{"slug":"jinzhezenggroup-reacnetgenerator","name":"reacnetgenerator","description":"Run ReacNetGenerator on reactive MD trajectories to generate reaction networks and reports. Use when the user wants to analyze LAMMPS dump/xyz/bond trajectories with ReacNetGenerator. Handles LAMMPS dump quirks like x/y/z vs xs/ys/zs by converting to x/y/z (orthorhombic + triclinic supported via reacnet-md-tools). Can infer atomname order from a LAMMPS data file. Runs via local reacnetgenerator if available or via `uvx --from reacnetgenerator ...`. Writes outputs into `out/<input_basename>/` with logs and a summary.","long_description":"---\nname: reacnetgenerator\ndescription: Run ReacNetGenerator on reactive MD trajectories to generate reaction networks and reports. Use when the user wants to analyze LAMMPS dump/xyz/bond trajectories with ReacNetGenerator. Handles LAMMPS dump quirks like x/y/z vs xs/ys/zs by converting to x/y/z (orthorhombic + triclinic supported via reacnet-md-tools). Can infer atomname order from a LAMMPS data file. Runs via local reacnetgenerator if available or via `uvx --from reacnetgenerator ...`. Writes outputs into `out/<input_basename>/` with logs and a summary.\ncompatibility: Requires `uv` and `python3`. Usually requires internet access for `uvx --from ...` resolution unless packages are already cached.\nlicense: LGPL-3.0-or-later\nmetadata:\n  author: hcustc-bot\n  version: '2.3'\n  repository: https://github.com/tongzhugroup/ReacNetGenerator\n  repositories:\n    - https://github.com/tongzhugroup/ReacNetGenerator\n    - https://github.com/hcustc/reacnet-md-tools\n  openclaw:\n    emoji: 🧪\n    requires:\n      bins: [uv, python3]\n    os: [linux, darwin]\n---\n\n# ReacNetGenerator\n\n## 10-second quickstart\n\n- Run a standard LAMMPS dump workflow:\n  - `uvx --refresh --from reacnet-md-tools rng-pipeline ...`\n- Analyze existing outputs (no rerun):\n  - `uvx --refresh --from reacnet-md-tools rng-query ...`\n\nIf you need full official flags (e.g. `--cell`, `--nopbc`, `--use-ase`, `--miso`, HMM matrices), use native:\n\n- `uvx --refresh --from reacnetgenerator reacnetgenerator ...`\n\n## What this skill is for\n\nUse this skill for **reactive MD post-processing** when the user wants to:\n\n- run **ReacNetGenerator** on `bond`, `dump`, `xyz`, or `extxyz` trajectories\n- handle common LAMMPS trajectory issues before running analysis\n- choose between a **high-level wrapper** (`reacnet-md-tools`) and the **native `reacnetgenerator` CLI**\n- inspect generated `.reactionabcd` / `.species` outputs after a run\n\n## References (read only when needed)\n\nRead only what is relevant:\n\n- If the user asks about official flags or default values: [references/cli.md](references/cli.md)\n- If the user asks about PBC/cell/`--nopbc` or input-type choice: [references/pbc-and-inputs.md](references/pbc-and-inputs.md)\n- If the user wants copy-paste commands: [references/examples.md](references/examples.md)\n\n## Tool-selection rule\n\nChoose the narrowest tool that solves the user’s request:\n\n1. **Use `rng-pipeline` by default** for standard LAMMPS dump workflows.\n1. **Use native `reacnetgenerator`** when the user needs official low-level flags not exposed by the wrapper.\n1. **Use `rng-query`** when the user already has `.reactionabcd` / `.species` outputs and wants analysis rather than rerunning.\n1. **Use `rng-webapp`** only when the user explicitly wants an interactive local browser UI.\n\n## Ask only for the missing inputs\n\nUsually you only need:\n\n- trajectory path(s)\n- input type: `bond | dump | xyz | extxyz` if not obvious\n- atom names for `-a/--atomname` unless they can be inferred from a LAMMPS data file\n- whether the run should be treated as periodic, **only if cell information is missing or ambiguous**\n\nDo **not** ask unnecessary questions when the trajectory already contains enough information.\n\n## Default execution policy\n\n### Preferred default: wrapper CLIs (`reacnet-md-tools`)\n\nUse `reacnet-md-tools` for routine runs because it is safer and more agent-friendly:\n\n- handles standard LAMMPS dump workflows\n- can infer atom names from nearby `.data` files\n- writes outputs into a predictable `out/<basename>/` directory\n- reduces manual CLI assembly errors\n\nWhen running the wrapper from an agent, prefer `uvx` so the latest published version is resolved automatically:\n\n```bash\nuvx --refresh --from reacnet-md-tools rng-pipeline --help\nuvx --refresh --from reacnet-md-tools rng-query --help\n```\n\n### Fallback: native `reacnetgenerator`\n\nUse native `reacnetgenerator` when the user explicitly needs official flags such as:\n\n- `--miso`\n- `--use-ase`\n- `--ase-cutoff-mult`\n- `--ase-pair-cutoffs`\n- `--nopbc`\n- `--cell`\n- `-n/--nproc`\n- `-s/--selectatoms`\n- `--matrixa`\n- `--matrixb`\n- `--urls`\n\nIf using native CLI, follow the official flag semantics in [references/cli.md](references/cli.md).\n\n## Decision rules\n\n### Input type\n\n- If the file clearly looks like a LAMMPS dump (`ITEM:` blocks), treat it as `dump`.\n- If the input is a bond trajectory such as `bonds.reaxc`, treat it as `bond` / `lammpsbondfile`.\n- If the input is `.xyz`, treat it as `xyz` unless it is explicitly `extxyz`.\n\n### PBC / cell\n\nRead [references/pbc-and-inputs.md](references/pbc-and-inputs.md) when choosing `--cell` or `--nopbc`.\n\nShort version:\n\n- For **LAMMPS dump/lammpstrj with valid `BOX BOUNDS`**, do **not** ask for `--cell`.\n- For **XYZ without cell info**, ask whether the system should be treated as periodic.\n- Use `--nopbc` only when the run is truly non-periodic, already unwrapped/reconstructed, or lacks meaningful periodic cell semantics.\n\n### HMM\n\n- For a quick first pass, use `--nohmm` unless the user explicitly wants HMM behavior.\n- If the user asks for more faithful / publication-style treatment and knows what HMM means here, allow HMM by omitting `--nohmm`.\n\n## Post-analysis rule\n\nIf the user already has outputs such as:\n\n- `.reactionabcd`\n- `.species`\n- generated HTML / SVG / JSON reports\n\nprefer **post-analysis** over rerunning. Use `rng-query` first unless the user specifically wants the raw files opened or a browser UI.\n\n## Output expectations\n\nFor normal runs, make outputs predictable and easy to inspect:\n\n- `run.log`\n- generated `*.html`, `*.svg`, `*.json`, `*.species`, `*.reaction*`\n- `summary.md` if using the wrapper workflow\n\n## Working style\n\n- Prefer non-interactive commands unless you truly have a TTY.\n- Prefer explicit paths over implicit discovery when multiple candidate files exist.\n- Stop and ask if atom-type inference is ambiguous.\n- Do not invent unsupported flags; use the official CLI definitions from [references/cli.md](references/cli.md).\n\n## Quick references\n\n- Official CLI coverage: [references/cli.md](references/cli.md)\n- Common recipes: [references/examples.md](references/examples.md)\n- PBC and input decisions: [references/pbc-and-inputs.md](references/pbc-and-inputs.md)\n","tagline":"Run ReacNetGenerator on reactive MD trajectories to generate reaction networks and reports. Use when the user wants to analyze LAMMPS dump/xyz/bond trajectories with ReacNetGenerator. Handles LAMMPS dump quirks like x/y/z vs xs/ys/zs by converting to x/y/z (orthorhombic + triclin","category":"design-creative","tags":["agent-skill"],"author":"jinzhezenggroup","verified":false,"attribution":{"status":"registry_indexed","statusLabel":"Registry indexed","shortLabel":"REGISTRY INDEXED","sourceLabel":"github fast track","sourceDetail":"jinzhezenggroup/computational-chemistry-agent-skills","creatorName":"jinzhezenggroup","creatorUrl":"https://github.com/jinzhezenggroup","sourceUrl":"https://github.com/jinzhezenggroup/computational-chemistry-agent-skills/tree/master/analysis/reacnetgenerator","indexedBy":"OpenAgentSkill community index","claimUrl":"https://www.openagentskill.com/skills/jinzhezenggroup-reacnetgenerator#claim-this-skill","claimCta":"Claim this skill","trustNote":"This listing was indexed from public sources and is not marked official until a maintainer claim is approved.","publicNote":"Attribution links to the public repository or creator profile. Creators can claim the listing to update ownership signals."},"stats":{"stars":135,"forks":27,"verified_installs":0,"successful_runs":0,"total_outcomes":0,"rating":0,"review_count":0,"quality_score":38.03},"quality":{"score":68,"tier":"promising","label":"Promising","summary":"Useful candidate, but compare it with alternatives before adopting.","signals":[{"label":"GitHub stars","value":"135","tone":"neutral"},{"label":"Freshness","value":"3d ago","tone":"positive"},{"label":"Install ready","value":"Yes","tone":"positive"},{"label":"License","value":"LGPL-3.0-or-later","tone":"neutral"}],"warnings":[]},"trust":{"version":"trust-score-v5","score":68,"base_score":76,"outcome_confidence":0,"tier":"review","label":"Sandbox only","summary":"Useful candidate with missing or mixed trust signals. Keep it in an isolated workspace until the outcome loop proves task fit.","recommendedAction":"Run only in a sandbox and compare close alternatives before using it for real work.","decision":{"install_policy":"human_review_before_install","auto_install_allowed":false,"human_review_required":true,"sandbox_first":true,"agent_action":"Compare alternatives before installing.","reasoning":["68/100 Trust Score v5","76/100 Trust Score v4 baseline","Needs more real agent outcomes before unattended install","Install path is available","Review before production"],"review_required_when":["The workspace contains production secrets, payments, private customer data, or irreversible actions.","The install command requests shell, network, credential, database, or broad filesystem access.","Outcome evidence is missing, recently failed, or required human review.","Production credentials, payments, or irreversible account changes without explicit human review","Sensitive private data before reviewing repository code, license, and permission surface","Automatic installation in a production workspace"]},"dimensions":[{"id":"github_adoption","label":"GitHub adoption","score":62,"weight":0.13,"status":"info","detail":"135 GitHub stars"},{"id":"repo_activity","label":"Stars/forks activity","score":57,"weight":0.08,"status":"warn","detail":"135 stars, 27 forks; issue activity unavailable in current metadata"},{"id":"maintenance","label":"Recent maintenance","score":100,"weight":0.14,"status":"pass","detail":"3d since push"},{"id":"license","label":"License clarity","score":86,"weight":0.09,"status":"pass","detail":"LGPL-3.0-or-later"},{"id":"documentation","label":"README/SKILL.md completeness","score":86,"weight":0.14,"status":"pass","detail":"Metadata includes enough usage and workflow context"},{"id":"dependency_risk","label":"Dependency/runtime risk","score":64,"weight":0.12,"status":"info","detail":"command execution surface, network or browser surface"},{"id":"installability","label":"Install availability","score":92,"weight":0.1,"status":"pass","detail":"npx skills add jinzhezenggroup/computational-chemistry-agent-skills --skill reacnetgenerator"},{"id":"install_safety","label":"Install command safety","score":92,"weight":0.1,"status":"pass","detail":"standard package or runtime install path"},{"id":"permission_surface","label":"Permission surface","score":48,"weight":0.07,"status":"warn","detail":"shell or command execution, filesystem or document access"},{"id":"repository","label":"Repository evidence","score":86,"weight":0.04,"status":"pass","detail":"https://github.com/jinzhezenggroup/computational-chemistry-agent-skills/tree/master/analysis/reacnetgenerator"},{"id":"review_status","label":"Review status","score":88,"weight":0.05,"status":"pass","detail":"AI review data available"},{"id":"agent_outcomes","label":"Agent Proven outcomes","score":54,"weight":0.13,"status":"info","detail":"No agent outcome data yet"}],"checks":[{"status":"info","label":"GitHub adoption","detail":"135 GitHub stars"},{"status":"warn","label":"Stars/forks activity","detail":"135 stars, 27 forks; 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issue activity unavailable in current metadata","Permission surface: shell or command execution, filesystem or document access"]},"outcomeEvidence":{"total":0,"successes":0,"failures":0,"notRelevant":0,"successRate":null,"installAttempts":0,"riskBlocked":0,"setupRequired":0,"installSuccessRate":null,"avgOutputQuality":null,"avgTimeToUsefulMs":null,"productionOutcomes":0,"humanReviewRequired":0,"recentSuccessRate":null,"recentFailureRate":null,"uniqueAgents":0,"agentProvenScore":0,"agentProvenLabel":"Needs first agent run","lastOutcomeAt":null,"label":"No agent outcome data yet"},"autoInstall":{"allowed":false,"sandboxRequired":true,"policy":"human_review_before_install","reason":"Compare alternatives before installing."},"outcome_loop":{"version":"openagentskill-agent-outcome-v4","required_after_install":true,"endpoint":"/api/agent/outcome","method":"POST","event_id_source":"feedback.event_id, install_receipt.resolve_event_id, or decision_packet.outcome_feedback.event_id","expected_outcomes":["success","failed","not_relevant","blocked_by_risk","setup_required"],"required_fields":["event_id","skill_slug","task"],"quality_fields":["task_success","output_quality","error_type","human_review_required","used_in_production","workspace","evidence_url","time_to_useful_ms","source_version"],"ranking_inputs_updated":["Trust Score v5 outcome confidence","Agent Proven Score","Resolve ranking task-fit evidence","Skill detail machine-readable metadata","Outcome leaderboard"]},"agent_contract":{"suited_tasks":["design-creative","agent-skill"],"suited_agents":["Codex","Claude Code","Cursor","OpenAgentSkill CLI"],"install_command":"npx skills add jinzhezenggroup/computational-chemistry-agent-skills --skill reacnetgenerator","trust_score":68,"trust_version":"trust-score-v5","risk_level":"medium","do_not_use_when":["Production credentials, payments, or irreversible account changes without explicit human review","Sensitive private data before reviewing repository code, license, and permission surface","Automatic installation in a production workspace"],"before_install":["Read the audit page and machine-readable metadata.","Confirm the install command, license, and permission surface fit the workspace.","Get explicit human approval or choose an alternative before installing."],"after_run":["Report the outcome to /api/agent/outcome using the resolve event id.","Include output_quality, workspace, human_review_required, and evidence_url when available.","Re-resolve before broad production rollout."]},"bestFor":["design-creative","agent-skill"],"doNotUseFor":["Production credentials, payments, or irreversible account changes without explicit human review","Sensitive private data before reviewing repository code, license, and permission surface","Automatic installation in a production workspace"],"knownRisks":["Quality score needs review","Permission surface needs review: shell or command execution, filesystem or document access","Stars/forks activity: 135 stars, 27 forks; issue activity unavailable in current metadata","Permission surface: shell or command execution, filesystem or document access"],"backward_compatible":{"trust_score_v4":{"version":"trust-score-v4","score":76,"tier":"strong","label":"Strong shortlist","summary":"Good trust signals with a few areas worth checking before rollout."}}},"trust_score_v4":{"version":"trust-score-v4","score":76,"tier":"strong","label":"Strong shortlist","summary":"Good trust signals with a few areas worth checking before rollout.","recommendedAction":"Test in a sandbox workflow and compare its install path with close alternatives.","dimensions":[{"id":"github_adoption","label":"GitHub adoption","score":62,"weight":0.13,"status":"info","detail":"135 GitHub stars"},{"id":"repo_activity","label":"Stars/forks activity","score":57,"weight":0.08,"status":"warn","detail":"135 stars, 27 forks; issue activity unavailable in current metadata"},{"id":"maintenance","label":"Recent maintenance","score":100,"weight":0.14,"status":"pass","detail":"3d since push"},{"id":"license","label":"License clarity","score":86,"weight":0.09,"status":"pass","detail":"LGPL-3.0-or-later"},{"id":"documentation","label":"README/SKILL.md completeness","score":86,"weight":0.14,"status":"pass","detail":"Metadata includes enough usage and workflow context"},{"id":"dependency_risk","label":"Dependency/runtime risk","score":64,"weight":0.12,"status":"info","detail":"command execution surface, network or browser surface"},{"id":"installability","label":"Install availability","score":92,"weight":0.1,"status":"pass","detail":"npx skills add jinzhezenggroup/computational-chemistry-agent-skills --skill reacnetgenerator"},{"id":"install_safety","label":"Install command safety","score":92,"weight":0.1,"status":"pass","detail":"standard package or runtime install path"},{"id":"permission_surface","label":"Permission surface","score":48,"weight":0.07,"status":"warn","detail":"shell or command execution, filesystem or document access"},{"id":"repository","label":"Repository evidence","score":86,"weight":0.04,"status":"pass","detail":"https://github.com/jinzhezenggroup/computational-chemistry-agent-skills/tree/master/analysis/reacnetgenerator"},{"id":"review_status","label":"Review status","score":88,"weight":0.05,"status":"pass","detail":"AI review data available"},{"id":"agent_outcomes","label":"Agent Proven outcomes","score":54,"weight":0.13,"status":"info","detail":"No agent outcome data yet"}],"checks":[{"status":"info","label":"GitHub adoption","detail":"135 GitHub stars"},{"status":"warn","label":"Stars/forks activity","detail":"135 stars, 27 forks; issue activity unavailable in current metadata"},{"status":"pass","label":"Recent maintenance","detail":"3d since push"},{"status":"pass","label":"License clarity","detail":"LGPL-3.0-or-later"},{"status":"pass","label":"README/SKILL.md completeness","detail":"Metadata includes enough usage and workflow context"},{"status":"info","label":"Dependency/runtime risk","detail":"command execution surface, network or browser surface"},{"status":"pass","label":"Install availability","detail":"npx skills add jinzhezenggroup/computational-chemistry-agent-skills --skill reacnetgenerator"},{"status":"pass","label":"Install command safety","detail":"standard package or runtime install path"},{"status":"warn","label":"Permission surface","detail":"shell or command execution, filesystem or document access"},{"status":"pass","label":"Repository evidence","detail":"https://github.com/jinzhezenggroup/computational-chemistry-agent-skills/tree/master/analysis/reacnetgenerator"},{"status":"pass","label":"Review status","detail":"AI review data available"},{"status":"info","label":"Agent Proven outcomes","detail":"No agent outcome data yet"},{"status":"warn","label":"Ownership","detail":"No approved owner claim yet"},{"status":"pass","label":"OpenAgentSkill usage","detail":"1 views, 0 install copies"},{"status":"info","label":"Agent outcomes","detail":"No agent outcome data yet"}],"strengths":["AI review approved","Install path is available","Repository evidence is available","Recently maintained repository","Install command has no obvious high-risk pattern"],"warnings":["Quality score needs review","Permission surface needs review: shell or command execution, filesystem or document access","Stars/forks activity: 135 stars, 27 forks; issue activity unavailable in current metadata","Permission surface: shell or command execution, filesystem or document access"],"evidence":{"stars":"135 GitHub stars","repoActivity":"135 stars, 27 forks","lastPushed":"3d since push","license":"LGPL-3.0-or-later","repository":"https://github.com/jinzhezenggroup/computational-chemistry-agent-skills/tree/master/analysis/reacnetgenerator","install":"npx skills add jinzhezenggroup/computational-chemistry-agent-skills --skill reacnetgenerator","installSafety":"standard package or runtime install path","permissionSurface":"shell or command execution, filesystem or document access","documentation":"Strong README/SKILL.md context","agentOutcomes":"No agent outcome data yet"},"installReadiness":{"ready":true,"command":"npx skills add jinzhezenggroup/computational-chemistry-agent-skills --skill reacnetgenerator","policy":"human_review_before_install","label":"Human review before install","notes":["Install path is available","Repository evidence is available","License is declared","No Agent Proven outcome evidence yet","3d since push"]},"agentCompatibility":["Codex","Claude Code","Cursor","OpenAgentSkill CLI"],"riskSummary":{"level":"medium","label":"Review before production","notes":["Quality score needs review","Permission surface needs review: shell or command execution, filesystem or document access","Stars/forks activity: 135 stars, 27 forks; issue activity unavailable in current metadata","Permission surface: shell or command execution, filesystem or document access"]},"outcomeEvidence":{"total":0,"successes":0,"failures":0,"notRelevant":0,"successRate":null,"installAttempts":0,"riskBlocked":0,"setupRequired":0,"installSuccessRate":null,"avgOutputQuality":null,"avgTimeToUsefulMs":null,"productionOutcomes":0,"humanReviewRequired":0,"recentSuccessRate":null,"recentFailureRate":null,"uniqueAgents":0,"agentProvenScore":0,"agentProvenLabel":"Needs first agent run","lastOutcomeAt":null,"label":"No agent outcome data yet"},"autoInstall":{"allowed":false,"sandboxRequired":true,"policy":"human_review_before_install","reason":"Human review or sandbox validation is required before automatic installation."},"bestFor":["design-creative","agent-skill"],"doNotUseFor":["Production credentials, payments, or irreversible account changes without explicit human review","Sensitive private data before reviewing repository code, license, and permission surface","Automatic installation in a production workspace"],"knownRisks":["Quality score needs review","Permission surface needs review: shell or command execution, filesystem or document access","Stars/forks activity: 135 stars, 27 forks; issue activity unavailable in current metadata","Permission surface: shell or command execution, filesystem or document access"]},"agent_proven":{"version":"agent-proven-v1","score":0,"tier":"unproven","label":"Needs first agent run","summary":"No agent outcome reports yet. Use Resolve, run one narrow sandbox task, then report the result.","metrics":{"totalOutcomes":0,"successfulOutcomes":0,"failedOutcomes":0,"installAttempts":0,"installSuccessRate":null,"successRate":null,"recentSuccessRate":null,"recentFailureRate":null,"riskBlocked":0,"setupRequired":0,"notRelevant":0,"avgOutputQuality":null,"avgTimeToUsefulMs":null,"productionOutcomes":0,"humanReviewRequired":0,"uniqueAgents":0,"lastOutcomeAt":null},"signals":[],"penalties":["No real agent outcome evidence yet"]},"outcome_stats":null,"safety":{"score":44,"level":"avoid_auto_install","label":"Avoid automatic install","safety_tier":{"tier":"experimental","label":"Experimental","badge":"EXPERIMENTAL","summary":"Sparse or mixed signals. Useful for discovery, but not for autonomous installation.","recommended_action":"Test manually in an isolated workspace and compare against safer alternatives.","auto_install_policy":"review","reasons":["High-risk permission hints: Shell or command execution","44/100 agent safety score"]},"auto_install_allowed":false,"human_review_required":true,"blocked":false,"audit_risk":"needs_review","permission_hints":[{"id":"shell","label":"Shell or command execution","reason":"Skill metadata references terminal, CLI, shell, subprocess, or command execution workflows.","severity":"high"},{"id":"browser","label":"Browser automation","reason":"Skill may drive a browser or interact with web pages.","severity":"medium"},{"id":"network","label":"Network access","reason":"Skill likely fetches remote pages, APIs, repositories, or external services.","severity":"medium"},{"id":"filesystem","label":"Filesystem access","reason":"Skill may read or write project files, documents, generated artifacts, or local workspace state.","severity":"medium"},{"id":"database","label":"Database access","reason":"Skill may inspect schemas, query databases, or work with persistent stores.","severity":"medium"}],"policy_warnings":["High-risk permission hints: Shell or command execution","Permission surface may require sandboxing"],"constraints_applied":{"max_risk":"medium","needs_install_command":true,"min_stars":0}},"safety_gate":{"tier":"experimental","label":"Experimental","badge":"EXPERIMENTAL","auto_install_policy":"review","auto_install_allowed":false,"blocked":false,"human_review_required":true,"recommended_action":"Test manually in an isolated workspace and compare against safer alternatives.","reasons":["High-risk permission hints: Shell or command execution","44/100 agent safety score"]},"eval":{"version":"openagentskill-skill-eval-v1","status":"failed","score":70,"risk_level":"high","decision":{"recommendation":"do_not_auto_install","reason":"Permission surface: shell or command execution, filesystem or document access","auto_install_allowed":false,"policy":"block","human_review_required":true},"blockers":["Permission surface: shell or command execution, filesystem or document access"],"warnings":["Trust score: Good trust signals with a few areas worth checking before rollout.","Audit score: Needs review","Agent safety gate: Sparse or mixed signals. Useful for discovery, but not for autonomous installation.","High-risk permission hints: Shell or command execution","Permission surface may require sandboxing","Quality score needs review","Permission surface needs review: shell or command execution, filesystem or document access","Stars/forks activity: 135 stars, 27 forks; issue activity unavailable in current metadata","Permission surface: shell or command execution, filesystem or document access"],"validation_plan":["Inspect repository, README/SKILL.md, license, and recent commits before production use.","Install in an isolated workspace or sandbox with no production secrets available.","Run the smallest representative task and record files touched, commands run, network access, and outputs.","Compare the selected skill against at least one alternative when the eval status is review or failed.","Promote only after the agent reports a successful verification result and unresolved warnings are accepted."],"checks":[{"id":"task_fit","label":"Task fit","status":"pass","score":94,"required_for_auto_install":true,"detail":"Task wording matches this skill metadata.","evidence":["Evaluate reacnetgenerator before installing it in an agent workflow","design-creative","GitHub automation workflows; Claude Code teams; builders willing to evaluate younger projects"]},{"id":"install_path","label":"Install path","status":"pass","score":92,"required_for_auto_install":true,"detail":"Install handoff is available.","evidence":["npx skills add jinzhezenggroup/computational-chemistry-agent-skills --skill reacnetgenerator"]},{"id":"install_safety","label":"Install command safety","status":"pass","score":92,"required_for_auto_install":true,"detail":"standard package or runtime install path","evidence":["npx skills add jinzhezenggroup/computational-chemistry-agent-skills --skill reacnetgenerator"]},{"id":"trust_score","label":"Trust score","status":"warn","score":76,"required_for_auto_install":true,"detail":"Good trust signals with a few areas worth checking before rollout.","evidence":["Strong shortlist","135 GitHub stars","LGPL-3.0-or-later"]},{"id":"audit_score","label":"Audit score","status":"warn","score":80,"required_for_auto_install":true,"detail":"Needs review","evidence":["Permission surface may require sandboxing"]},{"id":"agent_safety_gate","label":"Agent safety gate","status":"warn","score":44,"required_for_auto_install":true,"detail":"Sparse or mixed signals. Useful for discovery, but not for autonomous installation.","evidence":["Test manually in an isolated workspace and compare against safer alternatives.","High-risk permission hints: Shell or command execution"]},{"id":"readme_skillmd_completeness","label":"README/SKILL.md completeness","status":"pass","score":86,"required_for_auto_install":false,"detail":"Metadata includes enough usage and workflow context","evidence":["Strong README/SKILL.md context"]},{"id":"license_clarity","label":"License clarity","status":"pass","score":86,"required_for_auto_install":true,"detail":"LGPL-3.0-or-later","evidence":["LGPL-3.0-or-later"]},{"id":"recent_maintenance","label":"Recent maintenance","status":"pass","score":100,"required_for_auto_install":false,"detail":"3d since push","evidence":["3d since push"]},{"id":"permission_surface","label":"Permission surface","status":"fail","score":48,"required_for_auto_install":true,"detail":"shell or command execution, filesystem or document access","evidence":["Shell or command execution: high","Browser automation: medium","Network access: medium"]},{"id":"alternatives","label":"Alternatives available","status":"info","score":55,"required_for_auto_install":false,"detail":"No close alternatives were found in the current shortlist.","evidence":[]}],"endpoints":{"web":"https://www.openagentskill.com/skills/jinzhezenggroup-reacnetgenerator/evals","api":"/api/agent/evals?slug=jinzhezenggroup-reacnetgenerator","text":"/api/agent/evals?slug=jinzhezenggroup-reacnetgenerator&format=text"}},"agent_readable_metadata":{"version":"openagentskill-agent-metadata-v2","skill":{"slug":"jinzhezenggroup-reacnetgenerator","name":"reacnetgenerator","description":"Run ReacNetGenerator on reactive MD trajectories to generate reaction networks and reports. Use when the user wants to analyze LAMMPS dump/xyz/bond trajectories with ReacNetGenerator. Handles LAMMPS dump quirks like x/y/z vs xs/ys/zs by converting to x/y/z (orthorhombic + triclinic supported via reacnet-md-tools). Can infer atomname order from a LAMMPS data file. Runs via local reacnetgenerator if available or via `uvx --from reacnetgenerator ...`. Writes outputs into `out/<input_basename>/` with logs and a summary.","category":"design-creative","url":"https://www.openagentskill.com/skills/jinzhezenggroup-reacnetgenerator","repository":"https://github.com/jinzhezenggroup/computational-chemistry-agent-skills/tree/master/analysis/reacnetgenerator","github_repo":"jinzhezenggroup/computational-chemistry-agent-skills"},"suited_tasks":["GitHub automation workflows","Claude Code teams","builders willing to evaluate younger projects","Inspect repository metadata","Compare code changes","Write concise engineering summaries","Navigate pages","Click and type safely"],"suited_agents":["Codex","Claude Code","Cursor","OpenAgentSkill CLI","Browser agents","CLI"],"install":{"command":"npx skills add jinzhezenggroup/computational-chemistry-agent-skills --skill reacnetgenerator","ready":true,"targets":[{"id":"openagentskill-cli","label":"CLI","kind":"command","value":"npx --yes https://github.com/Leon-Drq/openagentskill/releases/download/cli-v0.3.0/openagentskill-0.3.0.tgz add jinzhezenggroup-reacnetgenerator"},{"id":"codex","label":"Codex","kind":"agent-prompt","value":"Install the \"reacnetgenerator\" agent skill from https://github.com/jinzhezenggroup/computational-chemistry-agent-skills/tree/master/analysis/reacnetgenerator. Read its SKILL.md or equivalent instructions first, install only the files needed for this workspace, and summarize any required setup before using it. Skill purpose: Run ReacNetGenerator on reactive MD trajectories to generate reaction networks and reports. Use when the user wants to analyze LAMMPS dump/xyz/bond trajectories with ReacNetGenerator. Handles LAMMPS dump quirks like x/y/z vs xs/ys/zs by converting to x/y/z (orthorhombic + triclinic supported via reacnet-md-tools). Can infer atomname order from a LAMMPS data file. Runs via local reacnetgenerator if available or via `uvx --from reacnetgenerator ...`. Writes outputs into `out/<input_basename>/` with logs and a summary. After the install attempt, report the result to https://www.openagentskill.com/api/agent/outcome with POST JSON {\"event_id\":\"install_<unique-id>\",\"skill_slug\":\"jinzhezenggroup-reacnetgenerator\",\"task\":\"Install reacnetgenerator\",\"agent\":\"codex\",\"outcome\":\"success\",\"install_used\":true}. Replace event_id with a unique value and outcome with success or failed. Report success only after the skill is installed and a minimal verification passes."},{"id":"claude-code","label":"Claude Code","kind":"agent-prompt","value":"Add \"reacnetgenerator\" as a Claude Code skill from https://github.com/jinzhezenggroup/computational-chemistry-agent-skills/tree/master/analysis/reacnetgenerator. Inspect the skill instructions, place the reusable skill files in the appropriate local skills location for this project, and report the activation steps. Skill purpose: Run ReacNetGenerator on reactive MD trajectories to generate reaction networks and reports. Use when the user wants to analyze LAMMPS dump/xyz/bond trajectories with ReacNetGenerator. Handles LAMMPS dump quirks like x/y/z vs xs/ys/zs by converting to x/y/z (orthorhombic + triclinic supported via reacnet-md-tools). Can infer atomname order from a LAMMPS data file. Runs via local reacnetgenerator if available or via `uvx --from reacnetgenerator ...`. Writes outputs into `out/<input_basename>/` with logs and a summary. After the install attempt, report the result to https://www.openagentskill.com/api/agent/outcome with POST JSON {\"event_id\":\"install_<unique-id>\",\"skill_slug\":\"jinzhezenggroup-reacnetgenerator\",\"task\":\"Install reacnetgenerator\",\"agent\":\"claude-code\",\"outcome\":\"success\",\"install_used\":true}. Replace event_id with a unique value and outcome with success or failed. Report success only after the skill is installed and a minimal verification passes."},{"id":"cursor","label":"Cursor","kind":"agent-prompt","value":"Turn \"reacnetgenerator\" from https://github.com/jinzhezenggroup/computational-chemistry-agent-skills/tree/master/analysis/reacnetgenerator into a reusable Cursor project rule or agent instruction. Preserve the core workflow, adapt paths to this repo, and keep the rule scoped to tasks where it is relevant. Skill purpose: Run ReacNetGenerator on reactive MD trajectories to generate reaction networks and reports. Use when the user wants to analyze LAMMPS dump/xyz/bond trajectories with ReacNetGenerator. Handles LAMMPS dump quirks like x/y/z vs xs/ys/zs by converting to x/y/z (orthorhombic + triclinic supported via reacnet-md-tools). Can infer atomname order from a LAMMPS data file. Runs via local reacnetgenerator if available or via `uvx --from reacnetgenerator ...`. Writes outputs into `out/<input_basename>/` with logs and a summary. After the install attempt, report the result to https://www.openagentskill.com/api/agent/outcome with POST JSON {\"event_id\":\"install_<unique-id>\",\"skill_slug\":\"jinzhezenggroup-reacnetgenerator\",\"task\":\"Install reacnetgenerator\",\"agent\":\"cursor\",\"outcome\":\"success\",\"install_used\":true}. Replace event_id with a unique value and outcome with success or failed. Report success only after the skill is installed and a minimal verification passes."}],"handoff_url":"https://www.openagentskill.com/api/skills/jinzhezenggroup-reacnetgenerator/install","manifest_url":"https://www.openagentskill.com/api/registry/manifest/jinzhezenggroup-reacnetgenerator"},"trust":{"score":76,"label":"Strong shortlist","version":"trust-score-v4","install_policy":"human_review_before_install","evidence":{"stars":"135 GitHub stars","repoActivity":"135 stars, 27 forks","lastPushed":"3d since push","license":"LGPL-3.0-or-later","repository":"https://github.com/jinzhezenggroup/computational-chemistry-agent-skills/tree/master/analysis/reacnetgenerator","install":"npx skills add jinzhezenggroup/computational-chemistry-agent-skills --skill reacnetgenerator","installSafety":"standard package or runtime install path","permissionSurface":"shell or command execution, filesystem or document access","documentation":"Strong README/SKILL.md context","agentOutcomes":"No agent outcome data yet"},"outcome_evidence":{"total":0,"successes":0,"failures":0,"not_relevant":0,"success_rate":null,"recent_success_rate":null,"recent_failure_rate":null,"install_attempts":0,"install_success_rate":null,"risk_blocked":0,"setup_required":0,"avg_output_quality":null,"production_outcomes":0,"last_outcome_at":null,"label":"No agent outcome data yet"},"auto_install":{"allowed":false,"sandbox_required":true,"reason":"Human review or sandbox validation is required before automatic installation."},"best_for":["design-creative","agent-skill"],"known_risks":["Quality score needs review","Permission surface needs review: shell or command execution, filesystem or document access","Stars/forks activity: 135 stars, 27 forks; issue activity unavailable in current metadata","Permission surface: shell or command execution, filesystem or document access"]},"agent_proven":{"version":"agent-proven-v1","score":0,"tier":"unproven","label":"Needs first agent run","summary":"No agent outcome reports yet. Use Resolve, run one narrow sandbox task, then report the result.","metrics":{"totalOutcomes":0,"successfulOutcomes":0,"failedOutcomes":0,"installAttempts":0,"installSuccessRate":null,"successRate":null,"recentSuccessRate":null,"recentFailureRate":null,"riskBlocked":0,"setupRequired":0,"notRelevant":0,"avgOutputQuality":null,"avgTimeToUsefulMs":null,"productionOutcomes":0,"humanReviewRequired":0,"uniqueAgents":0,"lastOutcomeAt":null},"signals":[],"penalties":["No real agent outcome evidence yet"]},"audit":{"score":80,"risk_level":"needs_review","risk_label":"Needs review","warnings":["Permission surface may require sandboxing","Quality score needs review","Permission surface needs review: shell or command execution, filesystem or document access","Stars/forks activity: 135 stars, 27 forks; issue activity unavailable in current metadata","Permission surface: shell or command execution, filesystem or document access"]},"safety_gate":{"tier":"experimental","label":"Experimental","auto_install_policy":"review","auto_install_allowed":false,"human_review_required":true,"blocked":false,"recommended_action":"Test manually in an isolated workspace and compare against safer alternatives."},"quality":{"score":68,"label":"Promising"},"supply":{"track":"Coding and developer agents","scenario":"GitHub automation","maintenance":"3d since push","risk":"Needs review"},"alternative_skills":[],"do_not_use_when":["teams that need a vendor-supported SLA","high-compliance environments without internal security review","No major risk signals from current metadata","High-risk permission hints: Shell or command execution","Permission surface may require sandboxing","Quality score needs review","Permission surface needs review: shell or command execution, filesystem or document access","Stars/forks activity: 135 stars, 27 forks; issue activity unavailable in current metadata"],"agent_contract":{"task_input":"Use reacnetgenerator in an agent workflow","recommended_action":"Test manually in an isolated workspace and compare against safer alternatives.","install_policy":"review","minimum_review_before_use":["Trust: 76/100 Strong shortlist","Audit: 80/100 Needs review","Safety: 44/100 Avoid automatic install","Review repository, license, install command, and permission surface before production use."],"expected_agent_output":{"selected_skill":"jinzhezenggroup-reacnetgenerator (reacnetgenerator)","install_command":"npx skills add jinzhezenggroup/computational-chemistry-agent-skills --skill reacnetgenerator","risk_summary":"Needs review; Experimental; Review before production","verification_result":"Report the smallest successful task, files touched, warnings, and any missing setup."}},"outcome_feedback":{"endpoint":"https://www.openagentskill.com/api/agent/outcome","method":"POST","requires_resolve_event_id":true,"event_id_source":"Use install_receipt.outcome_feedback.event_id or feedback.event_id returned by /api/agent/resolve for the current task.","expected_outcomes":["success","failed","not_relevant","blocked_by_risk","setup_required"],"payload_template":{"event_id":"<install_receipt.outcome_feedback.event_id or feedback.event_id from /api/agent/resolve>","skill_slug":"jinzhezenggroup-reacnetgenerator","task":"Use reacnetgenerator in an agent workflow","agent":"codex","outcome":"success","install_used":true,"risk_blocked":false,"setup_required":false,"task_success":true,"output_quality":4,"error_type":null,"human_review_required":false,"workspace":"sandbox","time_to_useful_ms":120000,"notes":"Report the smallest successful task, setup friction, files touched, and risk notes."}},"endpoints":{"web":"https://www.openagentskill.com/skills/jinzhezenggroup-reacnetgenerator","api":"https://www.openagentskill.com/api/agent/skills/jinzhezenggroup-reacnetgenerator","audit":"https://www.openagentskill.com/skills/jinzhezenggroup-reacnetgenerator/audit","eval":"https://www.openagentskill.com/api/agent/evals?slug=jinzhezenggroup-reacnetgenerator&task=Use%20reacnetgenerator%20in%20an%20agent%20workflow&max_risk=medium","resolve":"https://www.openagentskill.com/api/agent/resolve?task=Use%20reacnetgenerator%20in%20an%20agent%20workflow&agent=codex&max_risk=medium","receipt":"https://www.openagentskill.com/api/agent/receipt?task=Use%20reacnetgenerator%20in%20an%20agent%20workflow&agent=codex&max_risk=medium&format=text","install":"https://www.openagentskill.com/api/skills/jinzhezenggroup-reacnetgenerator/install","manifest":"https://www.openagentskill.com/api/registry/manifest/jinzhezenggroup-reacnetgenerator"}},"machine_metadata":{"version":"openagentskill-agent-metadata-v2","skill":{"slug":"jinzhezenggroup-reacnetgenerator","name":"reacnetgenerator","description":"Run ReacNetGenerator on reactive MD trajectories to generate reaction networks and reports. Use when the user wants to analyze LAMMPS dump/xyz/bond trajectories with ReacNetGenerator. Handles LAMMPS dump quirks like x/y/z vs xs/ys/zs by converting to x/y/z (orthorhombic + triclinic supported via reacnet-md-tools). Can infer atomname order from a LAMMPS data file. Runs via local reacnetgenerator if available or via `uvx --from reacnetgenerator ...`. Writes outputs into `out/<input_basename>/` with logs and a summary.","category":"design-creative","url":"https://www.openagentskill.com/skills/jinzhezenggroup-reacnetgenerator","repository":"https://github.com/jinzhezenggroup/computational-chemistry-agent-skills/tree/master/analysis/reacnetgenerator","github_repo":"jinzhezenggroup/computational-chemistry-agent-skills"},"suited_tasks":["GitHub automation workflows","Claude Code teams","builders willing to evaluate younger projects","Inspect repository metadata","Compare code changes","Write concise engineering summaries","Navigate pages","Click and type safely"],"suited_agents":["Codex","Claude Code","Cursor","OpenAgentSkill CLI","Browser agents","CLI"],"install":{"command":"npx skills add jinzhezenggroup/computational-chemistry-agent-skills --skill reacnetgenerator","ready":true,"targets":[{"id":"openagentskill-cli","label":"CLI","kind":"command","value":"npx --yes https://github.com/Leon-Drq/openagentskill/releases/download/cli-v0.3.0/openagentskill-0.3.0.tgz add jinzhezenggroup-reacnetgenerator"},{"id":"codex","label":"Codex","kind":"agent-prompt","value":"Install the \"reacnetgenerator\" agent skill from https://github.com/jinzhezenggroup/computational-chemistry-agent-skills/tree/master/analysis/reacnetgenerator. Read its SKILL.md or equivalent instructions first, install only the files needed for this workspace, and summarize any required setup before using it. Skill purpose: Run ReacNetGenerator on reactive MD trajectories to generate reaction networks and reports. Use when the user wants to analyze LAMMPS dump/xyz/bond trajectories with ReacNetGenerator. Handles LAMMPS dump quirks like x/y/z vs xs/ys/zs by converting to x/y/z (orthorhombic + triclinic supported via reacnet-md-tools). Can infer atomname order from a LAMMPS data file. Runs via local reacnetgenerator if available or via `uvx --from reacnetgenerator ...`. Writes outputs into `out/<input_basename>/` with logs and a summary. After the install attempt, report the result to https://www.openagentskill.com/api/agent/outcome with POST JSON {\"event_id\":\"install_<unique-id>\",\"skill_slug\":\"jinzhezenggroup-reacnetgenerator\",\"task\":\"Install reacnetgenerator\",\"agent\":\"codex\",\"outcome\":\"success\",\"install_used\":true}. Replace event_id with a unique value and outcome with success or failed. Report success only after the skill is installed and a minimal verification passes."},{"id":"claude-code","label":"Claude Code","kind":"agent-prompt","value":"Add \"reacnetgenerator\" as a Claude Code skill from https://github.com/jinzhezenggroup/computational-chemistry-agent-skills/tree/master/analysis/reacnetgenerator. Inspect the skill instructions, place the reusable skill files in the appropriate local skills location for this project, and report the activation steps. Skill purpose: Run ReacNetGenerator on reactive MD trajectories to generate reaction networks and reports. Use when the user wants to analyze LAMMPS dump/xyz/bond trajectories with ReacNetGenerator. Handles LAMMPS dump quirks like x/y/z vs xs/ys/zs by converting to x/y/z (orthorhombic + triclinic supported via reacnet-md-tools). Can infer atomname order from a LAMMPS data file. Runs via local reacnetgenerator if available or via `uvx --from reacnetgenerator ...`. Writes outputs into `out/<input_basename>/` with logs and a summary. After the install attempt, report the result to https://www.openagentskill.com/api/agent/outcome with POST JSON {\"event_id\":\"install_<unique-id>\",\"skill_slug\":\"jinzhezenggroup-reacnetgenerator\",\"task\":\"Install reacnetgenerator\",\"agent\":\"claude-code\",\"outcome\":\"success\",\"install_used\":true}. Replace event_id with a unique value and outcome with success or failed. Report success only after the skill is installed and a minimal verification passes."},{"id":"cursor","label":"Cursor","kind":"agent-prompt","value":"Turn \"reacnetgenerator\" from https://github.com/jinzhezenggroup/computational-chemistry-agent-skills/tree/master/analysis/reacnetgenerator into a reusable Cursor project rule or agent instruction. Preserve the core workflow, adapt paths to this repo, and keep the rule scoped to tasks where it is relevant. Skill purpose: Run ReacNetGenerator on reactive MD trajectories to generate reaction networks and reports. Use when the user wants to analyze LAMMPS dump/xyz/bond trajectories with ReacNetGenerator. Handles LAMMPS dump quirks like x/y/z vs xs/ys/zs by converting to x/y/z (orthorhombic + triclinic supported via reacnet-md-tools). Can infer atomname order from a LAMMPS data file. Runs via local reacnetgenerator if available or via `uvx --from reacnetgenerator ...`. Writes outputs into `out/<input_basename>/` with logs and a summary. After the install attempt, report the result to https://www.openagentskill.com/api/agent/outcome with POST JSON {\"event_id\":\"install_<unique-id>\",\"skill_slug\":\"jinzhezenggroup-reacnetgenerator\",\"task\":\"Install reacnetgenerator\",\"agent\":\"cursor\",\"outcome\":\"success\",\"install_used\":true}. Replace event_id with a unique value and outcome with success or failed. Report success only after the skill is installed and a minimal verification passes."}],"handoff_url":"https://www.openagentskill.com/api/skills/jinzhezenggroup-reacnetgenerator/install","manifest_url":"https://www.openagentskill.com/api/registry/manifest/jinzhezenggroup-reacnetgenerator"},"trust":{"score":76,"label":"Strong shortlist","version":"trust-score-v4","install_policy":"human_review_before_install","evidence":{"stars":"135 GitHub stars","repoActivity":"135 stars, 27 forks","lastPushed":"3d since push","license":"LGPL-3.0-or-later","repository":"https://github.com/jinzhezenggroup/computational-chemistry-agent-skills/tree/master/analysis/reacnetgenerator","install":"npx skills add jinzhezenggroup/computational-chemistry-agent-skills --skill reacnetgenerator","installSafety":"standard package or runtime install path","permissionSurface":"shell or command execution, filesystem or document access","documentation":"Strong README/SKILL.md context","agentOutcomes":"No agent outcome data yet"},"outcome_evidence":{"total":0,"successes":0,"failures":0,"not_relevant":0,"success_rate":null,"recent_success_rate":null,"recent_failure_rate":null,"install_attempts":0,"install_success_rate":null,"risk_blocked":0,"setup_required":0,"avg_output_quality":null,"production_outcomes":0,"last_outcome_at":null,"label":"No agent outcome data yet"},"auto_install":{"allowed":false,"sandbox_required":true,"reason":"Human review or sandbox validation is required before automatic installation."},"best_for":["design-creative","agent-skill"],"known_risks":["Quality score needs review","Permission surface needs review: shell or command execution, filesystem or document access","Stars/forks activity: 135 stars, 27 forks; issue activity unavailable in current metadata","Permission surface: shell or command execution, filesystem or document access"]},"agent_proven":{"version":"agent-proven-v1","score":0,"tier":"unproven","label":"Needs first agent run","summary":"No agent outcome reports yet. Use Resolve, run one narrow sandbox task, then report the result.","metrics":{"totalOutcomes":0,"successfulOutcomes":0,"failedOutcomes":0,"installAttempts":0,"installSuccessRate":null,"successRate":null,"recentSuccessRate":null,"recentFailureRate":null,"riskBlocked":0,"setupRequired":0,"notRelevant":0,"avgOutputQuality":null,"avgTimeToUsefulMs":null,"productionOutcomes":0,"humanReviewRequired":0,"uniqueAgents":0,"lastOutcomeAt":null},"signals":[],"penalties":["No real agent outcome evidence yet"]},"audit":{"score":80,"risk_level":"needs_review","risk_label":"Needs review","warnings":["Permission surface may require sandboxing","Quality score needs review","Permission surface needs review: shell or command execution, filesystem or document access","Stars/forks activity: 135 stars, 27 forks; issue activity unavailable in current metadata","Permission surface: shell or command execution, filesystem or document access"]},"safety_gate":{"tier":"experimental","label":"Experimental","auto_install_policy":"review","auto_install_allowed":false,"human_review_required":true,"blocked":false,"recommended_action":"Test manually in an isolated workspace and compare against safer alternatives."},"quality":{"score":68,"label":"Promising"},"supply":{"track":"Coding and developer agents","scenario":"GitHub automation","maintenance":"3d since push","risk":"Needs review"},"alternative_skills":[],"do_not_use_when":["teams that need a vendor-supported SLA","high-compliance environments without internal security review","No major risk signals from current metadata","High-risk permission hints: Shell or command execution","Permission surface may require sandboxing","Quality score needs review","Permission surface needs review: shell or command execution, filesystem or document access","Stars/forks activity: 135 stars, 27 forks; issue activity unavailable in current metadata"],"agent_contract":{"task_input":"Use reacnetgenerator in an agent workflow","recommended_action":"Test manually in an isolated workspace and compare against safer alternatives.","install_policy":"review","minimum_review_before_use":["Trust: 76/100 Strong shortlist","Audit: 80/100 Needs review","Safety: 44/100 Avoid automatic install","Review repository, license, install command, and permission surface before production use."],"expected_agent_output":{"selected_skill":"jinzhezenggroup-reacnetgenerator (reacnetgenerator)","install_command":"npx skills add jinzhezenggroup/computational-chemistry-agent-skills --skill reacnetgenerator","risk_summary":"Needs review; Experimental; Review before production","verification_result":"Report the smallest successful task, files touched, warnings, and any missing setup."}},"outcome_feedback":{"endpoint":"https://www.openagentskill.com/api/agent/outcome","method":"POST","requires_resolve_event_id":true,"event_id_source":"Use install_receipt.outcome_feedback.event_id or feedback.event_id returned by /api/agent/resolve for the current task.","expected_outcomes":["success","failed","not_relevant","blocked_by_risk","setup_required"],"payload_template":{"event_id":"<install_receipt.outcome_feedback.event_id or feedback.event_id from /api/agent/resolve>","skill_slug":"jinzhezenggroup-reacnetgenerator","task":"Use reacnetgenerator in an agent workflow","agent":"codex","outcome":"success","install_used":true,"risk_blocked":false,"setup_required":false,"task_success":true,"output_quality":4,"error_type":null,"human_review_required":false,"workspace":"sandbox","time_to_useful_ms":120000,"notes":"Report the smallest successful task, setup friction, files touched, and risk notes."}},"endpoints":{"web":"https://www.openagentskill.com/skills/jinzhezenggroup-reacnetgenerator","api":"https://www.openagentskill.com/api/agent/skills/jinzhezenggroup-reacnetgenerator","audit":"https://www.openagentskill.com/skills/jinzhezenggroup-reacnetgenerator/audit","eval":"https://www.openagentskill.com/api/agent/evals?slug=jinzhezenggroup-reacnetgenerator&task=Use%20reacnetgenerator%20in%20an%20agent%20workflow&max_risk=medium","resolve":"https://www.openagentskill.com/api/agent/resolve?task=Use%20reacnetgenerator%20in%20an%20agent%20workflow&agent=codex&max_risk=medium","receipt":"https://www.openagentskill.com/api/agent/receipt?task=Use%20reacnetgenerator%20in%20an%20agent%20workflow&agent=codex&max_risk=medium&format=text","install":"https://www.openagentskill.com/api/skills/jinzhezenggroup-reacnetgenerator/install","manifest":"https://www.openagentskill.com/api/registry/manifest/jinzhezenggroup-reacnetgenerator"}},"supply_profile":{"track":{"slug":"coding","label":"Coding and developer agents","shortLabel":"Coding","description":"Code review, repo analysis, testing, CI, GitHub, DevOps, and developer workflow skills."},"scenario":{"label":"GitHub automation","description":"I need my agent to triage GitHub issues, review pull requests, and summarize repository changes.","useCases":[{"slug":"github-automation","title":"GitHub automation"},{"slug":"browser-automation","title":"Browser automation"},{"slug":"research-agents","title":"Research agents"}]},"applicableAgents":["Claude Code","Browser agents","CLI","Codex","Cursor"],"install":{"ready":true,"command":"npx skills add jinzhezenggroup/computational-chemistry-agent-skills --skill reacnetgenerator","primaryTarget":"CLI","targetCount":4},"githubQuality":{"stars":135,"starsLabel":"135","forks":27,"license":"LGPL-3.0-or-later","qualityScore":68,"trustScore":76,"auditScore":80},"maintenance":{"status":"fresh","label":"3d since push","daysSincePush":3,"lastPushedAt":"2026-09-04T12:38:11+00:00"},"risk":{"level":"needs_review","label":"Needs review","requiresReview":true,"notes":["Permission surface may require sandboxing","Quality score needs review","Permission surface needs review: shell or command execution, filesystem or document access","Stars/forks activity: 135 stars, 27 forks; issue activity unavailable in current metadata","Permission surface: shell or command execution, filesystem or document access"]},"coverageTags":["Coding","GitHub automation","design-creative","agent-skill"]},"audit":{"audit_score":80,"risk_level":"needs_review","risk_label":"Needs review","quality_score":68,"trust_score":76,"maintenance_score":100,"security_score":80,"install_score":92,"warnings":["Permission surface may require sandboxing","Quality score needs review","Permission surface needs review: shell or command execution, filesystem or document access","Stars/forks activity: 135 stars, 27 forks; issue activity unavailable in current metadata","Permission surface: shell or command execution, filesystem or document access"]},"quality_signals":{"model":"v2","star_score":14.93,"usage_score":0,"review_score":5.1,"metadata_score":3,"freshness_score":15},"platforms":["Claude Code","Browser agents"],"use_cases":[{"slug":"github-automation","title":"GitHub automation","url":"https://www.openagentskill.com/use-cases/github-automation"},{"slug":"browser-automation","title":"Browser automation","url":"https://www.openagentskill.com/use-cases/browser-automation"},{"slug":"research-agents","title":"Research agents","url":"https://www.openagentskill.com/use-cases/research-agents"},{"slug":"testing-qa","title":"Testing and QA","url":"https://www.openagentskill.com/use-cases/testing-qa"}],"stacks":[{"slug":"frontend-product-ui","title":"Frontend and UI","url":"https://www.openagentskill.com/collections/frontend-product-ui"},{"slug":"browser-qa-agent","title":"Browser QA agent","url":"https://www.openagentskill.com/collections/browser-qa-agent"},{"slug":"web-data-pipeline","title":"Web data pipeline","url":"https://www.openagentskill.com/collections/web-data-pipeline"}],"install":"npx skills add jinzhezenggroup/computational-chemistry-agent-skills --skill reacnetgenerator","install_targets":[{"id":"openagentskill-cli","label":"CLI","title":"OpenAgentSkill CLI","kind":"command","value":"npx --yes https://github.com/Leon-Drq/openagentskill/releases/download/cli-v0.3.0/openagentskill-0.3.0.tgz add jinzhezenggroup-reacnetgenerator","description":"Resolve policy, run the source installer safely, and report a verified install receipt.","copyLabel":"Copy command"},{"id":"codex","label":"Codex","title":"Codex install prompt","kind":"agent-prompt","value":"Install the \"reacnetgenerator\" agent skill from https://github.com/jinzhezenggroup/computational-chemistry-agent-skills/tree/master/analysis/reacnetgenerator. Read its SKILL.md or equivalent instructions first, install only the files needed for this workspace, and summarize any required setup before using it. Skill purpose: Run ReacNetGenerator on reactive MD trajectories to generate reaction networks and reports. Use when the user wants to analyze LAMMPS dump/xyz/bond trajectories with ReacNetGenerator. Handles LAMMPS dump quirks like x/y/z vs xs/ys/zs by converting to x/y/z (orthorhombic + triclinic supported via reacnet-md-tools). Can infer atomname order from a LAMMPS data file. Runs via local reacnetgenerator if available or via `uvx --from reacnetgenerator ...`. Writes outputs into `out/<input_basename>/` with logs and a summary. After the install attempt, report the result to https://www.openagentskill.com/api/agent/outcome with POST JSON {\"event_id\":\"install_<unique-id>\",\"skill_slug\":\"jinzhezenggroup-reacnetgenerator\",\"task\":\"Install reacnetgenerator\",\"agent\":\"codex\",\"outcome\":\"success\",\"install_used\":true}. Replace event_id with a unique value and outcome with success or failed. Report success only after the skill is installed and a minimal verification passes.","description":"Give Codex a repo-aware install prompt when the skill is not available through a local CLI.","copyLabel":"Copy prompt"},{"id":"claude-code","label":"Claude Code","title":"Claude Code skill prompt","kind":"agent-prompt","value":"Add \"reacnetgenerator\" as a Claude Code skill from https://github.com/jinzhezenggroup/computational-chemistry-agent-skills/tree/master/analysis/reacnetgenerator. Inspect the skill instructions, place the reusable skill files in the appropriate local skills location for this project, and report the activation steps. Skill purpose: Run ReacNetGenerator on reactive MD trajectories to generate reaction networks and reports. Use when the user wants to analyze LAMMPS dump/xyz/bond trajectories with ReacNetGenerator. Handles LAMMPS dump quirks like x/y/z vs xs/ys/zs by converting to x/y/z (orthorhombic + triclinic supported via reacnet-md-tools). Can infer atomname order from a LAMMPS data file. Runs via local reacnetgenerator if available or via `uvx --from reacnetgenerator ...`. Writes outputs into `out/<input_basename>/` with logs and a summary. After the install attempt, report the result to https://www.openagentskill.com/api/agent/outcome with POST JSON {\"event_id\":\"install_<unique-id>\",\"skill_slug\":\"jinzhezenggroup-reacnetgenerator\",\"task\":\"Install reacnetgenerator\",\"agent\":\"claude-code\",\"outcome\":\"success\",\"install_used\":true}. Replace event_id with a unique value and outcome with success or failed. Report success only after the skill is installed and a minimal verification passes.","description":"Use this prompt to ask Claude Code to add the skill and explain the local activation steps.","copyLabel":"Copy prompt"},{"id":"cursor","label":"Cursor","title":"Cursor rule prompt","kind":"agent-prompt","value":"Turn \"reacnetgenerator\" from https://github.com/jinzhezenggroup/computational-chemistry-agent-skills/tree/master/analysis/reacnetgenerator into a reusable Cursor project rule or agent instruction. Preserve the core workflow, adapt paths to this repo, and keep the rule scoped to tasks where it is relevant. Skill purpose: Run ReacNetGenerator on reactive MD trajectories to generate reaction networks and reports. Use when the user wants to analyze LAMMPS dump/xyz/bond trajectories with ReacNetGenerator. Handles LAMMPS dump quirks like x/y/z vs xs/ys/zs by converting to x/y/z (orthorhombic + triclinic supported via reacnet-md-tools). Can infer atomname order from a LAMMPS data file. Runs via local reacnetgenerator if available or via `uvx --from reacnetgenerator ...`. Writes outputs into `out/<input_basename>/` with logs and a summary. After the install attempt, report the result to https://www.openagentskill.com/api/agent/outcome with POST JSON {\"event_id\":\"install_<unique-id>\",\"skill_slug\":\"jinzhezenggroup-reacnetgenerator\",\"task\":\"Install reacnetgenerator\",\"agent\":\"cursor\",\"outcome\":\"success\",\"install_used\":true}. Replace event_id with a unique value and outcome with success or failed. Report success only after the skill is installed and a minimal verification passes.","description":"Use this when installing as Cursor project rules or reusable agent instructions.","copyLabel":"Copy prompt"}],"repository":"https://github.com/jinzhezenggroup/computational-chemistry-agent-skills/tree/master/analysis/reacnetgenerator","github_repo":"jinzhezenggroup/computational-chemistry-agent-skills","version":"1.0.0","license":"LGPL-3.0-or-later","urls":{"web":"https://www.openagentskill.com/skills/jinzhezenggroup-reacnetgenerator","repository":"https://github.com/jinzhezenggroup/computational-chemistry-agent-skills/tree/master/analysis/reacnetgenerator","api":"/api/agent/skills/jinzhezenggroup-reacnetgenerator","install_api":"/api/skills/jinzhezenggroup-reacnetgenerator/install"},"meta":{"created_at":"2026-09-04T13:01:31.365506+00:00","updated_at":"2026-09-04T13:01:31.479002+00:00","agent_friendly":true}}