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Found 172 Skills
LangGraph checkpointing and persistence. Use when implementing fault-tolerant workflows, resuming interrupted executions, debugging with state history, or avoiding re-running expensive operations.
When a user asks how long a task will take, requests a time estimate, or before starting any non-trivial coding task, immediately run scripts/estimate_task.py to analyze the codebase scope and provide a data-driven time estimate. Show the estimate breakdown, risk factors, and checkpoint recommendations without asking.
Select the most appropriate pipeline for a user goal, lock it in `PIPELINE.lock.md`, and route checkpoint questions into `DECISIONS.md`. **Trigger**: pipeline router, choose pipeline, workflow selection, PIPELINE.lock.md, 选择流程. **Use when**: 用户目标/交付物不清晰，需要在 snapshot/survey/tutorial/systematic-review/peer-review 中选一个并设置最小 HITL 问题集。 **Skip if**: pipeline 已锁定（`PIPELINE.lock.md` 存在）且所需问题已回答/签字完成。 **Network**: none. **Guardrail**: 尽量一次性提问；信息不足就写 `DECISIONS.md` 并停下等待。
Concurrency safety patterns for distributed pueue + mise + systemd-run job pipelines. TRIGGERS - queue pueue jobs, deploy to remote host, concurrent job collisions, checkpoint races, resource guards, cgroup memory limits, systemd-run, autoscale, batch processing safety, job parameter isolation.
Data validation and pipeline testing utilities for ML training projects. Validates datasets, model checkpoints, training pipelines, and dependencies. Use when validating training data, checking model outputs, testing ML pipelines, verifying dependencies, debugging training failures, or ensuring data quality before training.
Predict patient response to immune checkpoint inhibitors (ICIs) using multi-biomarker integration. Given a cancer type, somatic mutations, and optional biomarkers (TMB, PD-L1, MSI status), performs systematic analysis across 11 phases covering TMB classification, neoantigen burden estimation, MSI/MMR assessment, PD-L1 evaluation, immune microenvironment profiling, mutation-based resistance/sensitivity prediction, clinical evidence retrieval, and multi-biomarker score integration. Generates a quantitative ICI Response Score (0-100), response likelihood tier, specific ICI drug recommendations with evidence, resistance risk factors, and a monitoring plan. Use when oncologists ask about immunotherapy eligibility, checkpoint inhibitor selection, or biomarker-guided ICI treatment decisions.
Test coverage verification for refactoring. Apply when verifying existing test coverage, identifying gaps, recommending pre-refactoring tests, and defining verification checkpoints.
Execute an approved implementation plan exactly and safely. Use when a plan already exists (for example in docs/plans/...) and work must be carried out phase-by-phase with verification checkpoints, status tracking, and final execution reporting.
Orchestrator for the complete talk preparation pipeline (REX or Concept mode). Runs all 6 stages in sequence with human-in-the-loop checkpoints.
Stage 4 — Strategic angles, titles, descriptions, peer feedback draft. Includes mandatory CHECKPOINT before script can start.
Use when partner provides a complete implementation plan to execute in controlled batches with review checkpoints - loads plan, reviews critically, executes tasks in batches, reports for review between batches
Initialize a new workspace by copying the standard artifact template (STATUS.md, CHECKPOINTS.md, UNITS.csv, DECISIONS.md + folders). **Trigger**: workspace init, initialize workspace, workspace template, 初始化 workspace. **Use when**: 启动任何 pipeline run（必须先有 workspace 工件与目录骨架）。 **Skip if**: workspace 已初始化且不希望覆盖既有文件（除非显式 `--overwrite`）。 **Network**: none. **Guardrail**: 不要修改 `.codex/skills/workspace-init/assets/` 模板；默认不覆盖已有文件。