「sam」の検索結果

Run and analyze molecular dynamics simulations with OpenMM and MDAnalysis. Set up protein and protein-ligand systems with PDBFixer, choose force fields and water models (AMBER14, CHARMM36m, ff19SB, GAFF2, TIP3P), solvate and add ions, run energy minimization, NVT/NPT equilibration and production MD on GPU, then analyze trajectories for RMSD, RMSF, radius of gyration, hydrogen bonds, native contacts, PCA and free energy surfaces. Use this skill for protein stability under mutation, ligand binding-mode and residence-time questions, conformational sampling, membrane proteins, and disordered ensembles. Also trigger on OpenMM, MDAnalysis, mdtraj, Simulation.step, LangevinMiddleIntegrator, PDBFixer, DCD or XTC trajectory, RMSD analysis, or production MD.

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Probe the runtime state of a named feature flag in a CLI binary. Covers the four-pronged evidence protocol (binary strings, live invocation, on-disk state, platform cache), the four-state classification (LIVE / DARK / INDETERMINATE / UNKNOWN), gate-vs-event disambiguation, conjunction-gate handling, and skill-substitution scenarios where a flag appears DARK but the capability is delivered by other means. Use when verifying whether a documented or inferred capability has rolled out, when auditing dark-launched features, or when a prior probe's conclusions need refreshing against a new binary version.

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Implement a generative diffusion model (DDPM or score-based) with noise scheduling, U-Net architecture, training loop, and sampling procedures including DDIM acceleration. Use when building a generative model for image, audio, or molecular synthesis; implementing DDPM from a research paper; adding a custom noise schedule or conditioning mechanism; replacing a GAN-based generator with a diffusion alternative; or prototyping before scaling with production frameworks like diffusers.

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Fit cognitive drift-diffusion models (Ratcliff DDM) to reaction time and accuracy data with parameter estimation (drift rate, boundary separation, non-decision time), model comparison, and parameter recovery validation. Use when modeling binary decision-making with reaction time data, estimating cognitive parameters from experimental data, comparing sequential sampling model variants, or decomposing speed-accuracy tradeoff effects into latent cognitive components.

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Instrument applications with OpenTelemetry for distributed tracing, including auto and manual instrumentation, context propagation, sampling strategies, and integration with Jaeger or Tempo. Use when debugging latency issues in distributed systems, understanding request flow across microservices, correlating traces with logs and metrics for root cause analysis, measuring end-to-end latency, or migrating from legacy tracing systems to OpenTelemetry.

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Systematically interpret infrared spectra to identify functional groups present in a sample. Covers diagnostic region analysis (4000-1500 cm-1), fingerprint region assessment (1500-400 cm-1), hydrogen bonding effects, and compilation of a functional group inventory with confidence levels.

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Alluvial gold recovery using panning, sluicing, and classification. Covers site reading (geological indicators, stream dynamics, pay streak location), panning technique, sluice box operation, and responsible extraction practices. Use when prospecting in an area with known or suspected alluvial gold deposits, sampling a stream to test for gold presence, maximizing recovery during recreational panning, or assessing a site's gold potential before investing more effort.

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Generate jigsaw puzzles via generate_puzzle() or geom_puzzle_*() with parameter validation against inst/config.yml. Supports rectangular, hexagonal, concentric, voronoi, and snic puzzle types with configurable grid, size, seed, offset, and layout parameters. Use when creating puzzle SVG files for a specific type and configuration, testing generation with different parameters, generating sample output for documentation or demos, or creating ggplot2 puzzle visualizations.

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Design an acoustic levitation system that uses standing waves to trap and suspend small objects at pressure nodes. Covers ultrasonic transducer selection, standing wave formation between a transducer and reflector, node spacing and trapping position calculation, acoustic radiation pressure analysis, and phased array configurations for multi-axis manipulation. Use when designing contactless sample handling for chemistry, biology, materials science, or demonstration purposes.

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Evaluate and compare levitation mechanisms for a given application through a structured trade study. Covers magnetic (passive diamagnetic, active feedback, superconducting), acoustic (standing wave, phased array), aerodynamic (hovercraft, air bearings, Coanda effect), and electrostatic (Coulomb suspension, ion traps) mechanisms. Use when selecting the most appropriate levitation approach for transport, sample handling, display, bearings, or precision measurement applications.

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Capture outbound HTTP and telemetry from a CLI harness at runtime. Covers capture-channel selection (transcript file vs verbose-fetch stderr vs outbound proxy vs on-disk state), hook-driven per-event capture vs long-running session capture, JSONL output format for diff-friendly artifacts, and the observability table that maps each target to the cheapest channel that captures it. Use when a static finding needs runtime confirmation, when a payload shape is needed for a client re-implementation, or when dark-vs-live disambiguation requires watching what the binary actually sends.

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Coordinate safely with a peer interactive session sharing the same git worktree — check first whether a separate worktree removes the problem, then declare path and branch scope before the first edit, survive a contended index lock, and review the whole branch before opening a PR. Activate when starting work in a repository that may already be occupied, when a git command fails with `index.lock: File exists`, when `guard:snapshot` refuses because a snapshot already exists, or when a commit turns out to contain a file this session never edited. When one session leads and the other supports, divide the labour by shape and re-derive every reported number against a named revision before citing it. Distinct from subagent concurrency: a peer session cannot be bracketed, because no baseline exists from before its edits.

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Create parameterized Quarto or R Markdown reports that can be rendered with different inputs to generate multiple variations. Covers parameter definitions, programmatic rendering, and batch generation. Use when generating the same report for different departments, regions, or time periods; creating client-specific reports from a single template; building dashboards that filter to specific subsets; or automating recurring reports with varying inputs.

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State management and storage choice in React Native. State libs work mostly the same as web (Zustand, Jotai, Redux Toolkit, TanStack Query, Context); storage choice is RN-specific — AsyncStorage, MMKV, SecureStore, Keychain. Hydration patterns, splash screen handling, secrets discipline. Use this skill to: - Pick state management lib (matches web React intuition). - Pick storage by sensitivity (AsyncStorage / MMKV / SecureStore / Keychain). - Hydrate state on app start without UI flicker. - Persist Zustand store across app restarts. - Avoid storing secrets in plaintext storage. Do NOT use this skill for: - General project conventions (see rn-conventions). - Platform-specific code (see rn-platform-specific). - Navigation (see rn-navigation). - Testing state/storage (see rn-testing).

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Rewrite a rule so anyone applies it the same way. Use when a stated rule or claim takes the reader's judgment to apply.

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Use when collecting sampling profiles with perf record, reading perf report or perf annotate, measuring PMU counters with perf stat -e, or using PAPI instrumentation to interpret IPC, miss rates, MPKI, or memory bandwidth on Linux. Not for SVG rendering: use flamegraphs.

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Use when configuring ADC sampling time, DMA-driven ADC, calibration, or DAC channel setup on bare-metal MCUs. Not for the DMA stream itself: use dma-baremetal.

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Measure the active Agent model with pinned offline ModelTrace sampling and return an unsigned closed-set attribution record. Use before Agent-originated commits, Issue/PR creation or material updates, comments, reviews, and current collaboration writes in either execution mode. Do not treat a fingerprint, declared model label, or record reference as authenticated identity, permission, independent review, or acceptance.

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Compute a unified outer hull around a group of hex tiles that includes multiple disconnected sub-clusters separated by 1-tile gaps. Use when: (1) rendering nested hierarchy hulls (e.g. "package" hull wrapping multiple "sub-region" hex islands), (2) the naive boundary trace outlines each island separately instead of as one bag, (3) flood-fill from outside walks THROUGH the 1-hex gaps and marks them exterior, (4) heuristic "non-adjacent same-group neighbours" over-fills L-shape concavities, (5) axial-only opposite-pair filling misses non-axial bridges between islands. Solution: morphological close (dilate + erode) on the hex grid — fills exactly the interior 1-hex gaps without affecting exterior corners, then trace boundary on the closed shape.

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Fix intermittent `{:no_translation, :unicode, :latin1}` crashes in Elixir escript daemons that use length-prefixed framed IPC on stdin/stdout. Use when: (1) daemon worker crashes only on some input files, usually ones with non-ASCII bytes (kanji, cyrillic, emoji); (2) error surfaces as `Protocol error` from daemon's error branch or as garbled frame-length bytes seen by the orchestrator/client side; (3) standalone one-shot mode works fine on the same input but multi-request daemon mode fails; (4) `IO.binread(:stdio, N)` returns `{:error, {:no_translation, :unicode, :latin1}}` despite the "bin" prefix suggesting it should be encoding-agnostic. Root cause is the escript default `:standard_io` encoding — it's `:unicode`, and `IO.binread` still routes through the io_server, which translates bytes to codepoints and errors when raw binary frames contain invalid UTF-8 sequences.

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Continuous self-reflection routine combining Schön (reflection-in-action / reflection-on-action) and Mezirow (content / process / premise) levels, anchored on KAMI values (val-002 глубина, val-007 честность перед собой, принцип 1 правда, принцип 2 нулевая толерантность к бреду). Triggers FIRE DURING THE TURN, not at end. Use when: (1) about to make a 2nd+ patch attempt at the same problem, (2) user pushes back with "стоп / нет / опять / так, ещё раз / не то / пиздёж", (3) noticing self drifting into "I think that..." without evidence, (4) about to report "готово", (5) copying a pattern from one place to another, (6) task took >2× expected time. Embeds scientific method (explicit hypotheses + falsifiability + prediction-first + alternatives) as substrate for premise-level reflection, not as ceremony.

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Fix silent incorrect results in RFDB Datalog queries that share a variable between two edge atoms on opposite ends (e.g. self-join patterns like `edge(M, C, "T1"), edge(C, M, "T2")`). Use when: (1) a Datalog rule returns rows that look structurally wrong (e.g. a self-loop rule reports hits but pinning M to each reported id refutes the edge existence), (2) Cypher `MATCH (m)-[:R1]->(c)-[:R2]->(m)` returns the same bogus rows (engine-level bug, not Datalog-specific), (3) results change when you bind one variable explicitly vs. leave it free. Root cause: hash- join fast path in `eval_edge_hash_join` / `eval_incoming_hash_join` unconditionally rebinds the non-key Term::Var without checking whether the variable is already bound in the current row.

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This skill should be used when the user asks to "minimize the repro path", "/minimize", "shrink the crash steps", "精简复现路径", "找最小复现", "把 12 步压成 3 步", or wants to compress a recorded crash repro_path into the shortest sequence that still reproduces the same crash signature. Drives live Android replay via mobile-mcp + ui-mcp + log-mcp, validates each candidate subset with analyzer-mcp's signature, and updates the session's crash record with the verified minimal path; iOS sessions use the static fallback because ui-mcp replay is Android-only.

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Build and deploy full-stack web and mobile apps with AWS Amplify Gen2 (TypeScript code-first). Covers auth (Cognito), data (AppSync/DynamoDB including schema modeling, enum types, relationships, authorization rules), storage (S3), functions, APIs, and AI (Amplify AI Kit with Bedrock). Supports React, Next.js, Vue, Angular, React Native, Flutter, Swift, and Android. Always use this skill for Amplify Gen2 topics — even for questions you think you know — it contains validated, version-specific patterns that prevent common mistakes. TRIGGER when: user mentions Amplify Gen2; project has amplify/ directory or amplify_outputs; code imports @aws-amplify packages; user asks about defineBackend, defineAuth, defineData, defineStorage, or npx ampx. SKIP: Amplify Gen1 (amplify CLI v6), standalone SAM/CDK without Amplify (use aws-serverless), direct Bedrock without Amplify AI Kit (use bedrock).

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