'annotation' 검색 결과

Analyze git repository history to produce a codebase risk profile before code review. Probes repo size, runs 7 parallel git analysis pipelines (hotspots, bug magnets, bus factor, contributor momentum, firefighting frequency, newly added files), cross-references hotspots with bug magnets to identify high-risk files with primary owner annotation, and writes walkthrough/recon-report.md. Use before code review to prioritize reviewer attention, at the start of linear-walkthrough Phase 1 Discovery to weight file coverage, or when onboarding to an unfamiliar codebase.

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Work with a Grafana instance — search and read dashboards, run datasource queries (Prometheus, Loki, PostgreSQL, etc.), inspect alert rules and silences, post annotations, and manage folders. Use this whenever the user mentions a Grafana dashboard, panel, or alert; pastes a Grafana URL; asks "what does this dashboard show", "query this metric in Grafana", "is this alert firing", "silence this alert", or wants to create/export a dashboard — even if they don't say "API". Always start from this skill when interacting with this service — its bundled scripts and recipes are the fastest path.

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Manages ArgoCD application sync waves and hooks using the ArgoCD API and argocd CLI. Coordinates multi-application deployment ordering with sync-wave annotations, health checks, and progressive rollout gates.

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Use when writing Playwright tests, fixing flaky tests, debugging failures, implementing Page Object Model, configuring CI/CD, optimizing performance, mocking APIs, handling authentication or OAuth, testing accessibility (axe-core), file uploads/downloads, date/time mocking, WebSockets, geolocation, permissions, multi-tab/popup flows, mobile/responsive layouts, touch gestures, GraphQL, error handling, offline mode, multi-user collaboration, third-party services (payments, email verification), console error monitoring, global setup/teardown, test annotations (skip, fixme, slow), test tags (@smoke, @fast, @critical, filtering with --grep), project dependencies, security testing (XSS, CSRF, auth), performance budgets (Web Vitals, Lighthouse), iframes, component testing, canvas/WebGL, service workers/PWA, test coverage, i18n/localization, Electron apps, or browser extension testing. Covers E2E, component, API, visual, accessibility, security, Electron, and extension testing.

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Retrieve protein sequences, annotation, and structures from UniProtKB, the RCSB PDB, and AlphaFold DB. Use this skill to resolve a gene or protein name to a UniProt accession, pull sequences and FASTA files, find binding sites and domains, search the PDB by UniProt accession, sequence, ligand, or text, download mmCIF/PDB coordinates and biological assemblies, fetch AlphaFold models with their pLDDT confidence, and check whether a structure is actually usable before docking or simulating it. Also trigger on UniProt accessions, PDB ids, rest.uniprot.org, search.rcsb.org, files.rcsb.org, alphafold.ebi.ac.uk, id mapping, SEQRES, or missing residues.

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Spring Data JPA entity design, repository patterns, query methods, JPQL, Flyway/Liquibase migrations, and N+1 avoidance. Apply on Spring Boot projects with spring-boot-starter-data-jpa. Pairs with spring-boot-plugin:spring-conventions and java-foundation:java-conventions. Use this skill to: - Design JPA entities with proper annotations, ID strategy, and lazy loading. - Write JpaRepository interfaces with derived query methods and JPQL @Query. - Avoid N+1 queries using @EntityGraph or JOIN FETCH. - Manage schema evolution with Flyway or Liquibase. - Project query results with Spring Data Projections and DTOs. Do NOT use this skill for: - Service or controller patterns — see spring-boot-plugin:spring-conventions. - Build tool setup — see java-foundation:build-tooling. - Test slices (@DataJpaTest) — see java-foundation:jvm-testing.

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ASP.NET Core web framework conventions: Minimal API vs MVC controllers, Program.cs composition, DI lifetimes (Scoped/Singleton/Transient), Options pattern with IOptions<T>, middleware ordering (HTTPS redirect → routing → authentication → authorization), model binding and validation (FluentValidation / DataAnnotations), ProblemDetails error handling, structured logging with ILogger<T>, configuration layering (appsettings.json + environment variables + User Secrets), and health checks. Works alongside csharp-foundation:csharp-conventions and aspnet-core-plugin:efcore-patterns. Use this skill to: - Compose Program.cs correctly — register services, configure middleware in the right order, map endpoints. - Apply the Options pattern to avoid passing raw IConfiguration into services. - Write Minimal API endpoint groups with typed results and authorization. - Handle cross-cutting errors uniformly with ProblemDetails. - Configure structured logging and health checks for production readiness. Do NOT use this skill for: - EF Core entity configuration and migrations — see aspnet-core-plugin:efcore-patterns. - C# language idioms — see csharp-foundation:csharp-conventions. - Testing — see csharp-foundation:dotnet-testing.

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Framework-agnostic SQLAlchemy 2.0 core shared by fastapi-plugin and flask-plugin: declarative mapped classes with Mapped/mapped_column, column type selection, relationships with explicit lazy loading and cascades, 2.0-style select() querying, transaction/flush discipline, and Alembic-agnostic migration metadata rules. Framework plugins layer their delta skills (async sessions for FastAPI, Flask-SQLAlchemy integration for Flask) on top of this skill. Use this skill to: - Write SQLAlchemy 2.0 declarative models with Mapped[T] annotations and mapped_column(). - Pick correct column types (String(N), Numeric, DateTime(timezone=True), Uuid, Enum). - Define relationships with explicit lazy loading strategy and cascade settings. - Query with 2.0-style select() statements and manage flush vs commit boundaries. - Keep model metadata visible to Alembic autogenerate. Do NOT use this skill for: - FastAPI async engine/session lifecycle — see fastapi-plugin:sqlalchemy-patterns. - Flask-SQLAlchemy extension setup and Flask-Migrate — see flask-plugin:sqlalchemy-patterns. - Python idioms — see python-foundation:python-conventions.

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Modern Java idioms for any JVM project (Java 17+): records, sealed types, text blocks, pattern matching, Optional discipline, streams, immutability, null safety, package layout, var usage, and code organisation. Apply when the project is a Java 17+ project. Stack-agnostic — referenced by every Java plugin in the marketplace. Use this skill to: - Write self-documenting, immutable-by-default value types with records. - Model closed type hierarchies with sealed classes and interfaces. - Handle optionality explicitly with Optional instead of returning null. - Write expressive pipelines with Stream API without performance footguns. - Lay out packages consistently (feature-first or layer-first) and keep class responsibilities tight. Do NOT use this skill for: - Framework-specific idioms (Spring annotations, JPA mappings — those live in framework plugin skills). - Build tooling (Maven/Gradle) — see java-foundation:build-tooling. - Testing patterns — see java-foundation:jvm-testing.

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Install and configure the putior R package for workflow visualization. Covers CRAN and GitHub installation, optional dependencies (mcptools, ellmer, shiny, shinyAce, logger, plumber2), and verification of the complete annotation-to-diagram pipeline. Use when setting up putior for the first time, preparing a machine for workflow visualization tasks, when a downstream skill requires putior to be installed, or restoring an environment after an R version upgrade or renv wipe.

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Set up systematic data labeling workflows using Label Studio or similar tools. Implement quality controls, measure inter-annotator agreement, manage labeler teams, and integrate labeled data into ML training pipelines. Use when starting a supervised ML project that requires labeled training data, when model performance is limited by insufficient labeled examples, when labeling text, images, audio, or video, or when implementing active learning to prioritize the most valuable examples.

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Create production-ready Grafana dashboards with reusable panels, template variables, annotations, and provisioning for version-controlled dashboard deployment. Use when creating visual representations of Prometheus, Loki, or other data source metrics, building operational dashboards for SRE teams, migrating from manual dashboard creation to version-controlled provisioning, or establishing executive-level SLO compliance reporting.

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Specifies standards for RestController classes, including API route mappings, HTTP method annotations, dependency injection, and error handling with ApiResponse and GlobalExceptionHandler.

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Guide developers in creating Model Context Protocol (MCP) servers. Use for building MCP tools that enable LLMs to interact with external services. Covers TypeScript (primary) and Python FastMCP (secondary), tool annotations, Zod/Pydantic validation, and evaluation question creation.

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Run all 5 decomposition validators (req-has-module, code-annotation-maps-to-module, visibility-rule-enforcement, anaemic-context-detection, granularity-match) on the project, reporting violations.

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Generate boilerplate `# implements:` annotation for a function based on the artefact ID, inserting it as the first line of the function body.

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Add a satisfies link from a DES → REQ, TEST → REQ/DES, or CODE annotation → ID, validating that the target exists in the registry.

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Reorganize label-heavy or netlist-like electronic schematics into human-readable functional diagrams with visible local wiring while preserving proven connectivity. Use for schematic readability correction, overlapping wires or symbols, visually floating connectors or support logic, functional-sheet restructuring, bus presentation, layout annotations, or multi-EDA handoff across KiCad, Altium, EasyEDA, EAGLE/Fusion, gEDA/Lepton, SPICE/netlist, and PDF/image sources.

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Design annotation pipelines that produce reliable training labels — guidelines, agreement measurement, and quality control.

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Label smarter, not more — pick the most informative examples for annotation to maximize model gains per label.

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Design data models with Pydantic schemas, comprehensive validation rules, type annotations, and relationship mappings.

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Review computational protein or gene function predictions and fill PredictionReview YAML files using the COR/CNN/LSP/UNC/PLI/NPI/REP biological-validity taxonomy. Use for ProtNLM, DeepECTF, BioReason/GO-GPT, InterPro2GO, PANTHER/IBA, CLEAN, GloEC, MAPred, ProteinInfer, or other predicted EC/GO annotations, including audits of the evidence and reasoning in existing prediction reviews.

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Evaluate and review GO-CAM (Gene Ontology Causal Activity Model) activities / annotons — molecular-function typing, has-input, causal relations, complexes, evidence — and check their consistency with gene annotation reviews. Use when reviewing cached GO-CAMs under gocams/, filling a GoCamReview YAML (gocams/<id>/<id>-review.yaml), or grounding a module in GO-CAM models.

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Review AI Gene Review pull requests and curation changes for GO term quality, evidence support, core function identification, and annotation action justification. Use for PR review comments, review follow-up automation, and QA of gene review YAML.

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