
|
|
256
|
+
return nodes
|
|
257
|
+
|
|
258
|
+
def append_to(self, elem, xml_content):
|
|
259
|
+
"""Append to with automatic attribute injection."""
|
|
260
|
+
nodes = super().append_to(elem, xml_content)
|
|
261
|
+
self._inject_attributes_to_nodes(nodes)
|
|
262
|
+
return nodes
|
|
263
|
+
|
|
264
|
+
def revert_insertion(self, elem):
|
|
265
|
+
"""Reject an insertion by wrapping its content in a deletion.
|
|
266
|
+
|
|
267
|
+
Wraps all runs inside w:ins in w:del, converting w:t to w:delText.
|
|
268
|
+
Can process a single w:ins element or a container element with multiple w:ins.
|
|
269
|
+
|
|
270
|
+
Args:
|
|
271
|
+
elem: Element to process (w:ins, w:p, w:body, etc.)
|
|
272
|
+
|
|
273
|
+
Returns:
|
|
274
|
+
list: List containing the processed element(s)
|
|
275
|
+
|
|
276
|
+
Raises:
|
|
277
|
+
ValueError: If the element contains no w:ins elements
|
|
278
|
+
|
|
279
|
+
Example:
|
|
280
|
+
# Reject a single insertion
|
|
281
|
+
ins = doc["word/document.xml"].get_node(tag="w:ins", attrs={"w:id": "5"})
|
|
282
|
+
doc["word/document.xml"].revert_insertion(ins)
|
|
283
|
+
|
|
284
|
+
# Reject all insertions in a paragraph
|
|
285
|
+
para = doc["word/document.xml"].get_node(tag="w:p", line_number=42)
|
|
286
|
+
doc["word/document.xml"].revert_insertion(para)
|
|
287
|
+
"""
|
|
288
|
+
# Collect insertions
|
|
289
|
+
ins_elements = []
|
|
290
|
+
if elem.tagName == "w:ins":
|
|
291
|
+
ins_elements.append(elem)
|
|
292
|
+
else:
|
|
293
|
+
ins_elements.extend(elem.getElementsByTagName("w:ins"))
|
|
294
|
+
|
|
295
|
+
# Validate that there are insertions to reject
|
|
296
|
+
if not ins_elements:
|
|
297
|
+
raise ValueError(
|
|
298
|
+
f"revert_insertion requires w:ins elements. "
|
|
299
|
+
f"The provided element <{elem.tagName}> contains no insertions. "
|
|
300
|
+
)
|
|
301
|
+
|
|
302
|
+
# Process all insertions - wrap all children in w:del
|
|
303
|
+
for ins_elem in ins_elements:
|
|
304
|
+
runs = list(ins_elem.getElementsByTagName("w:r"))
|
|
305
|
+
if not runs:
|
|
306
|
+
continue
|
|
307
|
+
|
|
308
|
+
# Create deletion wrapper
|
|
309
|
+
del_wrapper = self.dom.createElement("w:del")
|
|
310
|
+
|
|
311
|
+
# Process each run
|
|
312
|
+
for run in runs:
|
|
313
|
+
# Convert w:t → w:delText and w:rsidR → w:rsidDel
|
|
314
|
+
if run.hasAttribute("w:rsidR"):
|
|
315
|
+
run.setAttribute("w:rsidDel", run.getAttribute("w:rsidR"))
|
|
316
|
+
run.removeAttribute("w:rsidR")
|
|
317
|
+
elif not run.hasAttribute("w:rsidDel"):
|
|
318
|
+
run.setAttribute("w:rsidDel", self.rsid)
|
|
319
|
+
|
|
320
|
+
for t_elem in list(run.getElementsByTagName("w:t")):
|
|
321
|
+
del_text = self.dom.createElement("w:delText")
|
|
322
|
+
# Copy ALL child nodes (not just firstChild) to handle entities
|
|
323
|
+
while t_elem.firstChild:
|
|
324
|
+
del_text.appendChild(t_elem.firstChild)
|
|
325
|
+
for i in range(t_elem.attributes.length):
|
|
326
|
+
attr = t_elem.attributes.item(i)
|
|
327
|
+
del_text.setAttribute(attr.name, attr.value)
|
|
328
|
+
t_elem.parentNode.replaceChild(del_text, t_elem)
|
|
329
|
+
|
|
330
|
+
# Move all children from ins to del wrapper
|
|
331
|
+
while ins_elem.firstChild:
|
|
332
|
+
del_wrapper.appendChild(ins_elem.firstChild)
|
|
333
|
+
|
|
334
|
+
# Add del wrapper back to ins
|
|
335
|
+
ins_elem.appendChild(del_wrapper)
|
|
336
|
+
|
|
337
|
+
# Inject attributes to the deletion wrapper
|
|
338
|
+
self._inject_attributes_to_nodes([del_wrapper])
|
|
339
|
+
|
|
340
|
+
return [elem]
|
|
341
|
+
|
|
342
|
+
def revert_deletion(self, elem):
|
|
343
|
+
"""Reject a deletion by re-inserting the deleted content.
|
|
344
|
+
|
|
345
|
+
Creates w:ins elements after each w:del, copying deleted content and
|
|
346
|
+
converting w:delText back to w:t.
|
|
347
|
+
Can process a single w:del element or a container element with multiple w:del.
|
|
348
|
+
|
|
349
|
+
Args:
|
|
350
|
+
elem: Element to process (w:del, w:p, w:body, etc.)
|
|
351
|
+
|
|
352
|
+
Returns:
|
|
353
|
+
list: If elem is w:del, returns [elem, new_ins]. Otherwise returns [elem].
|
|
354
|
+
|
|
355
|
+
Raises:
|
|
356
|
+
ValueError: If the element contains no w:del elements
|
|
357
|
+
|
|
358
|
+
Example:
|
|
359
|
+
# Reject a single deletion - returns [w:del, w:ins]
|
|
360
|
+
del_elem = doc["word/document.xml"].get_node(tag="w:del", attrs={"w:id": "3"})
|
|
361
|
+
nodes = doc["word/document.xml"].revert_deletion(del_elem)
|
|
362
|
+
|
|
363
|
+
# Reject all deletions in a paragraph - returns [para]
|
|
364
|
+
para = doc["word/document.xml"].get_node(tag="w:p", line_number=42)
|
|
365
|
+
nodes = doc["word/document.xml"].revert_deletion(para)
|
|
366
|
+
"""
|
|
367
|
+
# Collect deletions FIRST - before we modify the DOM
|
|
368
|
+
del_elements = []
|
|
369
|
+
is_single_del = elem.tagName == "w:del"
|
|
370
|
+
|
|
371
|
+
if is_single_del:
|
|
372
|
+
del_elements.append(elem)
|
|
373
|
+
else:
|
|
374
|
+
del_elements.extend(elem.getElementsByTagName("w:del"))
|
|
375
|
+
|
|
376
|
+
# Validate that there are deletions to reject
|
|
377
|
+
if not del_elements:
|
|
378
|
+
raise ValueError(
|
|
379
|
+
f"revert_deletion requires w:del elements. "
|
|
380
|
+
f"The provided element <{elem.tagName}> contains no deletions. "
|
|
381
|
+
)
|
|
382
|
+
|
|
383
|
+
# Track created insertion (only relevant if elem is a single w:del)
|
|
384
|
+
created_insertion = None
|
|
385
|
+
|
|
386
|
+
# Process all deletions - create insertions that copy the deleted content
|
|
387
|
+
for del_elem in del_elements:
|
|
388
|
+
# Clone the deleted runs and convert them to insertions
|
|
389
|
+
runs = list(del_elem.getElementsByTagName("w:r"))
|
|
390
|
+
if not runs:
|
|
391
|
+
continue
|
|
392
|
+
|
|
393
|
+
# Create insertion wrapper
|
|
394
|
+
ins_elem = self.dom.createElement("w:ins")
|
|
395
|
+
|
|
396
|
+
for run in runs:
|
|
397
|
+
# Clone the run
|
|
398
|
+
new_run = run.cloneNode(True)
|
|
399
|
+
|
|
400
|
+
# Convert w:delText → w:t
|
|
401
|
+
for del_text in list(new_run.getElementsByTagName("w:delText")):
|
|
402
|
+
t_elem = self.dom.createElement("w:t")
|
|
403
|
+
# Copy ALL child nodes (not just firstChild) to handle entities
|
|
404
|
+
while del_text.firstChild:
|
|
405
|
+
t_elem.appendChild(del_text.firstChild)
|
|
406
|
+
for i in range(del_text.attributes.length):
|
|
407
|
+
attr = del_text.attributes.item(i)
|
|
408
|
+
t_elem.setAttribute(attr.name, attr.value)
|
|
409
|
+
del_text.parentNode.replaceChild(t_elem, del_text)
|
|
410
|
+
|
|
411
|
+
# Update run attributes: w:rsidDel → w:rsidR
|
|
412
|
+
if new_run.hasAttribute("w:rsidDel"):
|
|
413
|
+
new_run.setAttribute("w:rsidR", new_run.getAttribute("w:rsidDel"))
|
|
414
|
+
new_run.removeAttribute("w:rsidDel")
|
|
415
|
+
elif not new_run.hasAttribute("w:rsidR"):
|
|
416
|
+
new_run.setAttribute("w:rsidR", self.rsid)
|
|
417
|
+
|
|
418
|
+
ins_elem.appendChild(new_run)
|
|
419
|
+
|
|
420
|
+
# Insert the new insertion after the deletion
|
|
421
|
+
nodes = self.insert_after(del_elem, ins_elem.toxml())
|
|
422
|
+
|
|
423
|
+
# If processing a single w:del, track the created insertion
|
|
424
|
+
if is_single_del and nodes:
|
|
425
|
+
created_insertion = nodes[0]
|
|
426
|
+
|
|
427
|
+
# Return based on input type
|
|
428
|
+
if is_single_del and created_insertion:
|
|
429
|
+
return [elem, created_insertion]
|
|
430
|
+
else:
|
|
431
|
+
return [elem]
|
|
432
|
+
|
|
433
|
+
@staticmethod
|
|
434
|
+
def suggest_paragraph(xml_content: str) -> str:
|
|
435
|
+
"""Transform paragraph XML to add tracked change wrapping for insertion.
|
|
436
|
+
|
|
437
|
+
Wraps runs in <w:ins> and adds <w:ins/> to w:rPr in w:pPr for numbered lists.
|
|
438
|
+
|
|
439
|
+
Args:
|
|
440
|
+
xml_content: XML string containing a <w:p> element
|
|
441
|
+
|
|
442
|
+
Returns:
|
|
443
|
+
str: Transformed XML with tracked change wrapping
|
|
444
|
+
"""
|
|
445
|
+
wrapper = f'<root xmlns:w="http://schemas.openxmlformats.org/wordprocessingml/2006/main">{xml_content}</root>'
|
|
446
|
+
doc = minidom.parseString(wrapper)
|
|
447
|
+
para = doc.getElementsByTagName("w:p")[0]
|
|
448
|
+
|
|
449
|
+
# Ensure w:pPr exists
|
|
450
|
+
pPr_list = para.getElementsByTagName("w:pPr")
|
|
451
|
+
if not pPr_list:
|
|
452
|
+
pPr = doc.createElement("w:pPr")
|
|
453
|
+
para.insertBefore(
|
|
454
|
+
pPr, para.firstChild
|
|
455
|
+
) if para.firstChild else para.appendChild(pPr)
|
|
456
|
+
else:
|
|
457
|
+
pPr = pPr_list[0]
|
|
458
|
+
|
|
459
|
+
# Ensure w:rPr exists in w:pPr
|
|
460
|
+
rPr_list = pPr.getElementsByTagName("w:rPr")
|
|
461
|
+
if not rPr_list:
|
|
462
|
+
rPr = doc.createElement("w:rPr")
|
|
463
|
+
pPr.appendChild(rPr)
|
|
464
|
+
else:
|
|
465
|
+
rPr = rPr_list[0]
|
|
466
|
+
|
|
467
|
+
# Add <w:ins/> to w:rPr
|
|
468
|
+
ins_marker = doc.createElement("w:ins")
|
|
469
|
+
rPr.insertBefore(
|
|
470
|
+
ins_marker, rPr.firstChild
|
|
471
|
+
) if rPr.firstChild else rPr.appendChild(ins_marker)
|
|
472
|
+
|
|
473
|
+
# Wrap all non-pPr children in <w:ins>
|
|
474
|
+
ins_wrapper = doc.createElement("w:ins")
|
|
475
|
+
for child in [c for c in para.childNodes if c.nodeName != "w:pPr"]:
|
|
476
|
+
para.removeChild(child)
|
|
477
|
+
ins_wrapper.appendChild(child)
|
|
478
|
+
para.appendChild(ins_wrapper)
|
|
479
|
+
|
|
480
|
+
return para.toxml()
|
|
481
|
+
|
|
482
|
+
def suggest_deletion(self, elem):
|
|
483
|
+
"""Mark a w:r or w:p element as deleted with tracked changes (in-place DOM manipulation).
|
|
484
|
+
|
|
485
|
+
For w:r: wraps in <w:del>, converts <w:t> to <w:delText>, preserves w:rPr
|
|
486
|
+
For w:p (regular): wraps content in <w:del>, converts <w:t> to <w:delText>
|
|
487
|
+
For w:p (numbered list): adds <w:del/> to w:rPr in w:pPr, wraps content in <w:del>
|
|
488
|
+
|
|
489
|
+
Args:
|
|
490
|
+
elem: A w:r or w:p DOM element without existing tracked changes
|
|
491
|
+
|
|
492
|
+
Returns:
|
|
493
|
+
Element: The modified element
|
|
494
|
+
|
|
495
|
+
Raises:
|
|
496
|
+
ValueError: If element has existing tracked changes or invalid structure
|
|
497
|
+
"""
|
|
498
|
+
if elem.nodeName == "w:r":
|
|
499
|
+
# Check for existing w:delText
|
|
500
|
+
if elem.getElementsByTagName("w:delText"):
|
|
501
|
+
raise ValueError("w:r element already contains w:delText")
|
|
502
|
+
|
|
503
|
+
# Convert w:t → w:delText
|
|
504
|
+
for t_elem in list(elem.getElementsByTagName("w:t")):
|
|
505
|
+
del_text = self.dom.createElement("w:delText")
|
|
506
|
+
# Copy ALL child nodes (not just firstChild) to handle entities
|
|
507
|
+
while t_elem.firstChild:
|
|
508
|
+
del_text.appendChild(t_elem.firstChild)
|
|
509
|
+
# Preserve attributes like xml:space
|
|
510
|
+
for i in range(t_elem.attributes.length):
|
|
511
|
+
attr = t_elem.attributes.item(i)
|
|
512
|
+
del_text.setAttribute(attr.name, attr.value)
|
|
513
|
+
t_elem.parentNode.replaceChild(del_text, t_elem)
|
|
514
|
+
|
|
515
|
+
# Update run attributes: w:rsidR → w:rsidDel
|
|
516
|
+
if elem.hasAttribute("w:rsidR"):
|
|
517
|
+
elem.setAttribute("w:rsidDel", elem.getAttribute("w:rsidR"))
|
|
518
|
+
elem.removeAttribute("w:rsidR")
|
|
519
|
+
elif not elem.hasAttribute("w:rsidDel"):
|
|
520
|
+
elem.setAttribute("w:rsidDel", self.rsid)
|
|
521
|
+
|
|
522
|
+
# Wrap in w:del
|
|
523
|
+
del_wrapper = self.dom.createElement("w:del")
|
|
524
|
+
parent = elem.parentNode
|
|
525
|
+
parent.insertBefore(del_wrapper, elem)
|
|
526
|
+
parent.removeChild(elem)
|
|
527
|
+
del_wrapper.appendChild(elem)
|
|
528
|
+
|
|
529
|
+
# Inject attributes to the deletion wrapper
|
|
530
|
+
self._inject_attributes_to_nodes([del_wrapper])
|
|
531
|
+
|
|
532
|
+
return del_wrapper
|
|
533
|
+
|
|
534
|
+
elif elem.nodeName == "w:p":
|
|
535
|
+
# Check for existing tracked changes
|
|
536
|
+
if elem.getElementsByTagName("w:ins") or elem.getElementsByTagName("w:del"):
|
|
537
|
+
raise ValueError("w:p element already contains tracked changes")
|
|
538
|
+
|
|
539
|
+
# Check if it's a numbered list item
|
|
540
|
+
pPr_list = elem.getElementsByTagName("w:pPr")
|
|
541
|
+
is_numbered = pPr_list and pPr_list[0].getElementsByTagName("w:numPr")
|
|
542
|
+
|
|
543
|
+
if is_numbered:
|
|
544
|
+
# Add <w:del/> to w:rPr in w:pPr
|
|
545
|
+
pPr = pPr_list[0]
|
|
546
|
+
rPr_list = pPr.getElementsByTagName("w:rPr")
|
|
547
|
+
|
|
548
|
+
if not rPr_list:
|
|
549
|
+
rPr = self.dom.createElement("w:rPr")
|
|
550
|
+
pPr.appendChild(rPr)
|
|
551
|
+
else:
|
|
552
|
+
rPr = rPr_list[0]
|
|
553
|
+
|
|
554
|
+
# Add <w:del/> marker
|
|
555
|
+
del_marker = self.dom.createElement("w:del")
|
|
556
|
+
rPr.insertBefore(
|
|
557
|
+
del_marker, rPr.firstChild
|
|
558
|
+
) if rPr.firstChild else rPr.appendChild(del_marker)
|
|
559
|
+
|
|
560
|
+
# Convert w:t → w:delText in all runs
|
|
561
|
+
for t_elem in list(elem.getElementsByTagName("w:t")):
|
|
562
|
+
del_text = self.dom.createElement("w:delText")
|
|
563
|
+
# Copy ALL child nodes (not just firstChild) to handle entities
|
|
564
|
+
while t_elem.firstChild:
|
|
565
|
+
del_text.appendChild(t_elem.firstChild)
|
|
566
|
+
# Preserve attributes like xml:space
|
|
567
|
+
for i in range(t_elem.attributes.length):
|
|
568
|
+
attr = t_elem.attributes.item(i)
|
|
569
|
+
del_text.setAttribute(attr.name, attr.value)
|
|
570
|
+
t_elem.parentNode.replaceChild(del_text, t_elem)
|
|
571
|
+
|
|
572
|
+
# Update run attributes: w:rsidR → w:rsidDel
|
|
573
|
+
for run in elem.getElementsByTagName("w:r"):
|
|
574
|
+
if run.hasAttribute("w:rsidR"):
|
|
575
|
+
run.setAttribute("w:rsidDel", run.getAttribute("w:rsidR"))
|
|
576
|
+
run.removeAttribute("w:rsidR")
|
|
577
|
+
elif not run.hasAttribute("w:rsidDel"):
|
|
578
|
+
run.setAttribute("w:rsidDel", self.rsid)
|
|
579
|
+
|
|
580
|
+
# Wrap all non-pPr children in <w:del>
|
|
581
|
+
del_wrapper = self.dom.createElement("w:del")
|
|
582
|
+
for child in [c for c in elem.childNodes if c.nodeName != "w:pPr"]:
|
|
583
|
+
elem.removeChild(child)
|
|
584
|
+
del_wrapper.appendChild(child)
|
|
585
|
+
elem.appendChild(del_wrapper)
|
|
586
|
+
|
|
587
|
+
# Inject attributes to the deletion wrapper
|
|
588
|
+
self._inject_attributes_to_nodes([del_wrapper])
|
|
589
|
+
|
|
590
|
+
return elem
|
|
591
|
+
|
|
592
|
+
else:
|
|
593
|
+
raise ValueError(f"Element must be w:r or w:p, got {elem.nodeName}")
|
|
594
|
+
|
|
595
|
+
|
|
596
|
+
def _generate_hex_id() -> str:
|
|
597
|
+
"""Generate random 8-character hex ID for para/durable IDs.
|
|
598
|
+
|
|
599
|
+
Values are constrained to be less than 0x7FFFFFFF per OOXML spec:
|
|
600
|
+
- paraId must be < 0x80000000
|
|
601
|
+
- durableId must be < 0x7FFFFFFF
|
|
602
|
+
We use the stricter constraint (0x7FFFFFFF) for both.
|
|
603
|
+
"""
|
|
604
|
+
return f"{random.randint(1, 0x7FFFFFFE):08X}"
|
|
605
|
+
|
|
606
|
+
|
|
607
|
+
def _generate_rsid() -> str:
|
|
608
|
+
"""Generate random 8-character hex RSID."""
|
|
609
|
+
return "".join(random.choices("0123456789ABCDEF", k=8))
|
|
610
|
+
|
|
611
|
+
|
|
612
|
+
class Document:
|
|
613
|
+
"""Manages comments in unpacked Word documents."""
|
|
614
|
+
|
|
615
|
+
def __init__(
|
|
616
|
+
self,
|
|
617
|
+
unpacked_dir,
|
|
618
|
+
rsid=None,
|
|
619
|
+
track_revisions=False,
|
|
620
|
+
author="Scientific-Writer",
|
|
621
|
+
initials="SW",
|
|
622
|
+
):
|
|
623
|
+
"""
|
|
624
|
+
Initialize with path to unpacked Word document directory.
|
|
625
|
+
Automatically sets up comment infrastructure (people.xml, RSIDs).
|
|
626
|
+
|
|
627
|
+
Args:
|
|
628
|
+
unpacked_dir: Path to unpacked DOCX directory (must contain word/ subdirectory)
|
|
629
|
+
rsid: Optional RSID to use for all comment elements. If not provided, one will be generated.
|
|
630
|
+
track_revisions: If True, enables track revisions in settings.xml (default: False)
|
|
631
|
+
author: Default author name for comments (default: "Scientific-Writer")
|
|
632
|
+
initials: Default author initials for comments (default: "SW")
|
|
633
|
+
"""
|
|
634
|
+
self.original_path = Path(unpacked_dir)
|
|
635
|
+
|
|
636
|
+
if not self.original_path.exists() or not self.original_path.is_dir():
|
|
637
|
+
raise ValueError(f"Directory not found: {unpacked_dir}")
|
|
638
|
+
|
|
639
|
+
# Create temporary directory with subdirectories for unpacked content and baseline
|
|
640
|
+
self.temp_dir = tempfile.mkdtemp(prefix="docx_")
|
|
641
|
+
self.unpacked_path = Path(self.temp_dir) / "unpacked"
|
|
642
|
+
shutil.copytree(self.original_path, self.unpacked_path)
|
|
643
|
+
|
|
644
|
+
# Pack original directory into temporary .docx for validation baseline (outside unpacked dir)
|
|
645
|
+
self.original_docx = Path(self.temp_dir) / "original.docx"
|
|
646
|
+
pack_document(self.original_path, self.original_docx, validate=False)
|
|
647
|
+
|
|
648
|
+
self.word_path = self.unpacked_path / "word"
|
|
649
|
+
|
|
650
|
+
# Generate RSID if not provided
|
|
651
|
+
self.rsid = rsid if rsid else _generate_rsid()
|
|
652
|
+
print(f"Using RSID: {self.rsid}")
|
|
653
|
+
|
|
654
|
+
# Set default author and initials
|
|
655
|
+
self.author = author
|
|
656
|
+
self.initials = initials
|
|
657
|
+
|
|
658
|
+
# Cache for lazy-loaded editors
|
|
659
|
+
self._editors = {}
|
|
660
|
+
|
|
661
|
+
# Comment file paths
|
|
662
|
+
self.comments_path = self.word_path / "comments.xml"
|
|
663
|
+
self.comments_extended_path = self.word_path / "commentsExtended.xml"
|
|
664
|
+
self.comments_ids_path = self.word_path / "commentsIds.xml"
|
|
665
|
+
self.comments_extensible_path = self.word_path / "commentsExtensible.xml"
|
|
666
|
+
|
|
667
|
+
# Load existing comments and determine next ID (before setup modifies files)
|
|
668
|
+
self.existing_comments = self._load_existing_comments()
|
|
669
|
+
self.next_comment_id = self._get_next_comment_id()
|
|
670
|
+
|
|
671
|
+
# Convenient access to document.xml editor (semi-private)
|
|
672
|
+
self._document = self["word/document.xml"]
|
|
673
|
+
|
|
674
|
+
# Setup tracked changes infrastructure
|
|
675
|
+
self._setup_tracking(track_revisions=track_revisions)
|
|
676
|
+
|
|
677
|
+
# Add author to people.xml
|
|
678
|
+
self._add_author_to_people(author)
|
|
679
|
+
|
|
680
|
+
def __getitem__(self, xml_path: str) -> DocxXMLEditor:
|
|
681
|
+
"""
|
|
682
|
+
Get or create a DocxXMLEditor for the specified XML file.
|
|
683
|
+
|
|
684
|
+
Enables lazy-loaded editors with bracket notation:
|
|
685
|
+
node = doc["word/document.xml"].get_node(tag="w:p", line_number=42)
|
|
686
|
+
|
|
687
|
+
Args:
|
|
688
|
+
xml_path: Relative path to XML file (e.g., "word/document.xml", "word/comments.xml")
|
|
689
|
+
|
|
690
|
+
Returns:
|
|
691
|
+
DocxXMLEditor instance for the specified file
|
|
692
|
+
|
|
693
|
+
Raises:
|
|
694
|
+
ValueError: If the file does not exist
|
|
695
|
+
|
|
696
|
+
Example:
|
|
697
|
+
# Get node from document.xml
|
|
698
|
+
node = doc["word/document.xml"].get_node(tag="w:del", attrs={"w:id": "1"})
|
|
699
|
+
|
|
700
|
+
# Get node from comments.xml
|
|
701
|
+
comment = doc["word/comments.xml"].get_node(tag="w:comment", attrs={"w:id": "0"})
|
|
702
|
+
"""
|
|
703
|
+
if xml_path not in self._editors:
|
|
704
|
+
file_path = self.unpacked_path / xml_path
|
|
705
|
+
if not file_path.exists():
|
|
706
|
+
raise ValueError(f"XML file not found: {xml_path}")
|
|
707
|
+
# Use DocxXMLEditor with RSID, author, and initials for all editors
|
|
708
|
+
self._editors[xml_path] = DocxXMLEditor(
|
|
709
|
+
file_path, rsid=self.rsid, author=self.author, initials=self.initials
|
|
710
|
+
)
|
|
711
|
+
return self._editors[xml_path]
|
|
712
|
+
|
|
713
|
+
def add_comment(self, start, end, text: str) -> int:
|
|
714
|
+
"""
|
|
715
|
+
Add a comment spanning from one element to another.
|
|
716
|
+
|
|
717
|
+
Args:
|
|
718
|
+
start: DOM element for the starting point
|
|
719
|
+
end: DOM element for the ending point
|
|
720
|
+
text: Comment content
|
|
721
|
+
|
|
722
|
+
Returns:
|
|
723
|
+
The comment ID that was created
|
|
724
|
+
|
|
725
|
+
Example:
|
|
726
|
+
start_node = cm.get_document_node(tag="w:del", id="1")
|
|
727
|
+
end_node = cm.get_document_node(tag="w:ins", id="2")
|
|
728
|
+
cm.add_comment(start=start_node, end=end_node, text="Explanation")
|
|
729
|
+
"""
|
|
730
|
+
comment_id = self.next_comment_id
|
|
731
|
+
para_id = _generate_hex_id()
|
|
732
|
+
durable_id = _generate_hex_id()
|
|
733
|
+
timestamp = datetime.now(timezone.utc).strftime("%Y-%m-%dT%H:%M:%SZ")
|
|
734
|
+
|
|
735
|
+
# Add comment ranges to document.xml immediately
|
|
736
|
+
self._document.insert_before(start, self._comment_range_start_xml(comment_id))
|
|
737
|
+
|
|
738
|
+
# If end node is a paragraph, append comment markup inside it
|
|
739
|
+
# Otherwise insert after it (for run-level anchors)
|
|
740
|
+
if end.tagName == "w:p":
|
|
741
|
+
self._document.append_to(end, self._comment_range_end_xml(comment_id))
|
|
742
|
+
else:
|
|
743
|
+
self._document.insert_after(end, self._comment_range_end_xml(comment_id))
|
|
744
|
+
|
|
745
|
+
# Add to comments.xml immediately
|
|
746
|
+
self._add_to_comments_xml(
|
|
747
|
+
comment_id, para_id, text, self.author, self.initials, timestamp
|
|
748
|
+
)
|
|
749
|
+
|
|
750
|
+
# Add to commentsExtended.xml immediately
|
|
751
|
+
self._add_to_comments_extended_xml(para_id, parent_para_id=None)
|
|
752
|
+
|
|
753
|
+
# Add to commentsIds.xml immediately
|
|
754
|
+
self._add_to_comments_ids_xml(para_id, durable_id)
|
|
755
|
+
|
|
756
|
+
# Add to commentsExtensible.xml immediately
|
|
757
|
+
self._add_to_comments_extensible_xml(durable_id)
|
|
758
|
+
|
|
759
|
+
# Update existing_comments so replies work
|
|
760
|
+
self.existing_comments[comment_id] = {"para_id": para_id}
|
|
761
|
+
|
|
762
|
+
self.next_comment_id += 1
|
|
763
|
+
return comment_id
|
|
764
|
+
|
|
765
|
+
def reply_to_comment(
|
|
766
|
+
self,
|
|
767
|
+
parent_comment_id: int,
|
|
768
|
+
text: str,
|
|
769
|
+
) -> int:
|
|
770
|
+
"""
|
|
771
|
+
Add a reply to an existing comment.
|
|
772
|
+
|
|
773
|
+
Args:
|
|
774
|
+
parent_comment_id: The w:id of the parent comment to reply to
|
|
775
|
+
text: Reply text
|
|
776
|
+
|
|
777
|
+
Returns:
|
|
778
|
+
The comment ID that was created for the reply
|
|
779
|
+
|
|
780
|
+
Example:
|
|
781
|
+
cm.reply_to_comment(parent_comment_id=0, text="I agree with this change")
|
|
782
|
+
"""
|
|
783
|
+
if parent_comment_id not in self.existing_comments:
|
|
784
|
+
raise ValueError(f"Parent comment with id={parent_comment_id} not found")
|
|
785
|
+
|
|
786
|
+
parent_info = self.existing_comments[parent_comment_id]
|
|
787
|
+
comment_id = self.next_comment_id
|
|
788
|
+
para_id = _generate_hex_id()
|
|
789
|
+
durable_id = _generate_hex_id()
|
|
790
|
+
timestamp = datetime.now(timezone.utc).strftime("%Y-%m-%dT%H:%M:%SZ")
|
|
791
|
+
|
|
792
|
+
# Add comment ranges to document.xml immediately
|
|
793
|
+
parent_start_elem = self._document.get_node(
|
|
794
|
+
tag="w:commentRangeStart", attrs={"w:id": str(parent_comment_id)}
|
|
795
|
+
)
|
|
796
|
+
parent_ref_elem = self._document.get_node(
|
|
797
|
+
tag="w:commentReference", attrs={"w:id": str(parent_comment_id)}
|
|
798
|
+
)
|
|
799
|
+
|
|
800
|
+
self._document.insert_after(
|
|
801
|
+
parent_start_elem, self._comment_range_start_xml(comment_id)
|
|
802
|
+
)
|
|
803
|
+
parent_ref_run = parent_ref_elem.parentNode
|
|
804
|
+
self._document.insert_after(
|
|
805
|
+
parent_ref_run, f'<w:commentRangeEnd w:id="{comment_id}"/>'
|
|
806
|
+
)
|
|
807
|
+
self._document.insert_after(
|
|
808
|
+
parent_ref_run, self._comment_ref_run_xml(comment_id)
|
|
809
|
+
)
|
|
810
|
+
|
|
811
|
+
# Add to comments.xml immediately
|
|
812
|
+
self._add_to_comments_xml(
|
|
813
|
+
comment_id, para_id, text, self.author, self.initials, timestamp
|
|
814
|
+
)
|
|
815
|
+
|
|
816
|
+
# Add to commentsExtended.xml immediately (with parent)
|
|
817
|
+
self._add_to_comments_extended_xml(
|
|
818
|
+
para_id, parent_para_id=parent_info["para_id"]
|
|
819
|
+
)
|
|
820
|
+
|
|
821
|
+
# Add to commentsIds.xml immediately
|
|
822
|
+
self._add_to_comments_ids_xml(para_id, durable_id)
|
|
823
|
+
|
|
824
|
+
# Add to commentsExtensible.xml immediately
|
|
825
|
+
self._add_to_comments_extensible_xml(durable_id)
|
|
826
|
+
|
|
827
|
+
# Update existing_comments so replies work
|
|
828
|
+
self.existing_comments[comment_id] = {"para_id": para_id}
|
|
829
|
+
|
|
830
|
+
self.next_comment_id += 1
|
|
831
|
+
return comment_id
|
|
832
|
+
|
|
833
|
+
def __del__(self):
|
|
834
|
+
"""Clean up temporary directory on deletion."""
|
|
835
|
+
if hasattr(self, "temp_dir") and Path(self.temp_dir).exists():
|
|
836
|
+
shutil.rmtree(self.temp_dir)
|
|
837
|
+
|
|
838
|
+
def validate(self) -> None:
|
|
839
|
+
"""
|
|
840
|
+
Validate the document against XSD schema and redlining rules.
|
|
841
|
+
|
|
842
|
+
Raises:
|
|
843
|
+
ValueError: If validation fails.
|
|
844
|
+
"""
|
|
845
|
+
# Create validators with current state
|
|
846
|
+
schema_validator = DOCXSchemaValidator(
|
|
847
|
+
self.unpacked_path, self.original_docx, verbose=False
|
|
848
|
+
)
|
|
849
|
+
redlining_validator = RedliningValidator(
|
|
850
|
+
self.unpacked_path, self.original_docx, verbose=False
|
|
851
|
+
)
|
|
852
|
+
|
|
853
|
+
# Run validations
|
|
854
|
+
if not schema_validator.validate():
|
|
855
|
+
raise ValueError("Schema validation failed")
|
|
856
|
+
if not redlining_validator.validate():
|
|
857
|
+
raise ValueError("Redlining validation failed")
|
|
858
|
+
|
|
859
|
+
def save(self, destination=None, validate=True) -> None:
|
|
860
|
+
"""
|
|
861
|
+
Save all modified XML files to disk and copy to destination directory.
|
|
862
|
+
|
|
863
|
+
This persists all changes made via add_comment() and reply_to_comment().
|
|
864
|
+
|
|
865
|
+
Args:
|
|
866
|
+
destination: Optional path to save to. If None, saves back to original directory.
|
|
867
|
+
validate: If True, validates document before saving (default: True).
|
|
868
|
+
"""
|
|
869
|
+
# Only ensure comment relationships and content types if comment files exist
|
|
870
|
+
if self.comments_path.exists():
|
|
871
|
+
self._ensure_comment_relationships()
|
|
872
|
+
self._ensure_comment_content_types()
|
|
873
|
+
|
|
874
|
+
# Save all modified XML files in temp directory
|
|
875
|
+
for editor in self._editors.values():
|
|
876
|
+
editor.save()
|
|
877
|
+
|
|
878
|
+
# Validate by default
|
|
879
|
+
if validate:
|
|
880
|
+
self.validate()
|
|
881
|
+
|
|
882
|
+
# Copy contents from temp directory to destination (or original directory)
|
|
883
|
+
target_path = Path(destination) if destination else self.original_path
|
|
884
|
+
shutil.copytree(self.unpacked_path, target_path, dirs_exist_ok=True)
|
|
885
|
+
|
|
886
|
+
# ==================== Private: Initialization ====================
|
|
887
|
+
|
|
888
|
+
def _get_next_comment_id(self):
|
|
889
|
+
"""Get the next available comment ID."""
|
|
890
|
+
if not self.comments_path.exists():
|
|
891
|
+
return 0
|
|
892
|
+
|
|
893
|
+
editor = self["word/comments.xml"]
|
|
894
|
+
max_id = -1
|
|
895
|
+
for comment_elem in editor.dom.getElementsByTagName("w:comment"):
|
|
896
|
+
comment_id = comment_elem.getAttribute("w:id")
|
|
897
|
+
if comment_id:
|
|
898
|
+
try:
|
|
899
|
+
max_id = max(max_id, int(comment_id))
|
|
900
|
+
except ValueError:
|
|
901
|
+
pass
|
|
902
|
+
return max_id + 1
|
|
903
|
+
|
|
904
|
+
def _load_existing_comments(self):
|
|
905
|
+
"""Load existing comments from files to enable replies."""
|
|
906
|
+
if not self.comments_path.exists():
|
|
907
|
+
return {}
|
|
908
|
+
|
|
909
|
+
editor = self["word/comments.xml"]
|
|
910
|
+
existing = {}
|
|
911
|
+
|
|
912
|
+
for comment_elem in editor.dom.getElementsByTagName("w:comment"):
|
|
913
|
+
comment_id = comment_elem.getAttribute("w:id")
|
|
914
|
+
if not comment_id:
|
|
915
|
+
continue
|
|
916
|
+
|
|
917
|
+
# Find para_id from the w:p element within the comment
|
|
918
|
+
para_id = None
|
|
919
|
+
for p_elem in comment_elem.getElementsByTagName("w:p"):
|
|
920
|
+
para_id = p_elem.getAttribute("w14:paraId")
|
|
921
|
+
if para_id:
|
|
922
|
+
break
|
|
923
|
+
|
|
924
|
+
if not para_id:
|
|
925
|
+
continue
|
|
926
|
+
|
|
927
|
+
existing[int(comment_id)] = {"para_id": para_id}
|
|
928
|
+
|
|
929
|
+
return existing
|
|
930
|
+
|
|
931
|
+
# ==================== Private: Setup Methods ====================
|
|
932
|
+
|
|
933
|
+
def _setup_tracking(self, track_revisions=False):
|
|
934
|
+
"""Set up comment infrastructure in unpacked directory.
|
|
935
|
+
|
|
936
|
+
Args:
|
|
937
|
+
track_revisions: If True, enables track revisions in settings.xml
|
|
938
|
+
"""
|
|
939
|
+
# Create or update word/people.xml
|
|
940
|
+
people_file = self.word_path / "people.xml"
|
|
941
|
+
self._update_people_xml(people_file)
|
|
942
|
+
|
|
943
|
+
# Update XML files
|
|
944
|
+
self._add_content_type_for_people(self.unpacked_path / "[Content_Types].xml")
|
|
945
|
+
self._add_relationship_for_people(
|
|
946
|
+
self.word_path / "_rels" / "document.xml.rels"
|
|
947
|
+
)
|
|
948
|
+
|
|
949
|
+
# Always add RSID to settings.xml, optionally enable trackRevisions
|
|
950
|
+
self._update_settings(
|
|
951
|
+
self.word_path / "settings.xml", track_revisions=track_revisions
|
|
952
|
+
)
|
|
953
|
+
|
|
954
|
+
def _update_people_xml(self, path):
|
|
955
|
+
"""Create people.xml if it doesn't exist."""
|
|
956
|
+
if not path.exists():
|
|
957
|
+
# Copy from template
|
|
958
|
+
shutil.copy(TEMPLATE_DIR / "people.xml", path)
|
|
959
|
+
|
|
960
|
+
def _add_content_type_for_people(self, path):
|
|
961
|
+
"""Add people.xml content type to [Content_Types].xml if not already present."""
|
|
962
|
+
editor = self["[Content_Types].xml"]
|
|
963
|
+
|
|
964
|
+
if self._has_override(editor, "/word/people.xml"):
|
|
965
|
+
return
|
|
966
|
+
|
|
967
|
+
# Add Override element
|
|
968
|
+
root = editor.dom.documentElement
|
|
969
|
+
override_xml = '<Override PartName="/word/people.xml" ContentType="application/vnd.openxmlformats-officedocument.wordprocessingml.people+xml"/>'
|
|
970
|
+
editor.append_to(root, override_xml)
|
|
971
|
+
|
|
972
|
+
def _add_relationship_for_people(self, path):
|
|
973
|
+
"""Add people.xml relationship to document.xml.rels if not already present."""
|
|
974
|
+
editor = self["word/_rels/document.xml.rels"]
|
|
975
|
+
|
|
976
|
+
if self._has_relationship(editor, "people.xml"):
|
|
977
|
+
return
|
|
978
|
+
|
|
979
|
+
root = editor.dom.documentElement
|
|
980
|
+
root_tag = root.tagName # type: ignore
|
|
981
|
+
prefix = root_tag.split(":")[0] + ":" if ":" in root_tag else ""
|
|
982
|
+
next_rid = editor.get_next_rid()
|
|
983
|
+
|
|
984
|
+
# Create the relationship entry
|
|
985
|
+
rel_xml = f'<{prefix}Relationship Id="{next_rid}" Type="http://schemas.microsoft.com/office/2011/relationships/people" Target="people.xml"/>'
|
|
986
|
+
editor.append_to(root, rel_xml)
|
|
987
|
+
|
|
988
|
+
def _update_settings(self, path, track_revisions=False):
|
|
989
|
+
"""Add RSID and optionally enable track revisions in settings.xml.
|
|
990
|
+
|
|
991
|
+
Args:
|
|
992
|
+
path: Path to settings.xml
|
|
993
|
+
track_revisions: If True, adds trackRevisions element
|
|
994
|
+
|
|
995
|
+
Places elements per OOXML schema order:
|
|
996
|
+
- trackRevisions: early (before defaultTabStop)
|
|
997
|
+
- rsids: late (after compat)
|
|
998
|
+
"""
|
|
999
|
+
editor = self["word/settings.xml"]
|
|
1000
|
+
root = editor.get_node(tag="w:settings")
|
|
1001
|
+
prefix = root.tagName.split(":")[0] if ":" in root.tagName else "w"
|
|
1002
|
+
|
|
1003
|
+
# Conditionally add trackRevisions if requested
|
|
1004
|
+
if track_revisions:
|
|
1005
|
+
track_revisions_exists = any(
|
|
1006
|
+
elem.tagName == f"{prefix}:trackRevisions"
|
|
1007
|
+
for elem in editor.dom.getElementsByTagName(f"{prefix}:trackRevisions")
|
|
1008
|
+
)
|
|
1009
|
+
|
|
1010
|
+
if not track_revisions_exists:
|
|
1011
|
+
track_rev_xml = f"<{prefix}:trackRevisions/>"
|
|
1012
|
+
# Try to insert before documentProtection, defaultTabStop, or at start
|
|
1013
|
+
inserted = False
|
|
1014
|
+
for tag in [f"{prefix}:documentProtection", f"{prefix}:defaultTabStop"]:
|
|
1015
|
+
elements = editor.dom.getElementsByTagName(tag)
|
|
1016
|
+
if elements:
|
|
1017
|
+
editor.insert_before(elements[0], track_rev_xml)
|
|
1018
|
+
inserted = True
|
|
1019
|
+
break
|
|
1020
|
+
if not inserted:
|
|
1021
|
+
# Insert as first child of settings
|
|
1022
|
+
if root.firstChild:
|
|
1023
|
+
editor.insert_before(root.firstChild, track_rev_xml)
|
|
1024
|
+
else:
|
|
1025
|
+
editor.append_to(root, track_rev_xml)
|
|
1026
|
+
|
|
1027
|
+
# Always check if rsids section exists
|
|
1028
|
+
rsids_elements = editor.dom.getElementsByTagName(f"{prefix}:rsids")
|
|
1029
|
+
|
|
1030
|
+
if not rsids_elements:
|
|
1031
|
+
# Add new rsids section
|
|
1032
|
+
rsids_xml = f'''<{prefix}:rsids>
|
|
1033
|
+
<{prefix}:rsidRoot {prefix}:val="{self.rsid}"/>
|
|
1034
|
+
<{prefix}:rsid {prefix}:val="{self.rsid}"/>
|
|
1035
|
+
</{prefix}:rsids>'''
|
|
1036
|
+
|
|
1037
|
+
# Try to insert after compat, before clrSchemeMapping, or before closing tag
|
|
1038
|
+
inserted = False
|
|
1039
|
+
compat_elements = editor.dom.getElementsByTagName(f"{prefix}:compat")
|
|
1040
|
+
if compat_elements:
|
|
1041
|
+
editor.insert_after(compat_elements[0], rsids_xml)
|
|
1042
|
+
inserted = True
|
|
1043
|
+
|
|
1044
|
+
if not inserted:
|
|
1045
|
+
clr_elements = editor.dom.getElementsByTagName(
|
|
1046
|
+
f"{prefix}:clrSchemeMapping"
|
|
1047
|
+
)
|
|
1048
|
+
if clr_elements:
|
|
1049
|
+
editor.insert_before(clr_elements[0], rsids_xml)
|
|
1050
|
+
inserted = True
|
|
1051
|
+
|
|
1052
|
+
if not inserted:
|
|
1053
|
+
editor.append_to(root, rsids_xml)
|
|
1054
|
+
else:
|
|
1055
|
+
# Check if this rsid already exists
|
|
1056
|
+
rsids_elem = rsids_elements[0]
|
|
1057
|
+
rsid_exists = any(
|
|
1058
|
+
elem.getAttribute(f"{prefix}:val") == self.rsid
|
|
1059
|
+
for elem in rsids_elem.getElementsByTagName(f"{prefix}:rsid")
|
|
1060
|
+
)
|
|
1061
|
+
|
|
1062
|
+
if not rsid_exists:
|
|
1063
|
+
rsid_xml = f'<{prefix}:rsid {prefix}:val="{self.rsid}"/>'
|
|
1064
|
+
editor.append_to(rsids_elem, rsid_xml)
|
|
1065
|
+
|
|
1066
|
+
# ==================== Private: XML File Creation ====================
|
|
1067
|
+
|
|
1068
|
+
def _add_to_comments_xml(
|
|
1069
|
+
self, comment_id, para_id, text, author, initials, timestamp
|
|
1070
|
+
):
|
|
1071
|
+
"""Add a single comment to comments.xml."""
|
|
1072
|
+
if not self.comments_path.exists():
|
|
1073
|
+
shutil.copy(TEMPLATE_DIR / "comments.xml", self.comments_path)
|
|
1074
|
+
|
|
1075
|
+
editor = self["word/comments.xml"]
|
|
1076
|
+
root = editor.get_node(tag="w:comments")
|
|
1077
|
+
|
|
1078
|
+
escaped_text = (
|
|
1079
|
+
text.replace("&", "&").replace("<", "<").replace(">", ">")
|
|
1080
|
+
)
|
|
1081
|
+
# Note: w:rsidR, w:rsidRDefault, w:rsidP on w:p, w:rsidR on w:r,
|
|
1082
|
+
# and w:author, w:date, w:initials on w:comment are automatically added by DocxXMLEditor
|
|
1083
|
+
comment_xml = f'''<w:comment w:id="{comment_id}">
|
|
1084
|
+
<w:p w14:paraId="{para_id}" w14:textId="77777777">
|
|
1085
|
+
<w:r><w:rPr><w:rStyle w:val="CommentReference"/></w:rPr><w:annotationRef/></w:r>
|
|
1086
|
+
<w:r><w:rPr><w:color w:val="000000"/><w:sz w:val="20"/><w:szCs w:val="20"/></w:rPr><w:t>{escaped_text}</w:t></w:r>
|
|
1087
|
+
</w:p>
|
|
1088
|
+
</w:comment>'''
|
|
1089
|
+
editor.append_to(root, comment_xml)
|
|
1090
|
+
|
|
1091
|
+
def _add_to_comments_extended_xml(self, para_id, parent_para_id):
|
|
1092
|
+
"""Add a single comment to commentsExtended.xml."""
|
|
1093
|
+
if not self.comments_extended_path.exists():
|
|
1094
|
+
shutil.copy(
|
|
1095
|
+
TEMPLATE_DIR / "commentsExtended.xml", self.comments_extended_path
|
|
1096
|
+
)
|
|
1097
|
+
|
|
1098
|
+
editor = self["word/commentsExtended.xml"]
|
|
1099
|
+
root = editor.get_node(tag="w15:commentsEx")
|
|
1100
|
+
|
|
1101
|
+
if parent_para_id:
|
|
1102
|
+
xml = f'<w15:commentEx w15:paraId="{para_id}" w15:paraIdParent="{parent_para_id}" w15:done="0"/>'
|
|
1103
|
+
else:
|
|
1104
|
+
xml = f'<w15:commentEx w15:paraId="{para_id}" w15:done="0"/>'
|
|
1105
|
+
editor.append_to(root, xml)
|
|
1106
|
+
|
|
1107
|
+
def _add_to_comments_ids_xml(self, para_id, durable_id):
|
|
1108
|
+
"""Add a single comment to commentsIds.xml."""
|
|
1109
|
+
if not self.comments_ids_path.exists():
|
|
1110
|
+
shutil.copy(TEMPLATE_DIR / "commentsIds.xml", self.comments_ids_path)
|
|
1111
|
+
|
|
1112
|
+
editor = self["word/commentsIds.xml"]
|
|
1113
|
+
root = editor.get_node(tag="w16cid:commentsIds")
|
|
1114
|
+
|
|
1115
|
+
xml = f'<w16cid:commentId w16cid:paraId="{para_id}" w16cid:durableId="{durable_id}"/>'
|
|
1116
|
+
editor.append_to(root, xml)
|
|
1117
|
+
|
|
1118
|
+
def _add_to_comments_extensible_xml(self, durable_id):
|
|
1119
|
+
"""Add a single comment to commentsExtensible.xml."""
|
|
1120
|
+
if not self.comments_extensible_path.exists():
|
|
1121
|
+
shutil.copy(
|
|
1122
|
+
TEMPLATE_DIR / "commentsExtensible.xml", self.comments_extensible_path
|
|
1123
|
+
)
|
|
1124
|
+
|
|
1125
|
+
editor = self["word/commentsExtensible.xml"]
|
|
1126
|
+
root = editor.get_node(tag="w16cex:commentsExtensible")
|
|
1127
|
+
|
|
1128
|
+
xml = f'<w16cex:commentExtensible w16cex:durableId="{durable_id}"/>'
|
|
1129
|
+
editor.append_to(root, xml)
|
|
1130
|
+
|
|
1131
|
+
# ==================== Private: XML Fragments ====================
|
|
1132
|
+
|
|
1133
|
+
def _comment_range_start_xml(self, comment_id):
|
|
1134
|
+
"""Generate XML for comment range start."""
|
|
1135
|
+
return f'<w:commentRangeStart w:id="{comment_id}"/>'
|
|
1136
|
+
|
|
1137
|
+
def _comment_range_end_xml(self, comment_id):
|
|
1138
|
+
"""Generate XML for comment range end with reference run.
|
|
1139
|
+
|
|
1140
|
+
Note: w:rsidR is automatically added by DocxXMLEditor.
|
|
1141
|
+
"""
|
|
1142
|
+
return f'''<w:commentRangeEnd w:id="{comment_id}"/>
|
|
1143
|
+
<w:r>
|
|
1144
|
+
<w:rPr><w:rStyle w:val="CommentReference"/></w:rPr>
|
|
1145
|
+
<w:commentReference w:id="{comment_id}"/>
|
|
1146
|
+
</w:r>'''
|
|
1147
|
+
|
|
1148
|
+
def _comment_ref_run_xml(self, comment_id):
|
|
1149
|
+
"""Generate XML for comment reference run.
|
|
1150
|
+
|
|
1151
|
+
Note: w:rsidR is automatically added by DocxXMLEditor.
|
|
1152
|
+
"""
|
|
1153
|
+
return f'''<w:r>
|
|
1154
|
+
<w:rPr><w:rStyle w:val="CommentReference"/></w:rPr>
|
|
1155
|
+
<w:commentReference w:id="{comment_id}"/>
|
|
1156
|
+
</w:r>'''
|
|
1157
|
+
|
|
1158
|
+
# ==================== Private: Metadata Updates ====================
|
|
1159
|
+
|
|
1160
|
+
def _has_relationship(self, editor, target):
|
|
1161
|
+
"""Check if a relationship with given target exists."""
|
|
1162
|
+
for rel_elem in editor.dom.getElementsByTagName("Relationship"):
|
|
1163
|
+
if rel_elem.getAttribute("Target") == target:
|
|
1164
|
+
return True
|
|
1165
|
+
return False
|
|
1166
|
+
|
|
1167
|
+
def _has_override(self, editor, part_name):
|
|
1168
|
+
"""Check if an override with given part name exists."""
|
|
1169
|
+
for override_elem in editor.dom.getElementsByTagName("Override"):
|
|
1170
|
+
if override_elem.getAttribute("PartName") == part_name:
|
|
1171
|
+
return True
|
|
1172
|
+
return False
|
|
1173
|
+
|
|
1174
|
+
def _has_author(self, editor, author):
|
|
1175
|
+
"""Check if an author already exists in people.xml."""
|
|
1176
|
+
for person_elem in editor.dom.getElementsByTagName("w15:person"):
|
|
1177
|
+
if person_elem.getAttribute("w15:author") == author:
|
|
1178
|
+
return True
|
|
1179
|
+
return False
|
|
1180
|
+
|
|
1181
|
+
def _add_author_to_people(self, author):
|
|
1182
|
+
"""Add author to people.xml (called during initialization)."""
|
|
1183
|
+
people_path = self.word_path / "people.xml"
|
|
1184
|
+
|
|
1185
|
+
# people.xml should already exist from _setup_tracking
|
|
1186
|
+
if not people_path.exists():
|
|
1187
|
+
raise ValueError("people.xml should exist after _setup_tracking")
|
|
1188
|
+
|
|
1189
|
+
editor = self["word/people.xml"]
|
|
1190
|
+
root = editor.get_node(tag="w15:people")
|
|
1191
|
+
|
|
1192
|
+
# Check if author already exists
|
|
1193
|
+
if self._has_author(editor, author):
|
|
1194
|
+
return
|
|
1195
|
+
|
|
1196
|
+
# Add author with proper XML escaping to prevent injection
|
|
1197
|
+
escaped_author = html.escape(author, quote=True)
|
|
1198
|
+
person_xml = f'''<w15:person w15:author="{escaped_author}">
|
|
1199
|
+
<w15:presenceInfo w15:providerId="None" w15:userId="{escaped_author}"/>
|
|
1200
|
+
</w15:person>'''
|
|
1201
|
+
editor.append_to(root, person_xml)
|
|
1202
|
+
|
|
1203
|
+
def _ensure_comment_relationships(self):
|
|
1204
|
+
"""Ensure word/_rels/document.xml.rels has comment relationships."""
|
|
1205
|
+
editor = self["word/_rels/document.xml.rels"]
|
|
1206
|
+
|
|
1207
|
+
if self._has_relationship(editor, "comments.xml"):
|
|
1208
|
+
return
|
|
1209
|
+
|
|
1210
|
+
root = editor.dom.documentElement
|
|
1211
|
+
root_tag = root.tagName # type: ignore
|
|
1212
|
+
prefix = root_tag.split(":")[0] + ":" if ":" in root_tag else ""
|
|
1213
|
+
next_rid_num = int(editor.get_next_rid()[3:])
|
|
1214
|
+
|
|
1215
|
+
# Add relationship elements
|
|
1216
|
+
rels = [
|
|
1217
|
+
(
|
|
1218
|
+
next_rid_num,
|
|
1219
|
+
"http://schemas.openxmlformats.org/officeDocument/2006/relationships/comments",
|
|
1220
|
+
"comments.xml",
|
|
1221
|
+
),
|
|
1222
|
+
(
|
|
1223
|
+
next_rid_num + 1,
|
|
1224
|
+
"http://schemas.microsoft.com/office/2011/relationships/commentsExtended",
|
|
1225
|
+
"commentsExtended.xml",
|
|
1226
|
+
),
|
|
1227
|
+
(
|
|
1228
|
+
next_rid_num + 2,
|
|
1229
|
+
"http://schemas.microsoft.com/office/2016/09/relationships/commentsIds",
|
|
1230
|
+
"commentsIds.xml",
|
|
1231
|
+
),
|
|
1232
|
+
(
|
|
1233
|
+
next_rid_num + 3,
|
|
1234
|
+
"http://schemas.microsoft.com/office/2018/08/relationships/commentsExtensible",
|
|
1235
|
+
"commentsExtensible.xml",
|
|
1236
|
+
),
|
|
1237
|
+
]
|
|
1238
|
+
|
|
1239
|
+
for rel_id, rel_type, target in rels:
|
|
1240
|
+
rel_xml = f'<{prefix}Relationship Id="rId{rel_id}" Type="{rel_type}" Target="{target}"/>'
|
|
1241
|
+
editor.append_to(root, rel_xml)
|
|
1242
|
+
|
|
1243
|
+
def _ensure_comment_content_types(self):
|
|
1244
|
+
"""Ensure [Content_Types].xml has comment content types."""
|
|
1245
|
+
editor = self["[Content_Types].xml"]
|
|
1246
|
+
|
|
1247
|
+
if self._has_override(editor, "/word/comments.xml"):
|
|
1248
|
+
return
|
|
1249
|
+
|
|
1250
|
+
root = editor.dom.documentElement
|
|
1251
|
+
|
|
1252
|
+
# Add Override elements
|
|
1253
|
+
overrides = [
|
|
1254
|
+
(
|
|
1255
|
+
"/word/comments.xml",
|
|
1256
|
+
"application/vnd.openxmlformats-officedocument.wordprocessingml.comments+xml",
|
|
1257
|
+
),
|
|
1258
|
+
(
|
|
1259
|
+
"/word/commentsExtended.xml",
|
|
1260
|
+
"application/vnd.openxmlformats-officedocument.wordprocessingml.commentsExtended+xml",
|
|
1261
|
+
),
|
|
1262
|
+
(
|
|
1263
|
+
"/word/commentsIds.xml",
|
|
1264
|
+
"application/vnd.openxmlformats-officedocument.wordprocessingml.commentsIds+xml",
|
|
1265
|
+
),
|
|
1266
|
+
(
|
|
1267
|
+
"/word/commentsExtensible.xml",
|
|
1268
|
+
"application/vnd.openxmlformats-officedocument.wordprocessingml.commentsExtensible+xml",
|
|
1269
|
+
),
|
|
1270
|
+
]
|
|
1271
|
+
|
|
1272
|
+
for part_name, content_type in overrides:
|
|
1273
|
+
override_xml = (
|
|
1274
|
+
f'<Override PartName="{part_name}" ContentType="{content_type}"/>'
|
|
1275
|
+
)
|
|
1276
|
+
editor.append_to(root, override_xml)
|