@atoms-tech/atoms-mcp 0.29.3 → 0.35.9
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/dist/index.cjs +1 -1
- package/dist/index.js +1 -1
- package/package.json +1 -1
package/dist/index.cjs
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@@ -1,2 +1,2 @@
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#!/usr/bin/env node
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"use strict";var e=require("fs/promises"),t=require("os"),r=require("path"),i=require("@supabase/supabase-js"),a=require("http"),n=require("crypto"),s=require("url"),o=require("zod"),d=require("@modelcontextprotocol/ext-apps/server"),l=require("@modelcontextprotocol/sdk/server/mcp.js"),c=require("module"),p=require("@modelcontextprotocol/sdk/server/stdio.js"),m="undefined"!=typeof document?document.currentScript:null;function u(e){return e&&e.__esModule?e:{default:e}}var _,f,h,g,y,w,b,v=u(e),j=u(r),S=u(n),k=Object.defineProperty,x=Object.getOwnPropertyNames,A=(e,t,r)=>function(){if(r)throw r[0];try{return e&&(t=(0,e[x(e)[0]])(e=0)),t}catch(e){throw r=[e],e}},E=(e,t)=>{for(var r in t)k(e,r,{get:t[r],enumerable:!0})};function I(e){return b.get(e)}var R=A({"src/core/tool-catalog.ts"(){_=new Set(["atoms_status","atoms_list_projects"]),f=new Set(["atoms_create_item","atoms_update_item","atoms_delete_item","atoms_restore_item","atoms_link_items","atoms_bulk_import","atoms_record_test_result","atoms_record_test_results","atoms_create_variable","atoms_update_variable","atoms_delete_variable","atoms_create_domain","atoms_update_domain","atoms_delete_domain","atoms_create_level","atoms_create_field","atoms_delete_field","atoms_reorder_fields","atoms_create_baseline","atoms_lock_baseline","atoms_restore_baseline","atoms_create_analysis","atoms_fill_row","atoms_link_mitigation","atoms_propose_rows","atoms_suggest_field","atoms_approve_row"]),h=new Set(["atoms_delete_item","atoms_delete_variable","atoms_delete_domain","atoms_delete_field","atoms_restore_baseline"]),g=new Set(["atoms_bulk_import"]),y={items:["atoms_list_items","atoms_get_item","atoms_search","atoms_semantic_search","atoms_browse","atoms_get_history","atoms_create_item","atoms_update_item","atoms_delete_item","atoms_restore_item","atoms_bulk_import"],traceability:["atoms_trace","atoms_link_items","atoms_export_mermaid","atoms_impact_analysis"],coverage:["atoms_get_coverage","atoms_verification_status","atoms_record_test_result","atoms_record_test_results","atoms_project_summary","atoms_list_assets"],variables:["atoms_list_variables","atoms_get_variable","atoms_create_variable","atoms_update_variable","atoms_delete_variable"],domains:["atoms_list_domains","atoms_create_domain","atoms_update_domain","atoms_delete_domain","atoms_list_levels","atoms_create_level","atoms_list_fields","atoms_create_field","atoms_delete_field","atoms_reorder_fields"],baselines:["atoms_list_baselines","atoms_create_baseline","atoms_lock_baseline","atoms_diff_baselines","atoms_restore_baseline"],analysis:["atoms_create_analysis","atoms_fill_row","atoms_get_analysis","atoms_link_mitigation","atoms_get_gaps","atoms_propose_rows","atoms_suggest_field","atoms_approve_row"]},w=Object.keys(y),b=new Map;for(const[e,t]of Object.entries(y))for(const r of t)b.set(r,e)}});function O(e,t){if(_.has(t))return{allowed:!0};if(e.lockdown&&!new Set(["atoms_list_items","atoms_get_item","atoms_search","atoms_browse"]).has(t))return{allowed:!1,reason:"lockdown"};if(e.forbidden_tools.includes(t))return{allowed:!1,reason:"forbidden_tool"};if(e.read_only&&f.has(t))return{allowed:!1,reason:"read_only"};if(e.block_destructive&&h.has(t))return{allowed:!1,reason:"block_destructive"};if(e.block_bulk_import&&g.has(t))return{allowed:!1,reason:"block_bulk_import"};const r=I(t);return void 0===r||e.allowed_toolsets.includes(r)?{allowed:!0}:{allowed:!1,reason:"toolset_disabled"}}function z(e,t){return O(e,t).allowed}function q(e){switch(e){case"lockdown":return"MCP is in lockdown mode for your role — only read-only browse is available.";case"read_only":return"Your org policy puts MCP in read-only mode. Mutating tools are not exposed.";case"block_destructive":return"Your org policy blocks destructive operations (delete tools).";case"block_bulk_import":return"Your org policy blocks bulk import.";case"forbidden_tool":return"This tool is on your org's forbidden list.";case"toolset_disabled":return"This tool's toolset is not enabled in your org policy."}}var M,H,D,P,$=A({"src/core/policy.ts"(){R()}}),C=A({"src/core/types.ts"(){M={read_only:!1,lockdown:!1,block_destructive:!1,block_bulk_import:!1,cross_project_browse:!0,allowed_toolsets:["items","traceability","coverage","variables","domains","baselines"],forbidden_tools:[],project_scope:null,require_confirmation_for:[]},H={read_only:!0,lockdown:!0,block_destructive:!0,block_bulk_import:!0,cross_project_browse:!1,allowed_toolsets:[],forbidden_tools:[],project_scope:[],require_confirmation_for:[]}}});function T(){return D}var U=A({"src/middleware/session-policy.ts"(){C(),D=M,P=null}});function N(){const e=process.env.ATOMS_MCP_TOOLSETS?.trim();if(!e)return null;const t=e.split(",").map(e=>e.trim()).filter(Boolean);if(0===t.length)return null;const r=new Set,i=[];for(const e of t)w.includes(e)?r.add(e):i.push(e);return{allowed:r,unknown:i}}function F(){const e=process.env.ATOMS_MCP_READ_ONLY;return"1"===e||"true"===e?.toLowerCase()}function L(e){if(F()&&f.has(e))return!1;if(_.has(e))return!0;const t=N();if(null===t)return z(T(),e);const r=I(e);return!!r&&!!t.allowed.has(r)&&z(T(),e)}var W,V,B=A({"src/middleware/tool-registry.ts"(){R(),$(),U()}}),J={};async function Q(){try{const t=await e.readFile(V,"utf-8"),r=JSON.parse(t);return r.access_token&&r.refresh_token?r:null}catch{return null}}async function G(t){await e.mkdir(W,{recursive:!0,mode:448}),await e.writeFile(V,JSON.stringify(t,null,2),{mode:384})}async function K(){const e=await Q();return!!e&&e.expires_at>Date.now()+6e4}function Y(e){return e.expires_at>Date.now()+6e4}async function Z(){try{await e.unlink(V)}catch{}}function X(){return V}E(J,{clearCredentials:()=>Z,getCredentialsPath:()=>X,hasValidCredentials:()=>K,isTokenValid:()=>Y,readCredentials:()=>Q,writeCredentials:()=>G});var ee,te,re,ie,ae,ne,se,oe=A({"src/auth/token-store.ts"(){W=r.join(t.homedir(),".atoms"),V=r.join(W,"credentials.json")}}),de={};async function le(){try{await e.mkdir(ee,{recursive:!0,mode:448});const t=await e.open(te,"wx");try{await t.writeFile(`${process.pid} ${Date.now()}`)}finally{await t.close()}return!0}catch(e){if("EEXIST"===e.code)return!1;throw e}}async function ce(){try{await e.unlink(te)}catch{}}async function pe(){try{const t=await e.stat(te);return Date.now()-t.mtimeMs>re}catch{return!1}}async function me(e,t,r=se){const i=r.now()+ie;for(;;){if(await r.tryAcquire())try{try{return await e()}catch{}return await t()}finally{await r.release()}try{return await e()}catch{}if(await r.isStale())await r.release();else{if(r.now()>i)return await t();await r.wait(ae)}}}E(de,{runExclusiveAuth:()=>me});var ue,_e,fe,he=A({"src/auth/lock.ts"(){ee=r.join(t.homedir(),".atoms"),te=r.join(ee,".auth.lock"),re=7e4,ie=12e4,ae=300,ne=e=>new Promise(t=>setTimeout(t,e)),se={now:Date.now,wait:ne,tryAcquire:le,release:ce,isStale:pe}}}),ge={};function ye(e){return e.trim().replace(/\/+$/,"")}E(ge,{ATOMS_APP_URL:()=>fe,ATOMS_SUPABASE_ANON_KEY:()=>_e,ATOMS_SUPABASE_URL:()=>ue,resolveUrl:()=>ye});var we=A({"src/config.ts"(){ue=ye(process.env.ATOMS_SUPABASE_URL??"https://gmebjyhomsbvhrxffzre.supabase.co"),_e=process.env.ATOMS_SUPABASE_ANON_KEY??"sb_publishable_b49MUAB8XCrQiF7x5b9lUA_w1aplSBH",fe=process.env.ATOMS_APP_URL??"https://atoms.tech"}}),be={};async function ve(){const e=process.env.ATOMS_ACCESS_TOKEN;if(e){const t=Se(e);return{access_token:e,refresh_token:"",user_id:t.sub,email:t.email??""}}const t=await Q();if(t&&t.expires_at>Date.now()+6e4){const e=Se(t.access_token);return{access_token:t.access_token,refresh_token:t.refresh_token,user_id:e.sub,email:e.email??t.user_email??""}}return null}async function je(){const e=await ve();if(e)return e;const t=await Q();if(!t)throw new Error("Not authenticated. Run 'npx @atoms-tech/atoms-mcp login' to connect your ATOMS account.");return me(async()=>{const e=await ve();if(e)return e;throw new Error("no fresh token yet")},()=>async function(e){process.stderr.write("[atoms-mcp] Refreshing access token...\n");const t=i.createClient(ue,_e);let r=await t.auth.refreshSession({refresh_token:e.refresh_token});if(r.error||!r.data.session){const i=await Q();if(i&&i.expires_at>Date.now()+6e4){const e=Se(i.access_token);return{access_token:i.access_token,refresh_token:i.refresh_token,user_id:e.sub,email:e.email??i.user_email??""}}i&&i.refresh_token&&i.refresh_token!==e.refresh_token&&(process.stderr.write("[atoms-mcp] Refresh token was rotated by another session; retrying with the latest...\n"),r=await t.auth.refreshSession({refresh_token:i.refresh_token}))}if(r.error||!r.data.session){const e=r.error?[r.error.status,r.error.message].filter(Boolean).join(" ").trim():"no session returned";throw new Error(`Token refresh failed (${e}). Your saved ATOMS session is no longer valid — re-run 'npx @atoms-tech/atoms-mcp login'.`)}const a=r.data.session;return await G({access_token:a.access_token,refresh_token:a.refresh_token,expires_at:Date.now()+1e3*(a.expires_in??3600),user_email:a.user?.email}),{access_token:a.access_token,refresh_token:a.refresh_token,user_id:a.user?.id??"",email:a.user?.email??""}}(t))}function Se(e){const t=e.split(".");if(3!==t.length)throw new Error("Invalid JWT format");const r=t[1].replace(/-/g,"+").replace(/_/g,"/").padEnd(t[1].length+(4-t[1].length%4)%4,"="),i=JSON.parse(Buffer.from(r,"base64").toString("utf-8"));if(!i.sub)throw new Error("JWT missing 'sub' claim");return i}E(be,{getValidToken:()=>je,readValidToken:()=>ve});var ke,xe,Ae,Ee,Ie,Re=A({"src/auth/refresh.ts"(){oe(),he(),we()}}),Oe={};async function ze(){if(ke)try{const e=await Q();e&&e.expires_at>Ie&&(process.stderr.write("[atoms-mcp] Credentials file refreshed elsewhere — rebuilding client.\n"),qe())}catch{}if(ke&&Ee>Date.now()+6e4)return ke;ke&&process.stderr.write("[atoms-mcp] Token expiring, refreshing client...\n");const{access_token:e,user_id:t,email:r}=await je(),a=e.split(".");if(3===a.length)try{const e=JSON.parse(Buffer.from(a[1].replace(/-/g,"+").replace(/_/g,"/"),"base64").toString());Ee=1e3*(e.exp??0)}catch{Ee=Date.now()+36e5}try{const e=await Q();Ie=e?.expires_at??0}catch{Ie=0}const n=i.createClient(ue,_e,{global:{headers:{Authorization:`Bearer ${e}`}}});return xe=t,Ae=r,ke=n}function qe(){ke=null,xe=null,Ae=null,Ee=0,Ie=0}function Me(e){let t="";if(e instanceof Error)t=e.message;else if(e&&"object"==typeof e){const r=e;t="string"==typeof r.message?r.message:"string"==typeof r.code?r.code:String(e)}else null!=e&&(t=String(e));return/jwt\s*expired|invalid.?jwt|token.*(?:has\s+)?expired|jwt.*invalid|pgrst301/i.test(t)}async function He(e){try{return await e()}catch(t){if(!Me(t))throw t;return process.stderr.write("[atoms-mcp] Data tier rejected JWT — invalidating client and retrying once.\n"),qe(),await e()}}function De(){if(!xe)throw new Error("Not authenticated. Call getClient() first.");return xe}function Pe(){return Ae??""}async function $e(e,t){const r=De(),{data:i,error:a}=await e.from("projects").select("org_id").eq("id",t).maybeSingle();if(a||!i)throw new Error(`Project '${t}' not found`);const{data:n,error:s}=await e.from("org_members").select("role").eq("user_id",r).eq("org_id",i.org_id).maybeSingle();if(s||!n){const{data:t}=await e.rpc("is_platform_admin");if(!0===t)return"admin";throw new Error("Not a member of this project's organization")}if("viewer"===n.role)throw new Error("VIEWER_ROLE");return n.role}async function Ce(e,t){const r=De(),{data:i,error:a}=await e.from("projects").select("org_id, created_by").eq("id",t).maybeSingle();if(a||!i)throw new Error(`Project '${t}' not found`);const{data:n,error:s}=await e.from("org_members").select("role").eq("user_id",r).eq("org_id",i.org_id).maybeSingle();if(s||!n)throw new Error("Not a member of this project's organization");if("admin"===n.role)return"admin";if(i.created_by===r)return"owner";throw new Error("PROJECT_FIELD_ADMIN_OR_OWNER_REQUIRED")}E(Oe,{getClient:()=>ze,getUserEmail:()=>Pe,getUserId:()=>De,invalidateClient:()=>qe,isJwtExpiredError:()=>Me,requireProjectFieldDefinitionAccess:()=>Ce,requireWriteAccess:()=>$e,withJwtRetry:()=>He});var Te,Ue,Ne=A({"src/db/client.ts"(){Re(),oe(),we(),ke=null,xe=null,Ae=null,Ee=0,Ie=0}}),Fe={};async function Le(){const e=n.randomBytes(32).toString("base64url"),t=n.createHash("sha256").update(e).digest("base64url"),r=`http://localhost:${Te}${Ue}`,i=new s.URL(`${fe}/auth/mcp-consent`);return i.searchParams.set("redirect_uri",r),i.searchParams.set("code_challenge",t),i.searchParams.set("code_challenge_method","S256"),new Promise((t,r)=>{let n;function o(){clearTimeout(n)}const d=a.createServer(async(i,a)=>{const n=new s.URL(i.url??"/",`http://localhost:${Te}`);if(n.pathname!==Ue)return a.writeHead(404),void a.end("Not found");try{if("access_denied"===n.searchParams.get("error"))return a.writeHead(200,{"Content-Type":"text/html"}),a.end(Ve("Authorization was cancelled.")),o(),d.close(),void r(new Error("Authorization cancelled by user."));const i=n.searchParams.get("code");if(i){const n=await fetch(`${ue}/auth/v1/token?grant_type=pkce`,{method:"POST",headers:{"Content-Type":"application/json",apikey:_e},body:JSON.stringify({auth_code:i,code_verifier:e})}),s=await n.json();if(!n.ok||!s.access_token){const e=s.error_description??s.msg??"Unknown error";return a.writeHead(200,{"Content-Type":"text/html"}),a.end(Ve(`Code exchange failed: ${e}`)),o(),d.close(),void r(new Error(`Code exchange failed: ${e}`))}let l="authenticated";try{l=JSON.parse(Buffer.from(s.access_token.split(".")[1],"base64").toString()).email??l}catch{}const{createClient:c}=await import("@supabase/supabase-js"),p=c(ue,_e,{global:{headers:{Authorization:`Bearer ${s.access_token}`}}}),{data:m,error:u}=await p.from("org_members").select("org_id").limit(1);return u||!m||0===m.length?(a.writeHead(200,{"Content-Type":"text/html"}),a.end(Ve('No ATOMS account found for this Google account.<br><br>Please sign up at <a href="https://atoms.tech">atoms.tech</a> first, then run this login command again.')),o(),d.close(),void r(new Error("No ATOMS account found. Sign up at atoms.tech first."))):s.refresh_token?(await G({access_token:s.access_token,refresh_token:s.refresh_token,expires_at:Date.now()+1e3*(s.expires_in??3600),user_email:l}),a.writeHead(200,{"Content-Type":"text/html"}),a.end(We(l)),o(),d.close(),void t({email:l})):(a.writeHead(200,{"Content-Type":"text/html"}),a.end(Ve("Sign-in succeeded but no refresh token was issued, so the session would expire within the hour. This usually points to a Supabase Auth setting (refresh-token rotation or session policy). Please contact ATOMS support.")),o(),d.close(),void r(new Error("No refresh token issued by Supabase — cannot persist a durable session.")))}const s=n.searchParams.get("access_token"),l=n.searchParams.get("refresh_token"),c=parseInt(n.searchParams.get("expires_in")??"3600",10);s&&l?(await G({access_token:s,refresh_token:l,expires_at:Date.now()+1e3*c}),a.writeHead(200,{"Content-Type":"text/html"}),a.end(We("authenticated")),o(),d.close(),t({email:"authenticated"})):(a.writeHead(200,{"Content-Type":"text/html"}),a.end("<!DOCTYPE html>\n<html>\n<head><title>ATOMS MCP Login</title></head>\n<body>\n <h1>Completing login...</h1>\n <script>\n const hash = window.location.hash.substring(1);\n const params = new URLSearchParams(hash);\n const data = {\n access_token: params.get('access_token'),\n refresh_token: params.get('refresh_token'),\n expires_in: params.get('expires_in'),\n user_email: ''\n };\n if (data.access_token) {\n // Decode JWT to get email\n try {\n const payload = JSON.parse(atob(data.access_token.split('.')[1]));\n data.user_email = payload.email || '';\n } catch(e) {}\n fetch('/token', {\n method: 'POST',\n headers: { 'Content-Type': 'application/json' },\n body: JSON.stringify(data)\n }).then(() => {\n document.body.innerHTML = '<h1>Login successful! You can close this tab.</h1>';\n }).catch(() => {\n document.body.innerHTML = '<h1>Login failed. Please try again.</h1>';\n });\n } else {\n document.body.innerHTML = '<h1>Login failed — no tokens received.</h1>';\n }\n <\/script>\n</body>\n</html>"))}catch(e){a.writeHead(500),a.end("Authentication failed"),o(),d.close(),r(e)}});d.on("request",async(e,i)=>{if("POST"===e.method&&"/token"===e.url){let a="";e.on("data",e=>{a+=e.toString()}),e.on("end",async()=>{try{const e=JSON.parse(a);await G({access_token:e.access_token,refresh_token:e.refresh_token,expires_at:Date.now()+1e3*(e.expires_in??3600),user_email:e.user_email}),i.writeHead(200,{"Content-Type":"application/json"}),i.end(JSON.stringify({ok:!0})),o(),d.close(),t({email:e.user_email??"authenticated"})}catch(e){i.writeHead(500),i.end("Failed to store credentials"),o(),d.close(),r(e)}})}}),d.listen(Te,"127.0.0.1",async()=>{process.stderr.write("\nOpening browser for ATOMS login...\n"),process.stderr.write(`If the browser doesn't open, visit:\n${i.toString()}\n\n`);try{const{default:e}=await import("open");await e(i.toString())}catch{process.stderr.write("Could not open browser automatically. Please open the URL above.\n")}}),n=setTimeout(()=>{d.close(),r(new Error("Login timed out after 60 seconds. Run 'npx @atoms-tech/atoms-mcp login' to try again."))},6e4)})}function We(e){return`<!DOCTYPE html>\n<html>\n<head>\n <title>ATOMS MCP — Authorized</title>\n <style>\n * { margin: 0; padding: 0; box-sizing: border-box; }\n body {\n font-family: -apple-system, BlinkMacSystemFont, 'Segoe UI', system-ui, sans-serif;\n background: #0a0a0a;\n color: #fafafa;\n display: flex;\n align-items: center;\n justify-content: center;\n min-height: 100vh;\n }\n .card {\n background: #171717;\n border: 1px solid #262626;\n border-radius: 16px;\n padding: 48px;\n max-width: 480px;\n width: 100%;\n text-align: center;\n }\n .icon {\n width: 56px;\n height: 56px;\n background: #052e16;\n border-radius: 50%;\n display: flex;\n align-items: center;\n justify-content: center;\n margin: 0 auto 24px;\n }\n .icon svg { width: 28px; height: 28px; }\n h1 {\n font-size: 22px;\n font-weight: 600;\n margin-bottom: 8px;\n color: #22c55e;\n }\n .email {\n font-size: 14px;\n color: #a3a3a3;\n margin-bottom: 32px;\n }\n .permissions {\n text-align: left;\n background: #0a0a0a;\n border: 1px solid #262626;\n border-radius: 12px;\n padding: 20px;\n margin-bottom: 24px;\n }\n .permissions h3 {\n font-size: 12px;\n font-weight: 600;\n color: #737373;\n text-transform: uppercase;\n letter-spacing: 0.05em;\n margin-bottom: 12px;\n }\n .perm-item {\n display: flex;\n align-items: center;\n gap: 10px;\n padding: 6px 0;\n font-size: 14px;\n color: #d4d4d4;\n }\n .perm-item .dot {\n width: 6px;\n height: 6px;\n background: #22c55e;\n border-radius: 50%;\n flex-shrink: 0;\n }\n .closing {\n font-size: 13px;\n color: #525252;\n }\n .closing span { color: #a3a3a3; font-variant-numeric: tabular-nums; }\n </style>\n</head>\n<body>\n <div class="card">\n <div class="icon">\n <svg fill="none" viewBox="0 0 24 24" stroke="#22c55e" stroke-width="2.5">\n <path stroke-linecap="round" stroke-linejoin="round" d="M5 13l4 4L19 7"/>\n </svg>\n </div>\n <h1>Authorization Granted</h1>\n <p class="email">${e}</p>\n\n <div class="permissions">\n <h3>ATOMS MCP can now</h3>\n <div class="perm-item"><span class="dot"></span> Read your projects and requirements</div>\n <div class="perm-item"><span class="dot"></span> Create and edit requirements and test cases</div>\n <div class="perm-item"><span class="dot"></span> Record test results (pass/fail)</div>\n <div class="perm-item"><span class="dot"></span> Manage traceability relationships</div>\n <div class="perm-item"><span class="dot"></span> Export coverage reports and diagrams</div>\n </div>\n\n <p class="closing">This tab will close in <span id="countdown">5</span>s</p>\n </div>\n\n <script>\n let seconds = 5;\n const el = document.getElementById('countdown');\n const timer = setInterval(() => {\n seconds--;\n el.textContent = seconds;\n if (seconds <= 0) {\n clearInterval(timer);\n window.close();\n // If window.close() is blocked (not opened by script), update message\n setTimeout(() => {\n document.querySelector('.closing').textContent = 'You can close this tab now.';\n }, 500);\n }\n }, 1000);\n <\/script>\n</body>\n</html>`}function Ve(e){return`<!DOCTYPE html>\n<html>\n<head>\n <title>ATOMS MCP — Failed</title>\n <style>\n * { margin: 0; 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Severity rates the effect.",fmea_cause:"Cause: the mechanism or condition behind the failure mode, what has to be true for it to happen. Occurrence rates the cause.",fmea_action:"Action: the requirement that answers the failure mode. The link records how it answers it, and a row at RPN 100 or above with no action is a gap."},Ft={...Nt,s:"Severity: how badly people could be hurt if the hazardous event happens. S0 no injuries, S1 light, S2 severe but survivable, S3 life-threatening or fatal (ISO 26262-3).",e:"Exposure: how often the operational scenario occurs. E0 incredible, E1 very low, E2 low, E3 medium, E4 high probability (ISO 26262-3).",c:"Controllability: how likely the driver or others can avoid the harm. C0 controllable in general, C1 simply, C2 normally, C3 difficult or uncontrollable (ISO 26262-3).",asil:"Automotive Safety Integrity Level: computed from S, E and C per ISO 26262-3 Table 4. QM means no safety requirement is needed; D is the most demanding.",safe_state:"The condition the system moves to when the function fails, for example handing braking back to the driver.",ftti:"Fault tolerant time interval: the longest time a fault may stay undetected before the hazardous event can occur.",safety_goal:"The top-level safety requirement derived from a hazardous event. One goal per HARA row; it is met by safety requirements that mitigate it.",safety_req:"A requirement of type Safety that mitigates a safety goal. At L1 it is a functional or technical safety requirement and traces to a system requirement.",verified_by:"The test case that proves this safety goal on its operating design domain (ODD).",hazardous_event:"What happens to the vehicle and the people when the failure occurs in this scenario. One per row.",hazard:"The potential harm, for example unintended braking.",assumptions:"The conditions you assume for the rating, one per line, for example light traffic or a speed limit.",fn:"The system function this row analyses, from the project's function tags.",failure_mode:"How the function fails: no function, loss, partial, degradation or misinterpretation.",scenario:"The driving situation in which the failure is analysed. One per row.",dfmea_s:"Severity: how serious the effect of the failure is for the customer, 1 (no effect) to 10 (safety or regulatory failure without warning).",o:"Occurrence: how likely the cause is, 1 (remote) to 10 (very high).",d:"Detection: how likely current controls detect the cause before it reaches the customer, 1 (certain) to 10 (impossible).",rpn:"Risk priority number: S times O times D. Rows at 100 or above are gaps."},Lt={s:"Severity: a measure of the possible consequences of a hazard. 1 Negligible, 2 Minor, 3 Serious, 4 Critical, 5 Catastrophic (ISO 14971).",p1:"P1: the probability of a hazardous situation occurring. 1 Improbable, 2 Remote, 3 Occasional, 4 Probable, 5 Frequent (the example scale of ISO 14971:2007 Annex D, kept in ISO/TR 24971).",p2:"P2: the probability that the hazardous situation leads to harm, given that it occurs. 1 to 5 on the same scale (ISO 14971:2007 Annex D, ISO/TR 24971).",p0:"P0: the overall probability of harm, looked up from P1 and P2 on the 5 by 5 probability table.",risk:"Risk: the combination of the probability of harm and its severity, looked up from P0 and S. Low is acceptable, Medium is acceptable with a justification, High is not acceptable (ISO 14971).",risk_analysis:"Risk analysis: the systematic use of available information to identify hazards and to estimate the risk for each hazardous situation (ISO 14971:2019 definition 3.19 and clause 5). It is the name the standard gives this document.",hazard:"Hazard: a potential source of harm, for example an uncontrolled flow of the drug.",hazardous_situation:"Hazardous situation: the circumstance in which people are exposed to the hazard.",sequence:"Sequence of events: what has to happen for the hazard to become a hazardous situation. 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xi(ri({id:a.id,type:a.type,title:a.title,summary:a.data?.summary,body:a.data?.body,tags:a.data?.tags??{domains:[]},ownership:a.data?.ownership??{primary:null,additional:[]},relationships:n,links:a.data?.links??[],fields:(t=a.data?.fields,!t||"object"!=typeof t||Array.isArray(t)?{}:Object.fromEntries(Object.entries(t).filter(e=>"string"==typeof e[1]))),status:a.data?.status,..."test-case"===a.type?{latest_result:s[0]?.result??"not-run",test_results:s}:{},metadata:{created_at:a.created_at,created_by:a.created_by,updated_at:a.updated_at,updated_by:a.updated_by,source_id:a.data?.metadata?.source_id}}))}catch(e){return e instanceof Error&&e.message.includes("Not authenticated")?Ai(di()):Ai(bi(e instanceof Error?e.message:String(e)))}var t}E(Gi,{getItemHandler:()=>Yi});var Zi=A({"src/tools/get-item.ts"(){Ne(),Ni(),Ii(),Ji=["point","release_id","build","environment","tooling","step_results"]}}),Xi={};async function ea(e){try{const t=await ze();let r,i,a=null;try{a=await 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Ai(yi(a));const{data:n,error:s}=await t.from("verification_status").select("requirement_id, state, stale, points_total, points_run").eq("project_id",e.project_id).eq("release_id",r.id);if(s)return Ai(bi(s.message));const o=(n??[]).slice().sort((e,t)=>e.requirement_id<t.requirement_id?-1:e.requirement_id>t.requirement_id?1:0),d={release:{id:r.id,version:r.release_version,status:r.release_status},readiness:i??{},requirements:o,...0===o.length?{hint:"projection empty; an admin may need to run rebuild_verification_from_runs for this project"}:{}};if(e.include_gaps){const{data:i,error:a}=await t.rpc("verification_notrun_points",{p_project_id:e.project_id,p_release_id:r.id});if(a)return Ai(yi(a));d.gaps=i??[]}return xi(ri(d))}catch(e){return Ai(yi(e))}}E(la,{verificationStatusHandler:()=>ca});var pa=A({"src/tools/verification-status.ts"(){Ne(),Ni(),Ii(),oa=ai("This project has no current formal Release.",["Promote a locked baseline to a Release first (Snapshots view in the app)","Or pass 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sn,on,dn=A({"src/tools/update-item.ts"(){Ne(),Ni(),xo(),Ii(),qa(),rn(),Yr()}});function ln(e){const t=process.env.ATOMS_MCP_REQUIRE_CONFIRMATION?.trim();if(t){const r=t.toLowerCase();if("1"===r||"true"===r||"all"===r)return!0;if(t.split(",").map(e=>e.trim()).filter(Boolean).includes(e))return!0}return!!T().require_confirmation_for.includes(e)}function cn(e,t=sn){const r=Date.now()+t,i={...e,exp:r},a=Buffer.from(JSON.stringify(i)).toString("base64url");return{token:`${a}.${S.default.createHmac("sha256",on).update(a).digest("base64url")}`,expires_at:new Date(r).toISOString(),expires_in_seconds:Math.round(t/1e3)}}function pn(e,t){if("string"!=typeof e||!e.includes("."))return{valid:!1,reason:"Token format invalid"};const[r,i]=e.split(".");if(!r||!i)return{valid:!1,reason:"Token format invalid"};const a=S.default.createHmac("sha256",on).update(r).digest("base64url"),n=Buffer.from(i,"utf8"),s=Buffer.from(a,"utf8");if(n.length!==s.length||!S.default.timingSafeEqual(n,s))return{valid:!1,reason:"Token signature invalid"};let o;try{o=JSON.parse(Buffer.from(r,"base64url").toString("utf8"))}catch{return{valid:!1,reason:"Token payload malformed"}}return"number"!=typeof o.exp||o.exp<Date.now()?{valid:!1,reason:"Token expired"}:o.tool!==t.tool?{valid:!1,reason:"Token issued for a different tool"}:o.project_id!==t.project_id?{valid:!1,reason:"Token issued for a different project"}:o.target!==t.target?{valid:!1,reason:"Token issued for a different target"}:{valid:!0}}function mn(e){if(Array.isArray(e))return e.map(mn);if(null!==e&&"object"==typeof e){const t={};for(const r of Object.keys(e).sort())t[r]=mn(e[r]);return t}return e}function un(e){const t=JSON.stringify(mn(e));return S.default.createHash("sha256").update(t).digest("base64url").slice(0,16)}var _n,fn=A({"src/middleware/confirmation.ts"(){U(),sn=6e4,on=(()=>{const e=process.env.ATOMS_MCP_CONFIRMATION_SECRET;return e&&e.length>=16?e:S.default.randomBytes(32).toString("base64url")})()}}),hn={};async function gn(e){try{const t=await ze(),r=De();try{await $e(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ai(si("Viewer"));throw e}const i=await async function(e,t,r){const{data:i,error:a}=await e.from("items").select("*").eq("id",r).eq("project_id",t).maybeSingle();if(a)throw new Error(a.message);return i}(t,e.project_id,e.item_id);if(!i)return Ai(ni("Item",e.item_id));if(i.deleted_at)return Ai(oi(`Item ${e.item_id} is already deleted`));if(ln(_n)){const t={tool:_n,project_id:e.project_id,target:e.item_id};if(!e.confirmation_token){const r=cn(t);return xi(ri({status:"confirmation_required",preview:{id:e.item_id,title:i.title,type:i.type,would_soft_delete:!0},confirmation_token:r.token,expires_at:r.expires_at,expires_in_seconds:r.expires_in_seconds,message:`Re-call atoms_delete_item with the same project_id, item_id, and confirmation_token within ${r.expires_in_seconds}s to execute.`}))}const r=pn(e.confirmation_token,t);if(!r.valid)return Ai(oi(`confirmation_token rejected: ${r.reason}`))}const{error:a}=await t.rpc("soft_delete_item_with_revision",{p_item_id:e.item_id,p_project_id:e.project_id,p_user_id:r,p_expected_updated_at:i.updated_at,p_event_source:"mcp",p_actor:So(),p_session_id:jo()});if(a)throw new Error(a.message);return xi(ri({id:e.item_id,title:i.title,type:i.type,deleted:!0,message:`Item ${e.item_id} soft-deleted. It can still be found in audit logs.`}))}catch(e){return Ai(yi(e))}}E(hn,{deleteItemHandler:()=>gn});var yn=A({"src/tools/delete-item.ts"(){Ne(),Ni(),xo(),fn(),Ii(),_n="atoms_delete_item"}}),wn={};async function bn(e){try{const t=await ze(),r=De();try{await $e(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ai(si("Viewer"));throw e}const{data:i,error:a}=await t.from("items").select("*").eq("id",e.item_id).eq("project_id",e.project_id).maybeSingle();if(a)throw new Error(a.message);if(!i)return Ai(ni("Item",e.item_id));if(!i.deleted_at)return Ai(ai(`Item ${e.item_id} is not deleted and cannot be restored.`,["Use atoms_get_item to view the current item state","Use atoms_delete_item first if you intended to delete it"]));const{error:n}=await t.rpc("save_item_with_revision",{p_item_id:e.item_id,p_project_id:e.project_id,p_type:i.type,p_title:i.title,p_data:i.data,p_user_id:r,p_event_source:"restore",p_event_session_id:jo()??null,p_diff_summary:{changed_fields:["deleted_at"],restored:!0},p_expected_updated_at:i.updated_at});if(n)throw new Error(n.message);const{error:s}=await t.rpc("repair_live_item_relationships_from_jsonb",{p_project_id:e.project_id,p_item_id:e.item_id});if(s)throw new Error(`Relationship repair failed: ${s.message}`);return await t.from("change_history").insert({item_id:e.item_id,project_id:e.project_id,changed_by:r,event_type:"restored",old_data:null,new_data:i.data,actor:So(),session_id:jo()}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)}),xi(ri({id:e.item_id,title:i.title,type:i.type,restored:!0,message:`Item ${e.item_id} restored successfully.`}))}catch(e){return Ai(yi(e))}}E(wn,{restoreItemHandler:()=>bn});var vn=A({"src/tools/restore-item.ts"(){Ne(),xo(),Ii()}}),jn={};async function Sn(e){try{const t=await ze(),r=De();try{await $e(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ai(si("Viewer"));throw e}const i=async(i,a,n)=>{const s=await Mi(t,e.project_id,i.from_id);if(!s)throw new Error(`Item "${i.from_id}" not found`);const o=await Mi(t,e.project_id,i.to_id);if(!o)throw new Error(`Item "${i.to_id}" not found`);const{error:d}=await t.rpc("apply_link_change",{p_project_id:e.project_id,p_from_id:i.from_id,p_to_id:i.to_id,p_type:i.type,p_action:i.action,p_user_id:r,p_event_source:"mcp",p_expected_from_updated_at:i.expected_from_updated_at??s.updated_at,p_expected_to_updated_at:i.expected_to_updated_at??o.updated_at});if(d)throw new Error(d.message);const l={item_id:i.from_id,project_id:e.project_id,changed_by:r,event_type:"updated",old_data:null,new_data:{relationship_change:{action:i.action,type:i.type,from:i.from_id,to:i.to_id}},actor:So(),session_id:jo()};a&&(l.batch_id=a),n&&(l.reason=n),await t.from("change_history").insert(l).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)})};if(e.operations&&Array.isArray(e.operations)){for(const t of e.operations)if(t.from_id===t.to_id)return Ai(oi(`Self-reference in batch: "${t.from_id}"`));const r=[...new Set(e.operations.flatMap(e=>[e.from_id,e.to_id]))],{data:a}=await t.from("items").select("id").eq("project_id",e.project_id).is("deleted_at",null).in("id",r),n=new Set((a??[]).map(e=>e.id)),s=r.filter(e=>!n.has(e));if(s.length>0)return Ai(ni("Items",s.join(", ")));const{data:o}=await t.from("item_relationships").select("from_id, to_id, type").eq("project_id",e.project_id),d=new Map;for(const e of o??[])"parent"===e.type&&(d.has(e.from_id)||d.set(e.from_id,new Set),d.get(e.from_id).add(e.to_id));for(const t of e.operations){if("parent"!==t.type&&"child"!==t.type)continue;const[e,r]="parent"===t.type?[t.from_id,t.to_id]:[t.to_id,t.from_id];"remove"===t.action?d.get(e)?.delete(r):(d.has(e)||d.set(e,new Set),d.get(e).add(r))}const l=0,c=1,p=2,m=new Map,u=new Set;for(const[e,t]of d){u.add(e);for(const e of t)u.add(e)}const _=e=>{if((m.get(e)??l)!==l)return null;const t=[],r=[],i=e=>{m.set(e,c),r.push(e),t.push({node:e,parents:[...d.get(e)??[]],idx:0})};for(i(e);t.length>0;){const e=t[t.length-1];if(e.idx>=e.parents.length){m.set(e.node,p),r.pop(),t.pop();continue}const a=e.parents[e.idx];e.idx++;const n=m.get(a)??l;if(n===c){const e=r.indexOf(a);return[...r.slice(e),a]}n!==p&&i(a)}return null};for(const e of u){const t=_(e);if(t)return Ai(oi(`Batch would create a cycle: ${t.join(" -> ")}. No changes applied.`))}const f=crypto.randomUUID(),h=e.operations.filter(e=>"remove"===e.action),g=e.operations.filter(e=>"add"===e.action);for(const t of[...h,...g])await i(t,f,e.reason);return xi(ri({batch_id:f,processed:e.operations.length,operations:!1===e.echo?void 0:e.operations}))}return e.from_id&&e.to_id&&e.type&&e.action?e.from_id===e.to_id?Ai(oi("Cannot create a relationship between an item and itself")):(await i({action:e.action,from_id:e.from_id,to_id:e.to_id,type:e.type,expected_from_updated_at:e.expected_from_updated_at,expected_to_updated_at:e.expected_to_updated_at},void 0,e.reason),!1===e.echo?xi(ri({action:e.action,from_id:e.from_id,to_id:e.to_id})):xi(ri({action:e.action,type:e.type,from_id:e.from_id,to_id:e.to_id,message:`Relationship ${"add"===e.action?"added":"removed"}: ${e.from_id} --[${e.type}]--\x3e ${e.to_id}`}))):Ai(oi("Provide (from_id, to_id, type, action) for single-op or operations[] for batch."))}catch(e){return Ai(yi(e))}}E(jn,{linkItemsHandler:()=>Sn});var kn=A({"src/tools/link-items.ts"(){Ne(),Ni(),xo(),Ii()}}),xn=A({"src/core/bulk-parent-links.ts"(){}}),An={};function En(e){return new Set(["22023","23503","23505","23514"]).has(e.code??"")}async function In(e){try{if(!e.items||0===e.items.length)return Ai(oi("items array must contain at least 1 item"));if(e.items.length>100)return Ai(oi(`Maximum 100 items per call (received ${e.items.length}). Split into multiple calls.`));const t=await ze(),r=De();try{await $e(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ai(si("Viewer"));throw e}const i=await async function(e,t,r){const{data:i,error:a}=await e.from("metadata").select("domains, function_tags").eq("project_id",t).maybeSingle();if(a)throw new Error(`metadata read failed: ${a.message}`);const n=i?.domains??[],s=Nr(i?.function_tags),o=n.length>0?new Set(n.map(ti).filter(e=>e.length>0)):null,d=un(n.map(ti).filter(e=>e.length>0).sort()),l=[],c=new Set,p={};for(let e=0;e<r.length;e++){const t=r[e];p[t.type]=(p[t.type]??0)+1;const i=(t.domains??[]).map(ti).filter(e=>e.length>0);if(0===i.length)continue;const a=Fr(i,s,ti);if(a.length>0){c.add(e),l.push({index:e,title:t.title,error:Lr(a)});continue}if(!o)continue;const d=i.filter(e=>!o.has(e));d.length>0&&(c.add(e),l.push({index:e,title:t.title,error:`Unknown domain${d.length>1?"s":""}: ${d.join(", ")}. Registered: ${n.join(", ")}.`}))}return{registeredDomains:n,registeredDomainHash:d,invalidDomainIndexes:c,errors:l,typeBreakdown:p}}(t,e.project_id,e.items);if(ln("atoms_bulk_import")){const t={tool:"atoms_bulk_import",project_id:e.project_id,target:un({items:e.items,registered_domain_hash:i.registeredDomainHash})};if(!e.confirmation_token){const r=cn(t);return xi(ri({status:"confirmation_required",preview:{total_items:e.items.length,by_type:i.typeBreakdown,sample_titles:e.items.slice(0,5).map(e=>e.title),would_fail:i.errors.length>0,errors:i.errors,registered_domain_hash:i.registeredDomainHash},confirmation_token:r.token,expires_at:r.expires_at,expires_in_seconds:r.expires_in_seconds,message:`Re-call atoms_bulk_import with the same project_id, items array, and confirmation_token within ${r.expires_in_seconds}s to execute. Changing items or project domains will invalidate the token.`}))}const r=pn(e.confirmation_token,t);if(!r.valid)return Ai(oi(`confirmation_token rejected: ${r.reason}`))}const a=(new Date).toISOString(),n=jo(),s=[],o=[...i.errors],d=[],l=new Map,c=async r=>{let i=l.get(r);if(!i){const a=await Ui(t,e.project_id,r),n=/^([A-Z]+)-(\d+)$/.exec(a);if(!n)throw new Error(`Unexpected item id format from next_item_id: ${a}`);i={prefix:n[1],next:Number(n[2])},l.set(r,i)}const a=`${i.prefix}-${String(i.next).padStart(3,"0")}`;return i.next+=1,a};for(let t=0;t<e.items.length;t++){const r=e.items[t];if(i.invalidDomainIndexes.has(t))continue;const a=(r.domains??[]).map(ti).filter(e=>e.length>0),n=void 0!==r.level?ti(r.level):void 0;try{const e=await c(r.type);d.push({itemId:e,input:r,sanitizedDomains:a,sanitizedLevel:n,index:t})}catch(e){o.push({index:t,title:r.title,error:`ID generation failed: ${e instanceof Error?e.message:String(e)}`})}}if(0===d.length)return xi(ri({created:0,items:[],errors:o}));const p=[],m=new Map;for(const{itemId:t,input:i,sanitizedDomains:n,sanitizedLevel:s}of d){const o={id:t,type:i.type,title:i.title,summary:i.summary,body:i.body,tags:{domains:n,level:s??""},ownership:{primary:null,additional:[]},relationships:{parents:i.parent_id?[i.parent_id]:[],children:[],related:[]},links:[],metadata:{created_at:a,created_by:r,updated_at:a,updated_by:r}};m.set(t,o),p.push({id:t,project_id:e.project_id,type:i.type,title:i.title,data:o,created_by:r,updated_by:r})}const u=p.map(e=>({id:e.id,type:e.type,title:e.title,data:e.data})),{error:_}=await t.rpc("bulk_save_items_with_revisions",{p_project_id:e.project_id,p_items:u,p_user_id:r,p_event_source:"mcp"});if(_&&En(_))for(const{itemId:i,input:a,index:l}of d){const d=p.find(e=>e.id===i);if(!d)continue;const{error:c}=await t.rpc("save_item_with_revision",{p_item_id:d.id,p_project_id:e.project_id,p_type:d.type,p_title:d.title,p_data:d.data,p_user_id:r,p_event_source:"mcp",p_event_session_id:n,p_diff_summary:null});c?o.push({index:l,title:a.title,error:c.message}):s.push({id:i,title:a.title,type:a.type})}else{if(_)throw _;for(const{itemId:e,input:t}of d)s.push({id:e,title:t.title,type:t.type})}const f=d.filter(({input:e})=>e.parent_id).filter(({itemId:e})=>s.some(t=>t.id===e)).map(({itemId:t,input:r})=>({from_id:t,to_id:r.parent_id,type:"parent",project_id:e.project_id}));await async function(e){for(const t of e.links){const{error:r}=await e.client.rpc("apply_link_change",{p_project_id:e.projectId,p_from_id:t.from,p_to_id:t.to,p_type:"parent",p_action:"add",p_user_id:e.userId,p_event_source:"mcp"});r&&e.warn(`bulk parent link sync failed for ${t.to}: ${r.message??"unknown error"}`)}}({client:t,projectId:e.project_id,links:f.map(e=>({from:e.from_id,to:e.to_id})),userId:r,warn:e=>process.stderr.write(`[atoms-mcp] Warning: ${e}\n`)});const h=s.map(t=>({item_id:t.id,project_id:e.project_id,changed_by:r,event_type:"created",old_data:null,new_data:m.get(t.id)??null,actor:So(),session_id:n}));h.length>0&&await t.from("change_history").insert(h).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: bulk change_history log failed: ${e.message}\n`)});const g=new Set(s.map(e=>e.id)),y=new Set(d.filter(({itemId:e,sanitizedLevel:t})=>t&&g.has(e)).map(({sanitizedLevel:e})=>e));for(const r of y)await Ea(t,e.project_id,r);return xi(ri({created:s.length,items:s,errors:o.length>0?o:[],project_id:e.project_id}))}catch(e){return Ai(yi(e))}}E(An,{bulkImportHandler:()=>In,canRetryBulkImportPerItem:()=>En});var Rn=A({"src/tools/bulk-import.ts"(){Ne(),Ni(),xo(),fn(),Ii(),xn(),qa(),Yr()}}),On={};async function zn(e){try{const t=await ze(),r=De(),i=Pe();try{await $e(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ai(si("Viewer"));throw e}const a=await Mi(t,e.project_id,e.item_id);if(!a)return Ai(ni("Item",e.item_id));if("test-case"!==a.type)return Ai(oi(`Item '${e.item_id}' is a ${a.type}, not a test-case`));const n=(e.asset??"").trim(),s=(new Date).toISOString(),{data:o,error:d}=await t.rpc("record_test_results_bulk",{p_project_id:e.project_id,p_item_id:e.item_id,p_run_by:i||r,p_actor_user_id:r,p_results:[{result:e.result,note:e.note,asset:n||void 0,date:s,point:e.point,release_id:e.release_id,build:e.build,environment:e.environment,tooling:e.tooling,steps_rev:e.steps_rev,step_results:e.step_results}]});if(d)throw new Error(d.message);const l=Array.isArray(o)?o[0]:o?.[0];await t.from("change_history").insert({item_id:e.item_id,project_id:e.project_id,changed_by:r,event_type:"test_result_recorded",old_data:null,new_data:{result:e.result,run_at:s,note:e.note,asset:n||null},actor:So(),session_id:jo()}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)});const c=n?` (asset: ${n})`:"";return xi(ri({item_id:e.item_id,result:e.result,run_at:s,run_by:i||r,note:e.note??null,asset:n||null,asset_id:l?.asset_id??null,asset_created:l?.asset_created??!1,message:`Test result '${e.result}' recorded for ${e.item_id}${c}`}))}catch(e){return Ai(yi(e))}}E(On,{recordTestResultHandler:()=>zn});var qn=A({"src/tools/record-test-result.ts"(){Ne(),Ni(),xo(),Ii()}}),Mn={};async function Hn(e){try{const t=await ze(),r=De(),i=Pe();if(!Array.isArray(e.results)||0===e.results.length)return Ai(oi("results must be a non-empty array"));if(e.results.length>100)return Ai(oi(`results must have at most 100 entries (got ${e.results.length})`));try{await $e(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ai(si("Viewer"));throw e}const a=await Mi(t,e.project_id,e.item_id);if(!a)return Ai(ni("Item",e.item_id));if("test-case"!==a.type)return Ai(oi(`Item '${e.item_id}' is a ${a.type}, not a test-case`));const{data:n,error:s}=await t.rpc("record_test_results_bulk",{p_project_id:e.project_id,p_item_id:e.item_id,p_run_by:i||r,p_actor_user_id:r,p_results:e.results});if(s)throw new Error(s.message);return t.from("change_history").insert({item_id:e.item_id,project_id:e.project_id,changed_by:r,event_type:"test_result_recorded",old_data:null,new_data:{bulk:!0,count:e.results.length,results:n},actor:So(),session_id:jo()}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)}),xi(ri({item_id:e.item_id,count:e.results.length,results:n,message:`Recorded ${e.results.length} test results for ${e.item_id}`}))}catch(e){return Ai(yi(e))}}E(Mn,{recordTestResultsBulkHandler:()=>Hn});var Dn,Pn,$n,Cn,Tn=A({"src/tools/record-test-results-bulk.ts"(){Ne(),Ni(),xo(),Ii()}});function Un(e){return Math.min(Math.max(e??5,1),10)}var Nn=A({"src/core/trace-graph.ts"(){Dn=200,Pn=new Set(["parent","verifies","mitigated_by"]),$n=new Set(["child","verified_by","mitigates"]),Cn={parent:"child",child:"parent",verifies:"verified_by",verified_by:"verifies",mitigated_by:"mitigates",mitigates:"mitigated_by",related:"related"}}}),Fn={};async function Ln(e){try{const t=Un(e.depth),r=await ze(),i=await Mi(r,e.project_id,e.item_id);if(!i)return Ai(ni("Item",e.item_id));const{data:a,error:n}=await r.from("items").select("id, title, type, data").eq("project_id",e.project_id).is("deleted_at",null);if(n)throw new Error(n.message);const{data:s,error:o}=await r.from("item_relationships").select("from_id, to_id, type").eq("project_id",e.project_id);if(o)throw new Error(o.message);const d=Ti(a??[],s??[]);return xi(ri(function(e){const t=Un(e.depth),r=e.relationshipTypes?.length?new Set(e.relationshipTypes):null,i=new Map(e.items.map(e=>[e.id,e]));i.has(e.rootItemId)||i.set(e.rootItemId,e.rootItem);const a=new Map,n=(e,t,r)=>{a.has(e)||a.set(e,[]),a.get(e).push({neighbor:t,relType:r})};for(const t of e.relationships){const i=t.type;if(("upstream"===e.direction||"both"===e.direction)&&(!Pn.has(i)||r&&!r.has(i)||n(t.from_id,t.to_id,i),$n.has(i))){const e=Cn[i]??i;r&&!r.has(e)||n(t.to_id,t.from_id,e)}if(("downstream"===e.direction||"both"===e.direction)&&(!$n.has(i)||r&&!r.has(i)||n(t.from_id,t.to_id,i),Pn.has(i))){const e=Cn[i]??i;r&&!r.has(e)||n(t.to_id,t.from_id,e)}"related"!==i||r&&!r.has("related")||(n(t.from_id,t.to_id,"related"),n(t.to_id,t.from_id,"related"))}const s=new Set([e.rootItemId]),o=[],d=[],l=[];for(const t of a.get(e.rootItemId)??[])l.push({id:t.neighbor,depth:1,relType:t.relType,from:e.rootItemId});for(;l.length>0&&o.length<Dn;){const{id:e,depth:r,relType:n,from:c}=l.shift();if(s.has(e)||r>t)continue;s.add(e);const p=i.get(e);if(p&&(o.push({id:e,title:p.title,type:p.type,relationship:n,depth:r,from:c}),d.push({from:c,to:e,type:n}),r<t))for(const t of a.get(e)??[])s.has(t.neighbor)||l.push({id:t.neighbor,depth:r+1,relType:t.relType,from:e})}const c={id:e.rootItemId,title:e.rootItem.title,type:e.rootItem.type,relationship:"root",depth:0,from:e.rootItemId};return{root:e.rootItemId,project_id:e.projectId,direction:e.direction,depth_limit:t,items:[c,...o],edges:d,total_count:o.length+1,...o.length>=Dn?{truncated:!0,truncation_message:`Results capped at ${Dn} items. 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d)if("requirement"===e.type){l.requirements++;const t=e.data?.tags?.domains??[];p.push({id:e.id,domains:t})}else"test-case"===e.type?(l.test_cases++,c.push(e.id)):"note"===e.type&&l.notes++;const m={passed:0,failed:0,blocked:0,not_run:0};if(c.length>0){const{data:r,error:i}=await t.from("test_results").select("item_id, result, run_at").eq("project_id",e.project_id).order("run_at",{ascending:!1});if(i)throw new Error(i.message);const a=new Map;for(const e of r??[])a.has(e.item_id)||a.set(e.item_id,e.result);for(const e of c){const t=a.get(e);t&&"not-run"!==t?"passed"===t?m.passed++:"failed"===t?m.failed++:"blocked"===t?m.blocked++:m.not_run++:m.not_run++}}const{data:u,error:_}=await t.from("item_relationships").select("from_id, to_id, type").eq("project_id",e.project_id);if(_)throw new Error(_.message);const f=Ti(s??[],u??[]),h=new Set;for(const e of f)"verifies"===e.type?h.add(e.to_id):"verified_by"===e.type&&h.add(e.from_id);const g=p.filter(e=>h.has(e.id)).length,y=p.length,w={covered:g,uncovered:y-g,total:y,percent:y>0?Math.round(g/y*1e3)/10:100},b=new Map;for(const e of p){const t=e.domains.length>0?e.domains:["(untagged)"],r=h.has(e.id);for(const e of t){b.has(e)||b.set(e,{covered:0,total:0});const t=b.get(e);t.total++,r&&t.covered++}}const v=Array.from(b.entries()).sort((e,t)=>e[0].localeCompare(t[0])).map(([e,t])=>({domain:e,covered:t.covered,total:t.total,percent:t.total>0?Math.round(t.covered/t.total*1e3)/10:100})),j=new Date;j.setDate(j.getDate()-7);const{count:S,error:k}=await t.from("change_history").select("id",{count:"exact",head:!0}).eq("project_id",e.project_id).gte("changed_at",j.toISOString());if(k)throw new Error(k.message);return xi(ri({project_id:e.project_id,project_name:a??`Project ${e.project_id.slice(0,8)}`,counts:l,test_status:m,coverage:w,coverage_by_domain:v,recent_changes:S??0,last_updated:(new Date).toISOString()}))}catch(e){return e instanceof Error&&e.message.includes("Not authenticated")?Ai(di()):Ai(bi(e instanceof Error?e.message:String(e)))}}E(ms,{projectSummaryHandler:()=>us});var _s,fs=A({"src/tools/project-summary.ts"(){Ne(),Ni(),Ii()}}),hs={};async function gs(e){try{const t=await ze();let r,i;if(e.query&&e.query.trim().length>0){const a=await Ci(t,e.project_id,e.query,{type:e.type,limit:e.limit});r=a.items.map(e=>({id:e.id,title:e.title,type:e.type,status:e.data?.status,domains:e.data?.tags?.domains??[],level:e.data?.tags?.level})),i=a.totalCount}else{const a=await qi(t,e.project_id,{type:e.type,domain:e.domain,level:e.level,limit:e.limit,offset:e.offset});r=a.items.map(e=>({id:e.id,title:e.title,type:e.type,status:e.data?.status,domains:e.data?.tags?.domains??[],level:e.data?.tags?.level})),i=a.totalCount}const a=await async function(e,t){const{data:r,error:i}=await e.from("items").select("data").eq("project_id",t).is("deleted_at",null);if(i)throw new Error(i.message);const a=new Set,n=new Set;for(const e of r??[]){const t=e.data?.tags;if(t){const e=t.domains;if(e)for(const t of e)a.add(t);const r=t.level;r&&n.add(r)}}return{domains:[...a].sort(),levels:[...n].sort()}}(t,e.project_id);return xi(ri({items:r,filters:{domains:a.domains,levels:a.levels,types:_s},project_id:e.project_id},ii(i,e.limit,e.offset)))}catch(e){return e instanceof Error&&e.message.includes("Not authenticated")?Ai(di()):Ai(bi(e instanceof Error?e.message:String(e)))}}E(hs,{browseHandler:()=>gs});var ys,ws,bs,vs,js=A({"src/tools/browse.ts"(){Ne(),Ni(),Ii(),_s=["requirement","test-case","note","table"]}}),Ss={};async function ks(e){try{const t=e.direction??"downstream",r=null!=e.depth?Math.min(Math.max(e.depth,1),20):null,i=await ze(),a=await Mi(i,e.project_id,e.item_id);if(!a)return Ai(ni("Item",e.item_id));const{data:n,error:s}=await i.from("item_relationships").select("from_id, to_id, type").eq("project_id",e.project_id);if(s)throw new Error(s.message);const{data:o,error:d}=await i.from("items").select("id, title, 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a=l.get(e);if(a&&(u.push({item_id:e,title:a.title,type:a.type,depth:t,relationship_path:i}),t>_&&(_=t),null===r||t<r))for(const r of c.get(e)??[])m.has(r.neighbor)||f.push({id:r.neighbor,depth:t+1,path:[...i,{from_id:e,to_id:r.neighbor,relationship_type:r.relType}]})}let h=0;if(e.include_variable_refs){const{data:t}=await i.from("variable_references").select("variable_id").eq("item_id",e.item_id).eq("project_id",e.project_id),r=[...new Set((t??[]).map(e=>e.variable_id))];if(r.length>0){const{data:t}=await i.from("project_variables").select("id, name").in("id",r),a=new Map((t??[]).map(e=>[e.id,e.name])),{data:n}=await i.from("variable_references").select("variable_id, item_id").in("variable_id",r).eq("project_id",e.project_id).neq("item_id",e.item_id);for(const t of n??[]){const r=t.item_id;if(m.has(r))continue;if(u.length>=ys)break;m.add(r);const i=l.get(r);if(!i)continue;const n=a.get(t.variable_id)??t.variable_id;u.push({item_id:r,title:i.title,type:i.type,depth:1,relationship_path:[{from_id:e.item_id,to_id:r,relationship_type:`variable_ref:${n}`}]}),h++}}}const g={};for(const e of u)g[e.type]=(g[e.type]??0)+1;const y=l.get(e.item_id);return xi(ri({root:{item_id:e.item_id,title:y?.title??a.title,type:y?.type??a.type},impacted_items:u,summary:{total_impacted:u.length,by_type:g,max_depth_reached:_,...h>0?{variable_impact_count:h}:{},...u.length>=ys?{truncated:!0}:{}}}))}catch(e){return e instanceof Error&&e.message.includes("Not authenticated")?Ai(di()):Ai(bi(e instanceof Error?e.message:String(e)))}}E(Ss,{impactAnalysisHandler:()=>ks});var xs=A({"src/tools/impact-analysis.ts"(){Ne(),Ni(),Ii(),ys=200,ws=["parent","verifies","traces_to","allocated_from","decomposed_from"],bs=["child","verified_by","allocated_to","decomposes_to","traced_by"],vs={parent:"child",child:"parent",verifies:"verified_by",verified_by:"verifies",related:"related",traces_to:"traced_by",traced_by:"traces_to",allocated_to:"allocated_from",allocated_from:"allocated_to",decomposes_to:"decomposed_from",decomposed_from:"decomposes_to"}}}),As=A({"src/core/relationship-sync.ts"(){}}),Es={};function Is(e){return e instanceof Error&&e.message.includes("Not authenticated")?Ai(di()):null}async function Rs(e,t){const{data:r,error:i}=await e.rpc("restore_baseline_state",{p_baseline_id:t.baselineId,p_project_id:t.projectId,p_items:[],p_variables:[],p_user_id:t.userId});if(i)throw new Error(i.message);return r}async function Os(e,t,r){const{data:i,error:a}=await e.from("items").select("id, deleted_at").eq("project_id",t).eq("id",r).maybeSingle();if(a)throw new Error(a.message);if(n=i,!Boolean(n?.id&&null===n.deleted_at))return;var n;const{error:s}=await e.rpc("sync_item_relationships_from_jsonb",{p_project_id:t,p_item_id:r});if(s)throw new Error(s.message)}async function zs(e,t,r){const{data:i,error:a}=await e.from("projects").select("org_id").eq("id",t).maybeSingle();if(a)return Ai(bi(a.message));if(!i)return Ai(ni("Project",t));const{data:n,error:s}=await e.from("organizations").select("feature_flags").eq("id",i.org_id).maybeSingle();return s?Ai(bi(s.message)):!0!==(n?.feature_flags??{})[r]?Ai(ai(`Feature '${r}' is not enabled for this organization`,["Ask an org admin to enable the flag in Org Settings."])):null}async function qs(e){try{const t=await ze(),r=await async function(e,t){const{data:r,error:i}=await e.from("baselines").select("id, project_id, name, description, field_definitions_snapshot, snapshot_at, created_at, created_by, locked_at, locked_by, release_version, release_status").eq("project_id",t).is("deleted_at",null).order("snapshot_at",{ascending:!1});if(i)throw new Error(`listBaselines: ${i.message}`);return r??[]}(t,e.project_id),i=Math.max(e.offset??0,0),a=Math.min(Math.max(e.limit??50,1),100);return xi(ri({baselines:r.slice(i,i+a).map(e=>({id:e.id,name:e.name,description:e.description,field_definitions_snapshot:e.field_definitions_snapshot,snapshot_at:e.snapshot_at,created_at:e.created_at,created_by:e.created_by,locked:null!==e.locked_at,locked_at:e.locked_at,release_version:e.release_version,release_status:e.release_status})),total:r.length,offset:i,limit:a}))}catch(e){return Is(e)??Ai(bi(e instanceof Error?e.message:String(e)))}}async function Ms(e){try{const t=await ze(),r=await zs(t,e.project_id,"baselines_enabled");if(r)return r;const{data:i,error:a}=await t.from("baselines").insert({project_id:e.project_id,name:e.name.trim(),description:e.description??null,snapshot_at:(new Date).toISOString()}).select().single();return a?"23505"===a.code?Ai(ai(`Baseline name "${e.name}" already exists in this project`,["Pick a different name"])):Ai(bi(a.message)):xi(ri({id:i.id,name:i.name,description:i.description,field_definitions_snapshot:i.field_definitions_snapshot,snapshot_at:i.snapshot_at,created_at:i.created_at,locked:!1}))}catch(e){return Is(e)??Ai(bi(e instanceof Error?e.message:String(e)))}}async function Hs(e){try{const t=await ze(),r=await Di(t,e.baseline_id);if(!r)return Ai(ni("Baseline",e.baseline_id));const i=await zs(t,r.project_id,"baselines_enabled");if(i)return i;if(null!==r.locked_at)return Ai(ai("Baseline is already locked",["Locks are one-way; nothing to do"]));const{data:a}=await t.from("projects").select("org_id").eq("id",r.project_id).maybeSingle();if(!a)return Ai(ni("Project",r.project_id));const{data:n}=await t.auth.getUser(),s=n?.user?.id;if(!s)return Ai(di());const{data:o}=await t.from("org_members").select("role").eq("user_id",s).eq("org_id",a.org_id).maybeSingle();if(!o||"admin"!==o.role)return Ai(ai("Only admins can lock baselines",["Ask an org admin to lock this baseline"]));const{data:d,error:l}=await t.from("baselines").update({locked_at:(new Date).toISOString(),locked_by:s}).eq("id",e.baseline_id).select().single();return l?Ai(bi(l.message)):xi(ri({id:d.id,locked_at:d.locked_at,locked_by:d.locked_by}))}catch(e){return Is(e)??Ai(bi(e instanceof Error?e.message:String(e)))}}async function Ds(e){try{const t=await ze(),[r,i]=await Promise.all([Di(t,e.baseline_a_id),Di(t,e.baseline_b_id)]);if(!r||!i)return Ai(ni("Baseline","one of the baseline_ids"));if(r.project_id!==i.project_id)return Ai(ai("Both baselines must belong to the same project",["Verify both baseline_ids are from the same project_id"]));const[a,n]=await Promise.all([$i(t,r.project_id,r.snapshot_at),$i(t,i.project_id,i.snapshot_at)]),s=new Map(a.map(e=>[e.id,e])),o=new Map(n.map(e=>[e.id,e])),d=Array.from(new Set([...s.keys(),...o.keys()])).sort(),l=[];let c=0,p=0,m=0;for(const e of d){const t=s.get(e),r=o.get(e);if(!t&&r)c++,l.push({item_id:e,change_type:"added"});else if(t&&!r)p++,l.push({item_id:e,change_type:"removed"});else if(t&&r){const i=[];t.title!==r.title&&i.push("title"),t.type!==r.type&&i.push("type");JSON.stringify(t.data??{})!==JSON.stringify(r.data??{})&&i.push("data"),i.length>0&&(m++,l.push({item_id:e,change_type:"modified",fields_changed:i}))}}const u=Math.max(e.offset??0,0),_=Math.min(Math.max(e.limit??50,1),200),f=e.detail?l.slice(u,u+_):l.slice(u,u+_).map(({item_id:e,change_type:t,fields_changed:r})=>({item_id:e,change_type:t,fields_changed:r}));return xi(ri({summary:{added:c,removed:p,modified:m,total_compared:d.length},items:f,page_info:{offset:u,limit:_,total:l.length},baselines:{a:{id:r.id,name:r.name,snapshot_at:r.snapshot_at},b:{id:i.id,name:i.name,snapshot_at:i.snapshot_at}}}))}catch(e){return Is(e)??Ai(bi(e instanceof Error?e.message:String(e)))}}async function Ps(e){try{const t=await ze(),r=await Di(t,e.baseline_id);if(!r)return Ai(ni("Baseline",e.baseline_id));const i=await zs(t,r.project_id,"baselines_enabled");if(i)return i;const{data:a}=await t.from("projects").select("org_id").eq("id",r.project_id).maybeSingle();if(!a)return Ai(ni("Project",r.project_id));const{data:n}=await t.auth.getUser(),s=n?.user?.id;if(!s)return Ai(di());const{data:o}=await t.from("org_members").select("role").eq("user_id",s).eq("org_id",a.org_id).maybeSingle();if(!o||"admin"!==o.role)return Ai(ai("Only admins can restore from a baseline",["Ask an org admin to run the restore"]));const{data:d}=await t.rpc("cc_project_is_controlled",{p_project_id:r.project_id});if(!0===d)return Ai(ai("Change control is on for this project. Release review before restoring a baseline.",["Release review on the project, then run the restore"]));const l=await $i(t,r.project_id,r.snapshot_at),c=l.map(e=>e.id),{data:p,error:m}=c.length>0?await t.from("items").select("*").eq("project_id",r.project_id).in("id",c):{data:[],error:null};if(m)return Ai(bi(m.message));const u=function(e,t){const r=new Map(t.map(e=>[e.id,e]));return e.flatMap(e=>{const t=r.get(e.id),i=[];var a,n;return t?(null!==t.deleted_at&&i.push("deleted_at"),t.type!==e.type&&i.push("type"),t.title!==e.title&&i.push("title"),a=t.data,n=e.data,JSON.stringify(a??{})!==JSON.stringify(n??{})&&i.push("data")):i.push("missing"),0===i.length?[]:[{id:e.id,type:e.type,title:e.title,data:e.data??{},diff_summary:{changed_fields:i,restored:!0},oldData:t?.data??null}]})}(l,p??[]),{data:_,error:f}=await t.rpc("variables_at",{p_project_id:r.project_id,p_snapshot_at:r.snapshot_at});if(f)return Ai(bi(f.message));const h=_??[];if(!0!==e.confirm)return xi(ri({preview:!0,items_to_restore:u.length,variables_to_restore:h.length,field_definitions_to_restore:r.field_definitions_snapshot?.length??null}));const g=await Rs(t,{baselineId:r.id,projectId:r.project_id,userId:s});return xi(ri({ok:!0,items_restored:g.items_restored,variables_restored:g.variables_restored,field_definitions_restored:g.field_definitions.length}))}catch(e){return Is(e)??Ai(bi(e instanceof Error?e.message:String(e)))}}E(Es,{createBaselineHandler:()=>Ms,diffBaselinesHandler:()=>Ds,listBaselinesHandler:()=>qs,lockBaselineHandler:()=>Hs,restoreBaselineHandler:()=>Ps,restoreBaselineStateAtomically:()=>Rs,syncRestoredItemRelationships:()=>Os});var $s,Cs=A({"src/tools/baselines.ts"(){Ne(),xo(),Ii(),Ni(),As()}}),Ts={};function Us(e){return"safety-goal"===e?"hara":"failure-mode"===e?"dfmea":null}async function Ns(e,t,r){const{data:i,error:a}=await e.rpc("next_item_id",{p_project_id:t,p_prefix:r});if(a)throw new Error(`ID generation failed: ${a.message}`);return i}function Fs(e){const t=e?.relationships?.mitigated_by;return Array.isArray(t)?t.filter(e=>"string"==typeof e):[]}function Ls(e){const t=e?.relationships?.verified_by;return Array.isArray(t)?t.filter(e=>"string"==typeof e):[]}function Ws(e){return JSON.parse(JSON.stringify(e??{}))}async function Vs(e,t,r){const i=[];for(const e of r){const t=(e??"").trim();t&&null===vr(t,i)&&i.push(t)}if(0===i.length)return i;try{const{data:r}=await e.from("metadata").select("domains, function_tags").eq("project_id",t).maybeSingle(),a=e=>Array.isArray(e)?e.filter(e=>"string"==typeof e):[],n=a(r?.domains),s=a(r?.function_tags),o=i.map(e=>vr(e,n)??e),d=[...n],l=[...s];let c=!1;for(const e of o)null===vr(e,d)&&(d.push(e),c=!0),null===vr(e,l)&&(l.push(e),c=!0);if(c){const{error:r}=await e.from("metadata").upsert({project_id:t,domains:d,function_tags:l},{onConflict:"project_id"});r&&process.stderr.write(`[atoms-mcp] Warning: function tag registration failed: ${r.message}\n`)}return o}catch(e){return process.stderr.write(`[atoms-mcp] Warning: function tag registration failed: ${e instanceof Error?e.message:String(e)}\n`),i}}async function Bs(e,t){const{data:r,error:i}=await e.from("metadata").select("industry").eq("project_id",t).maybeSingle();if(i)throw new Error(i.message);return a=r,n=a?.industry,"automotive"===n||"medical"===n?a.industry:null;var a,n}async function Js(e,t,r,i){const a=function(e){const t=e?.analysis_props?.variant;return"iso26262"===(r=t)||"iso14971"===r||"design"===r||"process"===r||"software"===r||"use"===r?t:null;var r}(i);return{variant:a,schemeId:ar(r,a,a?null:await Bs(e,t))}}async function Qs(e,t,r,i){const a=function(e){const t=e?.relationships?.parents;return Array.isArray(t)?t.filter(e=>"string"==typeof e)[0]??null:null}(i),n=a?await Mi(e,t,a):null;return Js(e,t,r,n?.data)}function Gs(e,t,r,i={}){const a=i.where?`${i.where}: `:"",n=new Set([...Et[e],...i.extraKeys??[]]),s=Object.keys(r??{});if(0===s.length)return{ok:!1,message:`${a}fields must contain at least one key`};const o=s.filter(e=>Kt.includes(e));if(o.length>0)return{ok:!1,message:`${a}${Or(e,o)}`};const d=zr(e);if(d&&s.includes(d.field))return{ok:!1,message:`${a}${qr(e)}`};const l=s.filter(e=>!n.has(e));if(l.length>0)return{ok:!1,message:`${a}Unknown field(s) for ${e}: ${l.join(", ")}. Allowed: ${[...n].sort().join(", ")}`};const c=At[e],p={};for(const t of s){const i=r[t];if(c[t]){const r="number"==typeof i?String(i):i;if("string"!=typeof r||!c[t].includes(r))return{ok:!1,message:`${a}Invalid ${t} value ${JSON.stringify(i)} for ${e}. Allowed: ${c[t].join(", ")}`};p[t]=r}else{if("string"!=typeof i)return{ok:!1,message:`${a}Field '${t}' must be a string`};p[t]=i}}return{ok:!0,writes:p}}async function Ks(e){try{const r=await ze(),i=De();try{await $e(r,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ai(si("Viewer"));throw e}const a="string"==typeof(t=e.subtype)&&Object.prototype.hasOwnProperty.call($t,t)?$t[t]:null;if(!a)return Ai(oi(function(e){return`subtype must be one of: ${Ct.join(", ")} (got ${JSON.stringify(e)})`}(e.subtype)));const n=e.source_req_ids??[],s=e.source_functions??[];if("hara"===a&&n.length>0)return Ai(oi("A HARA is seeded from functions, never requirements (a requirement is an output of the analysis): pass source_functions and omit source_req_ids"));if("dfmea"===a&&s.length>0)return Ai(oi("source_functions applies to hara only; seed a DFMEA with source_req_ids"));if(n.length>50)return Ai(oi("source_req_ids supports at most 50 entries per call"));if(s.length>50)return Ai(oi("source_functions supports at most 50 entries per call"));if(n.length>0){const{data:t,error:i}=await r.from("items").select("id, type, data").eq("project_id",e.project_id).is("deleted_at",null).in("id",n);if(i)throw new Error(i.message);const a=new Map((t??[]).map(e=>[e.id,e])),s=n.filter(e=>!a.has(e));if(s.length>0)return Ai(ni("Source requirement(s)",s.join(", ")));const o=n.filter(e=>{const t=a.get(e);return"requirement"!==t.type||$s.has(t.data?.req_type)});if(o.length>0)return Ai(oi(`source_req_ids must reference plain requirements (type='requirement', not analysis rows): ${o.join(", ")}`))}if(void 0!==e.variant&&!fr(e.subtype).includes(e.variant))return Ai(oi(function(e,t){const r=fr(e),i="risk_analysis"===e||"hazard_analysis"===e?"a risk analysis (ISO 14971)":"fmea"===e?"an fmea":`a ${e}`;return`variant must be ${1===r.length?"":"one of: "}${r.join(", ")} for ${i} (got ${JSON.stringify(t)}); the analysis carries its standard, so pick the variant that names it`}(e.subtype,e.variant)));const o=e.variant??function(e,t){return"medical"===t?Ut[e]:Tt[e]}(e.subtype,await Bs(r,e.project_id)),d=ar(a,o),l=nr(d),c={};for(const t of It){const r=e[t];"string"==typeof r&&""!==r&&(c[t]=ji(r))}const p=Object.keys(c);if(p.length>0&&0===dr(d).length)return Ai(oi(ur(d,p)));const m="hara"===a?await Vs(r,e.project_id,s):n,u=await Ns(r,e.project_id,Dt[d]),_=`New ${Mr(d).parent}`,f=e.title??_,h=e.revision??"1.0",g=Mt[a],y=(new Date).toISOString(),w={id:u,type:"analysis",title:f,body:"",tags:{domains:[],level:""},ownership:{primary:null,additional:[]},relationships:{parents:[],children:[],related:[],verifies:[],verified_by:[]},links:[],analysis:{subtype:a,scheme:d,revision:h,...l?{standard:l}:{}},analysis_props:{variant:o,...c},metadata:{created_at:y,created_by:i,updated_at:y,updated_by:i}},{error:b}=await r.rpc("save_item_with_revision",{p_item_id:u,p_project_id:e.project_id,p_type:"analysis",p_title:f,p_data:w,p_user_id:i,p_event_source:"mcp",p_event_session_id:jo()??null,p_diff_summary:null});if(b)throw new Error(b.message);const v=(e,t)=>"hara"===a?{id:e,source_function:t}:{id:e,source_req:t},j=[],S=[];for(const t of m){const n=await Ns(r,e.project_id,Ht[d]),s={id:n,type:"requirement",title:"",body:"",req_type:g,tags:{domains:[],level:""},ownership:{primary:null,additional:[]},relationships:{parents:[u],children:[],related:[],verifies:[],verified_by:[]},links:[],analysis_props:"hara"===a?{source_req:null,source_function:t,approved:!1,approved_at:null,field_source:{}}:{source_req:t,approved:!1,approved_at:null,field_source:{}},metadata:{created_at:y,created_by:i,updated_at:y,updated_by:i}},{error:o}=await r.rpc("save_item_with_revision",{p_item_id:n,p_project_id:e.project_id,p_type:"requirement",p_title:"",p_data:s,p_user_id:i,p_event_source:"mcp",p_event_session_id:jo()??null,p_diff_summary:null});if(o)throw new Error(o.message);const{error:l}=await r.rpc("apply_link_change",{p_project_id:e.project_id,p_from_id:n,p_to_id:u,p_type:"parent",p_action:"add",p_user_id:i,p_event_source:"mcp"});l&&(process.stderr.write(`[atoms-mcp] Warning: analysis row parent link sync failed for ${n}: ${l.message}\n`),S.push({row_id:n,..."hara"===a?{source_function:t}:{source_req:t},message:l.message})),await r.from("change_history").insert({item_id:n,project_id:e.project_id,changed_by:i,event_type:"created",old_data:null,new_data:s,actor:So(),session_id:jo()}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)}),j.push(v(n,t))}return await r.from("change_history").insert({item_id:u,project_id:e.project_id,changed_by:i,event_type:"created",old_data:null,new_data:w,actor:So(),session_id:jo()}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)}),xi(ri({id:u,subtype:a,title:f,revision:h,scheme:d,variant:o,labels:Mr(d),...l?{standard:l}:{},rows:j,...S.length>0?{link_warnings:S,warning:`${S.length} row(s) were created but could not be attached to the analysis and will not appear in atoms_get_analysis. Repair: for each row in link_warnings, call atoms_link_items with type 'parent', from_id=<row id>, to_id=${u}.`}:{}}))}catch(e){return Ai(yi(e))}var t}function Ys(e){for(const t of Object.keys(e)){const r=e[t];"string"==typeof r&&(e[t]=ji(r))}}async function Zs(e){try{const t=await ze(),r=De();try{await $e(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ai(si("Viewer"));throw e}const i=await Mi(t,e.project_id,e.row_id);if(!i)return Ai(ni("Analysis row",e.row_id));const a=i.data;if("analysis"===i.type)return async function(e,t,r,i,a,n){const{schemeId:s}=await Js(e,r,function(e){return"dfmea"===e?.analysis?.subtype?"dfmea":"hara"}(a),a),o=function(e,t){const r=dr(e),i=Object.keys(t??{});if(0===i.length)return{ok:!1,message:"fields must contain at least one key"};const a=i.filter(e=>!r.includes(e));if(a.length>0)return{ok:!1,message:ur(e,a)};const n={};for(const e of i){const r=t[e];if("string"!=typeof r)return{ok:!1,message:`Field '${e}' must be a string`};if("overall_residual_risk"===e&&""!==r&&!zt.includes(r))return{ok:!1,message:_r(e,r,zt)};if("software_safety_class"===e&&""!==r&&!qt.includes(r))return{ok:!1,message:_r(e,r,qt)};n[e]=r}return{ok:!0,writes:n}}(s,n);if(!o.ok)return Ai(oi(o.message));const d=o.writes;Ys(d);const l=Ws(a);l.analysis_props&&"object"==typeof l.analysis_props||(l.analysis_props={});const c=l.analysis_props;for(const[e,t]of Object.entries(d))c[e]=t;const p=(new Date).toISOString();l.metadata={...l.metadata??{},updated_at:p,updated_by:t};const{data:m,error:u}=await e.rpc("save_item_with_revision",{p_item_id:i.id,p_project_id:r,p_type:i.type,p_title:i.title,p_data:l,p_user_id:t,p_event_source:"mcp",p_event_session_id:jo()??null,p_diff_summary:null,p_expected_updated_at:i.updated_at});if(u)throw new Error(u.message);return m?(await e.from("change_history").insert({item_id:i.id,project_id:r,changed_by:t,event_type:"updated",old_data:a,new_data:l,actor:So(),session_id:jo()}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)}),xi(ri({analysis_id:i.id,scheme:s,written_fields:Object.keys(d),scope:cr(c),overall:pr(c)}))):Ai(ai(`Fill silently failed for '${i.id}': save RPC returned no row. Likely RLS denied the write.`,["Verify you have editor or admin role in this project","Retry after checking project access"]))}(t,r,e.project_id,i,a,e.fields??{});const n=Us(a?.req_type);if(!n)return Ai(oi(`Item ${e.row_id} is not an analysis row (req_type must be 'safety-goal' or 'failure-mode')`));const{schemeId:s}=await Qs(t,e.project_id,n,a),o=Gs(s,0,e.fields??{},{extraKeys:"hara"===n?["effect","title"]:["effect"]});if(!o.ok)return Ai(oi(o.message));const d=o.writes;if(Ys(d),"hara"===n&&"string"==typeof d.source_function&&d.source_function.trim()){const[r]=await Vs(t,e.project_id,[d.source_function]);r&&(d.source_function=r)}const l=a?.analysis_props??null,c=Ws(a);c.analysis_props&&"object"==typeof c.analysis_props||(c.analysis_props={source_req:null,approved:!1,approved_at:null,field_source:{}});const p=c.analysis_props;p.field_source&&"object"==typeof p.field_source||(p.field_source={});let m=i.title;for(const[e,t]of Object.entries(d))"effect"===e?c.body=t:"title"===e?(c.title=t,m=t):(p[e]=t,"failure_mode"===e&&"dfmea"===n&&(c.title=t,m=t)),p.field_source[e]="mcp";const u=Ur(p),_=(new Date).toISOString();c.metadata={...c.metadata??{},updated_at:_,updated_by:r};const{data:f,error:h}=await t.rpc("save_item_with_revision",{p_item_id:i.id,p_project_id:e.project_id,p_type:i.type,p_title:m,p_data:c,p_user_id:r,p_event_source:"mcp",p_event_session_id:jo()??null,p_diff_summary:null,p_expected_updated_at:i.updated_at});if(h)throw new Error(h.message);if(!f)return Ai(ai(`Fill silently failed for '${e.row_id}': save RPC returned no row. Likely RLS denied the write.`,["Verify you have editor or admin role in this project","Retry after checking project access"]));await t.from("change_history").insert({item_id:i.id,project_id:e.project_id,changed_by:r,event_type:"updated",old_data:a,new_data:c,actor:So(),session_id:jo(),...u?{reason:`${Object.keys(d).join(", ")} written through atoms_fill_row; approval cleared (a signature never covers content the approver did not see)`}:{}}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)});const g=Er(s,p),y=[];if("hara_iso26262"===s){const a=Er(s,l),n=Fs(c);if(n.length>0&&g!==gt&&g!==a)for(const a of n){const n=await Mi(t,e.project_id,a);if(!n)continue;const s=n.data;if(s?.asil===g&&s?.asil_source===i.id)continue;const o=s?.asil??null,d=s?.asil_source??null,l=Ws(s);l.asil=g,l.asil_source=i.id,l.metadata={...l.metadata??{},updated_at:_,updated_by:r};const{error:c}=await t.rpc("save_item_with_revision",{p_item_id:n.id,p_project_id:e.project_id,p_type:n.type,p_title:n.title,p_data:l,p_user_id:r,p_event_source:"mcp",p_event_session_id:jo()??null,p_diff_summary:null,p_expected_updated_at:n.updated_at});if(c)throw new Error(c.message);await t.from("change_history").insert({item_id:n.id,project_id:e.project_id,changed_by:r,event_type:"updated",old_data:{asil:o,asil_source:d},new_data:{asil:g,asil_source:i.id},actor:So(),session_id:jo(),reason:`ASIL propagated from ${i.id} (rating change via atoms_fill_row)`}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)}),y.push(a)}}return xi(ri({row_id:i.id,subtype:n,written_fields:Object.keys(d),computed_level:g,...y.length>0?{asil_propagated_to:y}:{},...u?{approval_cleared:!0}:{}}))}catch(e){return Ai(yi(e))}}async function Xs(e,t,r){const i=await Mi(e,t,r);if(!i)return{ok:!1,result:Ai(ni("Analysis",r))};if("analysis"!==i.type)return{ok:!1,result:Ai(oi(`Item ${r} is not an analysis (type='${i.type}')`))};const a=i.data,n=Us("hara"===a?.analysis?.subtype?"safety-goal":"dfmea"===a?.analysis?.subtype?"failure-mode":null);if(!n)return{ok:!1,result:Ai(oi(`Analysis ${r} is missing a valid analysis.subtype`))};const s=Mt[n],{variant:o,schemeId:d}=await Js(e,t,n,a),l=Array.isArray(a?.relationships?.children)?a.relationships.children.filter(e=>"string"==typeof e):[];let c=[];if(l.length>0){const{data:r,error:i}=await e.from("items").select("*").eq("project_id",t).is("deleted_at",null).in("id",l);if(i)throw new Error(i.message);const a=new Map((r??[]).filter(e=>!e.deleted_at&&l.includes(e.id)&&e.data?.req_type===s).map(e=>[e.id,e]));c=l.map(e=>a.get(e)).filter(e=>Boolean(e))}const p=new Set;for(const e of c){const t=e.data?.analysis_props??{};"string"==typeof t.source_req&&t.source_req&&p.add(t.source_req);for(const t of Fs(e.data))p.add(t);for(const t of Ls(e.data))p.add(t)}const m=new Map;if(p.size>0){const{data:r,error:i}=await e.from("items").select("id, updated_at").eq("project_id",t).is("deleted_at",null).in("id",[...p]);if(i)throw new Error(i.message);for(const e of r??[])m.set(e.id,e.updated_at)}const u=c.map(e=>{const t=e.data?.analysis_props??{},r=Fs(e.data).filter(e=>m.has(e)),i=Ls(e.data).filter(e=>m.has(e)),a=r.length>0,n=Er(d,t),s=function(e,t,r){if(r)return null;if("hara_iso26262"===e){const e=jr(t);return"QM"!==e&&e!==gt?`asil ${e} unmitigated`:null}if("hazard_iso14971"===e){const e=xr(t);return"Low"!==e&&e!==gt?`${e.toLowerCase()} risk uncontrolled`:null}const i=parseInt(Er(e,t),10),a=parseInt(t?.severity||"",10);return!Number.isNaN(i)&&i>=100?"rpn >= 100":!Number.isNaN(a)&&a>=9?"severity >= 9":null}(d,t,a),o={id:e.id,title:"string"==typeof e.title?e.title:"",source_req:"string"==typeof t.source_req?t.source_req:null,effect:"string"==typeof e.data?.body?e.data.body:"",computed_level:n,computed_level_text:wr(d,n),is_gap:null!==s,gap_rule:s,is_critical:Ir(d,t,a),is_stale:Rr(t,r,e=>m.get(e)??null),mitigated_by:r,link_roles:t.link_roles??{},approved:!0===t.approved,approved_at:t.approved_at??null,approved_by:t.approved_by??null,approved_note:"string"==typeof t.approved_note?t.approved_note:"",verified_by:i,residual_level:"hazard_iso14971"===d?Ar(t):null,mitigation_types:t.mitigation_types??{},mcp_fields:Object.entries(t.field_source??{}).filter(([,e])=>"mcp"===e).map(([e])=>e).sort()};for(const e of Et[d])o[e]=t[e]??null;return o});return{ok:!0,analysis:{id:i.id,title:"string"==typeof i.title?i.title:"",subtype:n,scheme:d,revision:"string"==typeof a?.analysis?.revision?a.analysis.revision:"1.0",standard:"string"==typeof a?.analysis?.standard?a.analysis.standard:nr(d)??null,variant:o,labels:Mr(d),acceptability:yr(d),definitions:gr(d),control_types:Dr(d),field_labels:hr(d),scope:dr(d).length>0?cr(a?.analysis_props):null,overall:dr(d).length>0?pr(a?.analysis_props):null},schemeId:d,parentProps:a?.analysis_props??null,rows:u,counts:{rows:u.length,gaps:u.filter(e=>e.is_gap).length,critical:u.filter(e=>e.is_critical).length,stale:u.filter(e=>e.is_stale).length,approved:u.filter(e=>e.approved).length,linked:u.filter(e=>e.mitigated_by.length>0).length}}}async function eo(e){try{const t=await ze(),r=await Xs(t,e.project_id,e.analysis_id);return r.ok?xi(ri({analysis:r.analysis,rows:r.rows,counts:r.counts})):r.result}catch(e){return Ai(yi(e))}}async function to(e){try{const a=await ze(),n=De();try{await $e(a,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ai(si("Viewer"));throw e}if(e.row_id===e.req_id)return Ai(oi("row_id and req_id must be different items"));const s=await Mi(a,e.project_id,e.row_id);if(!s)return Ai(ni("Analysis row",e.row_id));const o=s.data,d=Us(o?.req_type);if(!d)return Ai(oi(`Item ${e.row_id} is not an analysis row (req_type must be 'safety-goal' or 'failure-mode')`));const l=await Mi(a,e.project_id,e.req_id);if(!l)return Ai(ni("Requirement",e.req_id));const c=l.data;if("requirement"!==l.type||$s.has(c?.req_type))return Ai(oi(`req_id must reference a plain requirement (type='requirement', not an analysis row): ${e.req_id}`));const{schemeId:p}=await Qs(a,e.project_id,d,o);if(function(e){return"hara_iso26262"===e||"hazard_iso14971"===e}(p)&&c?.req_type!==_t)return Ai(oi(function(e,t){return`${e} is not a ${Yt[t].mitigating_requirement}: a mitigation target must be a requirement of req_type '${_t}'. Create or convert one, then link it.`}(e.req_id,p)));const m=Hr(p);if(0===m.length&&void 0!==e.control_type)return Ai(oi(function(e){return`control_type applies to the medical schemes only (ISO 14971 clause 7); ${Yt[e].parent} links carry none, so omit it.`}(p)));if(m.length>0&&!e.control_type)return Ai(oi(Pr()));if(void 0!==e.control_type&&!sr(e.control_type))return Ai(oi(Pr()));if("dfmea"===d&&!e.role)return Ai(oi(`role is required for dfmea mitigation links. Choose one of: ${yt.join(", ")}`));if("hara"===d&&e.role)return Ai(oi("role is not applicable to hara mitigation links; omit it (roles are a dfmea concept)"));let u=gt;if("hara_iso26262"===p){u=Er(p,o?.analysis_props);const a=c?.asil;if(u!==gt&&"string"==typeof a&&a.length>0&&a!==u&&!0!==e.override)return Ai((r=u,{...ai(`ASIL conflict: the target requirement already carries asil '${t=a}' but ${i=s.id} computes '${r}'.`,["Pass override=true to apply the HARA value; the override is history-logged like a dialog accept","Or align the row's S/E/C ratings with the existing ASIL before linking"]),details:{code:"asil_conflict",current_value:t,incoming_value:r,source_row:i,hint:"pass override=true to apply the HARA value; the override is history-logged like a dialog accept"}}))}const _="dfmea"===d?e.role:null,{error:f}=await a.rpc("apply_link_change",{p_project_id:e.project_id,p_from_id:e.row_id,p_to_id:e.req_id,p_type:"mitigated_by",p_action:"add",p_user_id:n,p_event_source:"mcp",p_expected_from_updated_at:s.updated_at,p_expected_to_updated_at:l.updated_at,p_role:_});if(f)throw new Error(f.message);let h,g;if(await a.from("change_history").insert({item_id:e.row_id,project_id:e.project_id,changed_by:n,event_type:"updated",old_data:null,new_data:{relationship_change:{action:"add",type:"mitigated_by",from:e.row_id,to:e.req_id,..._?{role:_}:{}}},actor:So(),session_id:jo()}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)}),e.control_type&&sr(e.control_type)){const t=await Mi(a,e.project_id,e.row_id)??s,r=Ws(t.data);r.analysis_props&&"object"==typeof r.analysis_props||(r.analysis_props={source_req:null,approved:!1,approved_at:null,field_source:{}});const i=r.analysis_props;i.mitigation_types&&"object"==typeof i.mitigation_types||(i.mitigation_types={}),i.mitigation_types[e.req_id]=e.control_type;const o=(new Date).toISOString();r.metadata={...r.metadata??{},updated_at:o,updated_by:n};const{error:d}=await a.rpc("save_item_with_revision",{p_item_id:t.id,p_project_id:e.project_id,p_type:t.type,p_title:t.title,p_data:r,p_user_id:n,p_event_source:"mcp",p_event_session_id:jo()??null,p_diff_summary:null,p_expected_updated_at:t.updated_at});if(d)throw new Error(d.message);h=e.control_type}if("hara_iso26262"===p&&u!==gt){const t=await Mi(a,e.project_id,e.req_id);if(t){const r=t.data,i=r?.asil??null,o=r?.asil_source??null,d=Ws(r);d.asil=u,d.asil_source=s.id;const l=(new Date).toISOString();d.metadata={...d.metadata??{},updated_at:l,updated_by:n};const{error:c}=await a.rpc("save_item_with_revision",{p_item_id:t.id,p_project_id:e.project_id,p_type:t.type,p_title:t.title,p_data:d,p_user_id:n,p_event_source:"mcp",p_event_session_id:jo()??null,p_diff_summary:null,p_expected_updated_at:t.updated_at});if(c)throw new Error(c.message);await a.from("change_history").insert({item_id:t.id,project_id:e.project_id,changed_by:n,event_type:"updated",old_data:{asil:i,asil_source:o},new_data:{asil:u,asil_source:s.id},actor:So(),session_id:jo(),reason:!0===e.override?`ASIL override accepted via atoms_link_mitigation (was '${i??"unset"}', now '${u}' from ${s.id})`:`ASIL set via atoms_link_mitigation from ${s.id}`}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)}),g=u}}return xi(ri({row_id:e.row_id,req_id:e.req_id,type:"mitigated_by",role:_,scheme:p,...h?{control_type:h}:{},...g?{asil_written:g}:{}}))}catch(e){return Ai(yi(e))}var t,r,i}async function ro(e){try{const i=await ze(),a=await Xs(i,e.project_id,e.analysis_id);if(!a.ok)return a.result;const n=a.rows.filter(e=>e.is_gap).map(e=>({id:e.id,title:e.title,source_req:e.source_req,source_function:"string"==typeof e.source_function?e.source_function:null,computed_level:e.computed_level,rule:e.gap_rule})),s=function(e){const t=Array.isArray(e)?e.filter(e=>"string"==typeof e):[],r=t.length>=2?t[1].trim():"";return r?{level:r,source:"taxonomy"}:{level:ft,source:"fallback"}}(await async function(e,t){const{data:r,error:i}=await e.from("metadata").select("levels").eq("project_id",t).maybeSingle();if(i)throw new Error(i.message);const a=r?.levels;return Array.isArray(a)?a.filter(e=>"string"==typeof e):[]}(i,e.project_id)),o=Tr(a.schemeId).some(e=>"requirement"===e.scope)?await async function(e,t,r){const{data:i,error:a}=await e.from("items").select("id, data").eq("project_id",t).is("deleted_at",null).eq("type","requirement");if(a)throw new Error(a.message);const n=(i??[]).filter(e=>e.data?.req_type===_t&&function(e,t){const r=or(e);return r.length>0&&r===or(t)}(e.data?.tags?.level,r));if(0===n.length)return[];const s=e=>{const t=e.data?.relationships?.parents;return Array.isArray(t)?t.filter(e=>"string"==typeof e):[]},o=new Set;for(const e of n)for(const t of s(e))o.add(t);const d=new Set;if(o.size>0){const{data:r,error:i}=await e.from("items").select("id").eq("project_id",t).is("deleted_at",null).in("id",[...o]);if(i)throw new Error(i.message);for(const e of r??[])d.add(e.id)}return n.filter(e=>!s(e).some(e=>d.has(e))).map(e=>e.id)}(i,e.project_id,s.level):[],d=a.rows.map(e=>({id:e.id,level:e.computed_level,linked:e.mitigated_by.length>0,verified:e.verified_by.length>0,residualLevel:e.residual_level??gt,severity:$r(e.severity)})),l=(t=a.parentProps,{hasRows:(r=d).length>0,scopeStated:mr(t),overallJudged:""!==pr(t).residual_risk,everyRowSettled:r.every(e=>e.linked&&e.residualLevel!==gt)}),c=function(e,t,r,i){const a=[];for(const n of Tr(e)){if("analysis"===n.scope){if(!i||!n.matchesAnalysis||!n.matchesAnalysis(i))continue;a.push({kind:n.kind,label:n.label(1),rowIds:[],reqIds:[],count:1,fix:n.fix,fixLabel:n.fixLabel});continue}if("requirement"===n.scope){if(0===r.length)continue;a.push({kind:n.kind,label:n.label(r.length),rowIds:[],reqIds:[...r],count:r.length,fix:n.fix,fixLabel:n.fixLabel});continue}const e=n.matches;if(!e)continue;const s=t.filter(t=>e(t)).map(e=>e.id);0!==s.length&&a.push({kind:n.kind,label:n.label(s.length),rowIds:s,reqIds:[],count:s.length,fix:n.fix,fixLabel:n.fixLabel})}return a}(a.schemeId,d,o,l).map(e=>({kind:e.kind,label:e.label,row_ids:e.rowIds,req_ids:e.reqIds,gap_count:e.count,fix:e.fix,fix_label:e.fixLabel}));return xi(ri({analysis_id:a.analysis.id,subtype:a.analysis.subtype,scheme:a.analysis.scheme,labels:a.analysis.labels,gaps:n,count:n.length,gap_kinds:c,system_level:s.level,system_level_source:s.source}))}catch(e){return Ai(yi(e))}var t,r}function io(e){return(e.failure_mode??"").trim()||(e.hazard??"").trim()||""}async function ao(e){try{const t=await ze(),r=De();try{await $e(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ai(si("Viewer"));throw e}const i=await Mi(t,e.project_id,e.analysis_id);if(!i)return Ai(ni("Analysis",e.analysis_id));if("analysis"!==i.type)return Ai(oi(`Item ${e.analysis_id} is not an analysis (type='${i.type}')`));const a=i.data,n=a?.analysis?.subtype,s="hara"===n?"hara":"dfmea"===n?"dfmea":null;if(!s)return Ai(oi(`Analysis ${e.analysis_id} is missing a valid analysis.subtype`));const{variant:o,schemeId:d}=await Js(t,e.project_id,s,a);if("hara"===s&&e.source_req)return Ai(oi("A risk analysis row is seeded from a function, never a requirement: pass source_function"));if("dfmea"===s&&e.source_function)return Ai(oi("source_function applies to a risk analysis only; seed an FMEA row with source_req"));const l=Array.isArray(e.rows)?e.rows:[];if(0===l.length)return Ai(oi("rows must contain at least one drafted row"));if(l.length>ht)return Ai(oi(`Propose rows accepts at most ${ht} rows per call; ${l.length} were sent. Split the proposal and call again.`));const c=[];for(let e=0;e<l.length;e++){const t=Gs(d,0,l[e]??{},{extraKeys:"hara"===s?["effect","title"]:["effect"],where:`row ${e+1}`});if(!t.ok)return Ai(oi(t.message));Ys(t.writes),c.push(t.writes)}let p=ji(e.source_function??"").trim();if("hara"===s&&p){const[r]=await Vs(t,e.project_id,[p]);r&&(p=r)}const m=(new Date).toISOString(),u=Mt[s],_=[],f=[];for(const i of c){const a=await Ns(t,e.project_id,Ht[d]),n={source_req:"dfmea"===s?e.source_req??null:null,..."hara"===s?{source_function:p||null}:{},approved:!1,approved_at:null,approved_by:null,field_source:{}};let o="",l="";for(const[e,t]of Object.entries(i))"effect"===e?o=t:"title"===e?l=t:(n[e]=t,"failure_mode"===e&&"dfmea"===s&&(l=t)),n.field_source[e]="mcp";l||(l=io(i));const c={id:a,type:"requirement",title:l,body:o,req_type:u,tags:{domains:[],level:""},ownership:{primary:null,additional:[]},relationships:{parents:[e.analysis_id],children:[],related:[],verifies:[],verified_by:[]},links:[],analysis_props:n,metadata:{created_at:m,created_by:r,updated_at:m,updated_by:r}},{error:h}=await t.rpc("save_item_with_revision",{p_item_id:a,p_project_id:e.project_id,p_type:"requirement",p_title:l,p_data:c,p_user_id:r,p_event_source:"mcp",p_event_session_id:jo()??null,p_diff_summary:null});if(h)throw new Error(h.message);const{error:g}=await t.rpc("apply_link_change",{p_project_id:e.project_id,p_from_id:a,p_to_id:e.analysis_id,p_type:"parent",p_action:"add",p_user_id:r,p_event_source:"mcp"});g&&(process.stderr.write(`[atoms-mcp] Warning: proposed row parent link sync failed for ${a}: ${g.message}\n`),f.push({row_id:a,message:g.message})),await t.from("change_history").insert({item_id:a,project_id:e.project_id,changed_by:r,event_type:"created",old_data:null,new_data:c,actor:So(),session_id:jo(),reason:"Row proposed through atoms_propose_rows (machine-proposed, unapproved)"}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)}),_.push({id:a,written_fields:Object.keys(i),computed_level:Er(d,n)})}return xi(ri({analysis_id:e.analysis_id,subtype:s,scheme:d,...o?{variant:o}:{},labels:Mr(d),..."hara"===s?{source_function:p||null}:{source_req:e.source_req??null},rows:_,count:_.length,max_rows:ht,approved:!1,...f.length>0?{link_warnings:f,warning:`${f.length} proposed row(s) were created but could not be attached to ${e.analysis_id}. Repair: call atoms_link_items with type 'parent', from_id=<row id>, to_id=${e.analysis_id}.`}:{}}))}catch(e){return Ai(yi(e))}}async function no(e){try{const t=await ze(),r=De();try{await $e(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ai(si("Viewer"));throw e}const i=await Mi(t,e.project_id,e.row_id);if(!i)return Ai(ni("Analysis row",e.row_id));const a=i.data,n=Us(a?.req_type);if(!n)return Ai(oi(`Item ${e.row_id} is not an analysis row (req_type must be 'safety-goal' or 'failure-mode')`));const{schemeId:s}=await Qs(t,e.project_id,n,a),o=e.rationale?function(e,t){return At[e][t]?"hara_iso26262"===e?"severity"===t?"s_rationale":"exposure"===t?"e_rationale":"controllability"===t?"c_rationale":null:"hazard_iso14971"===e?"severity"===t||"residual_s"===t?"s_rationale":"p1"===t||"residual_p1"===t?"p1_rationale":"p2"===t||"residual_p2"===t?"p2_rationale":null:"rationale":null}(s,e.field):null;if(e.rationale&&!o)return Ai(oi(`rationale applies to a rating field only; ${e.field} is not a rating of ${s}`));const d={[e.field]:e.value};o&&e.rationale&&(d[o]=e.rationale);const l=Gs(s,0,d,{extraKeys:"hara"===n?["effect","title"]:["effect"]});if(!l.ok)return Ai(oi(l.message));const c=l.writes;Ys(c);const p=Ws(a);p.analysis_props&&"object"==typeof p.analysis_props||(p.analysis_props={source_req:null,approved:!1,approved_at:null,field_source:{}});const m=p.analysis_props;m.field_source&&"object"==typeof m.field_source||(m.field_source={});let u=i.title;for(const[e,t]of Object.entries(c))"effect"===e?p.body=t:"title"===e?(p.title=t,u=t):(m[e]=t,"failure_mode"===e&&"dfmea"===n&&(p.title=t,u=t)),m.field_source[e]="mcp";const _=Ur(m),f=(new Date).toISOString();p.metadata={...p.metadata??{},updated_at:f,updated_by:r};const{data:h,error:g}=await t.rpc("save_item_with_revision",{p_item_id:i.id,p_project_id:e.project_id,p_type:i.type,p_title:u,p_data:p,p_user_id:r,p_event_source:"mcp",p_event_session_id:jo()??null,p_diff_summary:null,p_expected_updated_at:i.updated_at});if(g)throw new Error(g.message);if(!h)return Ai(ai(`Suggestion silently failed for '${e.row_id}': save RPC returned no row. Likely RLS denied the write.`,["Verify you have editor or admin role in this project","Retry after checking project access"]));await t.from("change_history").insert({item_id:i.id,project_id:e.project_id,changed_by:r,event_type:"updated",old_data:a,new_data:p,actor:So(),session_id:jo(),reason:`${e.field} suggested through atoms_suggest_field (machine-proposed, unapproved)`+(_?"; approval cleared (a signature never covers content the approver did not see)":"")}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)});const y=Object.entries(m.field_source).filter(([,e])=>"mcp"===e).map(([e])=>e).sort();return xi(ri({row_id:i.id,subtype:n,scheme:s,field:e.field,field_source:"mcp",written_fields:Object.keys(c),...o?{rationale_field:o}:{},..._?{approval_cleared:!0}:{},row:{id:i.id,computed_level:Er(s,m),approved:!0===m.approved,mcp_fields:y,...Object.fromEntries(Et[s].map(e=>[e,m[e]??null]))}}))}catch(e){return Ai(yi(e))}}async function so(e){try{const t=await ze(),r=De();try{await $e(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ai(si("Viewer"));throw e}const i=await Mi(t,e.project_id,e.row_id);if(!i)return Ai(ni("Analysis row",e.row_id));const a=i.data,n=Us(a?.req_type);if(!n)return Ai(oi(`Item ${e.row_id} is not an analysis row (req_type must be 'safety-goal' or 'failure-mode')`));const s=e.approver_id??r,o=await async function(e,t,r){const{data:i,error:a}=await e.from("projects").select("org_id").eq("id",t).maybeSingle();if(a)throw new Error(a.message);if(!i)throw new Error(`Project '${t}' not found`);const{data:n,error:s}=await e.from("org_members").select("role").eq("user_id",r).eq("org_id",i.org_id).maybeSingle();if(s)throw new Error(s.message);const o=n?.role;return"string"==typeof o?o:null}(t,e.project_id,s);if(!o)return Ai(oi(`Approver '${s}' is not a member of this project's organization. Approve as a project member (omit approver_id to approve as yourself).`));const{schemeId:d}=await Qs(t,e.project_id,n,a),l=a?.analysis_props??{},c=Er(d,l);if(c===gt)return Ai(oi(`${e.row_id} cannot be approved before it is rated: complete the rating fields first (the computed ${"hara_iso26262"===d?"ASIL":"hazard_iso14971"===d?"risk":"RPN"} is unset).`));const p=Ws(a);p.analysis_props&&"object"==typeof p.analysis_props||(p.analysis_props={source_req:null,approved:!1,approved_at:null,field_source:{}});const m=p.analysis_props;m.field_source&&"object"==typeof m.field_source||(m.field_source={});const u=ji(e.note??""),_=(new Date).toISOString();m.approved=!0,m.approved_at=_,m.approved_by=s,m.approved_note=u;const f=[];for(const[e,t]of Object.entries(m.field_source))"mcp"===t&&(m.field_source[e]="user",f.push(e));f.sort(),p.metadata={...p.metadata??{},updated_at:_,updated_by:r};const{data:h,error:g}=await t.rpc("save_item_with_revision",{p_item_id:i.id,p_project_id:e.project_id,p_type:i.type,p_title:i.title,p_data:p,p_user_id:r,p_event_source:"mcp",p_event_session_id:jo()??null,p_diff_summary:null,p_expected_updated_at:i.updated_at});if(g)throw new Error(g.message);return h?(await t.from("change_history").insert({item_id:i.id,project_id:e.project_id,changed_by:r,event_type:"updated",old_data:{approved:!0===l.approved,approved_at:l.approved_at??null,approved_by:l.approved_by??null,approved_note:l.approved_note??""},new_data:{approved:!0,approved_at:_,approved_by:s,approved_note:u},actor:So(),session_id:jo(),reason:`${e.row_id} approved by ${s} via atoms_approve_row`}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)}),xi(ri({row_id:i.id,subtype:n,scheme:d,approved:!0,approved_by:s,approved_at:_,approved_note:u,approver_role:o,computed_level:c,cleared_markers:f}))):Ai(ai(`Approval silently failed for '${e.row_id}': save RPC returned no row. 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j.default.resolve(i,"apps","src","apps",e,t)}(t.appName,t.htmlFile),a=[...Ei.resourceDomains,...t.extraResourceDomains??[]];d.registerAppTool(e,t.toolName,{title:t.title,description:t.description,inputSchema:t.inputSchema,annotations:t.annotations,_meta:{ui:{resourceUri:r}}},t.handler),d.registerAppResource(e,`${t.title} UI`,r,{mimeType:d.RESOURCE_MIME_TYPE},async()=>{const e=await v.default.readFile(i,"utf-8");return{contents:[{uri:r,mimeType:d.RESOURCE_MIME_TYPE,text:e,_meta:{ui:{csp:{resourceDomains:a}}}}]}})}(po,e)}function vo(e,t){return async r=>{const i=O(T(),e);if(!i.allowed)return Ai(ai(`Tool ${e} is blocked by org policy.`,[q(i.reason),"Contact your org admin to adjust the MCP access policy."]));try{!function(e){const t=st();if(!t)return;if("object"!=typeof e||null===e)return;const r=e.project_id;if("string"==typeof r&&r!==t)throw new it(t,r)}(r)}catch(e){if(e instanceof it)return Ai(ci(e.expectedProjectId));throw e}{const e=T(),t=r?.project_id;if(null!==e.project_scope&&"string"==typeof t&&!e.project_scope.includes(t))return Ai(ai("Tool call rejected: project_id is outside your org's MCP project scope.",[`Allowed projects: ${e.project_scope.length} project${1===e.project_scope.length?"":"s"} configured by your admin`,"Use atoms_list_projects to see which projects you can access in this session"]))}let a,n;try{n=await ze(),a=De()}catch{return t(r)}const s=await async function(e,t){const r=parseInt(process.env.ATOMS_RATE_LIMIT_RPM??"",10)||Xe,i=new Date,a=new Date(i.getTime()-et);try{const{count:n,error:s}=await t.from("mcp_rate_limits").select("id",{count:"exact",head:!0}).eq("user_id",e).gte("requested_at",a.toISOString());if(s)throw new Error(s.message);if((n??0)>=r){const{data:r,error:n}=await t.from("mcp_rate_limits").select("requested_at").eq("user_id",e).gte("requested_at",a.toISOString()).order("requested_at",{ascending:!0}).limit(1).maybeSingle();if(n)throw new Error(n.message);const s=(r?new Date(r.requested_at).getTime():i.getTime())+et-i.getTime();return{allowed:!1,retryAfterSeconds:Math.max(1,Math.ceil(s/1e3))}}t.from("mcp_rate_limits").insert({user_id:e,requested_at:i.toISOString()}).then(({error:e})=>{e&&process.stderr.write(`[rate-limiter] insert failed: ${e.message}\n`)});const o=new Date(i.getTime()-2*et);return t.from("mcp_rate_limits").delete().eq("user_id",e).lt("requested_at",o.toISOString()).then(()=>{}),{allowed:!0}}catch(e){return process.stderr.write(`[rate-limiter] DB check failed (${e instanceof Error?e.message:String(e)}), falling back to allow.\n`),{allowed:!0}}}(a,n);if(!s.allowed)return Ai(pi(s.retryAfterSeconds));if("1"===process.env.ATOMS_MCP_LOCKDOWN||"true"===process.env.ATOMS_MCP_LOCKDOWN){const e=r?.project_id;if("string"==typeof e)try{const{requireWriteAccess:t}=await Promise.resolve().then(()=>(Ne(),Oe));await t(n,e)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message){const{accessDeniedError:e}=await 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So(){return fo}function ko(){return _o}E(wo,{ATOMS_MCP_SERVER_VERSION:()=>co,getMcpActor:()=>So,getMcpClientName:()=>ko,getMcpSessionId:()=>jo,server:()=>po});var xo=A({"src/server.ts"(){at(),nt(),B(),dt(),U(),$(),rr(),ir(),Yr(),Ne(),Ii(),Ri(),oo=c.createRequire("undefined"==typeof document?require("url").pathToFileURL(__filename).href:m&&"SCRIPT"===m.tagName.toUpperCase()&&m.src||new URL("index.cjs",document.baseURI).href),lo=oo("../package.json"),co=lo.version,po=new l.McpServer({name:"atoms-mcp-server",version:co}),mo=(e,t,r)=>{if(L(e))return po.registerTool(e,t,r)},uo=n.randomUUID(),_o=lt(process.env.ATOMS_CLIENT_NAME),fo=function(){const e=lt(_o);return"cursor"===e?"mcp_cursor":"copilot"===e?"mcp_copilot":"mcp_claude"}(),mo("atoms_status",{title:"ATOMS MCP Health Check",description:'Check the health and authentication status of the ATOMS MCP server.\n\nCall this FIRST if other atoms tools fail or return auth errors.\nThis tool works WITHOUT authentication — it checks whether credentials\nexist and are valid, and tells the user exactly what to do if not.\n\nArgs: None\n\nReturns:\n { status: "authenticated"|"not_authenticated"|"expired", email, message, next_steps }\n\nExamples:\n - "Is ATOMS MCP working?" → atoms_status()\n - "Why are atoms tools failing?" → atoms_status()',inputSchema:{},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},async()=>{try{const{readCredentials:e,isTokenValid:t}=await Promise.resolve().then(()=>(oe(),J)),r=await e();if(!r)return{content:[{type:"text",text:JSON.stringify({status:"not_authenticated",message:"No ATOMS credentials found. You need to login first.",next_steps:["1. Open a terminal on your machine","2. Run: npx @atoms-tech/atoms-mcp login","3. Complete the login in your browser","4. Restart Claude Desktop (quit and reopen)","5. Try your query again"]},null,2)}]};if(!t(r))try{const{getValidToken:e}=await Promise.resolve().then(()=>(Re(),be)),{email:t}=await e(),{invalidateClient:r}=await Promise.resolve().then(()=>(Ne(),Oe));return r(),{content:[{type:"text",text:JSON.stringify({status:"authenticated",email:t,message:"Token was expired but has been refreshed. You're good to go!"},null,2)}]}}catch{return{content:[{type:"text",text:JSON.stringify({status:"expired",email:r.user_email??"unknown",message:"Your session has expired and could not be refreshed.",next_steps:["1. Open a terminal on your machine","2. Run: npx @atoms-tech/atoms-mcp logout","3. Run: npx @atoms-tech/atoms-mcp login","4. Complete the login in your browser","5. Restart Claude Desktop (quit and reopen)"]},null,2)}]}}return{content:[{type:"text",text:JSON.stringify({status:"authenticated",email:r.user_email??"unknown",message:"ATOMS MCP is connected and authenticated. All tools are ready."},null,2)}]}}catch(e){return{content:[{type:"text",text:JSON.stringify({status:"error",message:`Health check failed: ${e instanceof Error?e.message:String(e)}`,next_steps:["1. Open a terminal","2. Run: npx @atoms-tech/atoms-mcp login","3. Restart Claude Desktop"]},null,2)}]}}}),mo("atoms_list_projects",{title:"List ATOMS Projects",description:'List all projects the authenticated user has access to.\n\nThis is the ENTRY POINT tool. Call this first to discover project IDs,\nthen use those IDs with all other tools.\n\nArgs: None\n\nReturns:\n { status: "success", data: [{ id, name, description, org_id, created_at }] }\n\nExamples:\n - "What projects do I have?" → atoms_list_projects()\n - "Show my projects" → atoms_list_projects()\n\nWorkflow:\n atoms_list_projects → atoms_list_items(project_id) → atoms_get_item(project_id, item_id)',inputSchema:{},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_list_projects",async()=>{const{listProjectsHandler:e}=await Promise.resolve().then(()=>(Wi(),Fi));return e()})),mo("atoms_list_items",{title:"List ATOMS Items",description:'List items in an ATOMS project with optional type/domain/level filters.\n\nThis is the primary ENTRY POINT for discovering items. Use it to browse\nproject contents before drilling into specific items with atoms_get_item.\n\nArgs:\n - project_id (string, UUID): The project to list items from\n - type (string, optional): Filter: requirement|test-case|note|table\n - domain (string, optional): Filter by domain tag\n - level (string, optional): Filter by level (System, Subsystem, Component)\n - limit (number, optional): Max results, 1-200 (default 50)\n - offset (number, optional): Pagination offset (default 0)\n\nReturns:\n { status: "success", data: [{ id, title, type, status, domains, level }], meta: { total_count, limit, offset, has_more } }\n\nExamples:\n - "Show me all requirements" → atoms_list_items(project_id, type="requirement")\n - "What test cases exist?" → atoms_list_items(project_id, type="test-case")\n\nErrors:\n - "Project not found" → verify project_id\n - "Access denied" → check org membership',inputSchema:{project_id:o.z.string().uuid("Must be a valid project UUID").describe("UUID of the project"),type:o.z.enum(["requirement","test-case","note","table"]).optional().describe("Filter by item type"),domain:o.z.string().max(64).optional().describe("Filter by domain tag (e.g., 'Safety', 'Performance')"),level:o.z.string().max(32).optional().describe("Filter by level (System, Subsystem, Component)"),limit:o.z.number().int().min(1).max(200).default(50).describe("Max results (default 50, max 200)"),offset:o.z.number().int().min(0).default(0).describe("Pagination offset (default 0)"),baseline_id:o.z.string().uuid().optional().describe("Optional baseline UUID. Returns items as they were at that baseline's moment. Mutually exclusive with as_of."),as_of:o.z.string().datetime().optional().describe("Optional ISO 8601 timestamp. Returns items as they were at that moment. Mutually exclusive with baseline_id.")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_list_items",async e=>{const{listItemsHandler:t}=await Promise.resolve().then(()=>(Qi(),Vi));return t(e)})),mo("atoms_get_item",{title:"Get ATOMS Item Details",description:'Get full details of a single item including relationships, test history, and ownership.\n\nUse after atoms_list_items or atoms_search to drill into a specific item.\n\nArgs:\n - project_id (string, UUID): The project containing the item\n - item_id (string): Item ID (e.g., "REQ-001", "TC-050")\n\nReturns:\n Full WorkItem with relationships, test runs, ownership, metadata.\n\nExamples:\n - "Show me requirement REQ-001" → atoms_get_item(project_id, "REQ-001")\n - "Get test case details" → atoms_get_item(project_id, "TC-050")',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),item_id:o.z.string().min(1).max(20).describe("Item ID (e.g., REQ-001)"),baseline_id:o.z.string().uuid().optional().describe("Optional baseline UUID. Returns the item as it was at that baseline's moment. Mutually exclusive with as_of."),as_of:o.z.string().datetime().optional().describe("Optional ISO 8601 timestamp. Returns the item as it was at that moment. Mutually exclusive with baseline_id.")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_get_item",async e=>{const{getItemHandler:t}=await Promise.resolve().then(()=>(Zi(),Gi));return t(e)})),mo("atoms_search",{title:"Search ATOMS Items",description:'Full-text search across items in a project. Searches title, body, and summary.\n\nAlternative entry point to atoms_list_items when you know what you\'re looking for.\n\nArgs:\n - project_id (string, UUID): The project to search in\n - query (string): Search text (max 1000 chars)\n - type (string, optional): Filter by type\n - asset (string, optional): Filter to items with at least one run on the given asset\n (VIN, module, lot, ...). Case-sensitive exact match.\n - limit (number, optional): Max results, 1-100 (default 25)\n\nReturns:\n Matching items with @basic fields, ranked by relevance.\n\nExamples:\n - "Find braking requirements" → atoms_search(project_id, "braking system")\n - "Search for safety tests" → atoms_search(project_id, "safety", type="test-case")\n - "Tests that ran on this VIN" → atoms_search(project_id, "", asset="WEV...0005")',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),query:o.z.string().min(1).max(1e3).describe("Search text"),type:o.z.enum(["requirement","test-case","note","table"]).optional().describe("Filter by item type"),asset:o.z.string().max(200).optional().describe("Filter to items with at least one run on this asset (case-sensitive exact)"),limit:o.z.number().int().min(1).max(100).default(25).describe("Max results (default 25, max 100)"),baseline_id:o.z.string().uuid().optional().describe("Optional baseline UUID. Searches within the project state at that baseline's moment.")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_search",async e=>{const{searchHandler:t}=await Promise.resolve().then(()=>(ta(),Xi));return t(e)})),mo("atoms_semantic_search",{title:"Semantic Search ATOMS Items",description:'Meaning-based search across items using pgvector embeddings (GTE-small, 384d).\n\nUse when atoms_search (exact/substring) misses conceptually related items.\nBest for natural-language concept queries; atoms_search is better for exact phrases or IDs.\n\nArgs:\n - project_id (string, UUID): The project to search in\n - query (string): Natural-language concept query (max 1000 chars)\n - type (string, optional): Filter by type\n - limit (number, optional): Max results, 1-50 (default 10)\n\nReturns:\n Semantically similar items ranked by cosine similarity.\n\nExamples:\n - "Find braking-related requirements" → atoms_semantic_search(project_id, "braking deceleration stopping distance")\n - "Safety-related test cases" → atoms_semantic_search(project_id, "hazard risk mitigation safety", type="test-case")',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),query:o.z.string().min(1).max(1e3).describe("Natural-language concept query"),type:o.z.enum(["requirement","test-case","note","table"]).optional().describe("Filter by item type"),limit:o.z.number().int().min(1).max(50).default(10).describe("Max results (default 10, max 50)")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_semantic_search",async e=>{const{semanticSearchHandler:t}=await Promise.resolve().then(()=>(aa(),ra));return t(e)})),bo({appName:"coverage",htmlFile:"coverage-app.html",toolName:"atoms_get_coverage",title:"Get Test Coverage Report",description:'Find requirements without linked test cases (coverage gaps).\n\nEssential for compliance reporting in safety-critical industries.\n\nIn MCP App hosts (Claude, ChatGPT), renders a visual coverage heatmap.\nFalls back to JSON for non-UI clients.\n\nArgs:\n - project_id (string, UUID): The project to analyze\n - domain (string, optional): Filter by domain\n - level (string, optional): Filter by level\n - baseline_id (string, UUID, optional): coverage at that baseline\'s moment\n - as_of (string ISO 8601, optional): coverage at that moment\n baseline_id and as_of are mutually exclusive.\n\nReturns:\n { covered, uncovered, total, coverage_percent, uncovered_items: [...] }\n\nExamples:\n - "What\'s our test coverage?" → atoms_get_coverage(project_id)\n - "Safety coverage gaps?" → atoms_get_coverage(project_id, domain="Safety")\n - "Coverage at PDR submission" → atoms_get_coverage(project_id, baseline_id="...")',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),domain:o.z.string().max(64).optional().describe("Filter by domain tag"),level:o.z.string().max(32).optional().describe("Filter by level"),baseline_id:o.z.string().uuid().optional().describe("Compute coverage as of this baseline's snapshot moment"),as_of:o.z.string().datetime().optional().describe("Compute coverage as of this ISO 8601 moment")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1},handler:vo("atoms_get_coverage",async e=>{const{getCoverageHandler:t}=await Promise.resolve().then(()=>(da(),na));return t(e)})}),mo("atoms_verification_status",{title:"Get Release Verification Status",description:'Release-bound verification state per requirement, matching the in-app projection.\n\nEach requirement\'s state is derived from the runs bound to a formal Release:\nverified, failing, incomplete, or not-run, plus a stale flag and the\n(points_run / points_total) counts for its parameterized test points.\n\nArgs:\n - project_id (string, UUID): The project to report on\n - release_id (string, UUID, optional): A formal Release (a baselines row with\n a release_version). Defaults to the project\'s CURRENT Release\n (release_status = \'released\'). Errors if the project has none.\n - include_gaps (boolean, optional, default false): Also return the not-run\n (test x unit x value) points for the Release.\n\nReturns:\n { release: {id, version, status}, readiness: {...roll-up counts...},\n requirements: [{requirement_id, state, stale, points_total, points_run}],\n gaps?: [{tc_id, asset, point_key}] }\n An empty requirements array with a "hint" field means the projection has not\n been rebuilt for this project yet, NOT that everything is unverified.\n\nExamples:\n - "Are we ready to ship 2.0?" → atoms_verification_status(project_id)\n - "What\'s still not run for release R?" → atoms_verification_status(project_id, release_id="...", include_gaps=true)',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),release_id:o.z.string().uuid().optional().describe("Formal Release (baselines row) UUID; defaults to the project's current Release"),include_gaps:o.z.boolean().default(!1).describe("Include the not-run (test x unit x value) points for the Release")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_verification_status",async e=>{const{verificationStatusHandler:t}=await Promise.resolve().then(()=>(pa(),la));return t(e)})),mo("atoms_get_history",{title:"Get Item Change History",description:"Audit trail for an item — who changed what, when, and whether it was human or AI.\n\nShows actor attribution (user vs mcp_<client>) and session grouping.\n\nArgs:\n - project_id (string, UUID): The project containing the item\n - item_id (string): Item ID\n - limit (number, optional): Max entries (default 20, max 100)\n\nReturns:\n Change entries with actor, session_id, event_type, changed_at, fields_changed.",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),item_id:o.z.string().min(1).max(20).describe("Item ID"),limit:o.z.number().int().min(1).max(100).default(20).describe("Max entries (default 20)")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_get_history",async e=>{const{getHistoryHandler:t}=await Promise.resolve().then(()=>(_a(),ma));return t(e)})),bo({appName:"mermaid",htmlFile:"mermaid-app.html",toolName:"atoms_export_mermaid",title:"Export Mermaid Diagram",description:"Generate a Mermaid diagram of the requirement/test hierarchy.\n\nOutput is paste-ready for markdown docs. Shows parent-child relationships\nand requirement-to-test-case verification links.\n\nIn MCP App hosts (Claude, ChatGPT), renders an interactive pan/zoom diagram.\nFalls back to Mermaid text for non-UI clients.\n\nArgs:\n - project_id (string, UUID): The project to visualize\n - root_item_id (string, optional): Start node (default: all roots)\n - depth (number, optional): Max depth (default 3, max 10)\n - include_tests (boolean, optional): Show test case links (default true)\n - baseline_id (string, UUID, optional): render the graph at that baseline's moment\n - as_of (string ISO 8601, optional): render the graph at that moment\n baseline_id and as_of are mutually exclusive.\n\nReturns:\n Mermaid graph string.",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),root_item_id:o.z.string().max(20).optional().describe("Root item ID to start from"),depth:o.z.number().int().min(1).max(10).default(3).describe("Max depth"),include_tests:o.z.boolean().default(!0).describe("Include test case links"),baseline_id:o.z.string().uuid().optional().describe("Render the graph as of this baseline's snapshot moment"),as_of:o.z.string().datetime().optional().describe("Render the graph as of this ISO 8601 moment")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1},handler:vo("atoms_export_mermaid",async e=>{const{exportMermaidHandler:t}=await Promise.resolve().then(()=>(ja(),ba));return t(e)})}),mo("atoms_create_item",{title:"Create ATOMS Item",description:'Create a new requirement, test case, or note in a project.\n\nRequires editor or admin role. Changes are logged with AI actor attribution.\n\nArgs:\n - project_id (string, UUID): Target project\n - type (string): requirement|test-case|note\n - title (string): Item title (max 500 chars)\n - body (string, optional): Rich text body\n - summary (string, optional): Brief summary\n - domains (string[], optional): Domain tags (a tag flagged as a function is not a domain and is rejected)\n - level (string, optional): System|Subsystem|Component\n - parent_ids (string[], optional): Parent item IDs to link\n - fields (object, optional): Project-field values, e.g. {"Verification Method": "Design Review"}. Keys must be defined via atoms_create_field first and values must match each field type.\n\nReturns:\n Created item with generated ID (e.g., "REQ-058")\n\nSide effects:\n - Logs to change_history with actor=\'mcp_<client>\'\n - Creates relationships if parent_ids provided',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the target project"),type:o.z.enum(["requirement","test-case","note"]).describe("Item type"),title:o.z.string().min(1).max(500).describe("Item title"),body:o.z.string().max(5e4).optional().describe("Rich text body"),summary:o.z.string().max(2e3).optional().describe("Brief summary"),domains:o.z.array(o.z.string().max(64)).max(20).optional().describe("Domain tags"),level:o.z.string().max(32).optional().describe("System|Subsystem|Component"),parent_ids:o.z.array(o.z.string().max(20)).max(50).optional().describe("Parent item IDs to link"),fields:o.z.record(o.z.string().max(60),o.z.string().max(1e4)).optional().describe("Project-field values keyed by defined field name"),echo:o.z.boolean().optional().describe("false → lean {id,type} response, saves ~580 tokens")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},vo("atoms_create_item",async e=>{const{createItemHandler:t}=await Promise.resolve().then(()=>(Xa(),Ya));return t(e)})),ho={steps:o.z.array(o.z.object({id:o.z.string().describe("Stable step id within the item"),instruction:o.z.string().describe("What the tester does"),test_data:o.z.string().optional().describe("Optional test data for the step"),expected:o.z.string().describe("Expected result")}).passthrough()).optional().describe("Test-case script steps: array of {id, instruction, test_data?, expected}. Max 50 steps, enforced by the DB trigger."),params:o.z.array(o.z.object({name:o.z.string().describe("Parameter name; steps reference it as {name}"),unit:o.z.string().optional().describe("Optional unit (e.g. km/h, V, m)"),values:o.z.array(o.z.union([o.z.string(),o.z.number()])).describe("Value set the test sweeps")}).passthrough()).optional().describe("Matrix parameters: array of {name, unit, values[]}. Matrix points (product of value-set sizes) capped at 64 by the DB trigger.")},mo("atoms_update_item",{title:"Update ATOMS Item",description:'Update an existing item\'s fields. Only provided fields are changed.\n\nRequires editor or admin role. Logs old/new data diff to change history.\n\nArgs:\n - project_id (string, UUID): Project containing the item\n - item_id (string): Item to update\n - title, body, summary, domains, level, status: Fields to update (all optional) (a tag flagged as a function is not a domain and is rejected)\n - fields (object, optional): Project-field values, e.g. {"Verification Method": "Design Review"}. Keys must be defined via atoms_create_field; merged per key, "" clears a key; non-empty values must match each field type\n - steps (array, optional): Test-case script steps [{id, instruction, test_data?, expected}]. Max 50 steps (DB-enforced)\n - params (array, optional): Matrix parameters [{name, unit, values[]}]. Matrix points capped at 64 (DB-enforced)\n - expected_updated_at (string, optional): Pass metadata.updated_at from atoms_get_item to reject stale writes\n\nReturns:\n Updated item.',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),item_id:o.z.string().min(1).max(20).optional().describe("Item ID (single form)"),title:o.z.string().min(1).max(500).optional().describe("New title"),body:o.z.string().max(5e4).optional().describe("New body"),summary:o.z.string().max(2e3).optional().describe("New summary"),domains:o.z.array(o.z.string().max(64)).max(20).optional().describe("New domain tags (a tag flagged as a function is not a domain and is rejected)"),level:o.z.string().max(32).optional().describe("New level"),status:o.z.enum(["passed","failed","blocked","not-run"]).optional().describe("Test case status"),fields:o.z.record(o.z.string().max(60),o.z.string().max(1e4)).optional().describe('Project-field values keyed by defined field name; "" clears a key'),...ho,expected_updated_at:ct.optional().describe("metadata.updated_at value from atoms_get_item; rejects stale writes"),echo:o.z.boolean().optional().describe("false → lean {id,updated_fields} response, saves ~580 tokens"),reason:o.z.string().max(500).optional().describe("Change rationale, persisted in audit history"),updates:o.z.array(o.z.object({item_id:o.z.string().min(1).max(20),title:o.z.string().min(1).max(500).optional(),body:o.z.string().max(5e4).optional(),summary:o.z.string().max(2e3).optional(),domains:o.z.array(o.z.string().max(64)).max(20).optional(),level:o.z.string().max(32).optional(),status:o.z.enum(["passed","failed","blocked","not-run"]).optional(),fields:o.z.record(o.z.string().max(60),o.z.string().max(1e4)).optional(),...ho,expected_updated_at:ct.optional()})).optional().describe("Array form: update many items in one call"),idempotency_key:o.z.string().max(128).optional().describe("Safe retry key (24h TTL)"),continue_on_error:o.z.boolean().optional().describe("Allow partial success (default false = atomic)")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_update_item",async e=>{const{updateItemHandler:t}=await Promise.resolve().then(()=>(dn(),an));return t(e)})),mo("atoms_delete_item",{title:"Delete ATOMS Item",description:'Soft-delete an item (sets deleted_at, preserves for audit trail).\n\nRequires editor or admin role. The item is never truly removed.\n\nWhen ATOMS_MCP_REQUIRE_CONFIRMATION is set on the server, this tool uses a\ntwo-step flow: the first call returns a preview + confirmation_token; the\nsecond call (with the token) executes. Tokens expire in 60s and are bound\nto (tool, project_id, item_id).\n\nArgs:\n - project_id (string, UUID): Project containing the item\n - item_id (string): Item to delete\n - confirmation_token (string, optional): Token from a prior preview call\n\nReturns:\n Confirmation with deleted item summary, or { status: "confirmation_required",\n preview, confirmation_token } when the confirmation gate is active.',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),item_id:o.z.string().min(1).max(20).describe("Item ID to soft-delete"),confirmation_token:o.z.string().max(500).optional().describe("Token from a prior preview call (only used when ATOMS_MCP_REQUIRE_CONFIRMATION is set)")},annotations:{readOnlyHint:!1,destructiveHint:!0,idempotentHint:!0,openWorldHint:!1}},vo("atoms_delete_item",async e=>{const{deleteItemHandler:t}=await Promise.resolve().then(()=>(yn(),hn));return t(e)})),mo("atoms_restore_item",{title:"Restore ATOMS Item",description:'Undo a soft-delete — restores an item that was previously deleted with atoms_delete_item.\n\nOnly works on items that have been soft-deleted (still in the database with deleted_at set).\nHas no effect if the item is not deleted. Logs the restoration to change_history.\n\nArgs:\n - project_id (string, UUID): Project containing the item\n - item_id (string): ID of the deleted item to restore\n\nReturns:\n Confirmation with the restored item\'s title and type.\n\nExamples:\n - "Restore the deleted requirement REQ-042" → atoms_restore_item(project_id, "REQ-042")',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),item_id:o.z.string().max(256).describe("ID of the soft-deleted item to restore")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_restore_item",async e=>{const{restoreItemHandler:t}=await Promise.resolve().then(()=>(vn(),wn));return t(e)})),mo("atoms_link_items",{title:"Link ATOMS Items",description:"Add or remove relationships between items.\n\nSupports: parent, child, related, verifies, verified_by.\nUpdates both items' JSONB data and the shadow table.\n\nArgs:\n - project_id (string, UUID): Project containing both items\n - from_id (string): Source item\n - to_id (string): Target item\n - type (string): parent|child|related|verifies|verified_by\n - action (string): add|remove\n - expected_from_updated_at / expected_to_updated_at (string, optional): pass metadata.updated_at values from atoms_get_item to reject stale link commands\n\nReturns:\n Updated relationship state for both items.",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),from_id:o.z.string().min(1).max(20).optional().describe("Source item ID (single form)"),to_id:o.z.string().min(1).max(20).optional().describe("Target item ID (single form)"),type:o.z.enum(["parent","child","related","verifies","verified_by"]).optional().describe("Relationship type"),action:o.z.enum(["add","remove"]).optional().describe("Add or remove"),expected_from_updated_at:ct.optional().describe("metadata.updated_at for from_id from atoms_get_item"),expected_to_updated_at:ct.optional().describe("metadata.updated_at for to_id from atoms_get_item"),echo:o.z.boolean().optional().describe("false → lean response"),reason:o.z.string().max(500).optional().describe("Change rationale, persisted in audit history"),operations:o.z.array(o.z.object({action:o.z.enum(["add","remove"]),from_id:o.z.string().min(1).max(20),to_id:o.z.string().min(1).max(20),type:o.z.enum(["parent","child","related","verifies","verified_by"]),expected_from_updated_at:ct.optional(),expected_to_updated_at:ct.optional()})).optional().describe("Array form: batch relationship ops. Always atomic with DAG cycle detection."),idempotency_key:o.z.string().max(128).optional().describe("Safe retry key (24h TTL)")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_link_items",async e=>{const{linkItemsHandler:t}=await Promise.resolve().then(()=>(kn(),jn));return t(e)})),bo({appName:"import",htmlFile:"import-app.html",toolName:"atoms_bulk_import",title:"Bulk Import ATOMS Items",description:"Bulk create multiple items in a single tool call. Essential for AI agents\nthat generate 20+ requirements at once.\n\nChecks write access once, generates sequential IDs, batch inserts all items,\nand reports per-item errors without aborting the entire batch.\n\nIn MCP App hosts (Claude, ChatGPT), renders an interactive results table.\nFalls back to JSON for non-UI clients.\n\nArgs:\n - project_id (string, UUID): Target project\n - items (array): Up to 100 items to create, each with:\n - type (string): requirement|test-case|note\n - title (string): Item title (max 500 chars)\n - body (string, optional): Rich text body\n - summary (string, optional): Brief summary\n - domains (string[], optional): Domain tags (a tag flagged as a function is not a domain and is rejected)\n - level (string, optional): System|Subsystem|Component\n - parent_id (string, optional): Parent item ID to link\n\nReturns:\n { created: number, items: [{ id, title, type }], errors: [] }\n\nLimits:\n - Maximum 100 items per call\n - If any item fails, others still succeed — errors reported separately\n\nSide effects:\n - Logs to change_history with actor='mcp_<client>' for each created item\n - Creates parent relationships for items with parent_id",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the target project"),items:o.z.array(o.z.object({type:o.z.enum(["requirement","test-case","note"]).describe("Item type"),title:o.z.string().min(1).max(500).describe("Item title"),body:o.z.string().max(5e4).optional().describe("Rich text body"),summary:o.z.string().max(2e3).optional().describe("Brief summary"),domains:o.z.array(o.z.string().max(64)).max(20).optional().describe("Domain tags"),level:o.z.string().max(32).optional().describe("System|Subsystem|Component"),parent_id:o.z.string().max(20).optional().describe("Parent item ID to link")})).min(1).max(100).describe("Items to create (1-100)"),confirmation_token:o.z.string().max(500).optional().describe("Token from a prior preview call (only used when ATOMS_MCP_REQUIRE_CONFIRMATION is set)")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1},handler:vo("atoms_bulk_import",async e=>{const{bulkImportHandler:t}=await Promise.resolve().then(()=>(Rn(),An));return t(e)})}),go={point:o.z.record(o.z.string(),o.z.union([o.z.string(),o.z.number()])).optional().describe('Matrix point this run executed, e.g. {"speed": 40}'),release_id:o.z.string().uuid().optional().describe("Formal Release to bind this run to (a baseline with a release_version)"),build:o.z.string().optional().describe("Free-text build label"),environment:o.z.string().optional().describe("Structured environment field, distinct from build"),tooling:o.z.string().optional().describe("Structured tooling field, distinct from build"),steps_rev:o.z.string().optional().describe("Item revision id the run's steps were pinned to"),step_results:o.z.array(o.z.object({step_id:o.z.string().describe("Step id from data.steps"),status:o.z.enum(["passed","failed","blocked","skipped"]).describe("Per-step status"),actual:o.z.string().optional().describe("Actual-result note"),evidence_url:o.z.string().optional().describe("Evidence URL (validated server-side)")}).passthrough()).optional().describe("Per-step results [{step_id, status, actual?, evidence_url?}]. When present the run verdict is derived server-side and the top-level result is ignored.")},mo("atoms_record_test_result",{title:"Record Test Result",description:"Record a pass/fail/blocked result for a test case.\n\nAppends to canonical items.data.runs and projects test_results from that\nhistory. Use atoms_get_item to see all results.\n\nArgs:\n - project_id (string, UUID): Project containing the test case\n - item_id (string): Test case ID (e.g., \"TC-001\")\n - result (string): passed|failed|blocked|not-run\n - note (string, optional): Reason or comment for this result\n - asset (string, optional): Asset identifier this run was executed against\n (VIN, module ID, lot number, serial number, etc). Max 200 chars.\n Auto-trimmed; empty/whitespace is treated as omitted. If the asset\n name does not yet exist in the project, it is auto-registered.\n - point, release_id, build, environment, tooling, steps_rev (optional):\n run metadata. release_id must be a formal Release (a baseline with a\n release_version). All validated server-side.\n - step_results (array, optional): per-step outcomes for a stepped run.\n When provided, the verdict is derived server-side from the steps.\n\nReturns:\n Recorded result with timestamp. When asset is provided, also returns\n asset_id and asset_created.\n\nSide effects:\n - Appends to items.data.runs through save_item_with_revision\n - Projects public.test_results from items.data.runs\n - Inserts into assets table if asset name is new in this project\n - Logs to change_history with actor='mcp_<client>'",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),item_id:o.z.string().min(1).max(20).describe("Test case ID (e.g., TC-001)"),result:o.z.enum(["passed","failed","blocked","not-run"]).describe("Test result"),note:o.z.string().max(500).optional().describe("Reason or comment for this result"),asset:o.z.string().max(200).optional().describe("Asset identifier this run was executed against (VIN, module ID, lot, etc). Auto-registered if new."),...go},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},vo("atoms_record_test_result",async e=>{const{recordTestResultHandler:t}=await Promise.resolve().then(()=>(qn(),On));return t(e)})),mo("atoms_record_test_results",{title:"Record Test Results (bulk)",description:'Record many runs on one test case in a single atomic call.\n\nOptimized for multi-asset campaigns. Each entry can have its own asset and\nresult. Asset lookup-or-create happens per entry; new asset names are\nauto-registered. Runs are appended to canonical items.data.runs, then\ntest_results is projected from that history. The whole call is one DB\ntransaction; any entry failure rolls back the rest.\n\nUse the singular atoms_record_test_result for one-off runs.\n\nArgs:\n - project_id (string, UUID): Project containing the test case\n - item_id (string): Test case ID (e.g., "TC-001")\n - results (array, 1-100 entries): Each entry has:\n - asset (string, optional): Asset identifier (VIN, module ID, lot)\n - result (string, required): passed|failed|blocked|not-run\n - note (string, optional): Run note\n - date (string, optional): ISO 8601 datetime, default now()\n - point, release_id, build, environment, tooling, steps_rev (optional):\n run metadata; release_id must be a formal Release. Server-validated.\n - step_results (array, optional): per-step outcomes; when present the\n verdict is derived server-side from the steps.\n\nReturns:\n Per-entry outcomes with asset_id, asset_created, run_at, ok flags.\n\nSide effects:\n - Appends to items.data.runs through save_item_with_revision\n - Projects public.test_results from items.data.runs\n - Inserts new rows into assets for any asset name not already registered\n - Logs a single change_history entry summarizing the batch',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),item_id:o.z.string().min(1).max(20).describe("Test case ID (e.g., TC-001)"),results:o.z.array(o.z.object({asset:o.z.string().max(200).optional().describe("Asset identifier this run was executed against. Auto-registered if new."),result:o.z.enum(["passed","failed","blocked","not-run"]).describe("Test result"),note:o.z.string().max(500).optional().describe("Run note"),date:o.z.string().optional().describe("ISO 8601 datetime (default: now())"),...go})).min(1).max(100).describe("1 to 100 result entries on this test case")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},vo("atoms_record_test_results",async e=>{const{recordTestResultsBulkHandler:t}=await Promise.resolve().then(()=>(Tn(),Mn));return t(e)})),bo({appName:"trace",htmlFile:"trace-app.html",toolName:"atoms_trace",title:"Trace Item Relationships",description:'Walk the traceability graph from a starting item.\n\nAnswers questions like "which requirements does TC-003 verify?" or\n"if I change REQ-001, what\'s affected downstream?"\n\nIn MCP App hosts (Claude, ChatGPT), renders an interactive graph visualization.\nFalls back to flat list for non-UI clients.\n\nArgs:\n - project_id (string, UUID): Project containing the item\n - item_id (string): Starting item ID\n - direction (string): upstream|downstream|both\n - upstream: follow parent/verifies links (dependencies)\n - downstream: follow child/verified_by links (dependents)\n - both: trace in both directions\n - depth (number, optional): Max traversal depth (default 5, max 10)\n - relationship_types (string[], optional): Filter to specific types (parent, child, related, verifies, verified_by, mitigated_by, mitigates)\n\nReturns:\n { root, direction, items: [{ id, title, type, relationship, depth }], total_count }\n\nExamples:\n - "What does TC-003 verify?" → atoms_trace(project_id, "TC-003", "upstream")\n - "What\'s affected by REQ-001?" → atoms_trace(project_id, "REQ-001", "downstream")',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),item_id:o.z.string().min(1).max(20).describe("Starting item ID"),direction:o.z.enum(["upstream","downstream","both"]).describe("Traversal direction"),depth:o.z.number().int().min(1).max(10).default(5).describe("Max traversal depth (default 5)"),relationship_types:o.z.array(o.z.enum(["parent","child","related","verifies","verified_by","mitigated_by","mitigates"])).optional().describe("Filter to specific relationship types")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1},handler:vo("atoms_trace",async e=>{const{traceHandler:t}=await Promise.resolve().then(()=>(Wn(),Fn));return t(e)})}),mo("atoms_list_assets",{title:"List Project Assets",description:"List asset identifiers registered in a project.\n\nAssets are free-form per-instance IDs (VINs, module names, lot numbers,\nserial numbers) that test runs are tagged against. They are auto-registered\nthe first time they appear on a run via atoms_record_test_result.\n\nArgs:\n - project_id (string, UUID): Project to list assets for\n - include_archived (boolean, optional): Include archived assets (default false)\n\nReturns:\n { assets: [{ id, name, archived_at, created_at }], total }",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),include_archived:o.z.boolean().optional().describe("Include archived assets (default false)")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_list_assets",async e=>{const{listAssetsHandler:t}=await Promise.resolve().then(()=>(Jn(),Vn));return t(e)})),mo("atoms_list_variables",{title:"List Project Variables",description:"List all parameterized variables defined in a project.\n\nVariables are shared values (e.g., backup_camera_latency = 2s) that can be\nreferenced in requirement bodies as {variable_name}.\n\nArgs:\n - project_id (string, UUID): Project to list variables for\n - baseline_id (string, UUID, optional): list variables as they were at that baseline\n - as_of (string ISO 8601, optional): list variables as they were at that moment\n - limit (number, optional): max results (default 50, max 200)\n - offset (number, optional): pagination offset (default 0)\n\nReturns:\n { variables: [{ id, name, value, unit, description }], total }, meta: { total_count, limit, offset, has_more }",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),baseline_id:o.z.string().uuid().optional().describe("Optional baseline UUID for time-travel reads"),as_of:o.z.string().datetime().optional().describe("Optional ISO timestamp for time-travel reads"),limit:o.z.number().int().min(1).max(200).default(50).describe("Max results (default 50, max 200)"),offset:o.z.number().int().min(0).default(0).describe("Pagination offset (default 0)")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_list_variables",async e=>{const{listVariablesHandler:t}=await Promise.resolve().then(()=>(is(),Qn));return t(e)})),mo("atoms_get_variable",{title:"Get Project Variable",description:'Get a specific variable by name, including which items reference it.\n\nArgs:\n - project_id (string, UUID): Project containing the variable\n - variable_name (string): Variable name (e.g., "backup_camera_latency")\n - baseline_id (string, UUID, optional): get the variable as it was at that baseline\n - as_of (string ISO 8601, optional): get the variable as it was at that moment\n\nReturns:\n { variable, referenced_by: [{ id, title, type }], reference_count }',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),variable_name:o.z.string().min(1).max(64).describe("Variable name"),baseline_id:o.z.string().uuid().optional().describe("Optional baseline UUID for time-travel reads"),as_of:o.z.string().datetime().optional().describe("Optional ISO timestamp for time-travel reads")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_get_variable",async e=>{const{getVariableHandler:t}=await Promise.resolve().then(()=>(is(),Qn));return t(e)})),mo("atoms_update_variable",{title:"Update Project Variable",description:"Update a variable's value, unit, or description.\n\nArgs:\n - project_id (string, UUID): Project containing the variable\n - variable_name (string): Variable name\n - value (string, optional): New value\n - unit (string, optional): Unit abbreviation (e.g., 's', 'Hz')\n - description (string, optional): Human-readable description\n\nReturns:\n { variable }",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),variable_name:o.z.string().min(1).max(64).describe("Variable name"),value:o.z.string().max(500).optional().describe("New value"),unit:o.z.string().max(32).optional().describe("Unit abbreviation"),description:o.z.string().max(2e3).optional().describe("Description")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_update_variable",async e=>{const{updateVariableHandler:t}=await Promise.resolve().then(()=>(is(),Qn));return t(e)})),mo("atoms_create_variable",{title:"Create Project Variable",description:'Create one or many parameterized variables for a project.\n\nSingle form: provide name + value.\nArray form: provide variables[] for bulk creation (one atomic INSERT).\n\nVariables can then be embedded in requirement bodies as {variable_name}.\n\nArgs (single form):\n - project_id (string, UUID): Project to add the variable to\n - name (string): Variable name, letters, digits, underscores; must start with letter/underscore\n - value (string): Initial value (e.g., "100", "true", "nominal")\n - unit (string, optional): Unit abbreviation (e.g., "Hz", "ms", "m/s²")\n - description (string, optional): Human-readable description\n - echo (bool, optional): false → lean {name} response (default true)\n\nArgs (array form):\n - project_id (string, UUID): Project UUID\n - variables[]: Array of { name, value, unit?, description? }\n - echo (bool, optional): false → lean {name} list (default true)\n - idempotency_key (string, optional): Dedup key\n\nReturns (single): { variable, message }\nReturns (array): { batch_id, created, variables, message }',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),name:o.z.string().min(1).max(64).optional().describe("Variable name (single form)"),value:o.z.string().min(1).max(500).optional().describe("Initial value (single form)"),unit:o.z.string().max(32).optional().describe("Unit abbreviation"),description:o.z.string().max(2e3).optional().describe("Description"),echo:o.z.boolean().optional().describe("false → lean response (default true)"),variables:o.z.array(o.z.object({name:o.z.string().min(1).max(64).describe("Variable name"),value:o.z.string().min(1).max(500).describe("Initial value"),unit:o.z.string().max(32).optional().describe("Unit abbreviation"),description:o.z.string().max(2e3).optional().describe("Description")})).optional().describe("Array form: batch variable creation. Atomic — all or none."),idempotency_key:o.z.string().max(128).optional().describe("Dedup key for retries")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},vo("atoms_create_variable",async e=>{const{createVariableHandler:t}=await Promise.resolve().then(()=>(is(),Qn));return t(e)})),mo("atoms_delete_variable",{title:"Delete Project Variable",description:"Delete a project variable. Refuses by default if any items reference it.\n\nArgs:\n - project_id (string, UUID): Project containing the variable\n - name (string): Variable name to delete\n - force (bool, optional): Delete even if items still reference it (default false)\n\nReturns:\n { deleted, name, referenced_by_items, warning? }",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),name:o.z.string().min(1).max(64).describe("Variable name to delete"),force:o.z.boolean().optional().describe("Delete even if items reference it (default false)"),confirmation_token:o.z.string().max(500).optional().describe("Token from a prior preview call (only used when ATOMS_MCP_REQUIRE_CONFIRMATION is set)")},annotations:{readOnlyHint:!1,destructiveHint:!0,idempotentHint:!1,openWorldHint:!1}},vo("atoms_delete_variable",async e=>{const{deleteVariableHandler:t}=await Promise.resolve().then(()=>(is(),Qn));return t(e)})),mo("atoms_list_domains",{title:"List Project Domains",description:"List the domain tags of a project's taxonomy, with item counts.\n\nA tag flagged as a FUNCTION (metadata.function_tags, the seed of a HARA row) is not a domain: it is\nleft out of this list, exactly as the app's domain picker leaves it out, because atoms_create_item,\natoms_update_item and atoms_bulk_import refuse it as a domain. Such tags are named in\nexcluded_function_tags; use them through atoms_create_analysis source_functions or atoms_fill_row\nsource_function.\n\nArgs:\n - project_id (string, UUID): Project to inspect\n\nReturns:\n { domains: [{ name, registered, item_count }], total, registered_count, unregistered_count,\n excluded_function_tags: string[], note? }\n registered: false marks a tag found on items but not in the taxonomy (an orphan); a flagged tag\n an item still carries is a function on that item, never counted as an orphan.",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_list_domains",async e=>{const{listDomainsHandler:t}=await Promise.resolve().then(()=>(ps(),as));return t(e)})),mo("atoms_create_domain",{title:"Create Project Domain",description:'Register a new domain tag in the project taxonomy.\n\nOnce created, items can be tagged with this domain via atoms_create_item or atoms_update_item.\n\nArgs:\n - project_id (string, UUID): Project to add the domain to\n - name (string): Domain name (lowercased automatically, e.g., "safety", "can-bus")\n\nReturns:\n { domain: { name }, message }',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),name:o.z.string().min(1).max(64).describe("Domain name")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},vo("atoms_create_domain",async e=>{const{createDomainHandler:t}=await Promise.resolve().then(()=>(ps(),as));return t(e)})),mo("atoms_list_levels",{title:"List Project Levels",description:"List the project's level taxonomy in order, with each level's L# (positional index) and item count.\n\nArgs:\n - project_id (string, UUID): Project to list levels for\n\nReturns:\n { levels: [{ name, prefix, item_count }], total }",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_list_levels",async e=>{const{listLevelsHandler:t}=await Promise.resolve().then(()=>(qa(),Sa));return t(e)})),mo("atoms_create_level",{title:"Create Project Level",description:'Register a new level in the project taxonomy so items can be tagged with it and it shows in the Strata view. Appended to the ordered level list; its L# is the next index. Names are user-defined labels (lowercased automatically); matching is case-insensitive.\n\nArgs:\n - project_id (string, UUID): Project to add the level to\n - name (string): Level name, e.g. "feature", "system", "subsystem"\n\nReturns:\n { level: { name, prefix }, message }',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),name:o.z.string().min(1).max(64).describe("Level name (user-defined label)")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},vo("atoms_create_level",async e=>{const{createLevelHandler:t}=await Promise.resolve().then(()=>(qa(),Sa));return t(e)})),mo("atoms_list_fields",{title:"List Project Fields",description:'List the project\'s custom field definitions (project-scoped key-value slots on items, e.g. "Verification Method"), with counts of items carrying a value.\n\nField values are set per item via atoms_create_item / atoms_update_item fields.\n\nArgs:\n - project_id (string, UUID): Project to inspect\n\nReturns:\n { fields: [{ name, type, options, item_count }], total }',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_list_fields",async e=>{const{listFieldsHandler:t}=await Promise.resolve().then(()=>(Ka(),Ha));return t(e)})),mo("atoms_create_field",{title:"Create Project Field",description:'Define a project custom field so items can carry a value for it (shown as a Matrix column, e.g. "Verification Method").\n\nThe name keeps its casing; uniqueness is case-insensitive. Type is one of text, long, bool, date, person, select, number, link. Select fields require options. Field definitions never carry visibility rules, permissions, or workflow logic.\n\nArgs:\n - project_id (string, UUID): Project to define the field in\n - name (string): Field name, 1-60 characters (e.g. "Verification Method", "Essential Output?")\n - type (string, optional): Defaults to text\n - options (string[], optional): Required when type=select\n - scope (string, optional): project (default) or organization (org admin only)\n\nReturns:\n { field: { name, type, options }, message }',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),name:o.z.string().min(1).max(60).describe("Field name (display name, 1-60 chars)"),type:o.z.enum(["text","long","bool","date","person","select","number","link"]).optional().describe("Field type, defaults to text"),options:o.z.array(o.z.string().min(1).max(120)).max(100).optional().describe("Allowed values for select fields"),scope:o.z.enum(["project","organization"]).optional().describe("Create in this project or copy to every project in the organization")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},vo("atoms_create_field",async e=>{const{createFieldHandler:t}=await Promise.resolve().then(()=>(Ka(),Ha));return t(e)})),mo("atoms_delete_field",{title:"Delete Project Field",description:"Delete a project field definition. Existing item values are left in item JSON but no longer render as Matrix columns until a matching field is created again.\n\nArgs:\n - project_id (string, UUID): Project containing the field\n - name (string): Field name to delete",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),name:o.z.string().min(1).max(60).describe("Field name")},annotations:{readOnlyHint:!1,destructiveHint:!0,idempotentHint:!1,openWorldHint:!1}},vo("atoms_delete_field",async e=>{const{deleteFieldHandler:t}=await Promise.resolve().then(()=>(Ka(),Ha));return t(e)})),mo("atoms_reorder_fields",{title:"Reorder Project Fields",description:"Reorder project field definitions. Definition order drives the Column Picker listing and a fresh user's Matrix column order.\n\nOrdering only: no definition is added, dropped, renamed, or retyped, and no item value moves. Use this instead of deleting and recreating definitions to change their order.\n\nArgs:\n - project_id (string, UUID): Project containing the fields\n - names (string[]): Every existing field name exactly once, in the order you want them. A list that is not a permutation of the current names is refused, not partially applied.",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),names:o.z.array(o.z.string().min(1).max(60)).describe("Every existing field name exactly once, in the desired order")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_reorder_fields",async e=>{const{reorderFieldsHandler:t}=await Promise.resolve().then(()=>(Ka(),Ha));return t(e)})),mo("atoms_update_domain",{title:"Rename Project Domain",description:"Rename a domain tag. Updates the taxonomy and propagates to all tagged items.\n\nUse dry_run=true first to see how many items will be affected before committing.\n\nArgs:\n - project_id (string, UUID): Project containing the domain\n - name (string): Current domain name\n - new_name (string): New domain name\n - dry_run (bool, optional): If true, return impact count without making changes (default false)\n\nReturns (dry_run=false):\n { domain: { name }, renamed_from, items_updated, message }\n\nReturns (dry_run=true):\n { dry_run: true, rename: { from, to }, items_affected, message }",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),name:o.z.string().min(1).max(64).describe("Current domain name"),new_name:o.z.string().min(1).max(64).describe("New domain name"),dry_run:o.z.boolean().optional().describe("Preview impact without applying (default false)")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},vo("atoms_update_domain",async e=>{const{updateDomainHandler:t}=await Promise.resolve().then(()=>(ps(),as));return t(e)})),mo("atoms_delete_domain",{title:"Delete Project Domain",description:"Delete a domain tag from the project taxonomy.\n\nRefuses by default if any items are tagged with it. With force=true, deletes the\ndomain and strips the tag from all items.\n\nArgs:\n - project_id (string, UUID): Project containing the domain\n - name (string): Domain name to delete\n - force (bool, optional): Strip from items and delete anyway (default false)\n\nReturns:\n { deleted, name, items_updated, message }",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),name:o.z.string().min(1).max(64).describe("Domain name to delete"),force:o.z.boolean().optional().describe("Strip from all items and delete (default false)"),confirmation_token:o.z.string().max(500).optional().describe("Token from a prior preview call (only used when ATOMS_MCP_REQUIRE_CONFIRMATION is set)")},annotations:{readOnlyHint:!1,destructiveHint:!0,idempotentHint:!1,openWorldHint:!1}},vo("atoms_delete_domain",async e=>{const{deleteDomainHandler:t}=await Promise.resolve().then(()=>(ps(),as));return t(e)})),bo({appName:"summary",htmlFile:"summary-app.html",toolName:"atoms_project_summary",title:"Project Compliance Summary",description:'One-call project health and compliance dashboard.\n\nReturns item counts by type, test execution status, requirement coverage\n(overall and by domain), and recent change activity.\n\nIn MCP App hosts (Claude, ChatGPT), renders an interactive dashboard with charts.\nFalls back to JSON for non-UI clients.\n\nArgs:\n - project_id (string, UUID): Project to summarize\n\nReturns:\n { project_name, counts, test_status, coverage, coverage_by_domain, recent_changes, last_updated }\n\nExamples:\n - "Give me a compliance snapshot" → atoms_project_summary(project_id)\n - "How\'s our test coverage?" → atoms_project_summary(project_id)',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1},handler:vo("atoms_project_summary",async e=>{const{projectSummaryHandler:t}=await Promise.resolve().then(()=>(fs(),ms));return t(e)})}),bo({appName:"browse",htmlFile:"browse-app.html",toolName:"atoms_browse",title:"Browse ATOMS Items",description:'View and filter items in an ATOMS project with a visual browser.\n\nIn MCP App hosts (Claude, ChatGPT), renders an interactive filterable list\nwith expandable item details. Falls back to JSON for non-UI clients.\n\nArgs:\n - project_id (string, UUID): The project to browse\n - type (string, optional): Filter by type (requirement, test-case, note, table)\n - domain (string, optional): Filter by domain tag\n - level (string, optional): Filter by level (System, Subsystem, Component)\n - query (string, optional): Full-text search query\n - limit (number, optional): Max results (default 25, max 100)\n - offset (number, optional): Pagination offset (default 0)\n\nReturns:\n { items: [...], filters: { domains, levels, types }, meta: { total_count, limit, offset, has_more } }\n\nExamples:\n - "Show me the requirements" → atoms_browse(project_id, type="requirement")\n - "Browse safety items" → atoms_browse(project_id, domain="Safety")\n - "Find braking requirements" → atoms_browse(project_id, query="braking")',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),type:o.z.enum(["requirement","test-case","note","table"]).optional().describe("Filter by item type"),domain:o.z.string().max(64).optional().describe("Filter by domain tag"),level:o.z.string().max(32).optional().describe("Filter by level (System, Subsystem, Component)"),query:o.z.string().max(1e3).optional().describe("Full-text search query"),limit:o.z.number().int().min(1).max(100).default(25).describe("Max results (default 25, max 100)"),offset:o.z.number().int().min(0).default(0).describe("Pagination offset (default 0)")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1},handler:vo("atoms_browse",async e=>{const{browseHandler:t}=await Promise.resolve().then(()=>(js(),hs));return t(e)})}),mo("atoms_impact_analysis",{title:"Analyze Impact of Changing an Item",description:'Analyze the blast radius of changing a specific item.\n\nTraverses the relationship graph from the given item and returns every item that\nwould be affected by a change — with their types, depths, and full relationship paths.\n\nArgs:\n - project_id (string, UUID): Project containing the item\n - item_id (string): Item to analyze (e.g., "REQ-001")\n - direction (string, optional): "downstream" (default) | "upstream" | "both"\n - downstream: what this item affects (children, verified_by)\n - upstream: what affects this item (parents, verifies)\n - both: full bidirectional traversal\n - depth (integer, optional): Max traversal depth. Omit for full depth (all reachable nodes).\n - include_variable_refs (boolean, optional): Reserved for future variable-aware impact. Default true.\n\nReturns:\n { root: { item_id, title, type }, impacted_items: [{ item_id, title, type, depth, relationship_path }], summary: { total_impacted, by_type, max_depth_reached } }\n\nExamples:\n - "What breaks if I change REQ-001?" → atoms_impact_analysis(project_id, "REQ-001")\n - "What\'s upstream of TC-005?" → atoms_impact_analysis(project_id, "TC-005", direction="upstream")\n - "Show direct dependencies only" → atoms_impact_analysis(project_id, "REQ-001", depth=1)\n\nErrors:\n - "Item not found" → verify item_id exists in the project',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),item_id:o.z.string().min(1).max(20).describe("Item ID to analyze (e.g., REQ-001)"),direction:o.z.enum(["downstream","upstream","both"]).default("downstream").describe("Traversal direction (default: downstream)"),depth:o.z.number().int().min(1).optional().describe("Max traversal depth. Omit for full depth."),include_variable_refs:o.z.boolean().default(!0).describe("Reserved for variable-aware impact (future). Default true.")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_impact_analysis",async e=>{const{impactAnalysisHandler:t}=await Promise.resolve().then(()=>(xs(),Ss));return t(e)})),mo("atoms_list_baselines",{title:"List ATOMS Baselines",description:"List named baselines (named project snapshots) for a project, newest first.\n\nA baseline is a labeled moment in time. Use atoms_create_baseline to make one,\natoms_diff_baselines to compare two, and atoms_restore_baseline to roll back.",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),limit:o.z.number().int().min(1).max(100).default(50).describe("Max results (default 50, max 100)"),offset:o.z.number().int().min(0).default(0).describe("Pagination offset")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_list_baselines",async e=>{const{listBaselinesHandler:t}=await Promise.resolve().then(()=>(Cs(),Es));return t(e)})),mo("atoms_create_baseline",{title:"Create ATOMS Baseline",description:"Create a named baseline (snapshot label) at the current moment for a project.\n\nThe baseline records a name + timestamp. It does NOT copy item data; the project\nstate at that moment is reconstructed via temporal queries against item_revisions.\nNames must be unique per project (case-insensitive).",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),name:o.z.string().min(1).max(200).describe("Baseline name (1-200 chars, unique per project)"),description:o.z.string().max(2e3).optional().describe("Optional description (max 2000 chars)")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},vo("atoms_create_baseline",async e=>{const{createBaselineHandler:t}=await Promise.resolve().then(()=>(Cs(),Es));return t(e)})),mo("atoms_lock_baseline",{title:"Lock ATOMS Baseline",description:"Lock a baseline so it becomes audit-grade immutable. Admin only. One-way: there is no unlock.\n\nAfter locking, the baseline's name, description, and snapshot_at cannot be changed,\nand it cannot be deleted. Use for regulatory submissions and DRBs.",inputSchema:{baseline_id:o.z.string().uuid().describe("UUID of the baseline to lock")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},vo("atoms_lock_baseline",async e=>{const{lockBaselineHandler:t}=await Promise.resolve().then(()=>(Cs(),Es));return t(e)})),mo("atoms_diff_baselines",{title:"Diff ATOMS Baselines",description:"Compute the diff between two baselines: which items were added, removed, or modified.\n\nReturns a summary plus a paginated items array. Pass detail=true to include\nper-item field-level diffs (slower for large projects).",inputSchema:{baseline_a_id:o.z.string().uuid().describe("UUID of the first (older) baseline"),baseline_b_id:o.z.string().uuid().describe("UUID of the second (newer) baseline"),detail:o.z.boolean().default(!1).describe("Include per-item field-level diffs (default false)"),limit:o.z.number().int().min(1).max(200).default(50).describe("Max items per page (default 50)"),offset:o.z.number().int().min(0).default(0).describe("Pagination offset")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_diff_baselines",async e=>{const{diffBaselinesHandler:t}=await Promise.resolve().then(()=>(Cs(),Es));return t(e)})),mo("atoms_restore_baseline",{title:"Restore from ATOMS Baseline",description:"Restore project state to a baseline. Admin only. Preview-by-default.\n\nCall with confirm=false (default) for a dry run that returns items_to_restore count.\nCall with confirm=true to execute: each item present at the baseline gets a new\nrevision matching its historical state, event_source='restore'. Items added AFTER\nthe baseline are NOT deleted. Always recoverable via further history.",inputSchema:{baseline_id:o.z.string().uuid().describe("UUID of the baseline to restore from"),confirm:o.z.boolean().default(!1).describe("Set true to execute; false (default) returns a preview")},annotations:{readOnlyHint:!1,destructiveHint:!0,idempotentHint:!1,openWorldHint:!1}},vo("atoms_restore_baseline",async e=>{const{restoreBaselineHandler:t}=await Promise.resolve().then(()=>(Cs(),Es));return t(e)})),mo("atoms_create_analysis",{title:"Create Analysis (HARA, Risk analysis, FMEA)",description:'Create a new analysis (a HARA under ISO 26262, a Risk analysis under ISO 14971, a DFMEA, a PFMEA,\na Software FMEA or a Use FMEA) with one empty row per seed. The analysis carries its standard:\nthe subtype and the variant name it, and a project may hold analyses under both standards.\n\nRequires editor or admin role. Structure matches analyses created in the ATOMS web app.\nA hara (HARA or risk analysis) is seeded from FUNCTIONS (tags flagged as functions), never from\nrequirements: a requirement is an output of the analysis. A dfmea (DFMEA or FMEA) is seeded from\nrequirements / design elements; a PFMEA from a process step.\n\nArgs:\n - project_id (string, UUID): Target project\n - subtype (string): hara | dfmea | risk_analysis | fmea. risk_analysis is an alias of hara and\n fmea an alias of dfmea, so a medical user never has to say HARA or DFMEA.\n hazard_analysis is still accepted as the older name of risk_analysis.\n - variant (string, optional): the standard the analysis carries. hara: iso26262 | iso14971;\n risk_analysis implies iso14971; dfmea: design | process | software | use; fmea implies\n process (the PFMEA). A variant outside the subtype\'s family is refused by name. Every variant\n is accepted in every project. Name none and the default follows the project\'s industry\n setting, exactly as the create menu in the app does: automotive gives hara iso26262 and dfmea\n design, medical device gives hara iso14971 and dfmea process. The variant is stored on the\n analysis and selects its scheme for every later read and write; the setting is only the\n default and never changes an analysis that already exists.\n - title (string, optional): Analysis title (default "New <parent label>": "New HARA",\n "New Risk analysis", "New DFMEA", "New PFMEA", "New Software FMEA", "New Use FMEA")\n - source_functions (string[], hara only, max 50): Function names to seed rows from. A name\n absent from the project\'s tags is registered as a function-flagged tag; matching is\n case-insensitive and trimmed. Rejected for dfmea.\n - source_req_ids (string[], dfmea only, max 50): Requirement IDs to seed rows from.\n Each must exist, be a plain requirement, and not itself be an analysis row. Rejected for hara.\n - revision (string, optional): Revision label (default "1.0")\n - intended_use (string, optional, ISO 14971 risk analysis only): what the device is for, for\n which patient, by which user and in which environment (ISO 14971:2019 5.2).\n - foreseeable_misuse (string, optional, ISO 14971 risk analysis only): the reasonably\n foreseeable misuse, ONE CASE PER LINE (ISO 14971:2019 5.2).\n - safety_characteristics (string, optional, ISO 14971 risk analysis only): the characteristics\n related to safety, ONE PER LINE (ISO 14971:2019 5.3).\n The three scope fields are the analysis\'s, not a row\'s. They are refused by name on a scheme\n that carries no scope (a HARA, a DFMEA, an FMEA), and they can be written later on the\n analysis id with atoms_fill_row.\n The stored subtype and the row req_types are the same under every standard; ids follow the\n scheme: HARA-n / SG-n (hara_iso26262), RA-n / RSK-n (hazard_iso14971), DFMEA-n / FM-n (dfmea_rpn),\n PFMEA-n / PF-n (fmea_process), SFMEA-n / FM-n (fmea_software), UFMEA-n / FM-n (fmea_use).\n\nReturns:\n { id (e.g. "HARA-001", "RA-001", "PFMEA-001"), subtype, title, revision,\n standard? ("ISO 26262" | "ISO 14971" for a hara; "AIAG-VDA FMEA Handbook" for a DFMEA or PFMEA;\n absent for a Software FMEA or a Use FMEA), scheme, variant,\n labels: { parent, row, row_statement, mitigating_requirement, lane, level },\n rows: [{ id, source_function }] (hara) | [{ id, source_req }] (dfmea),\n link_warnings?: [{ row_id, source_function | source_req, message }], warning? }\n rows lists every created row. If any row could not be attached to the analysis, it is\n named in link_warnings and warning explains the repair (atoms_link_items with type\n \'parent\', from_id=<row id>, to_id=<analysis id>); such rows will not appear in\n atoms_get_analysis until relinked.\n\nSide effects:\n - Creates the analysis parent item plus one row item per seed (row ids follow the scheme: SG-n or RSK-n, FM-n or PF-n)\n - hara: registers new function names in the project\'s tags and function flags (metadata)\n - Links each row to the parent (dual-written to the relationship shadow table)\n - Logs each created item to change_history with actor=\'mcp_<client>\'',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the target project"),subtype:o.z.enum(["hara","dfmea","risk_analysis","fmea","hazard_analysis"]).describe("Analysis subtype; risk_analysis is an alias of hara and fmea of dfmea, and hazard_analysis is still accepted as the older name of risk_analysis (REQ-ANL-192)"),title:o.z.string().min(1).max(500).optional().describe("Analysis title"),source_functions:o.z.array(o.z.string().min(1).max(100)).max(50).optional().describe("hara only: function names to seed rows from (0-50); new names are registered as function-flagged tags"),source_req_ids:o.z.array(o.z.string().min(1).max(20)).max(50).optional().describe("dfmea only: requirement IDs to seed rows from (0-50)"),revision:o.z.string().min(1).max(32).optional().describe("Revision label (default 1.0)"),variant:o.z.enum(["iso26262","iso14971","design","process","software","use"]).optional().describe("The standard the analysis carries (REQ-ANL-212). hara: iso26262 | iso14971; dfmea: design | process | software | use. risk_analysis implies iso14971, fmea implies process. Omit it and the default follows the project industry setting (REQ-ANL-216)."),intended_use:o.z.string().max(1e4).optional().describe("ISO 14971 risk analysis only: what the device is for, for which patient, by which user and in which environment (ISO 14971:2019 5.2)."),foreseeable_misuse:o.z.string().max(1e4).optional().describe("ISO 14971 risk analysis only: the reasonably foreseeable misuse, one case per line (ISO 14971:2019 5.2)."),safety_characteristics:o.z.string().max(1e4).optional().describe("ISO 14971 risk analysis only: the characteristics related to safety, one per line (ISO 14971:2019 5.3).")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},vo("atoms_create_analysis",async e=>{const{createAnalysisHandler:t}=await Promise.resolve().then(()=>(yo(),Ts));return t(e)})),mo("atoms_fill_row",{title:"Fill Analysis Row Fields",description:'Fill fields on one analysis row: a HARA or risk analysis row, a DFMEA or FMEA row (row ids follow the scheme: SG-n or RSK-n, FM-n or PF-n).\n\nRequires editor or admin role. Written fields are marked as MCP-sourced so the\nweb app shows their provenance. The computed level (ASIL, RPN or Risk) is derived and\nnever stored: asil is never a writable key.\n\nrow_id may also name the ANALYSIS PARENT (e.g. "RA-001"), which carries the analysis\'s own\nfields rather than a row\'s: on an ISO 14971 risk analysis exactly intended_use,\nforeseeable_misuse, safety_characteristics (its scope, ISO 14971:2019 5.2 and 5.3),\noverall_residual_risk (Low | Medium | High) with overall_residual_rationale (its overall\nresidual risk, ISO 14971:2019 clause 8) and software_safety_class (A | B | C) with\nsoftware_safety_rationale (IEC 62304 4.3). Any other key on a parent is refused by name with\nthat list given, and a scheme that carries no parent field (a HARA, a DFMEA, an FMEA) refuses\nall of them. Both judged values are a PERSON\'s: nothing computes them, the empty string clears\none, and the app only ever suggests one from the rows.\n\nArgs:\n - project_id (string, UUID): Project containing the row\n - row_id (string): Analysis row ID (e.g. "SG-001", "RSK-002", "FM-003", "PF-004"), or the\n analysis parent ID (e.g. "RA-001") to write the analysis\'s scope and overall judgement\n - fields (object): Field name to value map. Allowed keys:\n hara: failure_mode, operating_scenario, hazard, assumptions, severity (S0-S3), exposure (E0-E4),\n controllability (C0-C3), safe_state, ftti, rationale, source_function, effect, title\n dfmea: failure_mode, cause, severity (1-10), occurrence (1-10), detection (1-10),\n rationale, effect\n medical risk analysis: failure_mode (the hazard), operating_scenario (the sequence of events),\n hazard (the harm), assumptions, severity (1-5), p1 (1-5), p2 (1-5), rationale, source_function,\n safety_goal (the risk control statement), s_rationale, p1_rationale, p2_rationale,\n residual_s, residual_p1, residual_p2, benefit_note, effect\n medical FMEA: the FMEA keys of its variant; a PFMEA adds process_step and current_controls,\n and a Software FMEA has NO occurrence (fixed at 10, IEC 62304).\n The analysis carries its standard: the variant stored on the row\'s parent analysis selects\n the scheme (an analysis stored before v5.4 without one resolves through the project\'s legacy hint).\n The derived level (asil / rpn / risk / p0) and the approval keys (approved, approved_at,\n approved_by, approved_note, field_source, link_roles, mitigation_types) are refused BY NAME.\n A suggested rating is written together with its rationale: pass the rating and its evidence\n field in one call (severity + s_rationale, p1 + p1_rationale), or use atoms_suggest_field.\n \'effect\' writes the row\'s long text body (the hazardous event of a HARA row, the hazardous situation\n of a medical risk analysis row, the effect of an FMEA row). dfmea failure_mode also\n becomes the row title. dfmea ratings accept numbers and are stored as strings.\n hara failure_mode: the standardized suggestions are No function, Loss of function, Partial function,\n Degradation of function, Misinterpretation of function (a suggestion; any text is accepted).\n hara source_function: the function the row analyzes, registered as a function-flagged tag if new.\n\nReturns:\n { row_id, subtype, written_fields, computed_level, asil_propagated_to?, approval_cleared? }\n approval_cleared: true means the row WAS approved and this write cleared approved, approved_by,\n approved_at and approved_note: a signature never covers content the approver did not see. A\n person approves the row again with atoms_approve_row once they have read the new values.\n On the analysis parent instead: { analysis_id, scheme, written_fields,\n scope: { intended_use, foreseeable_misuse: string[], safety_characteristics: string[] },\n overall: { residual_risk, residual_rationale, safety_class, safety_rationale } }.\n\nSide effects:\n - Saves the row with stale-write protection and logs to change_history\n - On an approved row: clears the approval (history-logged with the reason)\n - hara only: if the row is linked and its computed level (ASIL, or Risk under ISO 14971) changed,\n updates each linked requirement\'s asil / asil_source (each update is history-logged)',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),row_id:o.z.string().min(1).max(20).describe("Analysis row ID (e.g. SG-001, FM-003), or the analysis parent ID (e.g. RA-001) for its scope and overall residual risk"),fields:o.z.record(o.z.string().max(64),o.z.union([o.z.string().max(5e4),o.z.number()])).describe("Field name to value map (see description for allowed keys per subtype)")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_fill_row",async e=>{const{fillRowHandler:t}=await Promise.resolve().then(()=>(yo(),Ts));return t(e)})),mo("atoms_get_analysis",{title:"Get Analysis",description:'Get a full analysis view: every row with its computed level (ASIL, RPN or Risk, by the\nanalysis\'s scheme) and gap / critical / stale classifications, plus summary counts and the\nscheme\'s vocabulary.\n\nClassifications match the ATOMS web app exactly (same rules, same thresholds). The analysis\ncarries its standard: the variant stored on it selects the scheme (a hara is a HARA under\nISO 26262 or a Risk analysis under ISO 14971; a dfmea is a DFMEA, a PFMEA, a Software FMEA or\na Use FMEA). An analysis stored before v5.4 without a variant resolves through the project\'s\nlegacy hint and reads variant null.\n\nArgs:\n - project_id (string, UUID): Project containing the analysis\n - analysis_id (string): Analysis ID (e.g. "HARA-001", "RA-001", "PFMEA-002")\n\nReturns:\n { analysis: { id, title, subtype, scheme, revision, standard, variant,\n labels: { parent, row, row_statement, mitigating_requirement, lane, level },\n acceptability: { Low, Medium, High } | null (the ISO 14971 wording per risk level, e.g. High is\n "Not acceptable"; null on every scheme but the medical risk analysis),\n definitions: [{ key, text }] (the scheme\'s glossary, the text the app\'s tooltips show),\n control_types: [{ id, abbr, label, precedence }] (ISO 14971 clause 7, applied in precedence\n order; empty on the automotive schemes),\n field_labels: [{ key, label }] (each raw row key to the label this scheme shows for it, e.g. in a\n medical risk analysis failure_mode is "Hazard", effect is "Hazardous situation" and hazard is\n "Harm"; read the raw keys through this list, never as automotive words),\n scope: { intended_use, foreseeable_misuse: string[], safety_characteristics: string[] } | null\n (the analysis\'s scope, ISO 14971:2019 5.2 and 5.3; the two lists are the stored lines, blank\n lines dropped; null on a scheme that carries no scope),\n overall: { residual_risk, residual_rationale, safety_class, safety_rationale } | null\n (the overall residual risk a person judged, ISO 14971:2019 clause 8, and the IEC 62304 4.3\n software safety class; an unjudged value reads as the empty string; null on a scheme that\n carries neither) },\n rows: [{ id, title, source_req, effect, <the scheme\'s fields under their raw keys>,\n computed_level, computed_level_text (the acceptability wording behind the level, or null),\n is_gap, gap_rule, is_critical, is_stale, mitigated_by, link_roles, mitigation_types,\n verified_by, residual_level (medical risk analysis only; null elsewhere),\n approved, approved_at, approved_by, approved_note, mcp_fields }],\n counts: { rows, gaps, critical, stale, approved, linked } }\n The vocabulary lists are given once per analysis, never repeated per row.',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),analysis_id:o.z.string().min(1).max(20).describe("Analysis ID (e.g. HARA-001, RA-001, PFMEA-002)")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_get_analysis",async e=>{const{getAnalysisHandler:t}=await Promise.resolve().then(()=>(yo(),Ts));return t(e)})),mo("atoms_link_mitigation",{title:"Link Analysis Row to Mitigating Requirement",description:'Link a HARA / risk analysis / FMEA row to the technical requirement that mitigates it (the\nsafety requirement of a HARA row, the risk control of a medical row, the action of an FMEA row).\n\nRequires editor or admin role.\n\nArgs:\n - project_id (string, UUID): Project containing both items\n - row_id (string): Analysis row ID (e.g. "SG-001", "RSK-002", "FM-003", "PF-004")\n - req_id (string): Target requirement ID (must be a plain requirement, not an analysis row)\n hara / medical risk analysis rows: the target must be a requirement of req_type \'safety\'\n (a safety requirement / risk control); any other requirement is refused with the rule\n named (REQ-ANL-142). An FMEA row accepts any requirement, so long as role is given.\n - control_type (string, medical schemes only, REQUIRED there): inherent | protective | information\n (ISO 14971 clause 7: inherently safe design, protective measure, information for safety).\n Stored on the LINK (the row\'s analysis_props.mitigation_types keyed by req_id), never on the\n requirement. The analysis carries its standard: control_type is required exactly when the\n row\'s resolved scheme is medical (hazard_iso14971, fmea_process, fmea_software, fmea_use: a\n risk analysis, PFMEA, Software FMEA or Use FMEA link carries one) and refused on a HARA\n (ISO 26262) or a DFMEA row.\n - role (string, dfmea rows only, REQUIRED there): prevention | detection | mitigation.\n Must be omitted for hara rows (a HARA or a risk analysis).\n - override (boolean, optional, default false): hara only. When the target already\n carries a different level (asil, which holds the Risk under ISO 14971), the call fails with\n a structured error (details.code=\'asil_conflict\') unless override=true; the override is\n history-logged like a dialog accept.\n\nReturns:\n { row_id, req_id, type: "mitigated_by", role, scheme, control_type? (medical links, the type stored\n on the link), asil_written? (hara only: the row\'s computed level, the ASIL or the Risk, written\n onto the target) }\n\nSide effects:\n - Adds the mitigated_by/mitigates relationship (JSONB + shadow table, one transaction)\n - hara only: writes the row\'s computed level (ASIL, or Risk under ISO 14971) onto the target\n requirement (data.asil + data.asil_source) with a history entry recording previous/new values\n - dfmea / every FMEA: never modifies any field on the target requirement',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),row_id:o.z.string().min(1).max(20).describe("Analysis row ID (e.g. SG-001, FM-003)"),req_id:o.z.string().min(1).max(20).describe("Target requirement ID (e.g. REQ-042)"),role:o.z.enum(["prevention","detection","mitigation"]).optional().describe("Mitigation role. Required for dfmea rows (every FMEA); must be omitted for hara rows."),override:o.z.boolean().optional().describe("hara only: apply the row's level (ASIL or Risk) over a conflicting existing value (history-logged)"),control_type:o.z.enum(["inherent","protective","information"]).optional().describe("Medical schemes only (required there): the ISO 14971 clause 7 control type, stored on the link.")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_link_mitigation",async e=>{const{linkMitigationHandler:t}=await Promise.resolve().then(()=>(yo(),Ts));return t(e)})),mo("atoms_get_gaps",{title:"Get Analysis Gap Rows",description:'List only the gap rows of a HARA / risk analysis / FMEA analysis, each naming the rule that matched.\n\nGap rules (identical to the web app):\n hara (HARA): unmitigated row with ASIL A-D ("asil <X> unmitigated")\n hara (medical risk analysis): uncontrolled row with Risk above Low ("<level> risk uncontrolled")\n dfmea (DFMEA, PFMEA and every FMEA variant): unmitigated row with RPN >= 100 ("rpn >= 100") or\n severity >= 9 ("severity >= 9")\n\nArgs:\n - project_id (string, UUID): Project containing the analysis\n - analysis_id (string): Analysis ID (e.g. "HARA-001", "RA-001", "PFMEA-002")\n\nReturns:\n { analysis_id, subtype, gaps: [{ id, title, source_req, source_function, computed_level, rule }], count }\n plus scheme, labels and gap_kinds: [{ kind, label, row_ids, req_ids, gap_count, fix, fix_label }],\n the scheme\'s gap kinds with the ids behind each, in the same order and wording the app banner uses.\n gap_count is how many gaps the kind stands for: its rows, or its requirements, or 1 for a kind\n that is one fact about the ANALYSIS and therefore carries neither list.\n hara: unmitigated, no_test (no test on its ODD), no_parent (safety requirement at the system\n level with no parent)\n medical: no_control (a risk above Low), not_verified, no_residual, no_parent (risk control at the\n system level with no parent), no_scope (the analysis holds rows but states no intended\n use, ISO 14971:2019 5.2) and no_overall (every row is controlled and residual-rated but\n the overall residual risk is not judged, ISO 14971:2019 clause 8); both are written on\n the analysis id with atoms_fill_row\n FMEA: rpn (RPN 100 or above with no mitigating requirement), severity (severity 9 or above\n below RPN 100 with no mitigating requirement, the REQ-ANL-047 floor; a row is under one\n kind, never both); an FMEA has no requirement-scope kind, so no project-wide scan runs\n for it\n and system_level, system_level_source: the level the no_parent kind was judged against. The system\n level is the SECOND rung of the project\'s level ladder (metadata.levels, positional: the L1 of\n REQ-ASH-031), matched against tags.level by name; source is "taxonomy". Only when the ladder has\n fewer than two rungs does the literal "L1" apply, and source then reads "fallback".',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),analysis_id:o.z.string().min(1).max(20).describe("Analysis ID (e.g. HARA-001, RA-001, PFMEA-002)")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_get_gaps",async e=>{const{getGapsHandler:t}=await Promise.resolve().then(()=>(yo(),Ts));return t(e)})),mo("atoms_propose_rows",{title:"Write Proposed Analysis Rows",description:"Write rows YOU have drafted for one function into a HARA / risk analysis / FMEA (a DFMEA, a\nPFMEA, a Software FMEA or a Use FMEA). The analysis carries its standard: the rows are validated\nagainst the scheme its stored variant selects.\n\nThe drafting is the assistant's job: read the analysis with atoms_get_analysis (its scope, its\nODD / operating modes and its existing rows), draft the rows, then send them here. This tool\nvalidates every value against the analysis's scheme and writes the rows; it never invents a value.\n\nRequires editor or admin role. Every written value is marked as MCP-sourced and every row is\nwritten UNAPPROVED: a person approves it with atoms_approve_row.\n\nArgs:\n - project_id (string, UUID): Project containing the analysis\n - analysis_id (string): Analysis ID (e.g. \"HARA-001\", \"RA-001\", \"PFMEA-002\")\n - source_function (string, risk analysis only): the function these rows analyse; registered\n as a function-flagged tag if new (matching is case-insensitive and trimmed)\n - source_req (string, FMEA only): the requirement these rows analyse\n - rows (object[], 1 to 8): the drafted rows, each a field name to value map using the\n analysis's scheme keys (the same keys atoms_fill_row accepts, plus 'effect', and 'title'\n on a risk analysis row). A risk analysis row sent without a title is named by its\n failure_mode (the hazard), else by its hazard; an FMEA row by its failure_mode. The cap of 8\n is shared with the app and the assistant; a longer list is refused, never truncated.\n The derived level (asil / rpn / risk) and the approval keys are refused by name.\n\nReturns:\n { analysis_id, subtype, scheme, variant?, labels, source_function | source_req,\n rows: [{ id, written_fields, computed_level }], count, max_rows, approved: false,\n link_warnings?, warning? }\n\nSide effects:\n - Creates one row item per drafted row, attached to the analysis (row ids follow the scheme: SG-n or RSK-n, FM-n or PF-n)\n - Marks every written field field_source='mcp' and leaves each row unapproved\n - Logs each created row to change_history with actor='mcp_<client>'",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),analysis_id:o.z.string().min(1).max(20).describe("Analysis ID (e.g. HARA-001, RA-001, PFMEA-002)"),rows:o.z.array(o.z.record(o.z.string().max(64),o.z.union([o.z.string().max(5e4),o.z.number()]))).min(1).max(ht).describe(`The drafted rows (1-${ht}), each a scheme field name to value map`),source_function:o.z.string().min(1).max(100).optional().describe("Risk analysis only: the function these rows analyse"),source_req:o.z.string().min(1).max(20).optional().describe("FMEA only: the requirement these rows analyse")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},vo("atoms_propose_rows",async e=>{const{proposeRowsHandler:t}=await Promise.resolve().then(()=>(yo(),Ts));return t(e)})),mo("atoms_suggest_field",{title:"Write a Suggested Value for One Analysis Field",description:"Write ONE value YOU have suggested for one field of one analysis row.\n\nThe suggestion is the assistant's job (Suggest evidence, Suggest safety goal, Suggest risk control\nstatement); this tool is the write half: it validates the value against the row's scheme, writes it marked as MCP-sourced and\nreturns the row. A suggested rating is written together with its rationale: pass 'rationale' and\nit lands in the scheme's evidence field for that rating (severity -> s_rationale, exposure ->\ne_rationale, controllability -> c_rationale, p1 -> p1_rationale, p2 -> p2_rationale, and the\nsingle 'rationale' column on an FMEA).\n\nAccepting a suggestion is a client action: it flips that one field's field_source to 'user'. The\nrow stays unapproved either way, until atoms_approve_row records who approved it.\n\nArgs:\n - project_id (string, UUID): Project containing the row\n - row_id (string): Analysis row ID (e.g. \"SG-001\", \"RSK-002\", \"FM-003\", \"PF-004\")\n - field (string): the field to fill (any key atoms_fill_row accepts for this row's scheme)\n - value (string | number): the suggested value; a rating must be one the scheme allows\n - rationale (string, optional): the evidence behind a suggested RATING\n\nReturns:\n { row_id, subtype, scheme, field, field_source: \"mcp\", written_fields,\n rationale_field?, approval_cleared?, row: { id, computed_level, approved, mcp_fields, ...scheme fields } }\n approval_cleared: true means the row WAS approved and this suggestion cleared approved, approved_by,\n approved_at and approved_note: a signature never covers content the approver did not see.\n\nSide effects:\n - Saves the row with stale-write protection and logs to change_history\n - Marks the written field(s) field_source='mcp'; the row stays unapproved\n - On an approved row: clears the approval (history-logged with the reason)",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),row_id:o.z.string().min(1).max(20).describe("Analysis row ID (e.g. SG-001, FM-003)"),field:o.z.string().min(1).max(64).describe("The field to fill (a scheme key of this row)"),value:o.z.union([o.z.string().max(5e4),o.z.number()]).describe("The suggested value"),rationale:o.z.string().max(5e4).optional().describe("The evidence behind a suggested rating; written to the scheme's evidence field")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_suggest_field",async e=>{const{suggestFieldHandler:t}=await Promise.resolve().then(()=>(yo(),Ts));return t(e)})),mo("atoms_approve_row",{title:"Approve an Analysis Row in a Named Person's Name",description:'Record the sign-off of ONE analysis row, naming who approved it.\n\nRequires editor or admin role. The approver must be a member of the project\'s organization: a\nname that cannot be traced to a member is refused, never stored. The note is optional. Approving\nclears the machine-proposed (✦) markers on the row: the approver takes those values as their own.\nA row whose ratings are incomplete cannot be approved (its level is unset), matching the grid.\n\nThis tool signs off one analysis row. It has nothing to do with change control: it never\napproves, dismisses or applies a suggestion (REQ-CHG-062).\n\nArgs:\n - project_id (string, UUID): Project containing the row\n - row_id (string): Analysis row ID (e.g. "SG-001", "RSK-002", "FM-003", "PF-004")\n - approver_id (string, UUID, optional): the approving member; defaults to the calling user\n - note (string, optional): the note captured with the approval\n\nReturns:\n { row_id, subtype, scheme, approved: true, approved_by, approved_at, approved_note,\n approver_role, computed_level, cleared_markers }\n\nSide effects:\n - Saves the row with stale-write protection: approved, approved_at, approved_by, approved_note\n - Flips every field_source=\'mcp\' entry on the row to \'user\'\n - Logs the approval (previous and new values) to change_history',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),row_id:o.z.string().min(1).max(20).describe("Analysis row ID (e.g. SG-001, FM-003)"),approver_id:o.z.string().uuid().optional().describe("The approving project member; defaults to the calling user"),note:o.z.string().max(2e3).optional().describe("Optional note captured with the approval")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},vo("atoms_approve_row",async e=>{const{approveRowHandler:t}=await Promise.resolve().then(()=>(yo(),Ts));return t(e)}))}});B(),U(),Ne(),C();var Ao=c.createRequire("undefined"==typeof document?require("url").pathToFileURL(__filename).href:m&&"SCRIPT"===m.tagName.toUpperCase()&&m.src||new URL("index.cjs",document.baseURI).href)("../package.json"),Eo=process.argv.slice(2)[0];(async function(){switch(Eo){case"login":{const{login:e}=await Promise.resolve().then(()=>(Ke(),Fe));try{const{email:t}=await e();process.stderr.write(`\n [32m✓[0m Authenticated as ${t}\n`),process.stderr.write(" [32m✓[0m Credentials saved to ~/.atoms/credentials.json\n\n"),process.stderr.write(" [1mNext steps:[0m\n"),process.stderr.write(" [36m$[0m claude mcp add atoms -- npx -y @atoms-tech/atoms-mcp\n"),process.stderr.write("\n Or add to Claude Desktop (Settings → MCP → Edit Config):\n"),process.stderr.write(' [90m{\n "mcpServers": {\n "atoms": {\n "command": "npx",\n "args": ["-y", "@atoms-tech/atoms-mcp"]\n }\n }\n }[0m\n\n')}catch(e){process.stderr.write(`\n [31m✗[0m ${e instanceof Error?e.message:String(e)}\n\n`),process.exit(1)}break}case"whoami":{const{getValidToken:e}=await Promise.resolve().then(()=>(Re(),be));try{const{email:t,user_id:r}=await e();process.stderr.write(`\n [32m✓[0m Logged in as ${t}\n [90mUser ID: ${r}[0m\n\n`)}catch(e){process.stderr.write(`\n [31m✗[0m Not authenticated: ${e instanceof Error?e.message:String(e)}\n Run: npx @atoms-tech/atoms-mcp login\n\n`),process.exit(1)}break}case"logout":{const{clearCredentials:e}=await Promise.resolve().then(()=>(oe(),J));await e(),process.stderr.write("Logged out. Credentials removed.\n"),process.stderr.write("Run 'npx @atoms-tech/atoms-mcp login' to authenticate again.\n");break}case"--version":case"-v":process.stderr.write(`@atoms-tech/atoms-mcp v${Ao.version}\n`);break;case"--help":case"-h":process.stderr.write("ATOMS MCP Server — AI agent integration for requirements management\n\nUsage:\n npx @atoms-tech/atoms-mcp Start MCP server (stdio)\n npx @atoms-tech/atoms-mcp login Authenticate with ATOMS.tech\n npx @atoms-tech/atoms-mcp logout Switch account / clear credentials\n npx @atoms-tech/atoms-mcp whoami Show current user\n npx @atoms-tech/atoms-mcp --version Show version\n");break;default:{process.stderr.write("[atoms-mcp] Starting MCP server via stdio...\n");{const{getValidToken:e,readValidToken:t}=await Promise.resolve().then(()=>(Re(),be)),{runExclusiveAuth:r}=await Promise.resolve().then(()=>(he(),de)),{login:i}=await Promise.resolve().then(()=>(Ke(),Fe));try{let a;try{a=(await e()).email}catch(e){process.stderr.write(`[atoms-mcp] Could not use the saved session: ${e instanceof Error?e.message:String(e)}\n`),process.stderr.write("[atoms-mcp] Starting login flow...\n");const n=async()=>{const e=await t();if(!e)throw new Error("no valid token yet");return{email:e.email}};a=(await r(n,async()=>({email:(await i()).email}))).email}process.stderr.write(`[atoms-mcp] Authenticated as ${a}\n`)}catch(e){process.stderr.write(`[atoms-mcp] Login failed: ${e instanceof Error?e.message:String(e)}\n[atoms-mcp] Starting server without auth. Tools will fail until you run: npx @atoms-tech/atoms-mcp login\n`)}}try{const t=await ze(),r=De(),i=await async function(e,t){const r=process.env.ATOMS_MCP_ORG_ID?.trim();if(r)return r;const{data:i,error:a}=await e.from("org_members").select("org_id, joined_at").eq("user_id",t).order("joined_at",{ascending:!0}).limit(1).maybeSingle();return a?(process.stderr.write(`[atoms-mcp] Could not resolve session org: ${a.message}\n`),null):i?.org_id??null}(t,r),a=await async function(e,t,r){if(!r)return{role:null,is_member:!1,effective:M};const{data:i,error:a}=await e.rpc("mcp_resolve_policy",{p_user_id:t,p_org_id:r});return a?(process.stderr.write(`[atoms-mcp] mcp_resolve_policy failed (${a.code}): ${a.message}. Falling back to fail-closed policy.\n`),{role:null,is_member:!1,effective:H}):function(e){if(!e||"object"!=typeof e)return{role:null,is_member:!1,effective:M};const t=e,r="string"==typeof t.role?t.role:null,i=!0===t.is_member,a=t.effective??{},n=(e,t)=>Array.isArray(e)?e.filter(e=>"string"==typeof e):t,s=(e,t)=>"boolean"==typeof e?e:t,o=a.project_scope,d=Array.isArray(o)&&o.length>0?o.filter(e=>"string"==typeof e):null;return{role:r,is_member:i,effective:{read_only:s(a.read_only,M.read_only),lockdown:s(a.lockdown,M.lockdown),block_destructive:s(a.block_destructive,M.block_destructive),block_bulk_import:s(a.block_bulk_import,M.block_bulk_import),cross_project_browse:s(a.cross_project_browse,M.cross_project_browse),allowed_toolsets:n(a.allowed_toolsets,M.allowed_toolsets),forbidden_tools:n(a.forbidden_tools,M.forbidden_tools),project_scope:d,require_confirmation_for:n(a.require_confirmation_for,M.require_confirmation_for)}}}(i)}(t,r,i);e={effective:a.effective,role:a.role,org_id:i},D=e.effective,P=e.org_id,a.is_member&&i?process.stderr.write(`[atoms-mcp] Org policy loaded: org=${i.slice(0,8)}… role=${a.role??"?"} read_only=${a.effective.read_only} lockdown=${a.effective.lockdown}\n`):process.stderr.write("[atoms-mcp] No org membership detected — running with permissive default policy.\n")}catch(e){process.stderr.write(`[atoms-mcp] Could not resolve session policy (${e instanceof Error?e.message:String(e)}). Running with permissive default — RLS still enforces row-level access.\n`)}process.stderr.write(`[atoms-mcp] Tool registry: ${function(){const e=F(),t=N(),r=[];r.push(e?"read-only":"read+write"),null===t?r.push("all toolsets"):(r.push(`toolsets=${[...t.allowed].sort().join(",")||"(none — only always-on tools)"}`),t.unknown.length>0&&r.push(`unknown=${t.unknown.join(",")}`));const i=process.env.ATOMS_MCP_PROJECT_ID?.trim();return i&&r.push(`project_scope=${i.slice(0,8)}…`),("1"===process.env.ATOMS_MCP_LOCKDOWN||"true"===process.env.ATOMS_MCP_LOCKDOWN)&&r.push("lockdown=on"),r.join(" | ")}()}\n`);const{server:t}=await Promise.resolve().then(()=>(xo(),wo)),r=new p.StdioServerTransport;await t.connect(r),process.stderr.write("[atoms-mcp] MCP server running. Waiting for tool calls...\n")}}var e})().catch(e=>{process.stderr.write(`[atoms-mcp] Fatal: ${e instanceof Error?e.message:String(e)}\n`),process.exit(1)});
|
|
2
|
+
var e=require("fs/promises"),t=require("os"),r=require("path"),i=require("@supabase/supabase-js"),a=require("http"),n=require("crypto"),s=require("url"),o=require("zod"),d=require("@modelcontextprotocol/ext-apps/server"),l=require("@modelcontextprotocol/sdk/server/mcp.js"),c=require("module"),p=require("@modelcontextprotocol/sdk/server/stdio.js"),m="undefined"!=typeof document?document.currentScript:null;function u(e){return e&&e.__esModule?e:{default:e}}var _,f,h,g,y,w,v,b=u(e),j=u(r),S=u(n),k=Object.defineProperty,x=Object.getOwnPropertyNames,E=(e,t,r)=>function(){if(r)throw r[0];try{return e&&(t=(0,e[x(e)[0]])(e=0)),t}catch(e){throw r=[e],e}},A=(e,t)=>{for(var r in t)k(e,r,{get:t[r],enumerable:!0})};function I(e){return v.get(e)}var R=E({"src/core/tool-catalog.ts"(){_=new Set(["atoms_status","atoms_list_projects"]),f=new Set(["atoms_create_item","atoms_update_item","atoms_delete_item","atoms_restore_item","atoms_link_items","atoms_bulk_import","atoms_record_test_result","atoms_record_test_results","atoms_create_variable","atoms_update_variable","atoms_delete_variable","atoms_create_domain","atoms_update_domain","atoms_delete_domain","atoms_create_level","atoms_delete_level","atoms_reorder_levels","atoms_create_field","atoms_delete_field","atoms_reorder_fields","atoms_create_baseline","atoms_lock_baseline","atoms_restore_baseline","atoms_create_analysis","atoms_fill_row","atoms_link_mitigation","atoms_propose_rows","atoms_suggest_field","atoms_approve_row"]),h=new Set(["atoms_delete_item","atoms_delete_variable","atoms_delete_domain","atoms_delete_level","atoms_delete_field","atoms_restore_baseline"]),g=new Set(["atoms_bulk_import"]),y={items:["atoms_list_items","atoms_get_item","atoms_search","atoms_semantic_search","atoms_browse","atoms_get_history","atoms_create_item","atoms_update_item","atoms_delete_item","atoms_restore_item","atoms_bulk_import"],traceability:["atoms_trace","atoms_link_items","atoms_export_mermaid","atoms_impact_analysis"],coverage:["atoms_get_coverage","atoms_verification_status","atoms_record_test_result","atoms_record_test_results","atoms_project_summary","atoms_list_assets"],variables:["atoms_list_variables","atoms_get_variable","atoms_create_variable","atoms_update_variable","atoms_delete_variable"],domains:["atoms_list_domains","atoms_create_domain","atoms_update_domain","atoms_delete_domain","atoms_list_levels","atoms_create_level","atoms_delete_level","atoms_reorder_levels","atoms_list_fields","atoms_create_field","atoms_delete_field","atoms_reorder_fields"],baselines:["atoms_list_baselines","atoms_create_baseline","atoms_lock_baseline","atoms_diff_baselines","atoms_restore_baseline"],analysis:["atoms_create_analysis","atoms_fill_row","atoms_get_analysis","atoms_link_mitigation","atoms_get_gaps","atoms_propose_rows","atoms_suggest_field","atoms_approve_row"]},w=Object.keys(y),v=new Map;for(const[e,t]of Object.entries(y))for(const r of t)v.set(r,e)}});function O(e,t){if(_.has(t))return{allowed:!0};if(e.lockdown&&!new Set(["atoms_list_items","atoms_get_item","atoms_search","atoms_browse"]).has(t))return{allowed:!1,reason:"lockdown"};if(e.forbidden_tools.includes(t))return{allowed:!1,reason:"forbidden_tool"};if(e.read_only&&f.has(t))return{allowed:!1,reason:"read_only"};if(e.block_destructive&&h.has(t))return{allowed:!1,reason:"block_destructive"};if(e.block_bulk_import&&g.has(t))return{allowed:!1,reason:"block_bulk_import"};const r=I(t);return void 0===r||e.allowed_toolsets.includes(r)?{allowed:!0}:{allowed:!1,reason:"toolset_disabled"}}function q(e,t){return O(e,t).allowed}function z(e){switch(e){case"lockdown":return"MCP is in lockdown mode for your role — only read-only browse is available.";case"read_only":return"Your org policy puts MCP in read-only mode. Mutating tools are not exposed.";case"block_destructive":return"Your org policy blocks destructive operations (delete tools).";case"block_bulk_import":return"Your org policy blocks bulk import.";case"forbidden_tool":return"This tool is on your org's forbidden list.";case"toolset_disabled":return"This tool's toolset is not enabled in your org policy."}}var M,H,D,$,P=E({"src/core/policy.ts"(){R()}}),U=E({"src/core/types.ts"(){M={read_only:!1,lockdown:!1,block_destructive:!1,block_bulk_import:!1,cross_project_browse:!0,allowed_toolsets:["items","traceability","coverage","variables","domains","baselines","analysis"],forbidden_tools:[],project_scope:null,require_confirmation_for:[]},H={read_only:!0,lockdown:!0,block_destructive:!0,block_bulk_import:!0,cross_project_browse:!1,allowed_toolsets:[],forbidden_tools:[],project_scope:[],require_confirmation_for:[]}}});function T(){return D}var C=E({"src/middleware/session-policy.ts"(){U(),D=M,$=null}});function N(){const e=process.env.ATOMS_MCP_TOOLSETS?.trim();if(!e)return null;const t=e.split(",").map(e=>e.trim()).filter(Boolean);if(0===t.length)return null;const r=new Set,i=[];for(const e of t)w.includes(e)?r.add(e):i.push(e);return{allowed:r,unknown:i}}function F(){const e=process.env.ATOMS_MCP_READ_ONLY;return"1"===e||"true"===e?.toLowerCase()}function L(e){if(F()&&f.has(e))return!1;if(_.has(e))return!0;const t=N();if(null===t)return q(T(),e);const r=I(e);return!!r&&!!t.allowed.has(r)&&q(T(),e)}var W,V,B=E({"src/middleware/tool-registry.ts"(){R(),P(),C()}}),J={};async function Q(){try{const t=await e.readFile(V,"utf-8"),r=JSON.parse(t);return r.access_token&&r.refresh_token?r:null}catch{return null}}async function G(t){await e.mkdir(W,{recursive:!0,mode:448}),await e.writeFile(V,JSON.stringify(t,null,2),{mode:384})}async function K(){const e=await Q();return!!e&&e.expires_at>Date.now()+6e4}function Y(e){return e.expires_at>Date.now()+6e4}async function Z(){try{await e.unlink(V)}catch{}}function X(){return V}A(J,{clearCredentials:()=>Z,getCredentialsPath:()=>X,hasValidCredentials:()=>K,isTokenValid:()=>Y,readCredentials:()=>Q,writeCredentials:()=>G});var ee,te,re,ie,ae,ne,se,oe=E({"src/auth/token-store.ts"(){W=r.join(t.homedir(),".atoms"),V=r.join(W,"credentials.json")}}),de={};async function le(){try{await e.mkdir(ee,{recursive:!0,mode:448});const t=await e.open(te,"wx");try{await t.writeFile(`${process.pid} ${Date.now()}`)}finally{await t.close()}return!0}catch(e){if("EEXIST"===e.code)return!1;throw e}}async function ce(){try{await e.unlink(te)}catch{}}async function pe(){try{const t=await e.stat(te);return Date.now()-t.mtimeMs>re}catch{return!1}}async function me(e,t,r=se){const i=r.now()+ie;for(;;){if(await r.tryAcquire())try{try{return await e()}catch{}return await t()}finally{await r.release()}try{return await e()}catch{}if(await r.isStale())await r.release();else{if(r.now()>i)return await t();await r.wait(ae)}}}A(de,{runExclusiveAuth:()=>me});var ue,_e,fe,he=E({"src/auth/lock.ts"(){ee=r.join(t.homedir(),".atoms"),te=r.join(ee,".auth.lock"),re=7e4,ie=12e4,ae=300,ne=e=>new Promise(t=>setTimeout(t,e)),se={now:Date.now,wait:ne,tryAcquire:le,release:ce,isStale:pe}}}),ge={};function ye(e){return e.trim().replace(/\/+$/,"")}A(ge,{ATOMS_APP_URL:()=>fe,ATOMS_SUPABASE_ANON_KEY:()=>_e,ATOMS_SUPABASE_URL:()=>ue,resolveUrl:()=>ye});var we=E({"src/config.ts"(){ue=ye(process.env.ATOMS_SUPABASE_URL??"https://gmebjyhomsbvhrxffzre.supabase.co"),_e=process.env.ATOMS_SUPABASE_ANON_KEY??"sb_publishable_b49MUAB8XCrQiF7x5b9lUA_w1aplSBH",fe=process.env.ATOMS_APP_URL??"https://atoms.tech"}}),ve={};async function be(){const e=process.env.ATOMS_ACCESS_TOKEN;if(e){const t=Se(e);return{access_token:e,refresh_token:"",user_id:t.sub,email:t.email??""}}const t=await Q();if(t&&t.expires_at>Date.now()+6e4){const e=Se(t.access_token);return{access_token:t.access_token,refresh_token:t.refresh_token,user_id:e.sub,email:e.email??t.user_email??""}}return null}async function je(){const e=await be();if(e)return e;const t=await Q();if(!t)throw new Error("Not authenticated. Run 'npx @atoms-tech/atoms-mcp login' to connect your ATOMS account.");return me(async()=>{const e=await be();if(e)return e;throw new Error("no fresh token yet")},()=>async function(e){process.stderr.write("[atoms-mcp] Refreshing access token...\n");const t=i.createClient(ue,_e);let r=await t.auth.refreshSession({refresh_token:e.refresh_token});if(r.error||!r.data.session){const i=await Q();if(i&&i.expires_at>Date.now()+6e4){const e=Se(i.access_token);return{access_token:i.access_token,refresh_token:i.refresh_token,user_id:e.sub,email:e.email??i.user_email??""}}i&&i.refresh_token&&i.refresh_token!==e.refresh_token&&(process.stderr.write("[atoms-mcp] Refresh token was rotated by another session; retrying with the latest...\n"),r=await t.auth.refreshSession({refresh_token:i.refresh_token}))}if(r.error||!r.data.session){const e=r.error?[r.error.status,r.error.message].filter(Boolean).join(" ").trim():"no session returned";throw new Error(`Token refresh failed (${e}). 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Call getClient() first.");return xe}function $e(){return Ee??""}async function Pe(e,t){const r=De(),{data:i,error:a}=await e.from("projects").select("org_id").eq("id",t).maybeSingle();if(a||!i)throw new Error(`Project '${t}' not found`);const{data:n,error:s}=await e.from("org_members").select("role").eq("user_id",r).eq("org_id",i.org_id).maybeSingle();if(s||!n){const{data:t}=await e.rpc("is_platform_admin");if(!0===t)return"admin";throw new Error("Not a member of this project's organization")}if("viewer"===n.role)throw new Error("VIEWER_ROLE");return n.role}async function Ue(e,t){const r=De(),{data:i,error:a}=await e.from("projects").select("org_id, created_by").eq("id",t).maybeSingle();if(a||!i)throw new Error(`Project '${t}' not found`);const{data:n,error:s}=await e.from("org_members").select("role").eq("user_id",r).eq("org_id",i.org_id).maybeSingle();if(s||!n)throw new Error("Not a member of this project's organization");if("admin"===n.role)return"admin";if(i.created_by===r)return"owner";throw new Error("PROJECT_FIELD_ADMIN_OR_OWNER_REQUIRED")}A(Oe,{getClient:()=>qe,getUserEmail:()=>$e,getUserId:()=>De,invalidateClient:()=>ze,isJwtExpiredError:()=>Me,requireProjectFieldDefinitionAccess:()=>Ue,requireWriteAccess:()=>Pe,withJwtRetry:()=>He});var Te,Ce,Ne=E({"src/db/client.ts"(){Re(),oe(),we(),ke=null,xe=null,Ee=null,Ae=0,Ie=0}}),Fe={};async function Le(){const e=n.randomBytes(32).toString("base64url"),t=n.createHash("sha256").update(e).digest("base64url"),r=`http://localhost:${Te}${Ce}`,i=new s.URL(`${fe}/auth/mcp-consent`);return i.searchParams.set("redirect_uri",r),i.searchParams.set("code_challenge",t),i.searchParams.set("code_challenge_method","S256"),new Promise((t,r)=>{let n;function o(){clearTimeout(n)}const d=a.createServer(async(i,a)=>{const n=new s.URL(i.url??"/",`http://localhost:${Te}`);if(n.pathname!==Ce)return a.writeHead(404),void a.end("Not found");try{if("access_denied"===n.searchParams.get("error"))return a.writeHead(200,{"Content-Type":"text/html"}),a.end(Ve("Authorization was cancelled.")),o(),d.close(),void r(new Error("Authorization cancelled by user."));const i=n.searchParams.get("code");if(i){const n=await fetch(`${ue}/auth/v1/token?grant_type=pkce`,{method:"POST",headers:{"Content-Type":"application/json",apikey:_e},body:JSON.stringify({auth_code:i,code_verifier:e})}),s=await n.json();if(!n.ok||!s.access_token){const e=s.error_description??s.msg??"Unknown error";return a.writeHead(200,{"Content-Type":"text/html"}),a.end(Ve(`Code exchange failed: ${e}`)),o(),d.close(),void r(new Error(`Code exchange failed: ${e}`))}let l="authenticated";try{l=JSON.parse(Buffer.from(s.access_token.split(".")[1],"base64").toString()).email??l}catch{}const{createClient:c}=await import("@supabase/supabase-js"),p=c(ue,_e,{global:{headers:{Authorization:`Bearer ${s.access_token}`}}}),{data:m,error:u}=await p.from("org_members").select("org_id").limit(1);return u||!m||0===m.length?(a.writeHead(200,{"Content-Type":"text/html"}),a.end(Ve('No ATOMS account found for this Google account.<br><br>Please sign up at <a href="https://atoms.tech">atoms.tech</a> first, then run this login command again.')),o(),d.close(),void r(new Error("No ATOMS account found. Sign up at atoms.tech first."))):s.refresh_token?(await G({access_token:s.access_token,refresh_token:s.refresh_token,expires_at:Date.now()+1e3*(s.expires_in??3600),user_email:l}),a.writeHead(200,{"Content-Type":"text/html"}),a.end(We(l)),o(),d.close(),void t({email:l})):(a.writeHead(200,{"Content-Type":"text/html"}),a.end(Ve("Sign-in succeeded but no refresh token was issued, so the session would expire within the hour. This usually points to a Supabase Auth setting (refresh-token rotation or session policy). Please contact ATOMS support.")),o(),d.close(),void r(new Error("No refresh token issued by Supabase — cannot persist a durable session.")))}const s=n.searchParams.get("access_token"),l=n.searchParams.get("refresh_token"),c=parseInt(n.searchParams.get("expires_in")??"3600",10);s&&l?(await G({access_token:s,refresh_token:l,expires_at:Date.now()+1e3*c}),a.writeHead(200,{"Content-Type":"text/html"}),a.end(We("authenticated")),o(),d.close(),t({email:"authenticated"})):(a.writeHead(200,{"Content-Type":"text/html"}),a.end("<!DOCTYPE html>\n<html>\n<head><title>ATOMS MCP Login</title></head>\n<body>\n <h1>Completing login...</h1>\n <script>\n const hash = window.location.hash.substring(1);\n const params = new URLSearchParams(hash);\n const data = {\n access_token: params.get('access_token'),\n refresh_token: params.get('refresh_token'),\n expires_in: params.get('expires_in'),\n user_email: ''\n };\n if (data.access_token) {\n // Decode JWT to get email\n try {\n const payload = JSON.parse(atob(data.access_token.split('.')[1]));\n data.user_email = payload.email || '';\n } catch(e) {}\n fetch('/token', {\n method: 'POST',\n headers: { 'Content-Type': 'application/json' },\n body: JSON.stringify(data)\n }).then(() => {\n document.body.innerHTML = '<h1>Login successful! You can close this tab.</h1>';\n }).catch(() => {\n document.body.innerHTML = '<h1>Login failed. Please try again.</h1>';\n });\n } else {\n document.body.innerHTML = '<h1>Login failed — no tokens received.</h1>';\n }\n <\/script>\n</body>\n</html>"))}catch(e){a.writeHead(500),a.end("Authentication failed"),o(),d.close(),r(e)}});d.on("request",async(e,i)=>{if("POST"===e.method&&"/token"===e.url){let a="";e.on("data",e=>{a+=e.toString()}),e.on("end",async()=>{try{const e=JSON.parse(a);await G({access_token:e.access_token,refresh_token:e.refresh_token,expires_at:Date.now()+1e3*(e.expires_in??3600),user_email:e.user_email}),i.writeHead(200,{"Content-Type":"application/json"}),i.end(JSON.stringify({ok:!0})),o(),d.close(),t({email:e.user_email??"authenticated"})}catch(e){i.writeHead(500),i.end("Failed to store credentials"),o(),d.close(),r(e)}})}}),d.listen(Te,"127.0.0.1",async()=>{process.stderr.write("\nOpening browser for ATOMS login...\n"),process.stderr.write(`If the browser doesn't open, visit:\n${i.toString()}\n\n`);try{const{default:e}=await import("open");await e(i.toString())}catch{process.stderr.write("Could not open browser automatically. Please open the URL above.\n")}}),n=setTimeout(()=>{d.close(),r(new Error("Login timed out after 60 seconds. 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One per row.",hazard:"The potential harm, for example unintended braking.",assumptions:"The conditions you assume for the rating, one per line, for example light traffic or a speed limit.",fn:"The system function this row analyses, from the project's function tags.",failure_mode:"How the function fails: no function, loss, partial, degradation or misinterpretation.",scenario:"The driving situation in which the failure is analysed. One per row.",dfmea_s:"Severity: how serious the effect of the failure is for the customer, 1 (no effect) to 10 (safety or regulatory failure without warning).",o:"Occurrence: how likely the cause is, 1 (remote) to 10 (very high).",d:"Detection: how likely current controls detect the cause before it reaches the customer, 1 (certain) to 10 (impossible).",rpn:"Risk priority number: S times O times D. Rows at 100 or above are gaps."},Lt={s:"Severity: a measure of the possible consequences of a hazard. 1 Negligible, 2 Minor, 3 Serious, 4 Critical, 5 Catastrophic (ISO 14971).",p1:"P1: the probability of a hazardous situation occurring. 1 Improbable, 2 Remote, 3 Occasional, 4 Probable, 5 Frequent (the example scale of ISO 14971:2007 Annex D, kept in ISO/TR 24971).",p2:"P2: the probability that the hazardous situation leads to harm, given that it occurs. 1 to 5 on the same scale (ISO 14971:2007 Annex D, ISO/TR 24971).",p0:"P0: the overall probability of harm, looked up from P1 and P2 on the 5 by 5 probability table.",risk:"Risk: the combination of the probability of harm and its severity, looked up from P0 and S. 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This requirement stays at its approved revision until a human approver approves the change; no MCP tool can approve, dismiss, or apply it.`}}function jn(e){return{id:e,outcome:"under_review",message:"This requirement is under change control. Your edit was submitted; if it changed the requirement's meaning it is now a change awaiting a human approver, otherwise it wrote through live. Reload the item to confirm. No MCP tool can approve, dismiss, or apply a change."}}var Sn=E({"src/core/change-control.ts"(){}}),kn={};async function xn(e){try{const t=await qe(),r=De();try{await Pe(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ei(si("Viewer"));throw e}const i=async(i,a,n,s)=>{const o=await Hi(t,e.project_id,i);if(!o)return{updated_fields:[],error:`Item "${i}" not found`};const d="approved"===o.approval_state;void 0!==a.title&&(a.title=ji(a.title)),void 0!==a.body&&(a.body=ji(a.body)),void 0!==a.summary&&(a.summary=ji(a.summary)),void 0!==a.level&&(a.level=ji(a.level)),void 0!==a.domains&&(a.domains=a.domains.map(e=>ji(e)));const l=void 0!==a.domains?a.domains.map(ti).filter(e=>e.length>0):void 0,c=void 0!==a.level?ti(a.level):void 0;if(void 0!==l&&l.length>0){const{data:r,error:i}=await t.from("metadata").select("domains, function_tags").eq("project_id",e.project_id).maybeSingle();if(i)throw new Error(`metadata read failed: ${i.message}`);const a=r?.domains??[],n=Fr(l,Nr(r?.function_tags),ti);if(n.length>0)return{updated_fields:[],error:Lr(n)};if(a.length>0){const e=new Set(a.map(ti).filter(e=>e.length>0)),t=l.filter(t=>!e.has(t));if(t.length>0)return{updated_fields:[],error:`Unknown domains: ${t.join(", ")}`}}}const p={...o.data},m={...o.data},u=[],_=(e,t)=>JSON.stringify(e)!==JSON.stringify(t);if(void 0!==a.title&&_(o.data.title,a.title)&&(m.title=a.title,u.push("title")),void 0!==a.body&&_(o.data.body,a.body)&&(m.body=a.body,u.push("body")),void 0!==a.summary&&_(o.data.summary,a.summary)&&(m.summary=a.summary,u.push("summary")),void 0!==l&&_(o.data.tags?.domains??[],l)&&(m.tags={...m.tags,domains:l},u.push("domains")),void 0!==c&&_(o.data.tags?.level,c)&&(m.tags={...m.tags,level:c},u.push("level")),void 0!==a.status&&_(o.data.status,a.status)&&(m.status=a.status,u.push("status")),void 0!==a.req_type){const e=Va(a.req_type,o.type);if(e)return{updated_fields:[],error:e};_(o.data.req_type,a.req_type)&&(m.req_type=a.req_type,u.push("req_type"))}if(void 0!==a.steps&&_(o.data.steps,a.steps)&&(m.steps=a.steps,u.push("steps")),void 0!==a.params&&_(o.data.params,a.params)&&(m.params=a.params,u.push("params")),void 0!==a.fields&&Object.keys(a.fields).length>0){const{getProjectFields:r,validateProjectFieldValuesForWrite:i,canonicalizeFieldKeys:n}=await Promise.resolve().then(()=>(gn(),en)),s=await r(t,e.project_id),d=await i(t,e.project_id,s,a.fields);if(d.error)return{updated_fields:[],error:d.error};const l=n(s,o.data.fields??{});for(const[e,t]of Object.entries({...n(s,a.fields),...d.fields??{}}))""===t?delete l[e]:l[e]=t;_(o.data.fields??{},l)&&(m.fields=l,u.push("fields"))}if(0===u.length)return{updated_fields:[],updatedData:o.data,itemType:o.type};m.metadata={...m.metadata,updated_at:(new Date).toISOString(),updated_by:r};const f=a.title??o.title,{data:h,error:g}=await t.rpc("save_item_with_revision",{p_item_id:i,p_project_id:e.project_id,p_type:o.type,p_title:f,p_data:m,p_user_id:r,p_event_source:"mcp",p_event_session_id:Mo()??null,p_diff_summary:null,p_expected_updated_at:a.expected_updated_at??o.updated_at});if(g)return{updated_fields:[],error:g};if(!h)return{updated_fields:[],error:`Update silently failed for "${i}" — RPC returned no row. Likely RLS policy denied the write; verify your role and project access.`};u.includes("level")&&c&&await Pa(t,e.project_id,c);const y={item_id:i,project_id:e.project_id,changed_by:r,event_type:"updated",old_data:p,new_data:m,actor:Ho(),session_id:Mo()};if(n&&(y.batch_id=n),s&&(y.reason=s),await t.from("change_history").insert(y).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)}),d&&function(e){return e.some(e=>"title"===e||"body"===e||"type"===e)}(u)){const r=await async function(e,t,r){const{data:i,error:a}=await e.from("item_suggestions").select("sg_number").eq("project_id",t).eq("item_id",r).eq("status","open").maybeSingle();return a||!i?null:"number"==typeof i.sg_number?i.sg_number:null}(t,e.project_id,i);return null!==r?{updated_fields:u,updatedData:m,itemType:o.type,capturedSg:r}:{updated_fields:u,updatedData:m,itemType:o.type,capturedUnknown:!0}}return{updated_fields:u,updatedData:m,itemType:o.type}};if(e.updates&&Array.isArray(e.updates)){const t=crypto.randomUUID(),r=!0===e.continue_on_error,a=[],n=[];for(const s of e.updates){const{updated_fields:o,capturedSg:d,capturedUnknown:l,error:c}=await i(s.item_id,s,t,e.reason);if(c){if(wi(c))return Ei(yi(c));if(!r){const e=c instanceof Error?c.message:String("object"==typeof c&&c&&"message"in c?c.message??"":c);return Ei(oi(`Batch stopped at "${s.item_id}": ${e}. ${a.length} item(s) already updated.`))}n.push({item_id:s.item_id,error:String(c)})}else void 0!==d?a.push(bn(s.item_id,d)):l?a.push(jn(s.item_id)):a.push({id:s.item_id,updated_fields:o})}return xi(ri({batch_id:t,updated:a.length,results:!1===e.echo?void 0:a,errors:n}))}if(!e.item_id)return Ei(oi("Provide either item_id (single) or updates[] (array form)."));const{updated_fields:a,updatedData:n,itemType:s,capturedSg:o,capturedUnknown:d,error:l}=await i(e.item_id,{title:e.title,body:e.body,summary:e.summary,domains:e.domains,level:e.level,status:e.status,req_type:e.req_type,fields:e.fields,steps:e.steps,params:e.params,expected_updated_at:e.expected_updated_at},void 0,e.reason);if(l){const t=l instanceof Error?l.message:String("object"==typeof l&&l&&"message"in l?l.message??"":l);return t.includes("not found")?Ei(ni("Item",e.item_id)):t.includes("Unknown domain")||t.includes("Unknown field")||t.includes("Function-flagged tag")||t.includes("req_type")?Ei(oi(t)):ui(t)||wi(l)?Ei(yi(l)):Ei(vi(t))}if(void 0!==o)return xi(ri(bn(e.item_id,o)));if(d)return xi(ri(jn(e.item_id)));if(!1===e.echo)return xi(ri({id:e.item_id,updated_fields:a}));const c=n??{};return xi(ri({id:e.item_id,type:s,title:c.title??"",summary:c.summary??"",body:c.body??"",domains:c.tags?.domains??[],level:c.tags?.level??"",...c.req_type?{req_type:c.req_type}:{},updated_fields:a}))}catch(e){return Ei(yi(e))}}A(kn,{updateItemHandler:()=>xn});var En,An=E({"src/tools/update-item.ts"(){Ne(),Fi(),$o(),Qa(),Ii(),Wa(),Sn(),Yr()}}),In={};async function Rn(e){try{const t=await qe(),r=De();try{await Pe(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ei(si("Viewer"));throw e}const i=await async function(e,t,r){const{data:i,error:a}=await e.from("items").select("*").eq("id",r).eq("project_id",t).maybeSingle();if(a)throw new Error(a.message);return i}(t,e.project_id,e.item_id);if(!i)return Ei(ni("Item",e.item_id));if(i.deleted_at)return Ei(oi(`Item ${e.item_id} is already deleted`));if(Ia(En)){const t={tool:En,project_id:e.project_id,target:e.item_id};if(!e.confirmation_token){const r=Ra(t);return xi(ri({status:"confirmation_required",preview:{id:e.item_id,title:i.title,type:i.type,would_soft_delete:!0},confirmation_token:r.token,expires_at:r.expires_at,expires_in_seconds:r.expires_in_seconds,message:`Re-call atoms_delete_item with the same project_id, item_id, and confirmation_token within ${r.expires_in_seconds}s to execute.`}))}const r=Oa(e.confirmation_token,t);if(!r.valid)return Ei(oi(`confirmation_token rejected: ${r.reason}`))}const{error:a}=await t.rpc("soft_delete_item_with_revision",{p_item_id:e.item_id,p_project_id:e.project_id,p_user_id:r,p_expected_updated_at:i.updated_at,p_event_source:"mcp",p_actor:Ho(),p_session_id:Mo()});if(a)throw new Error(a.message);return xi(ri({id:e.item_id,title:i.title,type:i.type,deleted:!0,message:`Item ${e.item_id} soft-deleted. It can still be found in audit logs.`}))}catch(e){return Ei(yi(e))}}A(In,{deleteItemHandler:()=>Rn});var On=E({"src/tools/delete-item.ts"(){Ne(),Fi(),$o(),Ma(),Ii(),En="atoms_delete_item"}}),qn={};async function zn(e){try{const t=await qe(),r=De();try{await Pe(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ei(si("Viewer"));throw e}const{data:i,error:a}=await t.from("items").select("*").eq("id",e.item_id).eq("project_id",e.project_id).maybeSingle();if(a)throw new Error(a.message);if(!i)return Ei(ni("Item",e.item_id));if(!i.deleted_at)return Ei(ai(`Item ${e.item_id} is not deleted and cannot be restored.`,["Use atoms_get_item to view the current item state","Use atoms_delete_item first if you intended to delete it"]));const{error:n}=await t.rpc("save_item_with_revision",{p_item_id:e.item_id,p_project_id:e.project_id,p_type:i.type,p_title:i.title,p_data:i.data,p_user_id:r,p_event_source:"restore",p_event_session_id:Mo()??null,p_diff_summary:{changed_fields:["deleted_at"],restored:!0},p_expected_updated_at:i.updated_at});if(n)throw new Error(n.message);const{error:s}=await t.rpc("repair_live_item_relationships_from_jsonb",{p_project_id:e.project_id,p_item_id:e.item_id});if(s)throw new Error(`Relationship repair failed: ${s.message}`);return await t.from("change_history").insert({item_id:e.item_id,project_id:e.project_id,changed_by:r,event_type:"restored",old_data:null,new_data:i.data,actor:Ho(),session_id:Mo()}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)}),xi(ri({id:e.item_id,title:i.title,type:i.type,restored:!0,message:`Item ${e.item_id} restored successfully.`}))}catch(e){return Ei(yi(e))}}A(qn,{restoreItemHandler:()=>zn});var Mn=E({"src/tools/restore-item.ts"(){Ne(),$o(),Ii()}}),Hn={};async function Dn(e){try{const t=await qe(),r=De();try{await Pe(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ei(si("Viewer"));throw e}const i=async(i,a,n)=>{const s=await Hi(t,e.project_id,i.from_id);if(!s)throw new Error(`Item "${i.from_id}" not found`);const o=await Hi(t,e.project_id,i.to_id);if(!o)throw new Error(`Item "${i.to_id}" not found`);const{error:d}=await t.rpc("apply_link_change",{p_project_id:e.project_id,p_from_id:i.from_id,p_to_id:i.to_id,p_type:i.type,p_action:i.action,p_user_id:r,p_event_source:"mcp",p_expected_from_updated_at:i.expected_from_updated_at??s.updated_at,p_expected_to_updated_at:i.expected_to_updated_at??o.updated_at});if(d)throw new Error(d.message);const l={item_id:i.from_id,project_id:e.project_id,changed_by:r,event_type:"updated",old_data:null,new_data:{relationship_change:{action:i.action,type:i.type,from:i.from_id,to:i.to_id}},actor:Ho(),session_id:Mo()};a&&(l.batch_id=a),n&&(l.reason=n),await t.from("change_history").insert(l).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)})};if(e.operations&&Array.isArray(e.operations)){for(const t of e.operations)if(t.from_id===t.to_id)return Ei(oi(`Self-reference in batch: "${t.from_id}"`));const r=[...new Set(e.operations.flatMap(e=>[e.from_id,e.to_id]))],{data:a}=await t.from("items").select("id").eq("project_id",e.project_id).is("deleted_at",null).in("id",r),n=new Set((a??[]).map(e=>e.id)),s=r.filter(e=>!n.has(e));if(s.length>0)return Ei(ni("Items",s.join(", ")));const{data:o}=await t.from("item_relationships").select("from_id, to_id, type").eq("project_id",e.project_id),d=new Map;for(const e of o??[])"parent"===e.type&&(d.has(e.from_id)||d.set(e.from_id,new Set),d.get(e.from_id).add(e.to_id));for(const t of e.operations){if("parent"!==t.type&&"child"!==t.type)continue;const[e,r]="parent"===t.type?[t.from_id,t.to_id]:[t.to_id,t.from_id];"remove"===t.action?d.get(e)?.delete(r):(d.has(e)||d.set(e,new Set),d.get(e).add(r))}const l=0,c=1,p=2,m=new Map,u=new Set;for(const[e,t]of d){u.add(e);for(const e of t)u.add(e)}const _=e=>{if((m.get(e)??l)!==l)return null;const t=[],r=[],i=e=>{m.set(e,c),r.push(e),t.push({node:e,parents:[...d.get(e)??[]],idx:0})};for(i(e);t.length>0;){const e=t[t.length-1];if(e.idx>=e.parents.length){m.set(e.node,p),r.pop(),t.pop();continue}const a=e.parents[e.idx];e.idx++;const n=m.get(a)??l;if(n===c){const e=r.indexOf(a);return[...r.slice(e),a]}n!==p&&i(a)}return null};for(const e of u){const t=_(e);if(t)return Ei(oi(`Batch would create a cycle: ${t.join(" -> ")}. No changes applied.`))}const f=crypto.randomUUID(),h=e.operations.filter(e=>"remove"===e.action),g=e.operations.filter(e=>"add"===e.action);for(const t of[...h,...g])await i(t,f,e.reason);return xi(ri({batch_id:f,processed:e.operations.length,operations:!1===e.echo?void 0:e.operations}))}return e.from_id&&e.to_id&&e.type&&e.action?e.from_id===e.to_id?Ei(oi("Cannot create a relationship between an item and itself")):(await i({action:e.action,from_id:e.from_id,to_id:e.to_id,type:e.type,expected_from_updated_at:e.expected_from_updated_at,expected_to_updated_at:e.expected_to_updated_at},void 0,e.reason),!1===e.echo?xi(ri({action:e.action,from_id:e.from_id,to_id:e.to_id})):xi(ri({action:e.action,type:e.type,from_id:e.from_id,to_id:e.to_id,message:`Relationship ${"add"===e.action?"added":"removed"}: ${e.from_id} --[${e.type}]--\x3e ${e.to_id}`}))):Ei(oi("Provide (from_id, to_id, type, action) for single-op or operations[] for batch."))}catch(e){return Ei(yi(e))}}A(Hn,{linkItemsHandler:()=>Dn});var $n=E({"src/tools/link-items.ts"(){Ne(),Fi(),$o(),Ii()}}),Pn=E({"src/core/bulk-parent-links.ts"(){}}),Un={};function Tn(e){return new Set(["22023","23503","23505","23514"]).has(e.code??"")}async function Cn(e){try{if(!e.items||0===e.items.length)return Ei(oi("items array must contain at least 1 item"));if(e.items.length>100)return Ei(oi(`Maximum 100 items per call (received ${e.items.length}). Split into multiple calls.`));const t=await qe(),r=De();try{await Pe(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ei(si("Viewer"));throw e}const i=await async function(e,t,r){const{data:i,error:a}=await e.from("metadata").select("domains, function_tags").eq("project_id",t).maybeSingle();if(a)throw new Error(`metadata read failed: ${a.message}`);const n=i?.domains??[],s=Nr(i?.function_tags),o=n.length>0?new Set(n.map(ti).filter(e=>e.length>0)):null,d=za(n.map(ti).filter(e=>e.length>0).sort()),l=[],c=new Set,p={};for(let e=0;e<r.length;e++){const t=r[e];p[t.type]=(p[t.type]??0)+1;const i=(t.domains??[]).map(ti).filter(e=>e.length>0);if(0===i.length)continue;const a=Fr(i,s,ti);if(a.length>0){c.add(e),l.push({index:e,title:t.title,error:Lr(a)});continue}if(!o)continue;const d=i.filter(e=>!o.has(e));d.length>0&&(c.add(e),l.push({index:e,title:t.title,error:`Unknown domain${d.length>1?"s":""}: ${d.join(", ")}. Registered: ${n.join(", ")}.`}))}return{registeredDomains:n,registeredDomainHash:d,invalidDomainIndexes:c,errors:l,typeBreakdown:p}}(t,e.project_id,e.items);if(Ia("atoms_bulk_import")){const t={tool:"atoms_bulk_import",project_id:e.project_id,target:za({items:e.items,registered_domain_hash:i.registeredDomainHash})};if(!e.confirmation_token){const r=Ra(t);return xi(ri({status:"confirmation_required",preview:{total_items:e.items.length,by_type:i.typeBreakdown,sample_titles:e.items.slice(0,5).map(e=>e.title),would_fail:i.errors.length>0,errors:i.errors,registered_domain_hash:i.registeredDomainHash},confirmation_token:r.token,expires_at:r.expires_at,expires_in_seconds:r.expires_in_seconds,message:`Re-call atoms_bulk_import with the same project_id, items array, and confirmation_token within ${r.expires_in_seconds}s to execute. Changing items or project domains will invalidate the token.`}))}const r=Oa(e.confirmation_token,t);if(!r.valid)return Ei(oi(`confirmation_token rejected: ${r.reason}`))}const a=(new Date).toISOString(),n=Mo(),s=[],o=[...i.errors],d=[],l=new Map,c=async r=>{let i=l.get(r);if(!i){const a=await Ni(t,e.project_id,r),n=/^([A-Z]+)-(\d+)$/.exec(a);if(!n)throw new Error(`Unexpected item id format from next_item_id: ${a}`);i={prefix:n[1],next:Number(n[2])},l.set(r,i)}const a=`${i.prefix}-${String(i.next).padStart(3,"0")}`;return i.next+=1,a};for(let t=0;t<e.items.length;t++){const r=e.items[t];if(i.invalidDomainIndexes.has(t))continue;const a=(r.domains??[]).map(ti).filter(e=>e.length>0),n=void 0!==r.level?ti(r.level):void 0;try{const e=await c(r.type);d.push({itemId:e,input:r,sanitizedDomains:a,sanitizedLevel:n,index:t})}catch(e){o.push({index:t,title:r.title,error:`ID generation failed: ${e instanceof Error?e.message:String(e)}`})}}if(0===d.length)return xi(ri({created:0,items:[],errors:o}));const p=[],m=new Map;for(const{itemId:t,input:i,sanitizedDomains:n,sanitizedLevel:s}of d){const o={id:t,type:i.type,title:i.title,summary:i.summary,body:i.body,tags:{domains:n,level:s??""},ownership:{primary:null,additional:[]},relationships:{parents:i.parent_id?[i.parent_id]:[],children:[],related:[]},links:[],metadata:{created_at:a,created_by:r,updated_at:a,updated_by:r}};m.set(t,o),p.push({id:t,project_id:e.project_id,type:i.type,title:i.title,data:o,created_by:r,updated_by:r})}const u=p.map(e=>({id:e.id,type:e.type,title:e.title,data:e.data})),{error:_}=await t.rpc("bulk_save_items_with_revisions",{p_project_id:e.project_id,p_items:u,p_user_id:r,p_event_source:"mcp"});if(_&&Tn(_))for(const{itemId:i,input:a,index:l}of d){const d=p.find(e=>e.id===i);if(!d)continue;const{error:c}=await t.rpc("save_item_with_revision",{p_item_id:d.id,p_project_id:e.project_id,p_type:d.type,p_title:d.title,p_data:d.data,p_user_id:r,p_event_source:"mcp",p_event_session_id:n,p_diff_summary:null});c?o.push({index:l,title:a.title,error:c.message}):s.push({id:i,title:a.title,type:a.type})}else{if(_)throw _;for(const{itemId:e,input:t}of d)s.push({id:e,title:t.title,type:t.type})}const f=d.filter(({input:e})=>e.parent_id).filter(({itemId:e})=>s.some(t=>t.id===e)).map(({itemId:t,input:r})=>({from_id:t,to_id:r.parent_id,type:"parent",project_id:e.project_id}));await async function(e){for(const t of e.links){const{error:r}=await e.client.rpc("apply_link_change",{p_project_id:e.projectId,p_from_id:t.from,p_to_id:t.to,p_type:"parent",p_action:"add",p_user_id:e.userId,p_event_source:"mcp"});r&&e.warn(`bulk parent link sync failed for ${t.to}: ${r.message??"unknown 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Pe(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ei(si("Viewer"));throw e}const a=await Hi(t,e.project_id,e.item_id);if(!a)return Ei(ni("Item",e.item_id));if("test-case"!==a.type)return Ei(oi(`Item '${e.item_id}' is a ${a.type}, not a test-case`));const n=(e.asset??"").trim(),s=(new Date).toISOString(),{data:o,error:d}=await t.rpc("record_test_results_bulk",{p_project_id:e.project_id,p_item_id:e.item_id,p_run_by:i||r,p_actor_user_id:r,p_results:[{result:e.result,note:e.note,asset:n||void 0,date:s,point:e.point,release_id:e.release_id,build:e.build,environment:e.environment,tooling:e.tooling,steps_rev:e.steps_rev,step_results:e.step_results}]});if(d)throw new Error(d.message);const l=Array.isArray(o)?o[0]:o?.[0];await t.from("change_history").insert({item_id:e.item_id,project_id:e.project_id,changed_by:r,event_type:"test_result_recorded",old_data:null,new_data:{result:e.result,run_at:s,note:e.note,asset:n||null},actor:Ho(),session_id:Mo()}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)});const c=n?` (asset: ${n})`:"";return xi(ri({item_id:e.item_id,result:e.result,run_at:s,run_by:i||r,note:e.note??null,asset:n||null,asset_id:l?.asset_id??null,asset_created:l?.asset_created??!1,message:`Test result '${e.result}' recorded for ${e.item_id}${c}`}))}catch(e){return Ei(yi(e))}}A(Fn,{recordTestResultHandler:()=>Ln});var Wn=E({"src/tools/record-test-result.ts"(){Ne(),Fi(),$o(),Ii()}}),Vn={};async function Bn(e){try{const t=await qe(),r=De(),i=$e();if(!Array.isArray(e.results)||0===e.results.length)return Ei(oi("results must be a non-empty array"));if(e.results.length>100)return Ei(oi(`results must have at most 100 entries (got ${e.results.length})`));try{await Pe(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ei(si("Viewer"));throw e}const a=await Hi(t,e.project_id,e.item_id);if(!a)return Ei(ni("Item",e.item_id));if("test-case"!==a.type)return Ei(oi(`Item '${e.item_id}' is a ${a.type}, not a test-case`));const{data:n,error:s}=await t.rpc("record_test_results_bulk",{p_project_id:e.project_id,p_item_id:e.item_id,p_run_by:i||r,p_actor_user_id:r,p_results:e.results});if(s)throw new Error(s.message);return t.from("change_history").insert({item_id:e.item_id,project_id:e.project_id,changed_by:r,event_type:"test_result_recorded",old_data:null,new_data:{bulk:!0,count:e.results.length,results:n},actor:Ho(),session_id:Mo()}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)}),xi(ri({item_id:e.item_id,count:e.results.length,results:n,message:`Recorded ${e.results.length} test results for ${e.item_id}`}))}catch(e){return Ei(yi(e))}}A(Vn,{recordTestResultsBulkHandler:()=>Bn});var Jn,Qn,Gn,Kn,Yn=E({"src/tools/record-test-results-bulk.ts"(){Ne(),Fi(),$o(),Ii()}});function Zn(e){return Math.min(Math.max(e??5,1),10)}var Xn=E({"src/core/trace-graph.ts"(){Jn=200,Qn=new Set(["parent","verifies","mitigated_by"]),Gn=new Set(["child","verified_by","mitigates"]),Kn={parent:"child",child:"parent",verifies:"verified_by",verified_by:"verifies",mitigated_by:"mitigates",mitigates:"mitigated_by",related:"related"}}}),es={};async function ts(e){try{const t=Zn(e.depth),r=await qe(),i=await Hi(r,e.project_id,e.item_id);if(!i)return Ei(ni("Item",e.item_id));const{data:a,error:n}=await r.from("items").select("id, title, type, data").eq("project_id",e.project_id).is("deleted_at",null);if(n)throw new Error(n.message);const{data:s,error:o}=await r.from("item_relationships").select("from_id, to_id, type").eq("project_id",e.project_id);if(o)throw new Error(o.message);const d=Ci(a??[],s??[]);return xi(ri(function(e){const t=Zn(e.depth),r=e.relationshipTypes?.length?new Set(e.relationshipTypes):null,i=new Map(e.items.map(e=>[e.id,e]));i.has(e.rootItemId)||i.set(e.rootItemId,e.rootItem);const a=new Map,n=(e,t,r)=>{a.has(e)||a.set(e,[]),a.get(e).push({neighbor:t,relType:r})};for(const t of e.relationships){const i=t.type;if(("upstream"===e.direction||"both"===e.direction)&&(!Qn.has(i)||r&&!r.has(i)||n(t.from_id,t.to_id,i),Gn.has(i))){const e=Kn[i]??i;r&&!r.has(e)||n(t.to_id,t.from_id,e)}if(("downstream"===e.direction||"both"===e.direction)&&(!Gn.has(i)||r&&!r.has(i)||n(t.from_id,t.to_id,i),Qn.has(i))){const e=Kn[i]??i;r&&!r.has(e)||n(t.to_id,t.from_id,e)}"related"!==i||r&&!r.has("related")||(n(t.from_id,t.to_id,"related"),n(t.to_id,t.from_id,"related"))}const s=new Set([e.rootItemId]),o=[],d=[],l=[];for(const t of a.get(e.rootItemId)??[])l.push({id:t.neighbor,depth:1,relType:t.relType,from:e.rootItemId});for(;l.length>0&&o.length<Jn;){const{id:e,depth:r,relType:n,from:c}=l.shift();if(s.has(e)||r>t)continue;s.add(e);const p=i.get(e);if(p&&(o.push({id:e,title:p.title,type:p.type,relationship:n,depth:r,from:c}),d.push({from:c,to:e,type:n}),r<t))for(const t of a.get(e)??[])s.has(t.neighbor)||l.push({id:t.neighbor,depth:r+1,relType:t.relType,from:e})}const c={id:e.rootItemId,title:e.rootItem.title,type:e.rootItem.type,relationship:"root",depth:0,from:e.rootItemId};return{root:e.rootItemId,project_id:e.projectId,direction:e.direction,depth_limit:t,items:[c,...o],edges:d,total_count:o.length+1,...o.length>=Jn?{truncated:!0,truncation_message:`Results capped at ${Jn} items. Use a smaller depth or filter by relationship_types.`}:{}}}({projectId:e.project_id,rootItemId:e.item_id,rootItem:{id:e.item_id,title:i.title??e.item_id,type:i.type??"unknown"},items:a??[],relationships:d??[],direction:e.direction,depth:t,relationshipTypes:e.relationship_types})))}catch(e){return e instanceof Error&&e.message.includes("Not authenticated")?Ei(di()):Ei(vi(e instanceof Error?e.message:String(e)))}}A(es,{traceHandler:()=>ts});var rs=E({"src/tools/trace.ts"(){Ne(),Fi(),Xn(),Ii()}}),is={};async function as(e){try{let t=(await qe()).from("assets").select("id, name, archived_at, created_at").eq("project_id",e.project_id).order("name");e.include_archived||(t=t.is("archived_at",null));const{data:r,error:i}=await t;if(i)throw new Error(i.message);return xi(ri({assets:r||[],total:(r||[]).length}))}catch(e){return e instanceof Error&&e.message.includes("Not authenticated")?Ei(di()):Ei(vi(e instanceof Error?e.message:String(e)))}}A(is,{listAssetsHandler:()=>as});var ns=E({"src/tools/assets.ts"(){Ne(),Ii()}}),ss={};async function os(e,t,r,i){if(r&&i)throw new Error("baseline_id and as_of are mutually exclusive");if(i)return i;if(!r)return null;const{data:a,error:n}=await e.from("baselines").select("project_id, snapshot_at, deleted_at").eq("id",r).maybeSingle();if(n)throw new Error(n.message);if(!a||a.project_id!==t||a.deleted_at)throw new Error("Baseline not found for this project");return a.snapshot_at}async function ds(e,t,r){if(r){const{data:i,error:a}=await e.rpc("variables_at",{p_project_id:t,p_snapshot_at:r});if(a)throw new Error(a.message);return i??[]}const{data:i,error:a}=await e.from("project_variables").select("*").eq("project_id",t).order("name");if(a)throw new Error(a.message);return i??[]}async function ls(e,t,r,i){const{data:a,error:n}=await e.rpc("save_variable_with_revision",{p_project_id:t.project_id,p_name:t.name,p_value:t.value,p_unit:t.unit??null,p_description:t.description??null,p_is_signal:t.is_signal??!1,p_range_min:t.range_min??null,p_range_max:t.range_max??null,p_rate_ms:t.rate_ms??null,p_user_id:r,p_event_source:i,p_variable_id:t.id??null});if(n)throw new Error(n.message);return a}async function cs(e){try{const t=await qe(),r=await os(t,e.project_id,e.baseline_id,e.as_of),i=await ds(t,e.project_id,r),a=e.limit??50,n=e.offset??0;return xi(ri({variables:i.slice(n,n+a),total:i.length},ii(i.length,a,n)))}catch(e){return e instanceof Error&&e.message.includes("Not authenticated")?Ei(di()):Ei(vi(e instanceof Error?e.message:String(e)))}}async function ps(e){try{const t=await qe(),r=await os(t,e.project_id,e.baseline_id,e.as_of),i=(await ds(t,e.project_id,r)).find(t=>t.name===e.variable_name)??null;if(!i)return Ei(ni("Variable",e.variable_name));const{data:a}=await t.from("items").select("id, title, type, data").eq("project_id",e.project_id).is("deleted_at",null),n=`{${e.variable_name}}`,s=(a||[]).filter(e=>(e.data?.body||"").includes(n));return xi(ri({variable:i,referenced_by:s.map(e=>({id:e.id,title:e.title,type:e.type})),reference_count:s.length}))}catch(e){return e instanceof Error&&e.message.includes("Not authenticated")?Ei(di()):Ei(vi(e instanceof Error?e.message:String(e)))}}async function ms(e){try{const t=await qe(),r=De();try{await Pe(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ei(si("Viewer"));throw e}const i=await t.from("project_variables").select("*").eq("project_id",e.project_id).eq("name",e.variable_name).maybeSingle();if(!i.data)return Ei(ni("Variable",e.variable_name));const a={updated_by:r,updated_at:(new Date).toISOString()};return void 0!==e.value&&(a.value=e.value),void 0!==e.unit&&(a.unit=e.unit||null),void 0!==e.description&&(a.description=e.description||null),xi(ri({variable:await ls(t,{...i.data,...a,project_id:e.project_id,name:e.variable_name,value:a.value??i.data.value,unit:a.unit??i.data.unit,description:a.description??i.data.description},r,"mcp")}))}catch(e){return e instanceof Error&&e.message.includes("Not authenticated")?Ei(di()):Ei(vi(e instanceof Error?e.message:String(e)))}}async function us(e){try{const t=await qe(),r=De();try{await Pe(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ei(si("Viewer"));throw e}const i=/^[a-zA-Z_][a-zA-Z0-9_]*$/;if(e.variables&&Array.isArray(e.variables)){const a=e.variables.filter(e=>!i.test(e.name));if(a.length>0)return Ei(oi(`Invalid variable name(s): ${a.map(e=>e.name).join(", ")}. Use letters, digits, underscores; must start with letter or underscore.`));const n=e.variables.map(e=>e.name),s=n.map(e=>e.toLowerCase()),o=n.filter((e,t)=>s.indexOf(s[t])!==t);if(o.length>0)return Ei(oi(`Duplicate names in batch (case-insensitive): ${[...new Set(o)].join(", ")}`));const{data:d}=await t.from("project_variables").select("name").eq("project_id",e.project_id),l=new Set((d??[]).map(e=>e.name.toLowerCase())),c=n.filter(e=>l.has(e.toLowerCase()));if(c.length>0)return Ei(oi(`Variable(s) already exist (case-insensitive): ${c.join(", ")}. Remove them from the batch or use atoms_update_variable to change values.`));const p=e.variables.map(t=>({project_id:e.project_id,name:t.name,value:t.value,unit:t.unit??null,description:t.description??null,created_by:r,updated_by:r})),m=await async function(e,t,r,i){const{data:a,error:n}=await e.rpc("bulk_save_variables_with_revisions",{p_project_id:t,p_variables:r,p_user_id:i,p_event_source:"mcp"});if(n)throw new Error(n.message);return a??[]}(t,e.project_id,p,r);return xi(ri({batch_id:crypto.randomUUID(),created:(m??[]).length,variables:!1===e.echo?(m??[]).map(e=>({name:e.name})):m??[],message:`${(m??[]).length} variable(s) created. Reference them as {name} in requirement bodies.`}))}if(!e.name||!e.value)return Ei(oi("Provide either (name, value) for single variable or variables[] for batch."));if(!i.test(e.name))return Ei(oi(`Variable name "${e.name}" is invalid. Use letters, digits, and underscores only; must start with a letter or underscore.`));const{data:a}=await t.from("project_variables").select("name").eq("project_id",e.project_id),n=(a??[]).find(t=>t.name.toLowerCase()===e.name.toLowerCase());if(n)return Ei(oi(`Variable "${n.name}" already exists in this project (names are unique regardless of case).`));const s=await ls(t,{project_id:e.project_id,name:e.name,value:e.value,unit:e.unit??null,description:e.description??null},r,"mcp");return!1===e.echo?xi(ri({name:e.name})):xi(ri({variable:s,message:`Variable "${e.name}" created. Reference it in requirement bodies as {${e.name}}.`}))}catch(e){return e instanceof Error&&e.message.includes("Not authenticated")?Ei(di()):Ei(vi(e instanceof Error?e.message:String(e)))}}async function _s(e){try{const t=await qe(),r=De();try{await Pe(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ei(si("Viewer"));throw e}const{data:i}=await t.from("project_variables").select("id").eq("project_id",e.project_id).eq("name",e.name).maybeSingle();if(!i)return Ei(ni("Variable",e.name));const{data:a}=await t.from("items").select("id").eq("project_id",e.project_id).is("deleted_at",null).filter("data->>body","ilike",`%{${e.name}}%`),n=(a??[]).length;if(n>0&&!e.force)return Ei(oi(`Variable "${e.name}" is referenced in ${n} item${n>1?"s":""}. Use force=true to delete anyway, or remove all {${e.name}} references first.`));if(Ia("atoms_delete_variable")){const t={tool:"atoms_delete_variable",project_id:e.project_id,target:e.name};if(!e.confirmation_token){const r=Ra(t);return xi(ri({status:"confirmation_required",preview:{variable_name:e.name,referenced_by_items:n,would_orphan_references:n>0},confirmation_token:r.token,expires_at:r.expires_at,expires_in_seconds:r.expires_in_seconds,message:`Re-call atoms_delete_variable with the same project_id, name, and confirmation_token within ${r.expires_in_seconds}s to execute.`}))}const r=Oa(e.confirmation_token,t);if(!r.valid)return Ei(oi(`confirmation_token rejected: ${r.reason}`))}const s=await async function(e,t,r,i){const{data:a,error:n}=await e.rpc("delete_variable_with_revision",{p_project_id:t,p_variable_id:r,p_user_id:i,p_event_source:"mcp"});if(n)throw new Error(n.message);return Boolean(a)}(t,e.project_id,i.id,r);return s?xi(ri({deleted:!0,name:e.name,referenced_by_items:n,warning:n>0?`${n} item${n>1?"s":""} still contain {${e.name}} — those references are now unresolved.`:void 0})):Ei(ni("Variable",e.name))}catch(e){return e instanceof Error&&e.message.includes("Not authenticated")?Ei(di()):Ei(vi(e instanceof Error?e.message:String(e)))}}A(ss,{createVariableHandler:()=>us,deleteVariableHandler:()=>_s,getVariableHandler:()=>ps,listVariablesHandler:()=>cs,updateVariableHandler:()=>ms});var fs=E({"src/tools/variables.ts"(){Ne(),Ma(),Ii()}}),hs={};async function gs(e,t){const{data:r}=await e.from("metadata").select("domains, levels, function_tags").eq("project_id",t).maybeSingle();return{domains:r?.domains??[],levels:r?.levels??[],functionTags:Array.isArray(r?.function_tags)?r.function_tags.filter(e=>"string"==typeof e):[]}}async function ys(e){try{const t=await qe(),{domains:r,functionTags:i}=await gs(t,e.project_id),a=Fr(r,i),n=new Set(a.map(vr)),s=new Set(i.map(vr)),o=r.filter(e=>!n.has(vr(e))),{counts:d,orphans:l}=await async function(e,t,r){const{data:i}=await e.from("items").select("data").eq("project_id",t).is("deleted_at",null),a={};for(const e of r)a[e]=0;const n={};for(const e of i??[]){const t=e.data?.tags?.domains??[];for(const e of t)n[e]=(n[e]??0)+1,e in a&&a[e]++}const s=new Set(r),o={};for(const[e,t]of Object.entries(n))s.has(e)||(o[e]=t);return{counts:a,orphans:o}}(t,e.project_id,o),c=o.map(e=>({name:e,registered:!0,item_count:d[e]??0})),p=Object.entries(l).filter(([e])=>!s.has(vr(e))).map(([e,t])=>({name:e,registered:!1,item_count:t})).sort((e,t)=>e.name.localeCompare(t.name)),m=[...c,...p];return xi(ri({domains:m,total:m.length,registered_count:c.length,unregistered_count:p.length,excluded_function_tags:a,note:p.length>0?`${p.length} unregistered tag(s) found on items. Use atoms_create_domain to register them, or atoms_update_item to remove them.`:void 0}))}catch(e){return e instanceof Error&&e.message.includes("Not authenticated")?Ei(di()):Ei(vi(e instanceof Error?e.message:String(e)))}}async function ws(e){try{const t=await qe();try{await Pe(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ei(si("Viewer"));throw e}const r=ji(e.name).trim().toLowerCase();if(!r)return Ei(oi("Domain name cannot be empty."));const{data:i,error:a}=await t.rpc("append_project_domain",{p_project_id:e.project_id,p_domain:r});if(a)throw new Error(a.message);return i&&!1===i.added?Ei(oi(`Domain "${r}" already exists in this project.`)):xi(ri({domain:{name:r},message:`Domain "${r}" registered. You can now tag items with domains=["${r}"].`}))}catch(e){return e instanceof Error&&e.message.includes("Not authenticated")?Ei(di()):Ei(vi(e instanceof Error?e.message:String(e)))}}async function vs(e){try{const t=await qe(),r=De();try{await Pe(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ei(si("Viewer"));throw e}const{domains:i}=await gs(t,e.project_id),a=ji(e.name).trim().toLowerCase(),n=ji(e.new_name).trim().toLowerCase();if(!n)return Ei(oi("new_name cannot be empty."));if(!i.includes(a)){const{data:r}=await t.from("items").select("id").eq("project_id",e.project_id).is("deleted_at",null).filter("data->tags->domains","cs",JSON.stringify([a])).limit(1);if(!r||0===r.length)return Ei(ni("Domain",a))}if(n!==a&&i.includes(n))return Ei(oi(`Domain "${n}" already exists. Choose a different name.`));const{data:s,error:o}=await t.from("items").select("id, data").eq("project_id",e.project_id).is("deleted_at",null).filter("data->tags->domains","cs",JSON.stringify([a]));if(o)throw new Error(o.message);const d=(s??[]).length;if(e.dry_run)return xi(ri({dry_run:!0,rename:{from:a,to:n},items_affected:d,message:`Dry run: renaming "${a}" → "${n}" would update ${d} item${1!==d?"s":""}. Call again with dry_run=false to apply.`}));const{error:l}=await t.rpc("mutate_project_domains",{p_project_id:e.project_id,p_action:"rename",p_values:[a,n]});if(l)throw new Error(l.message);const{error:c}=await t.rpc("apply_domain_change",{p_project_id:e.project_id,p_old_domain:a,p_new_domain:n,p_user_id:r,p_event_source:"mcp"});if(c)throw new Error(c.message);return xi(ri({domain:{name:n},renamed_from:a,items_updated:d,message:`Domain renamed "${a}" → "${n}". ${d} item${1!==d?"s":""} updated.`}))}catch(e){return e instanceof Error&&e.message.includes("Not authenticated")?Ei(di()):Ei(vi(e instanceof Error?e.message:String(e)))}}async function bs(e){try{const t=await qe(),r=De();try{await Pe(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ei(si("Viewer"));throw e}const{domains:i}=await gs(t,e.project_id),a=ji(e.name).trim().toLowerCase(),n=i.includes(a),{data:s,error:o}=await t.from("items").select("id, data").eq("project_id",e.project_id).is("deleted_at",null).filter("data->tags->domains","cs",JSON.stringify([a]));if(o)throw new Error(o.message);const d=(s??[]).length;if(!n&&0===d)return Ei(ni("Domain",a));if(d>0&&!e.force)return Ei(oi(`Domain "${a}" is used by ${d} item${d>1?"s":""}. Use force=true to delete and strip the domain from all items, or re-tag them first.`));if(Ia("atoms_delete_domain")){const t={tool:"atoms_delete_domain",project_id:e.project_id,target:a};if(!e.confirmation_token){const e=Ra(t);return xi(ri({status:"confirmation_required",preview:{domain_name:a,items_using_count:d,would_strip_from_items:d>0},confirmation_token:e.token,expires_at:e.expires_at,expires_in_seconds:e.expires_in_seconds,message:`Re-call atoms_delete_domain with the same project_id, name, and confirmation_token within ${e.expires_in_seconds}s to execute.`}))}const r=Oa(e.confirmation_token,t);if(!r.valid)return Ei(oi(`confirmation_token rejected: ${r.reason}`))}const{error:l}=await t.rpc("mutate_project_domains",{p_project_id:e.project_id,p_action:"remove",p_values:[a]});if(l)throw new Error(l.message);if(d>0){const{error:i}=await t.rpc("apply_domain_change",{p_project_id:e.project_id,p_old_domain:a,p_new_domain:null,p_user_id:r,p_event_source:"mcp"});if(i)throw new Error(i.message)}return xi(ri({deleted:!0,name:a,items_updated:d,message:d>0?`Domain "${a}" deleted and stripped from ${d} item${d>1?"s":""}.`:`Domain "${a}" deleted.`}))}catch(e){return e instanceof Error&&e.message.includes("Not authenticated")?Ei(di()):Ei(vi(e instanceof Error?e.message:String(e)))}}A(hs,{createDomainHandler:()=>ws,deleteDomainHandler:()=>bs,listDomainsHandler:()=>ys,updateDomainHandler:()=>vs});var js=E({"src/tools/domains.ts"(){Ne(),Ma(),Ii(),Yr()}}),Ss={};async function ks(e){try{const t=await qe(),{data:r,error:i}=await t.from("projects").select("id, name").eq("id",e.project_id).is("deleted_at",null).maybeSingle(),a=r?.name??null,n=i?.message??null,{data:s,error:o}=await t.from("items").select("id, type, data").eq("project_id",e.project_id).is("deleted_at",null);if(o)throw new Error(o.message);const d=s??[];if(!a&&0===d.length){if(n)throw new Error(n);return Ei(ni("Project",e.project_id))}const l={requirements:0,test_cases:0,notes:0},c=[],p=[];for(const e of d)if("requirement"===e.type){l.requirements++;const t=e.data?.tags?.domains??[];p.push({id:e.id,domains:t})}else"test-case"===e.type?(l.test_cases++,c.push(e.id)):"note"===e.type&&l.notes++;const m={passed:0,failed:0,blocked:0,not_run:0};if(c.length>0){const{data:r,error:i}=await t.from("test_results").select("item_id, result, run_at").eq("project_id",e.project_id).order("run_at",{ascending:!1});if(i)throw new Error(i.message);const a=new Map;for(const e of r??[])a.has(e.item_id)||a.set(e.item_id,e.result);for(const e of c){const t=a.get(e);t&&"not-run"!==t?"passed"===t?m.passed++:"failed"===t?m.failed++:"blocked"===t?m.blocked++:m.not_run++:m.not_run++}}const{data:u,error:_}=await t.from("item_relationships").select("from_id, to_id, type").eq("project_id",e.project_id);if(_)throw new Error(_.message);const f=Ci(s??[],u??[]),h=new Set;for(const e of f)"verifies"===e.type?h.add(e.to_id):"verified_by"===e.type&&h.add(e.from_id);const g=p.filter(e=>h.has(e.id)).length,y=p.length,w={covered:g,uncovered:y-g,total:y,percent:y>0?Math.round(g/y*1e3)/10:100},v=new Map;for(const e of p){const t=e.domains.length>0?e.domains:["(untagged)"],r=h.has(e.id);for(const e of t){v.has(e)||v.set(e,{covered:0,total:0});const t=v.get(e);t.total++,r&&t.covered++}}const b=Array.from(v.entries()).sort((e,t)=>e[0].localeCompare(t[0])).map(([e,t])=>({domain:e,covered:t.covered,total:t.total,percent:t.total>0?Math.round(t.covered/t.total*1e3)/10:100})),j=new Date;j.setDate(j.getDate()-7);const{count:S,error:k}=await t.from("change_history").select("id",{count:"exact",head:!0}).eq("project_id",e.project_id).gte("changed_at",j.toISOString());if(k)throw new Error(k.message);return xi(ri({project_id:e.project_id,project_name:a??`Project ${e.project_id.slice(0,8)}`,counts:l,test_status:m,coverage:w,coverage_by_domain:b,recent_changes:S??0,last_updated:(new Date).toISOString()}))}catch(e){return e instanceof Error&&e.message.includes("Not authenticated")?Ei(di()):Ei(vi(e instanceof Error?e.message:String(e)))}}A(Ss,{projectSummaryHandler:()=>ks});var xs,Es=E({"src/tools/project-summary.ts"(){Ne(),Fi(),Ii()}}),As={};async function Is(e){try{const t=await qe();let r,i;if(e.query&&e.query.trim().length>0){const a=await Ti(t,e.project_id,e.query,{type:e.type,limit:e.limit});r=a.items.map(e=>({id:e.id,title:e.title,type:e.type,status:e.data?.status,domains:e.data?.tags?.domains??[],level:e.data?.tags?.level,req_type:e.data?.req_type})),i=a.totalCount}else{const a=await Mi(t,e.project_id,{type:e.type,domain:e.domain,level:e.level,limit:e.limit,offset:e.offset});r=a.items.map(e=>({id:e.id,title:e.title,type:e.type,status:e.data?.status,domains:e.data?.tags?.domains??[],level:e.data?.tags?.level,req_type:e.data?.req_type})),i=a.totalCount}const a=await async function(e,t){const{data:r,error:i}=await e.from("items").select("data").eq("project_id",t).is("deleted_at",null);if(i)throw new Error(i.message);const a=new Set,n=new Set;for(const e of r??[]){const t=e.data?.tags;if(t){const e=t.domains;if(e)for(const t of e)a.add(t);const r=t.level;r&&n.add(r)}}return{domains:[...a].sort(),levels:[...n].sort()}}(t,e.project_id);return xi(ri({items:r,filters:{domains:a.domains,levels:a.levels,types:xs},project_id:e.project_id},ii(i,e.limit,e.offset)))}catch(e){return e instanceof Error&&e.message.includes("Not authenticated")?Ei(di()):Ei(vi(e instanceof Error?e.message:String(e)))}}A(As,{browseHandler:()=>Is});var Rs,Os,qs,zs,Ms=E({"src/tools/browse.ts"(){Ne(),Fi(),Ii(),xs=["requirement","test-case","note","table"]}}),Hs={};async function Ds(e){try{const t=e.direction??"downstream",r=null!=e.depth?Math.min(Math.max(e.depth,1),20):null,i=await qe(),a=await Hi(i,e.project_id,e.item_id);if(!a)return Ei(ni("Item",e.item_id));const{data:n,error:s}=await i.from("item_relationships").select("from_id, to_id, type").eq("project_id",e.project_id);if(s)throw new Error(s.message);const{data:o,error:d}=await i.from("items").select("id, title, type").eq("project_id",e.project_id).is("deleted_at",null);if(d)throw new Error(d.message);const l=new Map;for(const e of o??[])l.set(e.id,{title:e.title,type:e.type});const c=new Map,p=(e,t,r)=>{c.has(e)||c.set(e,[]),c.get(e).push({neighbor:t,relType:r})};for(const e of n??[]){const r=e.type;"upstream"!==t&&"both"!==t||(Os.includes(r)&&p(e.from_id,e.to_id,r),qs.includes(r)&&p(e.to_id,e.from_id,zs[r]??r)),"downstream"!==t&&"both"!==t||(qs.includes(r)&&p(e.from_id,e.to_id,r),Os.includes(r)&&p(e.to_id,e.from_id,zs[r]??r)),"related"===r&&(p(e.from_id,e.to_id,"related"),p(e.to_id,e.from_id,"related"))}const m=new Set;m.add(e.item_id);const u=[];let _=0;const f=[];for(const t of c.get(e.item_id)??[])f.push({id:t.neighbor,depth:1,path:[{from_id:e.item_id,to_id:t.neighbor,relationship_type:t.relType}]});for(;f.length>0&&u.length<Rs;){const{id:e,depth:t,path:i}=f.shift();if(m.has(e))continue;if(null!==r&&t>r)continue;m.add(e);const a=l.get(e);if(a&&(u.push({item_id:e,title:a.title,type:a.type,depth:t,relationship_path:i}),t>_&&(_=t),null===r||t<r))for(const r of c.get(e)??[])m.has(r.neighbor)||f.push({id:r.neighbor,depth:t+1,path:[...i,{from_id:e,to_id:r.neighbor,relationship_type:r.relType}]})}let h=0;if(e.include_variable_refs){const{data:t}=await i.from("variable_references").select("variable_id").eq("item_id",e.item_id).eq("project_id",e.project_id),r=[...new Set((t??[]).map(e=>e.variable_id))];if(r.length>0){const{data:t}=await i.from("project_variables").select("id, name").in("id",r),a=new Map((t??[]).map(e=>[e.id,e.name])),{data:n}=await i.from("variable_references").select("variable_id, item_id").in("variable_id",r).eq("project_id",e.project_id).neq("item_id",e.item_id);for(const t of n??[]){const r=t.item_id;if(m.has(r))continue;if(u.length>=Rs)break;m.add(r);const i=l.get(r);if(!i)continue;const n=a.get(t.variable_id)??t.variable_id;u.push({item_id:r,title:i.title,type:i.type,depth:1,relationship_path:[{from_id:e.item_id,to_id:r,relationship_type:`variable_ref:${n}`}]}),h++}}}const g={};for(const e of u)g[e.type]=(g[e.type]??0)+1;const y=l.get(e.item_id);return xi(ri({root:{item_id:e.item_id,title:y?.title??a.title,type:y?.type??a.type},impacted_items:u,summary:{total_impacted:u.length,by_type:g,max_depth_reached:_,...h>0?{variable_impact_count:h}:{},...u.length>=Rs?{truncated:!0}:{}}}))}catch(e){return e instanceof Error&&e.message.includes("Not authenticated")?Ei(di()):Ei(vi(e instanceof Error?e.message:String(e)))}}A(Hs,{impactAnalysisHandler:()=>Ds});var $s=E({"src/tools/impact-analysis.ts"(){Ne(),Fi(),Ii(),Rs=200,Os=["parent","verifies","traces_to","allocated_from","decomposed_from"],qs=["child","verified_by","allocated_to","decomposes_to","traced_by"],zs={parent:"child",child:"parent",verifies:"verified_by",verified_by:"verifies",related:"related",traces_to:"traced_by",traced_by:"traces_to",allocated_to:"allocated_from",allocated_from:"allocated_to",decomposes_to:"decomposed_from",decomposed_from:"decomposes_to"}}}),Ps=E({"src/core/relationship-sync.ts"(){}}),Us={};function Ts(e){return e instanceof Error&&e.message.includes("Not authenticated")?Ei(di()):null}async function Cs(e,t){const{data:r,error:i}=await e.rpc("restore_baseline_state",{p_baseline_id:t.baselineId,p_project_id:t.projectId,p_items:[],p_variables:[],p_user_id:t.userId});if(i)throw new Error(i.message);return r}async function Ns(e,t,r){const{data:i,error:a}=await e.from("items").select("id, deleted_at").eq("project_id",t).eq("id",r).maybeSingle();if(a)throw new Error(a.message);if(n=i,!Boolean(n?.id&&null===n.deleted_at))return;var n;const{error:s}=await e.rpc("sync_item_relationships_from_jsonb",{p_project_id:t,p_item_id:r});if(s)throw new Error(s.message)}async function Fs(e,t,r){const{data:i,error:a}=await e.from("projects").select("org_id").eq("id",t).maybeSingle();if(a)return Ei(vi(a.message));if(!i)return Ei(ni("Project",t));const{data:n,error:s}=await e.from("organizations").select("feature_flags").eq("id",i.org_id).maybeSingle();return s?Ei(vi(s.message)):!0!==(n?.feature_flags??{})[r]?Ei(ai(`Feature '${r}' is not enabled for this organization`,["Ask an org admin to enable the flag in Org Settings."])):null}async function Ls(e){try{const t=await qe(),r=await async function(e,t){const{data:r,error:i}=await e.from("baselines").select("id, project_id, name, description, field_definitions_snapshot, snapshot_at, created_at, created_by, locked_at, locked_by, release_version, 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Date).toISOString()}).select().single();return a?"23505"===a.code?Ei(ai(`Baseline name "${e.name}" already exists in this project`,["Pick a different name"])):Ei(vi(a.message)):xi(ri({id:i.id,name:i.name,description:i.description,field_definitions_snapshot:i.field_definitions_snapshot,snapshot_at:i.snapshot_at,created_at:i.created_at,locked:!1}))}catch(e){return Ts(e)??Ei(vi(e instanceof Error?e.message:String(e)))}}async function Vs(e){try{const t=await qe(),r=await $i(t,e.baseline_id);if(!r)return Ei(ni("Baseline",e.baseline_id));const i=await Fs(t,r.project_id,"baselines_enabled");if(i)return i;if(null!==r.locked_at)return Ei(ai("Baseline is already locked",["Locks are one-way; nothing to do"]));const{data:a}=await t.from("projects").select("org_id").eq("id",r.project_id).maybeSingle();if(!a)return Ei(ni("Project",r.project_id));const{data:n}=await t.auth.getUser(),s=n?.user?.id;if(!s)return Ei(di());const{data:o}=await t.from("org_members").select("role").eq("user_id",s).eq("org_id",a.org_id).maybeSingle();if(!o||"admin"!==o.role)return Ei(ai("Only admins can lock baselines",["Ask an org admin to lock this baseline"]));const{data:d,error:l}=await t.from("baselines").update({locked_at:(new Date).toISOString(),locked_by:s}).eq("id",e.baseline_id).select().single();return l?Ei(vi(l.message)):xi(ri({id:d.id,locked_at:d.locked_at,locked_by:d.locked_by}))}catch(e){return Ts(e)??Ei(vi(e instanceof Error?e.message:String(e)))}}async function Bs(e){try{const t=await qe(),[r,i]=await Promise.all([$i(t,e.baseline_a_id),$i(t,e.baseline_b_id)]);if(!r||!i)return Ei(ni("Baseline","one of the baseline_ids"));if(r.project_id!==i.project_id)return Ei(ai("Both baselines must belong to the same project",["Verify both baseline_ids are from the same project_id"]));const[a,n]=await Promise.all([Ui(t,r.project_id,r.snapshot_at),Ui(t,i.project_id,i.snapshot_at)]),s=new Map(a.map(e=>[e.id,e])),o=new Map(n.map(e=>[e.id,e])),d=Array.from(new Set([...s.keys(),...o.keys()])).sort(),l=[];let c=0,p=0,m=0;for(const e of d){const t=s.get(e),r=o.get(e);if(!t&&r)c++,l.push({item_id:e,change_type:"added"});else if(t&&!r)p++,l.push({item_id:e,change_type:"removed"});else if(t&&r){const i=[];t.title!==r.title&&i.push("title"),t.type!==r.type&&i.push("type");if(JSON.stringify(t.data??{})!==JSON.stringify(r.data??{})){i.push("data");const e=t.data??{},a=r.data??{};(e.status??null)!==(a.status??null)&&i.push("status"),(e.tags?.level??null)!==(a.tags?.level??null)&&i.push("tags.level"),JSON.stringify(e.tags?.domains??[])!==JSON.stringify(a.tags?.domains??[])&&i.push("tags.domains")}i.length>0&&(m++,l.push({item_id:e,change_type:"modified",fields_changed:i}))}}const u=Math.max(e.offset??0,0),_=Math.min(Math.max(e.limit??50,1),200),f=e.detail?l.slice(u,u+_):l.slice(u,u+_).map(({item_id:e,change_type:t,fields_changed:r})=>({item_id:e,change_type:t,fields_changed:r}));return xi(ri({summary:{added:c,removed:p,modified:m,total_compared:d.length},items:f,page_info:{offset:u,limit:_,total:l.length},baselines:{a:{id:r.id,name:r.name,snapshot_at:r.snapshot_at},b:{id:i.id,name:i.name,snapshot_at:i.snapshot_at}}}))}catch(e){return Ts(e)??Ei(vi(e instanceof Error?e.message:String(e)))}}async function Js(e){try{const t=await qe(),r=await $i(t,e.baseline_id);if(!r)return Ei(ni("Baseline",e.baseline_id));const i=await Fs(t,r.project_id,"baselines_enabled");if(i)return i;const{data:a}=await t.from("projects").select("org_id").eq("id",r.project_id).maybeSingle();if(!a)return Ei(ni("Project",r.project_id));const{data:n}=await t.auth.getUser(),s=n?.user?.id;if(!s)return Ei(di());const{data:o}=await t.from("org_members").select("role").eq("user_id",s).eq("org_id",a.org_id).maybeSingle();if(!o||"admin"!==o.role)return Ei(ai("Only admins can restore from a baseline",["Ask an org admin to run the restore"]));const{data:d}=await t.rpc("cc_project_is_controlled",{p_project_id:r.project_id});if(!0===d)return Ei(ai("Change control is on for this project. 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Repair: for each row in link_warnings, call atoms_link_items with type 'parent', from_id=<row id>, to_id=${u}.`}:{}}))}catch(e){return Ei(yi(e))}var t}function lo(e){for(const t of Object.keys(e)){const r=e[t];"string"==typeof r&&(e[t]=ji(r))}}async function co(e){try{const t=await qe(),r=De();try{await Pe(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ei(si("Viewer"));throw e}const i=await Hi(t,e.project_id,e.row_id);if(!i)return Ei(ni("Analysis row",e.row_id));const a=i.data;if("analysis"===i.type)return async function(e,t,r,i,a,n){const{schemeId:s}=await ao(e,r,function(e){return"dfmea"===e?.analysis?.subtype?"dfmea":"hara"}(a),a),o=function(e,t){const r=dr(e),i=Object.keys(t??{});if(0===i.length)return{ok:!1,message:"fields must contain at least one key"};const a=i.filter(e=>!r.includes(e));if(a.length>0)return{ok:!1,message:ur(e,a)};const n={};for(const e of i){const r=t[e];if("string"!=typeof r)return{ok:!1,message:`Field '${e}' must be a string`};if("overall_residual_risk"===e&&""!==r&&!qt.includes(r))return{ok:!1,message:_r(e,r,qt)};if("software_safety_class"===e&&""!==r&&!zt.includes(r))return{ok:!1,message:_r(e,r,zt)};n[e]=r}return{ok:!0,writes:n}}(s,n);if(!o.ok)return Ei(oi(o.message));const d=o.writes;lo(d);const l=to(a);l.analysis_props&&"object"==typeof l.analysis_props||(l.analysis_props={});const c=l.analysis_props;for(const[e,t]of Object.entries(d))c[e]=t;const p=(new Date).toISOString();l.metadata={...l.metadata??{},updated_at:p,updated_by:t};const{data:m,error:u}=await e.rpc("save_item_with_revision",{p_item_id:i.id,p_project_id:r,p_type:i.type,p_title:i.title,p_data:l,p_user_id:t,p_event_source:"mcp",p_event_session_id:Mo()??null,p_diff_summary:null,p_expected_updated_at:i.updated_at});if(u)throw new Error(u.message);return m?(await e.from("change_history").insert({item_id:i.id,project_id:r,changed_by:t,event_type:"updated",old_data:a,new_data:l,actor:Ho(),session_id:Mo()}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)}),xi(ri({analysis_id:i.id,scheme:s,written_fields:Object.keys(d),scope:cr(c),overall:pr(c)}))):Ei(ai(`Fill silently failed for '${i.id}': save RPC returned no row. 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Likely RLS denied the write.`,["Verify you have editor or admin role in this project","Retry after checking project access"]));await t.from("change_history").insert({item_id:i.id,project_id:e.project_id,changed_by:r,event_type:"updated",old_data:a,new_data:c,actor:Ho(),session_id:Mo(),...u?{reason:`${Object.keys(d).join(", ")} written through atoms_fill_row; approval cleared (a signature never covers content the approver did not see)`}:{}}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)});const g=Ar(s,p),y=[];if("hara_iso26262"===s){const a=Ar(s,l),n=Xs(c);if(n.length>0&&g!==gt&&g!==a)for(const a of n){const n=await Hi(t,e.project_id,a);if(!n)continue;const s=n.data;if(s?.asil===g&&s?.asil_source===i.id)continue;const o=s?.asil??null,d=s?.asil_source??null,l=to(s);l.asil=g,l.asil_source=i.id,l.metadata={...l.metadata??{},updated_at:_,updated_by:r};const{error:c}=await t.rpc("save_item_with_revision",{p_item_id:n.id,p_project_id:e.project_id,p_type:n.type,p_title:n.title,p_data:l,p_user_id:r,p_event_source:"mcp",p_event_session_id:Mo()??null,p_diff_summary:null,p_expected_updated_at:n.updated_at});if(c)throw new Error(c.message);await t.from("change_history").insert({item_id:n.id,project_id:e.project_id,changed_by:r,event_type:"updated",old_data:{asil:o,asil_source:d},new_data:{asil:g,asil_source:i.id},actor:Ho(),session_id:Mo(),reason:`ASIL propagated from ${i.id} (rating change via atoms_fill_row)`}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)}),y.push(a)}}return xi(ri({row_id:i.id,subtype:n,written_fields:Object.keys(d),computed_level:g,...y.length>0?{asil_propagated_to:y}:{},...u?{approval_cleared:!0}:{}}))}catch(e){return Ei(yi(e))}}async function po(e,t,r){const i=await Hi(e,t,r);if(!i)return{ok:!1,result:Ei(ni("Analysis",r))};if("analysis"!==i.type)return{ok:!1,result:Ei(oi(`Item ${r} is not an analysis (type='${i.type}')`))};const a=i.data,n=Ys("hara"===a?.analysis?.subtype?"safety-goal":"dfmea"===a?.analysis?.subtype?"failure-mode":null);if(!n)return{ok:!1,result:Ei(oi(`Analysis ${r} is missing a valid analysis.subtype`))};const s=Mt[n],{variant:o,schemeId:d}=await ao(e,t,n,a),l=Array.isArray(a?.relationships?.children)?a.relationships.children.filter(e=>"string"==typeof e):[];let c=[];if(l.length>0){const{data:r,error:i}=await e.from("items").select("*").eq("project_id",t).is("deleted_at",null).in("id",l);if(i)throw new Error(i.message);const a=new Map((r??[]).filter(e=>!e.deleted_at&&l.includes(e.id)&&e.data?.req_type===s).map(e=>[e.id,e]));c=l.map(e=>a.get(e)).filter(e=>Boolean(e))}const p=new Set;for(const e of c){const t=e.data?.analysis_props??{};"string"==typeof t.source_req&&t.source_req&&p.add(t.source_req);for(const t of Xs(e.data))p.add(t);for(const t of eo(e.data))p.add(t)}const m=new Map;if(p.size>0){const{data:r,error:i}=await e.from("items").select("id, updated_at").eq("project_id",t).is("deleted_at",null).in("id",[...p]);if(i)throw new Error(i.message);for(const e of r??[])m.set(e.id,e.updated_at)}const u=c.map(e=>{const t=e.data?.analysis_props??{},r=Xs(e.data).filter(e=>m.has(e)),i=eo(e.data).filter(e=>m.has(e)),a=r.length>0,n=Ar(d,t),s=function(e,t,r){if(r)return null;if("hara_iso26262"===e){const e=jr(t);return"QM"!==e&&e!==gt?`asil ${e} unmitigated`:null}if("hazard_iso14971"===e){const e=xr(t);return"Low"!==e&&e!==gt?`${e.toLowerCase()} risk uncontrolled`:null}const i=parseInt(Ar(e,t),10),a=parseInt(t?.severity||"",10);return!Number.isNaN(i)&&i>=100?"rpn >= 100":!Number.isNaN(a)&&a>=9?"severity >= 9":null}(d,t,a),o={id:e.id,title:"string"==typeof e.title?e.title:"",source_req:"string"==typeof t.source_req?t.source_req:null,effect:"string"==typeof e.data?.body?e.data.body:"",computed_level:n,computed_level_text:wr(d,n),is_gap:null!==s,gap_rule:s,is_critical:Ir(d,t,a),is_stale:Rr(t,r,e=>m.get(e)??null),mitigated_by:r,link_roles:t.link_roles??{},approved:!0===t.approved,approved_at:t.approved_at??null,approved_by:t.approved_by??null,approved_note:"string"==typeof t.approved_note?t.approved_note:"",verified_by:i,residual_level:"hazard_iso14971"===d?Er(t):null,mitigation_types:t.mitigation_types??{},mcp_fields:Object.entries(t.field_source??{}).filter(([,e])=>"mcp"===e).map(([e])=>e).sort()};for(const e of At[d])o[e]=t[e]??null;return o});return{ok:!0,analysis:{id:i.id,title:"string"==typeof i.title?i.title:"",subtype:n,scheme:d,revision:"string"==typeof a?.analysis?.revision?a.analysis.revision:"1.0",standard:"string"==typeof a?.analysis?.standard?a.analysis.standard:nr(d)??null,variant:o,labels:Mr(d),acceptability:yr(d),definitions:gr(d),control_types:Dr(d),field_labels:hr(d),scope:dr(d).length>0?cr(a?.analysis_props):null,overall:dr(d).length>0?pr(a?.analysis_props):null},schemeId:d,parentProps:a?.analysis_props??null,rows:u,counts:{rows:u.length,gaps:u.filter(e=>e.is_gap).length,critical:u.filter(e=>e.is_critical).length,stale:u.filter(e=>e.is_stale).length,approved:u.filter(e=>e.approved).length,linked:u.filter(e=>e.mitigated_by.length>0).length}}}async function mo(e){try{const t=await qe(),r=await po(t,e.project_id,e.analysis_id);return r.ok?xi(ri({analysis:r.analysis,rows:r.rows,counts:r.counts})):r.result}catch(e){return Ei(yi(e))}}async function uo(e){try{const a=await qe(),n=De();try{await Pe(a,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ei(si("Viewer"));throw e}if(e.row_id===e.req_id)return Ei(oi("row_id and req_id must be different items"));const s=await Hi(a,e.project_id,e.row_id);if(!s)return Ei(ni("Analysis row",e.row_id));const o=s.data,d=Ys(o?.req_type);if(!d)return Ei(oi(`Item ${e.row_id} is not an analysis row (req_type must be 'safety-goal' or 'failure-mode')`));const l=await Hi(a,e.project_id,e.req_id);if(!l)return Ei(ni("Requirement",e.req_id));const c=l.data;if("requirement"!==l.type||Qs.has(c?.req_type))return Ei(oi(`req_id must reference a plain requirement (type='requirement', not an analysis row): ${e.req_id}`));const{schemeId:p}=await no(a,e.project_id,d,o);if(function(e){return"hara_iso26262"===e||"hazard_iso14971"===e}(p)&&c?.req_type!==_t)return Ei(oi(function(e,t){return`${e} is not a ${Yt[t].mitigating_requirement}: a mitigation target must be a requirement of req_type '${_t}'. Create or convert one, then link it.`}(e.req_id,p)));const m=Hr(p);if(0===m.length&&void 0!==e.control_type)return Ei(oi(function(e){return`control_type applies to the medical schemes only (ISO 14971 clause 7); ${Yt[e].parent} links carry none, so omit it.`}(p)));if(m.length>0&&!e.control_type)return Ei(oi($r()));if(void 0!==e.control_type&&!sr(e.control_type))return Ei(oi($r()));if("dfmea"===d&&!e.role)return Ei(oi(`role is required for dfmea mitigation links. Choose one of: ${yt.join(", ")}`));if("hara"===d&&e.role)return Ei(oi("role is not applicable to hara mitigation links; omit it (roles are a dfmea concept)"));let u=gt;if("hara_iso26262"===p){u=Ar(p,o?.analysis_props);const a=c?.asil;if(u!==gt&&"string"==typeof a&&a.length>0&&a!==u&&!0!==e.override)return Ei((r=u,{...ai(`ASIL conflict: the target requirement already carries asil '${t=a}' but ${i=s.id} computes '${r}'.`,["Pass override=true to apply the HARA value; the override is history-logged like a dialog accept","Or align the row's S/E/C ratings with the existing ASIL before linking"]),details:{code:"asil_conflict",current_value:t,incoming_value:r,source_row:i,hint:"pass override=true to apply the HARA value; the override is history-logged like a dialog accept"}}))}const _="dfmea"===d?e.role:null,{error:f}=await a.rpc("apply_link_change",{p_project_id:e.project_id,p_from_id:e.row_id,p_to_id:e.req_id,p_type:"mitigated_by",p_action:"add",p_user_id:n,p_event_source:"mcp",p_expected_from_updated_at:s.updated_at,p_expected_to_updated_at:l.updated_at,p_role:_});if(f)throw new Error(f.message);let h,g;if(await a.from("change_history").insert({item_id:e.row_id,project_id:e.project_id,changed_by:n,event_type:"updated",old_data:null,new_data:{relationship_change:{action:"add",type:"mitigated_by",from:e.row_id,to:e.req_id,..._?{role:_}:{}}},actor:Ho(),session_id:Mo()}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)}),e.control_type&&sr(e.control_type)){const t=await Hi(a,e.project_id,e.row_id)??s,r=to(t.data);r.analysis_props&&"object"==typeof r.analysis_props||(r.analysis_props={source_req:null,approved:!1,approved_at:null,field_source:{}});const i=r.analysis_props;i.mitigation_types&&"object"==typeof i.mitigation_types||(i.mitigation_types={}),i.mitigation_types[e.req_id]=e.control_type;const o=(new Date).toISOString();r.metadata={...r.metadata??{},updated_at:o,updated_by:n};const{error:d}=await a.rpc("save_item_with_revision",{p_item_id:t.id,p_project_id:e.project_id,p_type:t.type,p_title:t.title,p_data:r,p_user_id:n,p_event_source:"mcp",p_event_session_id:Mo()??null,p_diff_summary:null,p_expected_updated_at:t.updated_at});if(d)throw new Error(d.message);h=e.control_type}if("hara_iso26262"===p&&u!==gt){const t=await Hi(a,e.project_id,e.req_id);if(t){const r=t.data,i=r?.asil??null,o=r?.asil_source??null,d=to(r);d.asil=u,d.asil_source=s.id;const l=(new Date).toISOString();d.metadata={...d.metadata??{},updated_at:l,updated_by:n};const{error:c}=await a.rpc("save_item_with_revision",{p_item_id:t.id,p_project_id:e.project_id,p_type:t.type,p_title:t.title,p_data:d,p_user_id:n,p_event_source:"mcp",p_event_session_id:Mo()??null,p_diff_summary:null,p_expected_updated_at:t.updated_at});if(c)throw new Error(c.message);await a.from("change_history").insert({item_id:t.id,project_id:e.project_id,changed_by:n,event_type:"updated",old_data:{asil:i,asil_source:o},new_data:{asil:u,asil_source:s.id},actor:Ho(),session_id:Mo(),reason:!0===e.override?`ASIL override accepted via atoms_link_mitigation (was '${i??"unset"}', now '${u}' from ${s.id})`:`ASIL set via atoms_link_mitigation from ${s.id}`}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)}),g=u}}return xi(ri({row_id:e.row_id,req_id:e.req_id,type:"mitigated_by",role:_,scheme:p,...h?{control_type:h}:{},...g?{asil_written:g}:{}}))}catch(e){return Ei(yi(e))}var t,r,i}async function _o(e){try{const i=await qe(),a=await po(i,e.project_id,e.analysis_id);if(!a.ok)return a.result;const n=a.rows.filter(e=>e.is_gap).map(e=>({id:e.id,title:e.title,source_req:e.source_req,source_function:"string"==typeof e.source_function?e.source_function:null,computed_level:e.computed_level,rule:e.gap_rule})),s=function(e){const t=Array.isArray(e)?e.filter(e=>"string"==typeof e):[],r=t.length>=2?t[1].trim():"";return r?{level:r,source:"taxonomy"}:{level:ft,source:"fallback"}}(await async function(e,t){const{data:r,error:i}=await e.from("metadata").select("levels").eq("project_id",t).maybeSingle();if(i)throw new Error(i.message);const a=r?.levels;return Array.isArray(a)?a.filter(e=>"string"==typeof e):[]}(i,e.project_id)),o=Tr(a.schemeId).some(e=>"requirement"===e.scope)?await async function(e,t,r){const{data:i,error:a}=await e.from("items").select("id, data").eq("project_id",t).is("deleted_at",null).eq("type","requirement");if(a)throw new Error(a.message);const n=(i??[]).filter(e=>e.data?.req_type===_t&&function(e,t){const r=or(e);return r.length>0&&r===or(t)}(e.data?.tags?.level,r));if(0===n.length)return[];const s=e=>{const t=e.data?.relationships?.parents;return Array.isArray(t)?t.filter(e=>"string"==typeof e):[]},o=new Set;for(const e of n)for(const t of s(e))o.add(t);const d=new Set;if(o.size>0){const{data:r,error:i}=await e.from("items").select("id").eq("project_id",t).is("deleted_at",null).in("id",[...o]);if(i)throw new Error(i.message);for(const e of r??[])d.add(e.id)}return n.filter(e=>!s(e).some(e=>d.has(e))).map(e=>e.id)}(i,e.project_id,s.level):[],d=a.rows.map(e=>({id:e.id,level:e.computed_level,linked:e.mitigated_by.length>0,verified:e.verified_by.length>0,residualLevel:e.residual_level??gt,severity:Pr(e.severity)})),l=(t=a.parentProps,{hasRows:(r=d).length>0,scopeStated:mr(t),overallJudged:""!==pr(t).residual_risk,everyRowSettled:r.every(e=>e.linked&&e.residualLevel!==gt)}),c=function(e,t,r,i){const a=[];for(const n of Tr(e)){if("analysis"===n.scope){if(!i||!n.matchesAnalysis||!n.matchesAnalysis(i))continue;a.push({kind:n.kind,label:n.label(1),rowIds:[],reqIds:[],count:1,fix:n.fix,fixLabel:n.fixLabel});continue}if("requirement"===n.scope){if(0===r.length)continue;a.push({kind:n.kind,label:n.label(r.length),rowIds:[],reqIds:[...r],count:r.length,fix:n.fix,fixLabel:n.fixLabel});continue}const e=n.matches;if(!e)continue;const s=t.filter(t=>e(t)).map(e=>e.id);0!==s.length&&a.push({kind:n.kind,label:n.label(s.length),rowIds:s,reqIds:[],count:s.length,fix:n.fix,fixLabel:n.fixLabel})}return a}(a.schemeId,d,o,l).map(e=>({kind:e.kind,label:e.label,row_ids:e.rowIds,req_ids:e.reqIds,gap_count:e.count,fix:e.fix,fix_label:e.fixLabel}));return xi(ri({analysis_id:a.analysis.id,subtype:a.analysis.subtype,scheme:a.analysis.scheme,labels:a.analysis.labels,gaps:n,count:n.length,gap_kinds:c,system_level:s.level,system_level_source:s.source}))}catch(e){return Ei(yi(e))}var t,r}function fo(e){return(e.failure_mode??"").trim()||(e.hazard??"").trim()||""}async function ho(e){try{const t=await qe(),r=De();try{await Pe(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ei(si("Viewer"));throw e}const i=await Hi(t,e.project_id,e.analysis_id);if(!i)return Ei(ni("Analysis",e.analysis_id));if("analysis"!==i.type)return Ei(oi(`Item ${e.analysis_id} is not an analysis (type='${i.type}')`));const a=i.data,n=a?.analysis?.subtype,s="hara"===n?"hara":"dfmea"===n?"dfmea":null;if(!s)return Ei(oi(`Analysis ${e.analysis_id} is missing a valid analysis.subtype`));const{variant:o,schemeId:d}=await ao(t,e.project_id,s,a);if("hara"===s&&e.source_req)return Ei(oi("A risk analysis row is seeded from a function, never a requirement: pass source_function"));if("dfmea"===s&&e.source_function)return Ei(oi("source_function applies to a risk analysis only; seed an FMEA row with source_req"));const l=Array.isArray(e.rows)?e.rows:[];if(0===l.length)return Ei(oi("rows must contain at least one drafted row"));if(l.length>ht)return Ei(oi(`Propose rows accepts at most ${ht} rows per call; ${l.length} were sent. Split the proposal and call again.`));const c=[];for(let e=0;e<l.length;e++){const t=so(d,0,l[e]??{},{extraKeys:"hara"===s?["effect","title"]:["effect"],where:`row ${e+1}`});if(!t.ok)return Ei(oi(t.message));lo(t.writes),c.push(t.writes)}let p=ji(e.source_function??"").trim();if("hara"===s&&p){const[r]=await ro(t,e.project_id,[p]);r&&(p=r)}const m=(new Date).toISOString(),u=Mt[s],_=[],f=[];for(const i of c){const a=await Zs(t,e.project_id,Ht[d]),n={source_req:"dfmea"===s?e.source_req??null:null,..."hara"===s?{source_function:p||null}:{},approved:!1,approved_at:null,approved_by:null,field_source:{}};let o="",l="";for(const[e,t]of Object.entries(i))"effect"===e?o=t:"title"===e?l=t:(n[e]=t,"failure_mode"===e&&"dfmea"===s&&(l=t)),n.field_source[e]="mcp";l||(l=fo(i));const c={id:a,type:"requirement",title:l,body:o,req_type:u,tags:{domains:[],level:""},ownership:{primary:null,additional:[]},relationships:{parents:[e.analysis_id],children:[],related:[],verifies:[],verified_by:[]},links:[],analysis_props:n,metadata:{created_at:m,created_by:r,updated_at:m,updated_by:r}},{error:h}=await t.rpc("save_item_with_revision",{p_item_id:a,p_project_id:e.project_id,p_type:"requirement",p_title:l,p_data:c,p_user_id:r,p_event_source:"mcp",p_event_session_id:Mo()??null,p_diff_summary:null});if(h)throw new Error(h.message);const{error:g}=await t.rpc("apply_link_change",{p_project_id:e.project_id,p_from_id:a,p_to_id:e.analysis_id,p_type:"parent",p_action:"add",p_user_id:r,p_event_source:"mcp"});g&&(process.stderr.write(`[atoms-mcp] Warning: proposed row parent link sync failed for ${a}: ${g.message}\n`),f.push({row_id:a,message:g.message})),await t.from("change_history").insert({item_id:a,project_id:e.project_id,changed_by:r,event_type:"created",old_data:null,new_data:c,actor:Ho(),session_id:Mo(),reason:"Row proposed through atoms_propose_rows (machine-proposed, unapproved)"}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)}),_.push({id:a,written_fields:Object.keys(i),computed_level:Ar(d,n)})}return xi(ri({analysis_id:e.analysis_id,subtype:s,scheme:d,...o?{variant:o}:{},labels:Mr(d),..."hara"===s?{source_function:p||null}:{source_req:e.source_req??null},rows:_,count:_.length,max_rows:ht,approved:!1,...f.length>0?{link_warnings:f,warning:`${f.length} proposed row(s) were created but could not be attached to ${e.analysis_id}. Repair: call atoms_link_items with type 'parent', from_id=<row id>, to_id=${e.analysis_id}.`}:{}}))}catch(e){return Ei(yi(e))}}async function go(e){try{const t=await qe(),r=De();try{await Pe(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ei(si("Viewer"));throw e}const i=await Hi(t,e.project_id,e.row_id);if(!i)return Ei(ni("Analysis row",e.row_id));const a=i.data,n=Ys(a?.req_type);if(!n)return Ei(oi(`Item ${e.row_id} is not an analysis row (req_type must be 'safety-goal' or 'failure-mode')`));const{schemeId:s}=await no(t,e.project_id,n,a),o=e.rationale?function(e,t){return Et[e][t]?"hara_iso26262"===e?"severity"===t?"s_rationale":"exposure"===t?"e_rationale":"controllability"===t?"c_rationale":null:"hazard_iso14971"===e?"severity"===t||"residual_s"===t?"s_rationale":"p1"===t||"residual_p1"===t?"p1_rationale":"p2"===t||"residual_p2"===t?"p2_rationale":null:"rationale":null}(s,e.field):null;if(e.rationale&&!o)return Ei(oi(`rationale applies to a rating field only; ${e.field} is not a rating of ${s}`));const d={[e.field]:e.value};o&&e.rationale&&(d[o]=e.rationale);const l=so(s,0,d,{extraKeys:"hara"===n?["effect","title"]:["effect"]});if(!l.ok)return Ei(oi(l.message));const c=l.writes;lo(c);const p=to(a);p.analysis_props&&"object"==typeof p.analysis_props||(p.analysis_props={source_req:null,approved:!1,approved_at:null,field_source:{}});const m=p.analysis_props;m.field_source&&"object"==typeof m.field_source||(m.field_source={});let u=i.title;for(const[e,t]of Object.entries(c))"effect"===e?p.body=t:"title"===e?(p.title=t,u=t):(m[e]=t,"failure_mode"===e&&"dfmea"===n&&(p.title=t,u=t)),m.field_source[e]="mcp";const _=Cr(m),f=(new Date).toISOString();p.metadata={...p.metadata??{},updated_at:f,updated_by:r};const{data:h,error:g}=await t.rpc("save_item_with_revision",{p_item_id:i.id,p_project_id:e.project_id,p_type:i.type,p_title:u,p_data:p,p_user_id:r,p_event_source:"mcp",p_event_session_id:Mo()??null,p_diff_summary:null,p_expected_updated_at:i.updated_at});if(g)throw new Error(g.message);if(!h)return Ei(ai(`Suggestion silently failed for '${e.row_id}': save RPC returned no row. Likely RLS denied the write.`,["Verify you have editor or admin role in this project","Retry after checking project access"]));await t.from("change_history").insert({item_id:i.id,project_id:e.project_id,changed_by:r,event_type:"updated",old_data:a,new_data:p,actor:Ho(),session_id:Mo(),reason:`${e.field} suggested through atoms_suggest_field (machine-proposed, unapproved)`+(_?"; approval cleared (a signature never covers content the approver did not see)":"")}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)});const y=Object.entries(m.field_source).filter(([,e])=>"mcp"===e).map(([e])=>e).sort();return xi(ri({row_id:i.id,subtype:n,scheme:s,field:e.field,field_source:"mcp",written_fields:Object.keys(c),...o?{rationale_field:o}:{},..._?{approval_cleared:!0}:{},row:{id:i.id,computed_level:Ar(s,m),approved:!0===m.approved,mcp_fields:y,...Object.fromEntries(At[s].map(e=>[e,m[e]??null]))}}))}catch(e){return Ei(yi(e))}}async function yo(e){try{const t=await qe(),r=De();try{await Pe(t,e.project_id)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message)return Ei(si("Viewer"));throw e}const i=await Hi(t,e.project_id,e.row_id);if(!i)return Ei(ni("Analysis row",e.row_id));const a=i.data,n=Ys(a?.req_type);if(!n)return Ei(oi(`Item ${e.row_id} is not an analysis row (req_type must be 'safety-goal' or 'failure-mode')`));const s=e.approver_id??r,o=await async function(e,t,r){const{data:i,error:a}=await e.from("projects").select("org_id").eq("id",t).maybeSingle();if(a)throw new Error(a.message);if(!i)throw new Error(`Project '${t}' not found`);const{data:n,error:s}=await e.from("org_members").select("role").eq("user_id",r).eq("org_id",i.org_id).maybeSingle();if(s)throw new Error(s.message);const o=n?.role;return"string"==typeof o?o:null}(t,e.project_id,s);if(!o)return Ei(oi(`Approver '${s}' is not a member of this project's organization. Approve as a project member (omit approver_id to approve as yourself).`));const{schemeId:d}=await no(t,e.project_id,n,a),l=a?.analysis_props??{},c=Ar(d,l);if(c===gt)return Ei(oi(`${e.row_id} cannot be approved before it is rated: complete the rating fields first (the computed ${"hara_iso26262"===d?"ASIL":"hazard_iso14971"===d?"risk":"RPN"} is unset).`));const p=to(a);p.analysis_props&&"object"==typeof p.analysis_props||(p.analysis_props={source_req:null,approved:!1,approved_at:null,field_source:{}});const m=p.analysis_props;m.field_source&&"object"==typeof m.field_source||(m.field_source={});const u=ji(e.note??""),_=(new Date).toISOString();m.approved=!0,m.approved_at=_,m.approved_by=s,m.approved_note=u;const f=[];for(const[e,t]of Object.entries(m.field_source))"mcp"===t&&(m.field_source[e]="user",f.push(e));f.sort(),p.metadata={...p.metadata??{},updated_at:_,updated_by:r};const{data:h,error:g}=await t.rpc("save_item_with_revision",{p_item_id:i.id,p_project_id:e.project_id,p_type:i.type,p_title:i.title,p_data:p,p_user_id:r,p_event_source:"mcp",p_event_session_id:Mo()??null,p_diff_summary:null,p_expected_updated_at:i.updated_at});if(g)throw new Error(g.message);return h?(await t.from("change_history").insert({item_id:i.id,project_id:e.project_id,changed_by:r,event_type:"updated",old_data:{approved:!0===l.approved,approved_at:l.approved_at??null,approved_by:l.approved_by??null,approved_note:l.approved_note??""},new_data:{approved:!0,approved_at:_,approved_by:s,approved_note:u},actor:Ho(),session_id:Mo(),reason:`${e.row_id} approved by ${s} via atoms_approve_row`}).then(({error:e})=>{e&&process.stderr.write(`[atoms-mcp] Warning: change_history log failed: ${e.message}\n`)}),xi(ri({row_id:i.id,subtype:n,scheme:d,approved:!0,approved_by:s,approved_at:_,approved_note:u,approver_role:o,computed_level:c,cleared_markers:f}))):Ei(ai(`Approval silently failed for '${e.row_id}': save RPC returned no row. Likely RLS denied the write.`,["Verify you have editor or admin role in this project","Retry after checking project access"]))}catch(e){return Ei(yi(e))}}A(Ks,{approveRowHandler:()=>yo,createAnalysisHandler:()=>oo,fillRowHandler:()=>co,getAnalysisHandler:()=>mo,getGapsHandler:()=>_o,linkMitigationHandler:()=>uo,proposeRowsHandler:()=>ho,suggestFieldHandler:()=>go});var wo,vo,bo,jo,So,ko,xo,Eo,Ao,Io,Ro=E({"src/tools/analysis.ts"(){Ne(),Fi(),$o(),Ii(),Yr(),Qs=new Set(["safety-goal","failure-mode"])}}),Oo={};function qo(e){L(e.toolName)&&function(e,t){const r=`ui://${t.toolName}/${t.htmlFile}`,i=function(e,t){const r=s.fileURLToPath("undefined"==typeof document?require("url").pathToFileURL(__filename).href:m&&"SCRIPT"===m.tagName.toUpperCase()&&m.src||new URL("index.cjs",document.baseURI).href),i=j.default.dirname(r);return j.default.resolve(i,"apps","src","apps",e,t)}(t.appName,t.htmlFile),a=[...Ai.resourceDomains,...t.extraResourceDomains??[]];d.registerAppTool(e,t.toolName,{title:t.title,description:t.description,inputSchema:t.inputSchema,annotations:t.annotations,_meta:{ui:{resourceUri:r}}},t.handler),d.registerAppResource(e,`${t.title} UI`,r,{mimeType:d.RESOURCE_MIME_TYPE},async()=>{const e=await b.default.readFile(i,"utf-8");return{contents:[{uri:r,mimeType:d.RESOURCE_MIME_TYPE,text:e,_meta:{ui:{csp:{resourceDomains:a}}}}]}})}(jo,e)}function zo(e,t){return async r=>{const i=O(T(),e);if(!i.allowed)return Ei(ai(`Tool ${e} is blocked by org policy.`,[z(i.reason),"Contact your org admin to adjust the MCP access policy."]));try{!function(e){const t=st();if(!t)return;if("object"!=typeof e||null===e)return;const r=e.project_id;if("string"==typeof r&&r!==t)throw new it(t,r)}(r)}catch(e){if(e instanceof it)return Ei(ci(e.expectedProjectId));throw e}{const e=T(),t=r?.project_id;if(null!==e.project_scope&&"string"==typeof t&&!e.project_scope.includes(t))return Ei(ai("Tool call rejected: project_id is outside your org's MCP project scope.",[`Allowed projects: ${e.project_scope.length} project${1===e.project_scope.length?"":"s"} configured by your admin`,"Use atoms_list_projects to see which projects you can access in this session"]))}let a,n;try{n=await qe(),a=De()}catch{return t(r)}const s=await async function(e,t){const r=parseInt(process.env.ATOMS_RATE_LIMIT_RPM??"",10)||Xe,i=new Date,a=new Date(i.getTime()-et);try{const{count:n,error:s}=await t.from("mcp_rate_limits").select("id",{count:"exact",head:!0}).eq("user_id",e).gte("requested_at",a.toISOString());if(s)throw new Error(s.message);if((n??0)>=r){const{data:r,error:n}=await t.from("mcp_rate_limits").select("requested_at").eq("user_id",e).gte("requested_at",a.toISOString()).order("requested_at",{ascending:!0}).limit(1).maybeSingle();if(n)throw new Error(n.message);const s=(r?new Date(r.requested_at).getTime():i.getTime())+et-i.getTime();return{allowed:!1,retryAfterSeconds:Math.max(1,Math.ceil(s/1e3))}}t.from("mcp_rate_limits").insert({user_id:e,requested_at:i.toISOString()}).then(({error:e})=>{e&&process.stderr.write(`[rate-limiter] insert failed: ${e.message}\n`)});const o=new Date(i.getTime()-2*et);return t.from("mcp_rate_limits").delete().eq("user_id",e).lt("requested_at",o.toISOString()).then(()=>{}),{allowed:!0}}catch(e){return process.stderr.write(`[rate-limiter] DB check failed (${e instanceof Error?e.message:String(e)}), falling back to allow.\n`),{allowed:!0}}}(a,n);if(!s.allowed)return Ei(pi(s.retryAfterSeconds));if("1"===process.env.ATOMS_MCP_LOCKDOWN||"true"===process.env.ATOMS_MCP_LOCKDOWN){const e=r?.project_id;if("string"==typeof e)try{const{requireWriteAccess:t}=await Promise.resolve().then(()=>(Ne(),Oe));await t(n,e)}catch(e){if(e instanceof Error&&"VIEWER_ROLE"===e.message){const{accessDeniedError:e}=await Promise.resolve().then(()=>(Ii(),Xr));return Ei(e("Viewer (lockdown mode: read access requires editor or admin)"))}}}const o=function(){const e=performance.now();return()=>Math.round(performance.now()-e)}();let d,l="success";try{const e=await t(r),i=e;if(!0===i?.isError){l="error";const e=i?.content;if(e?.[0]?.text)try{d=JSON.parse(e[0].text).message}catch{}}return e}catch(e){throw l="error",d=e instanceof Error?e.message:String(e),e}finally{const t={tool_name:e,params:r,status:l,duration_ms:o(),error_msg:d,project_id:r.project_id,session_id:ko,client_name:xo};try{!function(e,t,r){const i=Ze(r.params);e.from("mcp_audit_log").insert({user_id:t,tool_name:r.tool_name,params:i,status:r.status,duration_ms:r.duration_ms,error_msg:r.error_msg??null,project_id:r.project_id??null,session_id:r.session_id??null,client_name:r.client_name??null}).then(({error:e})=>{e&&process.stderr.write(`[audit] Failed to log: ${e.message}\n`)})}(await qe(),a,t)}catch{}}}}function Mo(){return ko}function Ho(){return Eo}function Do(){return xo}A(Oo,{ATOMS_MCP_SERVER_VERSION:()=>bo,getMcpActor:()=>Ho,getMcpClientName:()=>Do,getMcpSessionId:()=>Mo,server:()=>jo});var $o=E({"src/server.ts"(){at(),nt(),B(),dt(),C(),P(),rr(),ir(),Yr(),Ne(),Ii(),Ri(),wo=c.createRequire("undefined"==typeof document?require("url").pathToFileURL(__filename).href:m&&"SCRIPT"===m.tagName.toUpperCase()&&m.src||new URL("index.cjs",document.baseURI).href),vo=wo("../package.json"),bo=vo.version,jo=new l.McpServer({name:"atoms-mcp-server",version:bo}),So=(e,t,r)=>{if(L(e))return jo.registerTool(e,t,r)},ko=n.randomUUID(),xo=lt(process.env.ATOMS_CLIENT_NAME),Eo=function(){const e=lt(xo);return"cursor"===e?"mcp_cursor":"copilot"===e?"mcp_copilot":"mcp_claude"}(),So("atoms_status",{title:"ATOMS MCP Health Check",description:'Check the health and authentication status of the ATOMS MCP server.\n\nCall this FIRST if other atoms tools fail or return auth errors.\nThis tool works WITHOUT authentication — it checks whether credentials\nexist and are valid, and tells the user exactly what to do if not.\n\nArgs: None\n\nReturns:\n { status: "authenticated"|"not_authenticated"|"expired", email, message, next_steps }\n\nExamples:\n - "Is ATOMS MCP working?" → atoms_status()\n - "Why are atoms tools failing?" → atoms_status()',inputSchema:{},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},async()=>{try{const{readCredentials:e,isTokenValid:t}=await Promise.resolve().then(()=>(oe(),J)),r=await e();if(!r)return{content:[{type:"text",text:JSON.stringify({status:"not_authenticated",message:"No ATOMS credentials found. You need to login first.",next_steps:["1. Open a terminal on your machine","2. Run: npx @atoms-tech/atoms-mcp login","3. Complete the login in your browser","4. Restart Claude Desktop (quit and reopen)","5. Try your query again"]},null,2)}]};if(!t(r))try{const{getValidToken:e}=await Promise.resolve().then(()=>(Re(),ve)),{email:t}=await e(),{invalidateClient:r}=await Promise.resolve().then(()=>(Ne(),Oe));return r(),{content:[{type:"text",text:JSON.stringify({status:"authenticated",email:t,message:"Token was expired but has been refreshed. You're good to go!"},null,2)}]}}catch{return{content:[{type:"text",text:JSON.stringify({status:"expired",email:r.user_email??"unknown",message:"Your session has expired and could not be refreshed.",next_steps:["1. Open a terminal on your machine","2. Run: npx @atoms-tech/atoms-mcp logout","3. Run: npx @atoms-tech/atoms-mcp login","4. Complete the login in your browser","5. Restart Claude Desktop (quit and reopen)"]},null,2)}]}}return{content:[{type:"text",text:JSON.stringify({status:"authenticated",email:r.user_email??"unknown",message:"ATOMS MCP is connected and authenticated. All tools are ready."},null,2)}]}}catch(e){return{content:[{type:"text",text:JSON.stringify({status:"error",message:`Health check failed: ${e instanceof Error?e.message:String(e)}`,next_steps:["1. Open a terminal","2. Run: npx @atoms-tech/atoms-mcp login","3. Restart Claude Desktop"]},null,2)}]}}}),So("atoms_list_projects",{title:"List ATOMS Projects",description:'List all projects the authenticated user has access to.\n\nThis is the ENTRY POINT tool. Call this first to discover project IDs,\nthen use those IDs with all other tools.\n\nArgs: None\n\nReturns:\n { status: "success", data: [{ id, name, description, org_id, created_at }] }\n\nExamples:\n - "What projects do I have?" → atoms_list_projects()\n - "Show my projects" → atoms_list_projects()\n\nWorkflow:\n atoms_list_projects → atoms_list_items(project_id) → atoms_get_item(project_id, item_id)',inputSchema:{},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_list_projects",async()=>{const{listProjectsHandler:e}=await Promise.resolve().then(()=>(Vi(),Li));return e()})),So("atoms_list_items",{title:"List ATOMS Items",description:'List items in an ATOMS project with optional type/domain/level filters.\n\nThis is the primary ENTRY POINT for discovering items. Use it to browse\nproject contents before drilling into specific items with atoms_get_item.\n\nArgs:\n - project_id (string, UUID): The project to list items from\n - type (string, optional): Filter: requirement|test-case|note|table\n - domain (string, optional): Filter by domain tag\n - level (string, optional): Filter by level (System, Subsystem, Component)\n - limit (number, optional): Max results, 1-200 (default 50)\n - offset (number, optional): Pagination offset (default 0)\n\nReturns:\n { status: "success", data: [{ id, title, type, status, domains, level }], meta: { total_count, limit, offset, has_more } }\n\nExamples:\n - "Show me all requirements" → atoms_list_items(project_id, type="requirement")\n - "What test cases exist?" → atoms_list_items(project_id, type="test-case")\n\nErrors:\n - "Project not found" → verify project_id\n - "Access denied" → check org membership',inputSchema:{project_id:o.z.string().uuid("Must be a valid project UUID").describe("UUID of the project"),type:o.z.enum(["requirement","test-case","note","table","analysis"]).optional().describe("Filter by item type"),domain:o.z.string().max(64).optional().describe("Filter by domain tag (e.g., 'Safety', 'Performance')"),level:o.z.string().max(32).optional().describe("Filter by level (System, Subsystem, Component)"),limit:o.z.number().int().min(1).max(200).default(50).describe("Max results (default 50, max 200)"),offset:o.z.number().int().min(0).default(0).describe("Pagination offset (default 0)"),baseline_id:o.z.string().uuid().optional().describe("Optional baseline UUID. Returns items as they were at that baseline's moment. Mutually exclusive with as_of."),as_of:o.z.string().datetime().optional().describe("Optional ISO 8601 timestamp. Returns items as they were at that moment. Mutually exclusive with baseline_id.")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_list_items",async e=>{const{listItemsHandler:t}=await Promise.resolve().then(()=>(Gi(),Bi));return t(e)})),So("atoms_get_item",{title:"Get ATOMS Item Details",description:'Get full details of a single item including relationships, test history, and ownership.\n\nUse after atoms_list_items or atoms_search to drill into a specific item.\n\nArgs:\n - project_id (string, UUID): The project containing the item\n - item_id (string): Item ID (e.g., "REQ-001", "TC-050")\n\nReturns:\n Full WorkItem with relationships, test runs, ownership, metadata.\n\nExamples:\n - "Show me requirement REQ-001" → atoms_get_item(project_id, "REQ-001")\n - "Get test case details" → atoms_get_item(project_id, "TC-050")',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),item_id:o.z.string().min(1).max(20).describe("Item ID (e.g., REQ-001)"),baseline_id:o.z.string().uuid().optional().describe("Optional baseline UUID. Returns the item as it was at that baseline's moment. Mutually exclusive with as_of."),as_of:o.z.string().datetime().optional().describe("Optional ISO 8601 timestamp. Returns the item as it was at that moment. Mutually exclusive with baseline_id.")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_get_item",async e=>{const{getItemHandler:t}=await Promise.resolve().then(()=>(Xi(),Ki));return t(e)})),So("atoms_search",{title:"Search ATOMS Items",description:'Full-text search across items in a project. Searches title, body, and summary.\n\nAlternative entry point to atoms_list_items when you know what you\'re looking for.\n\nArgs:\n - project_id (string, UUID): The project to search in\n - query (string): Search text (max 1000 chars)\n - type (string, optional): Filter by type\n - asset (string, optional): Filter to items with at least one run on the given asset\n (VIN, module, lot, ...). Case-sensitive exact match.\n - limit (number, optional): Max results, 1-100 (default 25)\n\nReturns:\n Matching items with @basic fields, ranked by relevance.\n\nExamples:\n - "Find braking requirements" → atoms_search(project_id, "braking system")\n - "Search for safety tests" → atoms_search(project_id, "safety", type="test-case")\n - "Tests that ran on this VIN" → atoms_search(project_id, "", asset="WEV...0005")',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),query:o.z.string().min(1).max(1e3).describe("Search text"),type:o.z.enum(["requirement","test-case","note","table","analysis"]).optional().describe("Filter by item type"),asset:o.z.string().max(200).optional().describe("Filter to items with at least one run on this asset (case-sensitive exact)"),limit:o.z.number().int().min(1).max(100).default(25).describe("Max results (default 25, max 100)"),baseline_id:o.z.string().uuid().optional().describe("Optional baseline UUID. Searches within the project state at that baseline's moment.")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_search",async e=>{const{searchHandler:t}=await Promise.resolve().then(()=>(ra(),ea));return t(e)})),So("atoms_semantic_search",{title:"Semantic Search ATOMS Items",description:'Meaning-based search across items using pgvector embeddings (GTE-small, 384d).\n\nUse when atoms_search (exact/substring) misses conceptually related items.\nBest for natural-language concept queries; atoms_search is better for exact phrases or IDs.\n\nArgs:\n - project_id (string, UUID): The project to search in\n - query (string): Natural-language concept query (max 1000 chars)\n - type (string, optional): Filter by type\n - limit (number, optional): Max results, 1-50 (default 10)\n\nReturns:\n Semantically similar items ranked by cosine similarity.\n\nExamples:\n - "Find braking-related requirements" → atoms_semantic_search(project_id, "braking deceleration stopping distance")\n - "Safety-related test cases" → atoms_semantic_search(project_id, "hazard risk mitigation safety", type="test-case")',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),query:o.z.string().min(1).max(1e3).describe("Natural-language concept query"),type:o.z.enum(["requirement","test-case","note","table","analysis"]).optional().describe("Filter by item type"),limit:o.z.number().int().min(1).max(50).default(10).describe("Max results (default 10, max 50)")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_semantic_search",async e=>{const{semanticSearchHandler:t}=await Promise.resolve().then(()=>(na(),ia));return t(e)})),qo({appName:"coverage",htmlFile:"coverage-app.html",toolName:"atoms_get_coverage",title:"Get Test Coverage Report",description:'Find requirements without linked test cases (coverage gaps).\n\nEssential for compliance reporting in safety-critical industries.\n\nIn MCP App hosts (Claude, ChatGPT), renders a visual coverage heatmap.\nFalls back to JSON for non-UI clients.\n\nArgs:\n - project_id (string, UUID): The project to analyze\n - domain (string, optional): Filter by domain\n - level (string, optional): Filter by level\n - baseline_id (string, UUID, optional): coverage at that baseline\'s moment\n - as_of (string ISO 8601, optional): coverage at that moment\n baseline_id and as_of are mutually exclusive.\n\nReturns:\n { covered, uncovered, total, coverage_percent, uncovered_items: [...] }\n\nExamples:\n - "What\'s our test coverage?" → atoms_get_coverage(project_id)\n - "Safety coverage gaps?" → atoms_get_coverage(project_id, domain="Safety")\n - "Coverage at PDR submission" → atoms_get_coverage(project_id, baseline_id="...")',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),domain:o.z.string().max(64).optional().describe("Filter by domain tag"),level:o.z.string().max(32).optional().describe("Filter by level"),baseline_id:o.z.string().uuid().optional().describe("Compute coverage as of this baseline's snapshot moment"),as_of:o.z.string().datetime().optional().describe("Compute coverage as of this ISO 8601 moment")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1},handler:zo("atoms_get_coverage",async e=>{const{getCoverageHandler:t}=await Promise.resolve().then(()=>(la(),sa));return t(e)})}),So("atoms_verification_status",{title:"Get Release Verification Status",description:'Release-bound verification state per requirement, matching the in-app projection.\n\nEach requirement\'s state is derived from the runs bound to a formal Release:\nverified, failing, incomplete, or not-run, plus a stale flag and the\n(points_run / points_total) counts for its parameterized test points.\n\nArgs:\n - project_id (string, UUID): The project to report on\n - release_id (string, UUID, optional): A formal Release (a baselines row with\n a release_version). Defaults to the project\'s CURRENT Release\n (release_status = \'released\'). Errors if the project has none.\n - include_gaps (boolean, optional, default false): Also return the not-run\n (test x unit x value) points for the Release.\n\nReturns:\n { release: {id, version, status}, readiness: {...roll-up counts...},\n requirements: [{requirement_id, state, stale, points_total, points_run}],\n gaps?: [{tc_id, asset, point_key}] }\n An empty requirements array with a "hint" field means the projection has not\n been rebuilt for this project yet, NOT that everything is unverified.\n\nExamples:\n - "Are we ready to ship 2.0?" → atoms_verification_status(project_id)\n - "What\'s still not run for release R?" → atoms_verification_status(project_id, release_id="...", include_gaps=true)',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),release_id:o.z.string().uuid().optional().describe("Formal Release (baselines row) UUID; defaults to the project's current Release"),include_gaps:o.z.boolean().default(!1).describe("Include the not-run (test x unit x value) points for the Release")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_verification_status",async e=>{const{verificationStatusHandler:t}=await Promise.resolve().then(()=>(ma(),ca));return t(e)})),So("atoms_get_history",{title:"Get Item Change History",description:"Audit trail for an item — who changed what, when, and whether it was human or AI.\n\nShows actor attribution (user vs mcp_<client>) and session grouping.\n\nArgs:\n - project_id (string, UUID): The project containing the item\n - item_id (string): Item ID\n - limit (number, optional): Max entries (default 20, max 100)\n\nReturns:\n Change entries with actor, session_id, event_type, changed_at, fields_changed.",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),item_id:o.z.string().min(1).max(20).describe("Item ID"),limit:o.z.number().int().min(1).max(100).default(20).describe("Max entries (default 20)")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_get_history",async e=>{const{getHistoryHandler:t}=await Promise.resolve().then(()=>(ga(),fa));return t(e)})),qo({appName:"mermaid",htmlFile:"mermaid-app.html",toolName:"atoms_export_mermaid",title:"Export Mermaid Diagram",description:"Generate a Mermaid diagram of the requirement/test hierarchy.\n\nOutput is paste-ready for markdown docs. Shows parent-child relationships\nand requirement-to-test-case verification links.\n\nIn MCP App hosts (Claude, ChatGPT), renders an interactive pan/zoom diagram.\nFalls back to Mermaid text for non-UI clients.\n\nArgs:\n - project_id (string, UUID): The project to visualize\n - root_item_id (string, optional): Start node (default: all roots)\n - depth (number, optional): Max depth (default 3, max 10)\n - include_tests (boolean, optional): Show test case links (default true)\n - baseline_id (string, UUID, optional): render the graph at that baseline's moment\n - as_of (string ISO 8601, optional): render the graph at that moment\n baseline_id and as_of are mutually exclusive.\n\nReturns:\n Mermaid graph string.",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),root_item_id:o.z.string().max(20).optional().describe("Root item ID to start from"),depth:o.z.number().int().min(1).max(10).default(3).describe("Max depth"),include_tests:o.z.boolean().default(!0).describe("Include test case links"),baseline_id:o.z.string().uuid().optional().describe("Render the graph as of this baseline's snapshot moment"),as_of:o.z.string().datetime().optional().describe("Render the graph as of this ISO 8601 moment")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1},handler:zo("atoms_export_mermaid",async e=>{const{exportMermaidHandler:t}=await Promise.resolve().then(()=>(Aa(),Sa));return t(e)})}),So("atoms_create_item",{title:"Create ATOMS Item",description:'Create a new requirement, test case, or note in a project.\n\nFor a hazard analysis, HARA, DFMEA or FMEA, use atoms_create_analysis instead (it creates the analysis parent and its rows). This tool does not create analysis items; do not model a hazard analysis as notes with custom fields.\n\nRequires editor or admin role. Changes are logged with AI actor attribution.\n\nArgs:\n - project_id (string, UUID): Target project\n - type (string): requirement|test-case|note\n - req_type (string, optional): requirement classification (functional|interface|performance|safety)\n - title (string): Item title (max 500 chars)\n - body (string, optional): Rich text body\n - summary (string, optional): Brief summary\n - domains (string[], optional): Domain tags (a tag flagged as a function is not a domain and is rejected)\n - level (string, optional): System|Subsystem|Component\n - parent_ids (string[], optional): Parent item IDs to link\n - fields (object, optional): Project-field values, e.g. {"Verification Method": "Design Review"}. Keys must be defined via atoms_create_field first and values must match each field type.\n\nReturns:\n Created item with generated ID (e.g., "REQ-058")\n\nSide effects:\n - Logs to change_history with actor=\'mcp_<client>\'\n - Creates relationships if parent_ids provided',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the target project"),type:o.z.enum(["requirement","test-case","note"]).describe("Item type"),title:o.z.string().min(1).max(500).describe("Item title"),req_type:o.z.enum(["functional","interface","performance","safety","safety-goal","failure-mode"]).optional().describe("Requirement classification (functional|interface|performance|safety). safety-goal and failure-mode are analysis rows created by atoms_create_analysis, not here."),body:o.z.string().max(5e4).optional().describe("Rich text body"),summary:o.z.string().max(2e3).optional().describe("Brief summary"),domains:o.z.array(o.z.string().max(64)).max(20).optional().describe("Domain tags"),level:o.z.string().max(32).optional().describe("System|Subsystem|Component"),parent_ids:o.z.array(o.z.string().max(20)).max(50).optional().describe("Parent item IDs to link"),fields:o.z.record(o.z.string().max(60),o.z.string().max(1e4)).optional().describe("Project-field values keyed by defined field name"),echo:o.z.boolean().optional().describe("false → lean {id,type} response, saves ~580 tokens")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},zo("atoms_create_item",async e=>{const{createItemHandler:t}=await Promise.resolve().then(()=>(vn(),yn));return t(e)})),Ao={steps:o.z.array(o.z.object({id:o.z.string().describe("Stable step id within the item"),instruction:o.z.string().describe("What the tester does"),test_data:o.z.string().optional().describe("Optional test data for the step"),expected:o.z.string().describe("Expected result")}).passthrough()).optional().describe("Test-case script steps: array of {id, instruction, test_data?, expected}. Max 50 steps, enforced by the DB trigger."),params:o.z.array(o.z.object({name:o.z.string().describe("Parameter name; steps reference it as {name}"),unit:o.z.string().optional().describe("Optional unit (e.g. km/h, V, m)"),values:o.z.array(o.z.union([o.z.string(),o.z.number()])).describe("Value set the test sweeps")}).passthrough()).optional().describe("Matrix parameters: array of {name, unit, values[]}. Matrix points (product of value-set sizes) capped at 64 by the DB trigger.")},So("atoms_update_item",{title:"Update ATOMS Item",description:'Update an existing item\'s fields. Only provided fields are changed.\n\nRequires editor or admin role. Logs old/new data diff to change history.\n\nArgs:\n - project_id (string, UUID): Project containing the item\n - item_id (string): Item to update\n - title, body, summary, domains, level, status, req_type: Fields to update (all optional) (a tag flagged as a function is not a domain and is rejected)\n - fields (object, optional): Project-field values, e.g. {"Verification Method": "Design Review"}. Keys must be defined via atoms_create_field; merged per key, "" clears a key; non-empty values must match each field type\n - steps (array, optional): Test-case script steps [{id, instruction, test_data?, expected}]. Max 50 steps (DB-enforced)\n - params (array, optional): Matrix parameters [{name, unit, values[]}]. Matrix points capped at 64 (DB-enforced)\n - expected_updated_at (string, optional): Pass metadata.updated_at from atoms_get_item to reject stale writes\n\nReturns:\n Updated item.',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),item_id:o.z.string().min(1).max(20).optional().describe("Item ID (single form)"),title:o.z.string().min(1).max(500).optional().describe("New title"),body:o.z.string().max(5e4).optional().describe("New body"),summary:o.z.string().max(2e3).optional().describe("New summary"),domains:o.z.array(o.z.string().max(64)).max(20).optional().describe("New domain tags (a tag flagged as a function is not a domain and is rejected)"),level:o.z.string().max(32).optional().describe("New level"),status:o.z.enum(["passed","failed","blocked","not-run"]).optional().describe("Test case status"),req_type:o.z.enum(["functional","interface","performance","safety","safety-goal","failure-mode"]).optional().describe("Requirement classification (functional|interface|performance|safety). safety-goal and failure-mode are analysis rows created by atoms_create_analysis, not here."),fields:o.z.record(o.z.string().max(60),o.z.string().max(1e4)).optional().describe('Project-field values keyed by defined field name; "" clears a key'),...Ao,expected_updated_at:ct.optional().describe("metadata.updated_at value from atoms_get_item; rejects stale writes"),echo:o.z.boolean().optional().describe("false → lean {id,updated_fields} response, saves ~580 tokens"),reason:o.z.string().max(500).optional().describe("Change rationale, persisted in audit history"),updates:o.z.array(o.z.object({item_id:o.z.string().min(1).max(20),title:o.z.string().min(1).max(500).optional(),body:o.z.string().max(5e4).optional(),summary:o.z.string().max(2e3).optional(),domains:o.z.array(o.z.string().max(64)).max(20).optional(),level:o.z.string().max(32).optional(),status:o.z.enum(["passed","failed","blocked","not-run"]).optional(),req_type:o.z.enum(["functional","interface","performance","safety","safety-goal","failure-mode"]).optional(),fields:o.z.record(o.z.string().max(60),o.z.string().max(1e4)).optional(),...Ao,expected_updated_at:ct.optional()})).optional().describe("Array form: update many items in one call"),idempotency_key:o.z.string().max(128).optional().describe("Safe retry key (24h TTL)"),continue_on_error:o.z.boolean().optional().describe("Allow partial success (default false = atomic)")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_update_item",async e=>{const{updateItemHandler:t}=await Promise.resolve().then(()=>(An(),kn));return t(e)})),So("atoms_delete_item",{title:"Delete ATOMS Item",description:'Soft-delete an item (sets deleted_at, preserves for audit trail).\n\nRequires editor or admin role. The item is never truly removed.\n\nWhen ATOMS_MCP_REQUIRE_CONFIRMATION is set on the server, this tool uses a\ntwo-step flow: the first call returns a preview + confirmation_token; the\nsecond call (with the token) executes. Tokens expire in 60s and are bound\nto (tool, project_id, item_id).\n\nArgs:\n - project_id (string, UUID): Project containing the item\n - item_id (string): Item to delete\n - confirmation_token (string, optional): Token from a prior preview call\n\nReturns:\n Confirmation with deleted item summary, or { status: "confirmation_required",\n preview, confirmation_token } when the confirmation gate is active.',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),item_id:o.z.string().min(1).max(20).describe("Item ID to soft-delete"),confirmation_token:o.z.string().max(500).optional().describe("Token from a prior preview call (only used when ATOMS_MCP_REQUIRE_CONFIRMATION is set)")},annotations:{readOnlyHint:!1,destructiveHint:!0,idempotentHint:!0,openWorldHint:!1}},zo("atoms_delete_item",async e=>{const{deleteItemHandler:t}=await Promise.resolve().then(()=>(On(),In));return t(e)})),So("atoms_restore_item",{title:"Restore ATOMS Item",description:'Undo a soft-delete — restores an item that was previously deleted with atoms_delete_item.\n\nOnly works on items that have been soft-deleted (still in the database with deleted_at set).\nHas no effect if the item is not deleted. Logs the restoration to change_history.\n\nArgs:\n - project_id (string, UUID): Project containing the item\n - item_id (string): ID of the deleted item to restore\n\nReturns:\n Confirmation with the restored item\'s title and type.\n\nExamples:\n - "Restore the deleted requirement REQ-042" → atoms_restore_item(project_id, "REQ-042")',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),item_id:o.z.string().max(256).describe("ID of the soft-deleted item to restore")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_restore_item",async e=>{const{restoreItemHandler:t}=await Promise.resolve().then(()=>(Mn(),qn));return t(e)})),So("atoms_link_items",{title:"Link ATOMS Items",description:"Add or remove relationships between items.\n\nSupports: parent, child, related, verifies, verified_by.\nUpdates both items' JSONB data and the shadow table.\n\nArgs:\n - project_id (string, UUID): Project containing both items\n - from_id (string): Source item\n - to_id (string): Target item\n - type (string): parent|child|related|verifies|verified_by\n - action (string): add|remove\n - expected_from_updated_at / expected_to_updated_at (string, optional): pass metadata.updated_at values from atoms_get_item to reject stale link commands\n\nReturns:\n Updated relationship state for both items.",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),from_id:o.z.string().min(1).max(20).optional().describe("Source item ID (single form)"),to_id:o.z.string().min(1).max(20).optional().describe("Target item ID (single form)"),type:o.z.enum(["parent","child","related","verifies","verified_by"]).optional().describe("Relationship type"),action:o.z.enum(["add","remove"]).optional().describe("Add or remove"),expected_from_updated_at:ct.optional().describe("metadata.updated_at for from_id from atoms_get_item"),expected_to_updated_at:ct.optional().describe("metadata.updated_at for to_id from atoms_get_item"),echo:o.z.boolean().optional().describe("false → lean response"),reason:o.z.string().max(500).optional().describe("Change rationale, persisted in audit history"),operations:o.z.array(o.z.object({action:o.z.enum(["add","remove"]),from_id:o.z.string().min(1).max(20),to_id:o.z.string().min(1).max(20),type:o.z.enum(["parent","child","related","verifies","verified_by"]),expected_from_updated_at:ct.optional(),expected_to_updated_at:ct.optional()})).optional().describe("Array form: batch relationship ops. Always atomic with DAG cycle detection."),idempotency_key:o.z.string().max(128).optional().describe("Safe retry key (24h TTL)")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_link_items",async e=>{const{linkItemsHandler:t}=await Promise.resolve().then(()=>($n(),Hn));return t(e)})),qo({appName:"import",htmlFile:"import-app.html",toolName:"atoms_bulk_import",title:"Bulk Import ATOMS Items",description:"Bulk create multiple items in a single tool call. Essential for AI agents\nthat generate 20+ requirements at once.\n\nChecks write access once, generates sequential IDs, batch inserts all items,\nand reports per-item errors without aborting the entire batch.\n\nIn MCP App hosts (Claude, ChatGPT), renders an interactive results table.\nFalls back to JSON for non-UI clients.\n\nArgs:\n - project_id (string, UUID): Target project\n - items (array): Up to 100 items to create, each with:\n - type (string): requirement|test-case|note\n - title (string): Item title (max 500 chars)\n - body (string, optional): Rich text body\n - summary (string, optional): Brief summary\n - domains (string[], optional): Domain tags (a tag flagged as a function is not a domain and is rejected)\n - level (string, optional): System|Subsystem|Component\n - parent_id (string, optional): Parent item ID to link\n\nReturns:\n { created: number, items: [{ id, title, type }], errors: [] }\n\nLimits:\n - Maximum 100 items per call\n - If any item fails, others still succeed — errors reported separately\n\nSide effects:\n - Logs to change_history with actor='mcp_<client>' for each created item\n - Creates parent relationships for items with parent_id",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the target project"),items:o.z.array(o.z.object({type:o.z.enum(["requirement","test-case","note"]).describe("Item type"),title:o.z.string().min(1).max(500).describe("Item title"),body:o.z.string().max(5e4).optional().describe("Rich text body"),summary:o.z.string().max(2e3).optional().describe("Brief summary"),domains:o.z.array(o.z.string().max(64)).max(20).optional().describe("Domain tags"),level:o.z.string().max(32).optional().describe("System|Subsystem|Component"),parent_id:o.z.string().max(20).optional().describe("Parent item ID to link")})).min(1).max(100).describe("Items to create (1-100)"),confirmation_token:o.z.string().max(500).optional().describe("Token from a prior preview call (only used when ATOMS_MCP_REQUIRE_CONFIRMATION is set)")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1},handler:zo("atoms_bulk_import",async e=>{const{bulkImportHandler:t}=await Promise.resolve().then(()=>(Nn(),Un));return t(e)})}),Io={point:o.z.record(o.z.string(),o.z.union([o.z.string(),o.z.number()])).optional().describe('Matrix point this run executed, e.g. {"speed": 40}'),release_id:o.z.string().uuid().optional().describe("Formal Release to bind this run to (a baseline with a release_version)"),build:o.z.string().optional().describe("Free-text build label"),environment:o.z.string().optional().describe("Structured environment field, distinct from build"),tooling:o.z.string().optional().describe("Structured tooling field, distinct from build"),steps_rev:o.z.string().optional().describe("Item revision id the run's steps were pinned to"),step_results:o.z.array(o.z.object({step_id:o.z.string().describe("Step id from data.steps"),status:o.z.enum(["passed","failed","blocked","skipped"]).describe("Per-step status"),actual:o.z.string().optional().describe("Actual-result note"),evidence_url:o.z.string().optional().describe("Evidence URL (validated server-side)")}).passthrough()).optional().describe("Per-step results [{step_id, status, actual?, evidence_url?}]. When present the run verdict is derived server-side and the top-level result is ignored.")},So("atoms_record_test_result",{title:"Record Test Result",description:"Record a pass/fail/blocked result for a test case.\n\nAppends to canonical items.data.runs and projects test_results from that\nhistory. Use atoms_get_item to see all results.\n\nArgs:\n - project_id (string, UUID): Project containing the test case\n - item_id (string): Test case ID (e.g., \"TC-001\")\n - result (string): passed|failed|blocked|not-run\n - note (string, optional): Reason or comment for this result\n - asset (string, optional): Asset identifier this run was executed against\n (VIN, module ID, lot number, serial number, etc). Max 200 chars.\n Auto-trimmed; empty/whitespace is treated as omitted. If the asset\n name does not yet exist in the project, it is auto-registered.\n - point, release_id, build, environment, tooling, steps_rev (optional):\n run metadata. release_id must be a formal Release (a baseline with a\n release_version). All validated server-side.\n - step_results (array, optional): per-step outcomes for a stepped run.\n When provided, the verdict is derived server-side from the steps.\n\nReturns:\n Recorded result with timestamp. When asset is provided, also returns\n asset_id and asset_created.\n\nSide effects:\n - Appends to items.data.runs through save_item_with_revision\n - Projects public.test_results from items.data.runs\n - Inserts into assets table if asset name is new in this project\n - Logs to change_history with actor='mcp_<client>'",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),item_id:o.z.string().min(1).max(20).describe("Test case ID (e.g., TC-001)"),result:o.z.enum(["passed","failed","blocked","not-run"]).describe("Test result"),note:o.z.string().max(500).optional().describe("Reason or comment for this result"),asset:o.z.string().max(200).optional().describe("Asset identifier this run was executed against (VIN, module ID, lot, etc). Auto-registered if new."),...Io},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},zo("atoms_record_test_result",async e=>{const{recordTestResultHandler:t}=await Promise.resolve().then(()=>(Wn(),Fn));return t(e)})),So("atoms_record_test_results",{title:"Record Test Results (bulk)",description:'Record many runs on one test case in a single atomic call.\n\nOptimized for multi-asset campaigns. Each entry can have its own asset and\nresult. Asset lookup-or-create happens per entry; new asset names are\nauto-registered. Runs are appended to canonical items.data.runs, then\ntest_results is projected from that history. The whole call is one DB\ntransaction; any entry failure rolls back the rest.\n\nUse the singular atoms_record_test_result for one-off runs.\n\nArgs:\n - project_id (string, UUID): Project containing the test case\n - item_id (string): Test case ID (e.g., "TC-001")\n - results (array, 1-100 entries): Each entry has:\n - asset (string, optional): Asset identifier (VIN, module ID, lot)\n - result (string, required): passed|failed|blocked|not-run\n - note (string, optional): Run note\n - date (string, optional): ISO 8601 datetime, default now()\n - point, release_id, build, environment, tooling, steps_rev (optional):\n run metadata; release_id must be a formal Release. Server-validated.\n - step_results (array, optional): per-step outcomes; when present the\n verdict is derived server-side from the steps.\n\nReturns:\n Per-entry outcomes with asset_id, asset_created, run_at, ok flags.\n\nSide effects:\n - Appends to items.data.runs through save_item_with_revision\n - Projects public.test_results from items.data.runs\n - Inserts new rows into assets for any asset name not already registered\n - Logs a single change_history entry summarizing the batch',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),item_id:o.z.string().min(1).max(20).describe("Test case ID (e.g., TC-001)"),results:o.z.array(o.z.object({asset:o.z.string().max(200).optional().describe("Asset identifier this run was executed against. Auto-registered if new."),result:o.z.enum(["passed","failed","blocked","not-run"]).describe("Test result"),note:o.z.string().max(500).optional().describe("Run note"),date:o.z.string().optional().describe("ISO 8601 datetime (default: now())"),...Io})).min(1).max(100).describe("1 to 100 result entries on this test case")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},zo("atoms_record_test_results",async e=>{const{recordTestResultsBulkHandler:t}=await Promise.resolve().then(()=>(Yn(),Vn));return t(e)})),qo({appName:"trace",htmlFile:"trace-app.html",toolName:"atoms_trace",title:"Trace Item Relationships",description:'Walk the traceability graph from a starting item.\n\nAnswers questions like "which requirements does TC-003 verify?" or\n"if I change REQ-001, what\'s affected downstream?"\n\nIn MCP App hosts (Claude, ChatGPT), renders an interactive graph visualization.\nFalls back to flat list for non-UI clients.\n\nArgs:\n - project_id (string, UUID): Project containing the item\n - item_id (string): Starting item ID\n - direction (string): upstream|downstream|both\n - upstream: follow parent/verifies links (dependencies)\n - downstream: follow child/verified_by links (dependents)\n - both: trace in both directions\n - depth (number, optional): Max traversal depth (default 5, max 10)\n - relationship_types (string[], optional): Filter to specific types (parent, child, related, verifies, verified_by, mitigated_by, mitigates)\n\nReturns:\n { root, direction, items: [{ id, title, type, relationship, depth }], total_count }\n\nExamples:\n - "What does TC-003 verify?" → atoms_trace(project_id, "TC-003", "upstream")\n - "What\'s affected by REQ-001?" → atoms_trace(project_id, "REQ-001", "downstream")',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),item_id:o.z.string().min(1).max(20).describe("Starting item ID"),direction:o.z.enum(["upstream","downstream","both"]).describe("Traversal direction"),depth:o.z.number().int().min(1).max(10).default(5).describe("Max traversal depth (default 5)"),relationship_types:o.z.array(o.z.enum(["parent","child","related","verifies","verified_by","mitigated_by","mitigates"])).optional().describe("Filter to specific relationship types")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1},handler:zo("atoms_trace",async e=>{const{traceHandler:t}=await Promise.resolve().then(()=>(rs(),es));return t(e)})}),So("atoms_list_assets",{title:"List Project Assets",description:"List asset identifiers registered in a project.\n\nAssets are free-form per-instance IDs (VINs, module names, lot numbers,\nserial numbers) that test runs are tagged against. They are auto-registered\nthe first time they appear on a run via atoms_record_test_result.\n\nArgs:\n - project_id (string, UUID): Project to list assets for\n - include_archived (boolean, optional): Include archived assets (default false)\n\nReturns:\n { assets: [{ id, name, archived_at, created_at }], total }",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),include_archived:o.z.boolean().optional().describe("Include archived assets (default false)")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_list_assets",async e=>{const{listAssetsHandler:t}=await Promise.resolve().then(()=>(ns(),is));return t(e)})),So("atoms_list_variables",{title:"List Project Variables",description:"List all parameterized variables defined in a project.\n\nVariables are shared values (e.g., backup_camera_latency = 2s) that can be\nreferenced in requirement bodies as {variable_name}.\n\nArgs:\n - project_id (string, UUID): Project to list variables for\n - baseline_id (string, UUID, optional): list variables as they were at that baseline\n - as_of (string ISO 8601, optional): list variables as they were at that moment\n - limit (number, optional): max results (default 50, max 200)\n - offset (number, optional): pagination offset (default 0)\n\nReturns:\n { variables: [{ id, name, value, unit, description }], total }, meta: { total_count, limit, offset, has_more }",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),baseline_id:o.z.string().uuid().optional().describe("Optional baseline UUID for time-travel reads"),as_of:o.z.string().datetime().optional().describe("Optional ISO timestamp for time-travel reads"),limit:o.z.number().int().min(1).max(200).default(50).describe("Max results (default 50, max 200)"),offset:o.z.number().int().min(0).default(0).describe("Pagination offset (default 0)")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_list_variables",async e=>{const{listVariablesHandler:t}=await Promise.resolve().then(()=>(fs(),ss));return t(e)})),So("atoms_get_variable",{title:"Get Project Variable",description:'Get a specific variable by name, including which items reference it.\n\nArgs:\n - project_id (string, UUID): Project containing the variable\n - variable_name (string): Variable name (e.g., "backup_camera_latency")\n - baseline_id (string, UUID, optional): get the variable as it was at that baseline\n - as_of (string ISO 8601, optional): get the variable as it was at that moment\n\nReturns:\n { variable, referenced_by: [{ id, title, type }], reference_count }',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),variable_name:o.z.string().min(1).max(64).describe("Variable name"),baseline_id:o.z.string().uuid().optional().describe("Optional baseline UUID for time-travel reads"),as_of:o.z.string().datetime().optional().describe("Optional ISO timestamp for time-travel reads")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_get_variable",async e=>{const{getVariableHandler:t}=await Promise.resolve().then(()=>(fs(),ss));return t(e)})),So("atoms_update_variable",{title:"Update Project Variable",description:"Update a variable's value, unit, or description.\n\nArgs:\n - project_id (string, UUID): Project containing the variable\n - variable_name (string): Variable name\n - value (string, optional): New value\n - unit (string, optional): Unit abbreviation (e.g., 's', 'Hz')\n - description (string, optional): Human-readable description\n\nReturns:\n { variable }",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),variable_name:o.z.string().min(1).max(64).describe("Variable name"),value:o.z.string().max(500).optional().describe("New value"),unit:o.z.string().max(32).optional().describe("Unit abbreviation"),description:o.z.string().max(2e3).optional().describe("Description")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_update_variable",async e=>{const{updateVariableHandler:t}=await Promise.resolve().then(()=>(fs(),ss));return t(e)})),So("atoms_create_variable",{title:"Create Project Variable",description:'Create one or many parameterized variables for a project.\n\nSingle form: provide name + value.\nArray form: provide variables[] for bulk creation (one atomic INSERT).\n\nVariables can then be embedded in requirement bodies as {variable_name}.\n\nArgs (single form):\n - project_id (string, UUID): Project to add the variable to\n - name (string): Variable name, letters, digits, underscores; must start with letter/underscore\n - value (string): Initial value (e.g., "100", "true", "nominal")\n - unit (string, optional): Unit abbreviation (e.g., "Hz", "ms", "m/s²")\n - description (string, optional): Human-readable description\n - echo (bool, optional): false → lean {name} response (default true)\n\nArgs (array form):\n - project_id (string, UUID): Project UUID\n - variables[]: Array of { name, value, unit?, description? }\n - echo (bool, optional): false → lean {name} list (default true)\n - idempotency_key (string, optional): Dedup key\n\nReturns (single): { variable, message }\nReturns (array): { batch_id, created, variables, message }',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),name:o.z.string().min(1).max(64).optional().describe("Variable name (single form)"),value:o.z.string().min(1).max(500).optional().describe("Initial value (single form)"),unit:o.z.string().max(32).optional().describe("Unit abbreviation"),description:o.z.string().max(2e3).optional().describe("Description"),echo:o.z.boolean().optional().describe("false → lean response (default true)"),variables:o.z.array(o.z.object({name:o.z.string().min(1).max(64).describe("Variable name"),value:o.z.string().min(1).max(500).describe("Initial value"),unit:o.z.string().max(32).optional().describe("Unit abbreviation"),description:o.z.string().max(2e3).optional().describe("Description")})).optional().describe("Array form: batch variable creation. Atomic — all or none."),idempotency_key:o.z.string().max(128).optional().describe("Dedup key for retries")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},zo("atoms_create_variable",async e=>{const{createVariableHandler:t}=await Promise.resolve().then(()=>(fs(),ss));return t(e)})),So("atoms_delete_variable",{title:"Delete Project Variable",description:"Delete a project variable. Refuses by default if any items reference it.\n\nArgs:\n - project_id (string, UUID): Project containing the variable\n - name (string): Variable name to delete\n - force (bool, optional): Delete even if items still reference it (default false)\n\nReturns:\n { deleted, name, referenced_by_items, warning? }",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),name:o.z.string().min(1).max(64).describe("Variable name to delete"),force:o.z.boolean().optional().describe("Delete even if items reference it (default false)"),confirmation_token:o.z.string().max(500).optional().describe("Token from a prior preview call (only used when ATOMS_MCP_REQUIRE_CONFIRMATION is set)")},annotations:{readOnlyHint:!1,destructiveHint:!0,idempotentHint:!1,openWorldHint:!1}},zo("atoms_delete_variable",async e=>{const{deleteVariableHandler:t}=await Promise.resolve().then(()=>(fs(),ss));return t(e)})),So("atoms_list_domains",{title:"List Project Domains",description:"List the domain tags of a project's taxonomy, with item counts.\n\nA tag flagged as a FUNCTION (metadata.function_tags, the seed of a HARA row) is not a domain: it is\nleft out of this list, exactly as the app's domain picker leaves it out, because atoms_create_item,\natoms_update_item and atoms_bulk_import refuse it as a domain. Such tags are named in\nexcluded_function_tags; use them through atoms_create_analysis source_functions or atoms_fill_row\nsource_function.\n\nArgs:\n - project_id (string, UUID): Project to inspect\n\nReturns:\n { domains: [{ name, registered, item_count }], total, registered_count, unregistered_count,\n excluded_function_tags: string[], note? }\n registered: false marks a tag found on items but not in the taxonomy (an orphan); a flagged tag\n an item still carries is a function on that item, never counted as an orphan.",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_list_domains",async e=>{const{listDomainsHandler:t}=await Promise.resolve().then(()=>(js(),hs));return t(e)})),So("atoms_create_domain",{title:"Create Project Domain",description:'Register a new domain tag in the project taxonomy.\n\nOnce created, items can be tagged with this domain via atoms_create_item or atoms_update_item.\n\nArgs:\n - project_id (string, UUID): Project to add the domain to\n - name (string): Domain name (lowercased automatically, e.g., "safety", "can-bus")\n\nReturns:\n { domain: { name }, message }',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),name:o.z.string().min(1).max(64).describe("Domain name")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},zo("atoms_create_domain",async e=>{const{createDomainHandler:t}=await Promise.resolve().then(()=>(js(),hs));return t(e)})),So("atoms_list_levels",{title:"List Project Levels",description:"List the project's level taxonomy in order, with each level's L# (positional index) and item count.\n\nArgs:\n - project_id (string, UUID): Project to list levels for\n\nReturns:\n { levels: [{ name, prefix, item_count }], total }",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_list_levels",async e=>{const{listLevelsHandler:t}=await Promise.resolve().then(()=>(Wa(),Ha));return t(e)})),So("atoms_create_level",{title:"Create Project Level",description:'Register a new level in the project taxonomy so items can be tagged with it and it shows in the Strata view. Appended to the ordered level list; its L# is the next index. Names are user-defined labels (lowercased automatically); matching is case-insensitive.\n\nArgs:\n - project_id (string, UUID): Project to add the level to\n - name (string): Level name, e.g. "feature", "system", "subsystem"\n\nReturns:\n { level: { name, prefix }, message }',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),name:o.z.string().min(1).max(64).describe("Level name (user-defined label)")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},zo("atoms_create_level",async e=>{const{createLevelHandler:t}=await Promise.resolve().then(()=>(Wa(),Ha));return t(e)})),So("atoms_delete_level",{title:"Delete Project Level",description:"Delete an UNUSED level from the project taxonomy. Refuses if any item still uses the level (re-tag those items with atoms_update_item first). A level is positional, so deleting one shifts every later level's L# down by one. Matching is case-insensitive.\n\nArgs:\n - project_id (string, UUID)\n - name (string): the level to delete\n - confirmation_token (string, optional): from the first call, when confirmation is required\n\nReturns:\n { level: { name }, remaining_levels, message } — or a confirmation_required payload",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),name:o.z.string().min(1).max(64).describe("Level name to delete"),confirmation_token:o.z.string().optional().describe("Token from the first (preview) call, when confirmation is required")},annotations:{readOnlyHint:!1,destructiveHint:!0,idempotentHint:!1,openWorldHint:!1}},zo("atoms_delete_level",async e=>{const{deleteLevelHandler:t}=await Promise.resolve().then(()=>(Wa(),Ha));return t(e)})),So("atoms_reorder_levels",{title:"Reorder Project Levels",description:"Reorder the project's levels. Provide every existing level name exactly once, in the order you want them (any casing). L# is positional, so this changes every level's L# wherever it renders (Strata, sidebar, exports). Touches no item.\n\nArgs:\n - project_id (string, UUID)\n - names (string[]): every existing level name, in the new order\n\nReturns:\n { levels: [{ name, prefix }], message }",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),names:o.z.array(o.z.string().min(1).max(64)).min(1).describe("Every existing level name, in the desired order")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_reorder_levels",async e=>{const{reorderLevelsHandler:t}=await Promise.resolve().then(()=>(Wa(),Ha));return t(e)})),So("atoms_list_fields",{title:"List Project Fields",description:'List the project\'s custom field definitions (project-scoped key-value slots on items, e.g. "Verification Method"), with counts of items carrying a value.\n\nField values are set per item via atoms_create_item / atoms_update_item fields.\n\nArgs:\n - project_id (string, UUID): Project to inspect\n\nReturns:\n { fields: [{ name, type, options, item_count }], total }',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_list_fields",async e=>{const{listFieldsHandler:t}=await Promise.resolve().then(()=>(gn(),en));return t(e)})),So("atoms_create_field",{title:"Create Project Field",description:'Define a project custom field so items can carry a value for it (shown as a Matrix column, e.g. "Verification Method").\n\nThe name keeps its casing; uniqueness is case-insensitive. Type is one of text, long, bool, date, person, select, number, link. Select fields require options. Field definitions never carry visibility rules, permissions, or workflow logic. A definition applies to every item type unless appliesTo restricts it (requirement|test-case|note|table).\n\nArgs:\n - project_id (string, UUID): Project to define the field in\n - name (string): Field name, 1-60 characters (e.g. "Verification Method", "Essential Output?")\n - type (string, optional): Defaults to text\n - options (string[], optional): Required when type=select\n - scope (string, optional): project (default) or organization (org admin only)\n - appliesTo (string[], optional): item types the field shows on (requirement|test-case|note|table); omit for all types\n\nReturns:\n { field: { name, type, options }, message }',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),name:o.z.string().min(1).max(60).describe("Field name (display name, 1-60 chars)"),type:o.z.enum(["text","long","bool","date","person","select","number","link"]).optional().describe("Field type, defaults to text"),options:o.z.array(o.z.string().min(1).max(120)).max(100).optional().describe("Allowed values for select fields"),scope:o.z.enum(["project","organization"]).optional().describe("Create in this project or copy to every project in the organization"),appliesTo:o.z.array(o.z.enum(["requirement","test-case","note","table"])).max(4).optional().describe("Item types this field shows on (requirement|test-case|note|table); omit for all types")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},zo("atoms_create_field",async e=>{const{createFieldHandler:t}=await Promise.resolve().then(()=>(gn(),en));return t(e)})),So("atoms_delete_field",{title:"Delete Project Field",description:"Delete a project field definition. Existing item values are left in item JSON but no longer render as Matrix columns until a matching field is created again.\n\nArgs:\n - project_id (string, UUID): Project containing the field\n - name (string): Field name to delete",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),name:o.z.string().min(1).max(60).describe("Field name")},annotations:{readOnlyHint:!1,destructiveHint:!0,idempotentHint:!1,openWorldHint:!1}},zo("atoms_delete_field",async e=>{const{deleteFieldHandler:t}=await Promise.resolve().then(()=>(gn(),en));return t(e)})),So("atoms_reorder_fields",{title:"Reorder Project Fields",description:"Reorder project field definitions. Definition order drives the Column Picker listing and a fresh user's Matrix column order.\n\nOrdering only: no definition is added, dropped, renamed, or retyped, and no item value moves. Use this instead of deleting and recreating definitions to change their order.\n\nArgs:\n - project_id (string, UUID): Project containing the fields\n - names (string[]): Every existing field name exactly once, in the order you want them. A list that is not a permutation of the current names is refused, not partially applied.",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),names:o.z.array(o.z.string().min(1).max(60)).describe("Every existing field name exactly once, in the desired order")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_reorder_fields",async e=>{const{reorderFieldsHandler:t}=await Promise.resolve().then(()=>(gn(),en));return t(e)})),So("atoms_update_domain",{title:"Rename Project Domain",description:"Rename a domain tag. Updates the taxonomy and propagates to all tagged items.\n\nUse dry_run=true first to see how many items will be affected before committing.\n\nArgs:\n - project_id (string, UUID): Project containing the domain\n - name (string): Current domain name\n - new_name (string): New domain name\n - dry_run (bool, optional): If true, return impact count without making changes (default false)\n\nReturns (dry_run=false):\n { domain: { name }, renamed_from, items_updated, message }\n\nReturns (dry_run=true):\n { dry_run: true, rename: { from, to }, items_affected, message }",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),name:o.z.string().min(1).max(64).describe("Current domain name"),new_name:o.z.string().min(1).max(64).describe("New domain name"),dry_run:o.z.boolean().optional().describe("Preview impact without applying (default false)")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},zo("atoms_update_domain",async e=>{const{updateDomainHandler:t}=await Promise.resolve().then(()=>(js(),hs));return t(e)})),So("atoms_delete_domain",{title:"Delete Project Domain",description:"Delete a domain tag from the project taxonomy.\n\nRefuses by default if any items are tagged with it. With force=true, deletes the\ndomain and strips the tag from all items.\n\nArgs:\n - project_id (string, UUID): Project containing the domain\n - name (string): Domain name to delete\n - force (bool, optional): Strip from items and delete anyway (default false)\n\nReturns:\n { deleted, name, items_updated, message }",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),name:o.z.string().min(1).max(64).describe("Domain name to delete"),force:o.z.boolean().optional().describe("Strip from all items and delete (default false)"),confirmation_token:o.z.string().max(500).optional().describe("Token from a prior preview call (only used when ATOMS_MCP_REQUIRE_CONFIRMATION is set)")},annotations:{readOnlyHint:!1,destructiveHint:!0,idempotentHint:!1,openWorldHint:!1}},zo("atoms_delete_domain",async e=>{const{deleteDomainHandler:t}=await Promise.resolve().then(()=>(js(),hs));return t(e)})),qo({appName:"summary",htmlFile:"summary-app.html",toolName:"atoms_project_summary",title:"Project Compliance Summary",description:'One-call project health and compliance dashboard.\n\nReturns item counts by type, test execution status, requirement coverage\n(overall and by domain), and recent change activity.\n\nIn MCP App hosts (Claude, ChatGPT), renders an interactive dashboard with charts.\nFalls back to JSON for non-UI clients.\n\nArgs:\n - project_id (string, UUID): Project to summarize\n\nReturns:\n { project_name, counts, test_status, coverage, coverage_by_domain, recent_changes, last_updated }\n\nExamples:\n - "Give me a compliance snapshot" → atoms_project_summary(project_id)\n - "How\'s our test coverage?" → atoms_project_summary(project_id)',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1},handler:zo("atoms_project_summary",async e=>{const{projectSummaryHandler:t}=await Promise.resolve().then(()=>(Es(),Ss));return t(e)})}),qo({appName:"browse",htmlFile:"browse-app.html",toolName:"atoms_browse",title:"Browse ATOMS Items",description:'View and filter items in an ATOMS project with a visual browser.\n\nIn MCP App hosts (Claude, ChatGPT), renders an interactive filterable list\nwith expandable item details. Falls back to JSON for non-UI clients.\n\nArgs:\n - project_id (string, UUID): The project to browse\n - type (string, optional): Filter by type (requirement, test-case, note, table)\n - domain (string, optional): Filter by domain tag\n - level (string, optional): Filter by level (System, Subsystem, Component)\n - query (string, optional): Full-text search query\n - limit (number, optional): Max results (default 25, max 100)\n - offset (number, optional): Pagination offset (default 0)\n\nReturns:\n { items: [...], filters: { domains, levels, types }, meta: { total_count, limit, offset, has_more } }\n\nExamples:\n - "Show me the requirements" → atoms_browse(project_id, type="requirement")\n - "Browse safety items" → atoms_browse(project_id, domain="Safety")\n - "Find braking requirements" → atoms_browse(project_id, query="braking")',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),type:o.z.enum(["requirement","test-case","note","table","analysis"]).optional().describe("Filter by item type"),domain:o.z.string().max(64).optional().describe("Filter by domain tag"),level:o.z.string().max(32).optional().describe("Filter by level (System, Subsystem, Component)"),query:o.z.string().max(1e3).optional().describe("Full-text search query"),limit:o.z.number().int().min(1).max(100).default(25).describe("Max results (default 25, max 100)"),offset:o.z.number().int().min(0).default(0).describe("Pagination offset (default 0)")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1},handler:zo("atoms_browse",async e=>{const{browseHandler:t}=await Promise.resolve().then(()=>(Ms(),As));return t(e)})}),So("atoms_impact_analysis",{title:"Analyze Impact of Changing an Item",description:'Analyze the blast radius of changing a specific item.\n\nTraverses the relationship graph from the given item and returns every item that\nwould be affected by a change — with their types, depths, and full relationship paths.\n\nArgs:\n - project_id (string, UUID): Project containing the item\n - item_id (string): Item to analyze (e.g., "REQ-001")\n - direction (string, optional): "downstream" (default) | "upstream" | "both"\n - downstream: what this item affects (children, verified_by)\n - upstream: what affects this item (parents, verifies)\n - both: full bidirectional traversal\n - depth (integer, optional): Max traversal depth. Omit for full depth (all reachable nodes).\n - include_variable_refs (boolean, optional): Reserved for future variable-aware impact. Default true.\n\nReturns:\n { root: { item_id, title, type }, impacted_items: [{ item_id, title, type, depth, relationship_path }], summary: { total_impacted, by_type, max_depth_reached } }\n\nExamples:\n - "What breaks if I change REQ-001?" → atoms_impact_analysis(project_id, "REQ-001")\n - "What\'s upstream of TC-005?" → atoms_impact_analysis(project_id, "TC-005", direction="upstream")\n - "Show direct dependencies only" → atoms_impact_analysis(project_id, "REQ-001", depth=1)\n\nErrors:\n - "Item not found" → verify item_id exists in the project',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),item_id:o.z.string().min(1).max(20).describe("Item ID to analyze (e.g., REQ-001)"),direction:o.z.enum(["downstream","upstream","both"]).default("downstream").describe("Traversal direction (default: downstream)"),depth:o.z.number().int().min(1).optional().describe("Max traversal depth. Omit for full depth."),include_variable_refs:o.z.boolean().default(!0).describe("Reserved for variable-aware impact (future). Default true.")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_impact_analysis",async e=>{const{impactAnalysisHandler:t}=await Promise.resolve().then(()=>($s(),Hs));return t(e)})),So("atoms_list_baselines",{title:"List ATOMS Baselines",description:"List named baselines (named project snapshots) for a project, newest first.\n\nA baseline is a labeled moment in time. Use atoms_create_baseline to make one,\natoms_diff_baselines to compare two, and atoms_restore_baseline to roll back.",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),limit:o.z.number().int().min(1).max(100).default(50).describe("Max results (default 50, max 100)"),offset:o.z.number().int().min(0).default(0).describe("Pagination offset")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_list_baselines",async e=>{const{listBaselinesHandler:t}=await Promise.resolve().then(()=>(Gs(),Us));return t(e)})),So("atoms_create_baseline",{title:"Create ATOMS Baseline",description:"Create a named baseline (snapshot label) at the current moment for a project.\n\nThe baseline records a name + timestamp. It does NOT copy item data; the project\nstate at that moment is reconstructed via temporal queries against item_revisions.\nNames must be unique per project (case-insensitive).",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),name:o.z.string().min(1).max(200).describe("Baseline name (1-200 chars, unique per project)"),description:o.z.string().max(2e3).optional().describe("Optional description (max 2000 chars)")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},zo("atoms_create_baseline",async e=>{const{createBaselineHandler:t}=await Promise.resolve().then(()=>(Gs(),Us));return t(e)})),So("atoms_lock_baseline",{title:"Lock ATOMS Baseline",description:"Lock a baseline so it becomes audit-grade immutable. Admin only. One-way: there is no unlock.\n\nAfter locking, the baseline's name, description, and snapshot_at cannot be changed,\nand it cannot be deleted. Use for regulatory submissions and DRBs.",inputSchema:{baseline_id:o.z.string().uuid().describe("UUID of the baseline to lock")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},zo("atoms_lock_baseline",async e=>{const{lockBaselineHandler:t}=await Promise.resolve().then(()=>(Gs(),Us));return t(e)})),So("atoms_diff_baselines",{title:"Diff ATOMS Baselines",description:"Compute the diff between two baselines: which items were added, removed, or modified.\n\nReturns a summary plus a paginated items array. Pass detail=true to include\nper-item field-level diffs (slower for large projects).",inputSchema:{baseline_a_id:o.z.string().uuid().describe("UUID of the first (older) baseline"),baseline_b_id:o.z.string().uuid().describe("UUID of the second (newer) baseline"),detail:o.z.boolean().default(!1).describe("Include per-item field-level diffs (default false)"),limit:o.z.number().int().min(1).max(200).default(50).describe("Max items per page (default 50)"),offset:o.z.number().int().min(0).default(0).describe("Pagination offset")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_diff_baselines",async e=>{const{diffBaselinesHandler:t}=await Promise.resolve().then(()=>(Gs(),Us));return t(e)})),So("atoms_restore_baseline",{title:"Restore from ATOMS Baseline",description:"Restore project state to a baseline. Admin only. Preview-by-default.\n\nCall with confirm=false (default) for a dry run that returns items_to_restore count.\nCall with confirm=true to execute: each item present at the baseline gets a new\nrevision matching its historical state, event_source='restore'. Items added AFTER\nthe baseline are NOT deleted. Always recoverable via further history.",inputSchema:{baseline_id:o.z.string().uuid().describe("UUID of the baseline to restore from"),confirm:o.z.boolean().default(!1).describe("Set true to execute; false (default) returns a preview")},annotations:{readOnlyHint:!1,destructiveHint:!0,idempotentHint:!1,openWorldHint:!1}},zo("atoms_restore_baseline",async e=>{const{restoreBaselineHandler:t}=await Promise.resolve().then(()=>(Gs(),Us));return t(e)})),So("atoms_create_analysis",{title:"Create Analysis (HARA, Risk analysis, FMEA)",description:'Create a new analysis (a HARA under ISO 26262, a Risk analysis under ISO 14971, a DFMEA, a PFMEA,\na Software FMEA or a Use FMEA) with one empty row per seed. The analysis carries its standard:\nthe subtype and the variant name it, and a project may hold analyses under both standards.\n\nRequires editor or admin role. Structure matches analyses created in the ATOMS web app.\nA hara (HARA or risk analysis) is seeded from FUNCTIONS (tags flagged as functions), never from\nrequirements: a requirement is an output of the analysis. A dfmea (DFMEA or FMEA) is seeded from\nrequirements / design elements; a PFMEA from a process step.\n\nArgs:\n - project_id (string, UUID): Target project\n - subtype (string): hara | dfmea | risk_analysis | fmea. risk_analysis is an alias of hara and\n fmea an alias of dfmea, so a medical user never has to say HARA or DFMEA.\n hazard_analysis is still accepted as the older name of risk_analysis.\n - variant (string, optional): the standard the analysis carries. hara: iso26262 | iso14971;\n risk_analysis implies iso14971; dfmea: design | process | software | use; fmea implies\n process (the PFMEA). A variant outside the subtype\'s family is refused by name. Every variant\n is accepted in every project. Name none and the default follows the project\'s industry\n setting, exactly as the create menu in the app does: automotive gives hara iso26262 and dfmea\n design, medical device gives hara iso14971 and dfmea process. The variant is stored on the\n analysis and selects its scheme for every later read and write; the setting is only the\n default and never changes an analysis that already exists.\n - title (string, optional): Analysis title (default "New <parent label>": "New HARA",\n "New Risk analysis", "New DFMEA", "New PFMEA", "New Software FMEA", "New Use FMEA")\n - source_functions (string[], hara only, max 50): Function names to seed rows from. A name\n absent from the project\'s tags is registered as a function-flagged tag; matching is\n case-insensitive and trimmed. Rejected for dfmea.\n - source_req_ids (string[], dfmea only, max 50): Requirement IDs to seed rows from.\n Each must exist, be a plain requirement, and not itself be an analysis row. Rejected for hara.\n - revision (string, optional): Revision label (default "1.0")\n - intended_use (string, optional, ISO 14971 risk analysis only): what the device is for, for\n which patient, by which user and in which environment (ISO 14971:2019 5.2).\n - foreseeable_misuse (string, optional, ISO 14971 risk analysis only): the reasonably\n foreseeable misuse, ONE CASE PER LINE (ISO 14971:2019 5.2).\n - safety_characteristics (string, optional, ISO 14971 risk analysis only): the characteristics\n related to safety, ONE PER LINE (ISO 14971:2019 5.3).\n The three scope fields are the analysis\'s, not a row\'s. They are refused by name on a scheme\n that carries no scope (a HARA, a DFMEA, an FMEA), and they can be written later on the\n analysis id with atoms_fill_row.\n The stored subtype and the row req_types are the same under every standard; ids follow the\n scheme: HARA-n / SG-n (hara_iso26262), RA-n / RSK-n (hazard_iso14971), DFMEA-n / FM-n (dfmea_rpn),\n PFMEA-n / PF-n (fmea_process), SFMEA-n / FM-n (fmea_software), UFMEA-n / FM-n (fmea_use).\n\nReturns:\n { id (e.g. "HARA-001", "RA-001", "PFMEA-001"), subtype, title, revision,\n standard? ("ISO 26262" | "ISO 14971" for a hara; "AIAG-VDA FMEA Handbook" for a DFMEA or PFMEA;\n absent for a Software FMEA or a Use FMEA), scheme, variant,\n labels: { parent, row, row_statement, mitigating_requirement, lane, level },\n rows: [{ id, source_function }] (hara) | [{ id, source_req }] (dfmea),\n link_warnings?: [{ row_id, source_function | source_req, message }], warning? }\n rows lists every created row. If any row could not be attached to the analysis, it is\n named in link_warnings and warning explains the repair (atoms_link_items with type\n \'parent\', from_id=<row id>, to_id=<analysis id>); such rows will not appear in\n atoms_get_analysis until relinked.\n\nSide effects:\n - Creates the analysis parent item plus one row item per seed (row ids follow the scheme: SG-n or RSK-n, FM-n or PF-n)\n - hara: registers new function names in the project\'s tags and function flags (metadata)\n - Links each row to the parent (dual-written to the relationship shadow table)\n - Logs each created item to change_history with actor=\'mcp_<client>\'',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the target project"),subtype:o.z.enum(["hara","dfmea","risk_analysis","fmea","hazard_analysis"]).describe("Analysis subtype; risk_analysis is an alias of hara and fmea of dfmea, and hazard_analysis is still accepted as the older name of risk_analysis (REQ-ANL-192)"),title:o.z.string().min(1).max(500).optional().describe("Analysis title"),source_functions:o.z.array(o.z.string().min(1).max(100)).max(50).optional().describe("hara only: function names to seed rows from (0-50); new names are registered as function-flagged tags"),source_req_ids:o.z.array(o.z.string().min(1).max(20)).max(50).optional().describe("dfmea only: requirement IDs to seed rows from (0-50)"),revision:o.z.string().min(1).max(32).optional().describe("Revision label (default 1.0)"),variant:o.z.enum(["iso26262","iso14971","design","process","software","use"]).optional().describe("The standard the analysis carries (REQ-ANL-212). hara: iso26262 | iso14971; dfmea: design | process | software | use. risk_analysis implies iso14971, fmea implies process. Omit it and the default follows the project industry setting (REQ-ANL-216)."),intended_use:o.z.string().max(1e4).optional().describe("ISO 14971 risk analysis only: what the device is for, for which patient, by which user and in which environment (ISO 14971:2019 5.2)."),foreseeable_misuse:o.z.string().max(1e4).optional().describe("ISO 14971 risk analysis only: the reasonably foreseeable misuse, one case per line (ISO 14971:2019 5.2)."),safety_characteristics:o.z.string().max(1e4).optional().describe("ISO 14971 risk analysis only: the characteristics related to safety, one per line (ISO 14971:2019 5.3).")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},zo("atoms_create_analysis",async e=>{const{createAnalysisHandler:t}=await Promise.resolve().then(()=>(Ro(),Ks));return t(e)})),So("atoms_fill_row",{title:"Fill Analysis Row Fields",description:'Fill fields on one analysis row: a HARA or risk analysis row, a DFMEA or FMEA row (row ids follow the scheme: SG-n or RSK-n, FM-n or PF-n).\n\nRequires editor or admin role. Written fields are marked as MCP-sourced so the\nweb app shows their provenance. The computed level (ASIL, RPN or Risk) is derived and\nnever stored: asil is never a writable key.\n\nrow_id may also name the ANALYSIS PARENT (e.g. "RA-001"), which carries the analysis\'s own\nfields rather than a row\'s: on an ISO 14971 risk analysis exactly intended_use,\nforeseeable_misuse, safety_characteristics (its scope, ISO 14971:2019 5.2 and 5.3),\noverall_residual_risk (Low | Medium | High) with overall_residual_rationale (its overall\nresidual risk, ISO 14971:2019 clause 8) and software_safety_class (A | B | C) with\nsoftware_safety_rationale (IEC 62304 4.3). Any other key on a parent is refused by name with\nthat list given, and a scheme that carries no parent field (a HARA, a DFMEA, an FMEA) refuses\nall of them. Both judged values are a PERSON\'s: nothing computes them, the empty string clears\none, and the app only ever suggests one from the rows.\n\nArgs:\n - project_id (string, UUID): Project containing the row\n - row_id (string): Analysis row ID (e.g. "SG-001", "RSK-002", "FM-003", "PF-004"), or the\n analysis parent ID (e.g. "RA-001") to write the analysis\'s scope and overall judgement\n - fields (object): Field name to value map. Allowed keys:\n hara: failure_mode, operating_scenario, hazard, assumptions, severity (S0-S3), exposure (E0-E4),\n controllability (C0-C3), safe_state, ftti, rationale, source_function, effect, title\n dfmea: failure_mode, cause, severity (1-10), occurrence (1-10), detection (1-10),\n rationale, effect\n medical risk analysis: failure_mode (the hazard), operating_scenario (the sequence of events),\n hazard (the harm), assumptions, severity (1-5), p1 (1-5), p2 (1-5), rationale, source_function,\n safety_goal (the risk control statement), s_rationale, p1_rationale, p2_rationale,\n residual_s, residual_p1, residual_p2, benefit_note, effect\n medical FMEA: the FMEA keys of its variant; a PFMEA adds process_step and current_controls,\n and a Software FMEA has NO occurrence (fixed at 10, IEC 62304).\n The analysis carries its standard: the variant stored on the row\'s parent analysis selects\n the scheme (an analysis stored before v5.4 without one resolves through the project\'s legacy hint).\n The derived level (asil / rpn / risk / p0) and the approval keys (approved, approved_at,\n approved_by, approved_note, field_source, link_roles, mitigation_types) are refused BY NAME.\n A suggested rating is written together with its rationale: pass the rating and its evidence\n field in one call (severity + s_rationale, p1 + p1_rationale), or use atoms_suggest_field.\n \'effect\' writes the row\'s long text body (the hazardous event of a HARA row, the hazardous situation\n of a medical risk analysis row, the effect of an FMEA row). dfmea failure_mode also\n becomes the row title. dfmea ratings accept numbers and are stored as strings.\n hara failure_mode: the standardized suggestions are No function, Loss of function, Partial function,\n Degradation of function, Misinterpretation of function (a suggestion; any text is accepted).\n hara source_function: the function the row analyzes, registered as a function-flagged tag if new.\n\nReturns:\n { row_id, subtype, written_fields, computed_level, asil_propagated_to?, approval_cleared? }\n approval_cleared: true means the row WAS approved and this write cleared approved, approved_by,\n approved_at and approved_note: a signature never covers content the approver did not see. A\n person approves the row again with atoms_approve_row once they have read the new values.\n On the analysis parent instead: { analysis_id, scheme, written_fields,\n scope: { intended_use, foreseeable_misuse: string[], safety_characteristics: string[] },\n overall: { residual_risk, residual_rationale, safety_class, safety_rationale } }.\n\nSide effects:\n - Saves the row with stale-write protection and logs to change_history\n - On an approved row: clears the approval (history-logged with the reason)\n - hara only: if the row is linked and its computed level (ASIL, or Risk under ISO 14971) changed,\n updates each linked requirement\'s asil / asil_source (each update is history-logged)',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),row_id:o.z.string().min(1).max(20).describe("Analysis row ID (e.g. SG-001, FM-003), or the analysis parent ID (e.g. RA-001) for its scope and overall residual risk"),fields:o.z.record(o.z.string().max(64),o.z.union([o.z.string().max(5e4),o.z.number()])).describe("Field name to value map (see description for allowed keys per subtype)")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_fill_row",async e=>{const{fillRowHandler:t}=await Promise.resolve().then(()=>(Ro(),Ks));return t(e)})),So("atoms_get_analysis",{title:"Get Analysis",description:'Get a full analysis view: every row with its computed level (ASIL, RPN or Risk, by the\nanalysis\'s scheme) and gap / critical / stale classifications, plus summary counts and the\nscheme\'s vocabulary.\n\nClassifications match the ATOMS web app exactly (same rules, same thresholds). The analysis\ncarries its standard: the variant stored on it selects the scheme (a hara is a HARA under\nISO 26262 or a Risk analysis under ISO 14971; a dfmea is a DFMEA, a PFMEA, a Software FMEA or\na Use FMEA). An analysis stored before v5.4 without a variant resolves through the project\'s\nlegacy hint and reads variant null.\n\nArgs:\n - project_id (string, UUID): Project containing the analysis\n - analysis_id (string): Analysis ID (e.g. "HARA-001", "RA-001", "PFMEA-002")\n\nReturns:\n { analysis: { id, title, subtype, scheme, revision, standard, variant,\n labels: { parent, row, row_statement, mitigating_requirement, lane, level },\n acceptability: { Low, Medium, High } | null (the ISO 14971 wording per risk level, e.g. High is\n "Not acceptable"; null on every scheme but the medical risk analysis),\n definitions: [{ key, text }] (the scheme\'s glossary, the text the app\'s tooltips show),\n control_types: [{ id, abbr, label, precedence }] (ISO 14971 clause 7, applied in precedence\n order; empty on the automotive schemes),\n field_labels: [{ key, label }] (each raw row key to the label this scheme shows for it, e.g. in a\n medical risk analysis failure_mode is "Hazard", effect is "Hazardous situation" and hazard is\n "Harm"; read the raw keys through this list, never as automotive words),\n scope: { intended_use, foreseeable_misuse: string[], safety_characteristics: string[] } | null\n (the analysis\'s scope, ISO 14971:2019 5.2 and 5.3; the two lists are the stored lines, blank\n lines dropped; null on a scheme that carries no scope),\n overall: { residual_risk, residual_rationale, safety_class, safety_rationale } | null\n (the overall residual risk a person judged, ISO 14971:2019 clause 8, and the IEC 62304 4.3\n software safety class; an unjudged value reads as the empty string; null on a scheme that\n carries neither) },\n rows: [{ id, title, source_req, effect, <the scheme\'s fields under their raw keys>,\n computed_level, computed_level_text (the acceptability wording behind the level, or null),\n is_gap, gap_rule, is_critical, is_stale, mitigated_by, link_roles, mitigation_types,\n verified_by, residual_level (medical risk analysis only; null elsewhere),\n approved, approved_at, approved_by, approved_note, mcp_fields }],\n counts: { rows, gaps, critical, stale, approved, linked } }\n The vocabulary lists are given once per analysis, never repeated per row.',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),analysis_id:o.z.string().min(1).max(20).describe("Analysis ID (e.g. HARA-001, RA-001, PFMEA-002)")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_get_analysis",async e=>{const{getAnalysisHandler:t}=await Promise.resolve().then(()=>(Ro(),Ks));return t(e)})),So("atoms_link_mitigation",{title:"Link Analysis Row to Mitigating Requirement",description:'Link a HARA / risk analysis / FMEA row to the technical requirement that mitigates it (the\nsafety requirement of a HARA row, the risk control of a medical row, the action of an FMEA row).\n\nRequires editor or admin role.\n\nArgs:\n - project_id (string, UUID): Project containing both items\n - row_id (string): Analysis row ID (e.g. "SG-001", "RSK-002", "FM-003", "PF-004")\n - req_id (string): Target requirement ID (must be a plain requirement, not an analysis row)\n hara / medical risk analysis rows: the target must be a requirement of req_type \'safety\'\n (a safety requirement / risk control); any other requirement is refused with the rule\n named (REQ-ANL-142). An FMEA row accepts any requirement, so long as role is given.\n - control_type (string, medical schemes only, REQUIRED there): inherent | protective | information\n (ISO 14971 clause 7: inherently safe design, protective measure, information for safety).\n Stored on the LINK (the row\'s analysis_props.mitigation_types keyed by req_id), never on the\n requirement. The analysis carries its standard: control_type is required exactly when the\n row\'s resolved scheme is medical (hazard_iso14971, fmea_process, fmea_software, fmea_use: a\n risk analysis, PFMEA, Software FMEA or Use FMEA link carries one) and refused on a HARA\n (ISO 26262) or a DFMEA row.\n - role (string, dfmea rows only, REQUIRED there): prevention | detection | mitigation.\n Must be omitted for hara rows (a HARA or a risk analysis).\n - override (boolean, optional, default false): hara only. When the target already\n carries a different level (asil, which holds the Risk under ISO 14971), the call fails with\n a structured error (details.code=\'asil_conflict\') unless override=true; the override is\n history-logged like a dialog accept.\n\nReturns:\n { row_id, req_id, type: "mitigated_by", role, scheme, control_type? (medical links, the type stored\n on the link), asil_written? (hara only: the row\'s computed level, the ASIL or the Risk, written\n onto the target) }\n\nSide effects:\n - Adds the mitigated_by/mitigates relationship (JSONB + shadow table, one transaction)\n - hara only: writes the row\'s computed level (ASIL, or Risk under ISO 14971) onto the target\n requirement (data.asil + data.asil_source) with a history entry recording previous/new values\n - dfmea / every FMEA: never modifies any field on the target requirement',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),row_id:o.z.string().min(1).max(20).describe("Analysis row ID (e.g. SG-001, FM-003)"),req_id:o.z.string().min(1).max(20).describe("Target requirement ID (e.g. REQ-042)"),role:o.z.enum(["prevention","detection","mitigation"]).optional().describe("Mitigation role. Required for dfmea rows (every FMEA); must be omitted for hara rows."),override:o.z.boolean().optional().describe("hara only: apply the row's level (ASIL or Risk) over a conflicting existing value (history-logged)"),control_type:o.z.enum(["inherent","protective","information"]).optional().describe("Medical schemes only (required there): the ISO 14971 clause 7 control type, stored on the link.")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_link_mitigation",async e=>{const{linkMitigationHandler:t}=await Promise.resolve().then(()=>(Ro(),Ks));return t(e)})),So("atoms_get_gaps",{title:"Get Analysis Gap Rows",description:'List only the gap rows of a HARA / risk analysis / FMEA analysis, each naming the rule that matched.\n\nGap rules (identical to the web app):\n hara (HARA): unmitigated row with ASIL A-D ("asil <X> unmitigated")\n hara (medical risk analysis): uncontrolled row with Risk above Low ("<level> risk uncontrolled")\n dfmea (DFMEA, PFMEA and every FMEA variant): unmitigated row with RPN >= 100 ("rpn >= 100") or\n severity >= 9 ("severity >= 9")\n\nArgs:\n - project_id (string, UUID): Project containing the analysis\n - analysis_id (string): Analysis ID (e.g. "HARA-001", "RA-001", "PFMEA-002")\n\nReturns:\n { analysis_id, subtype, gaps: [{ id, title, source_req, source_function, computed_level, rule }], count }\n plus scheme, labels and gap_kinds: [{ kind, label, row_ids, req_ids, gap_count, fix, fix_label }],\n the scheme\'s gap kinds with the ids behind each, in the same order and wording the app banner uses.\n gap_count is how many gaps the kind stands for: its rows, or its requirements, or 1 for a kind\n that is one fact about the ANALYSIS and therefore carries neither list.\n hara: unmitigated, no_test (no test on its ODD), no_parent (safety requirement at the system\n level with no parent)\n medical: no_control (a risk above Low), not_verified, no_residual, no_parent (risk control at the\n system level with no parent), no_scope (the analysis holds rows but states no intended\n use, ISO 14971:2019 5.2) and no_overall (every row is controlled and residual-rated but\n the overall residual risk is not judged, ISO 14971:2019 clause 8); both are written on\n the analysis id with atoms_fill_row\n FMEA: rpn (RPN 100 or above with no mitigating requirement), severity (severity 9 or above\n below RPN 100 with no mitigating requirement, the REQ-ANL-047 floor; a row is under one\n kind, never both); an FMEA has no requirement-scope kind, so no project-wide scan runs\n for it\n and system_level, system_level_source: the level the no_parent kind was judged against. The system\n level is the SECOND rung of the project\'s level ladder (metadata.levels, positional: the L1 of\n REQ-ASH-031), matched against tags.level by name; source is "taxonomy". Only when the ladder has\n fewer than two rungs does the literal "L1" apply, and source then reads "fallback".',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),analysis_id:o.z.string().min(1).max(20).describe("Analysis ID (e.g. HARA-001, RA-001, PFMEA-002)")},annotations:{readOnlyHint:!0,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_get_gaps",async e=>{const{getGapsHandler:t}=await Promise.resolve().then(()=>(Ro(),Ks));return t(e)})),So("atoms_propose_rows",{title:"Write Proposed Analysis Rows",description:"Write rows YOU have drafted for one function into a HARA / risk analysis / FMEA (a DFMEA, a\nPFMEA, a Software FMEA or a Use FMEA). The analysis carries its standard: the rows are validated\nagainst the scheme its stored variant selects.\n\nThe drafting is the assistant's job: read the analysis with atoms_get_analysis (its scope, its\nODD / operating modes and its existing rows), draft the rows, then send them here. This tool\nvalidates every value against the analysis's scheme and writes the rows; it never invents a value.\n\nRequires editor or admin role. Every written value is marked as MCP-sourced and every row is\nwritten UNAPPROVED: a person approves it with atoms_approve_row.\n\nArgs:\n - project_id (string, UUID): Project containing the analysis\n - analysis_id (string): Analysis ID (e.g. \"HARA-001\", \"RA-001\", \"PFMEA-002\")\n - source_function (string, risk analysis only): the function these rows analyse; registered\n as a function-flagged tag if new (matching is case-insensitive and trimmed)\n - source_req (string, FMEA only): the requirement these rows analyse\n - rows (object[], 1 to 8): the drafted rows, each a field name to value map using the\n analysis's scheme keys (the same keys atoms_fill_row accepts, plus 'effect', and 'title'\n on a risk analysis row). A risk analysis row sent without a title is named by its\n failure_mode (the hazard), else by its hazard; an FMEA row by its failure_mode. The cap of 8\n is shared with the app and the assistant; a longer list is refused, never truncated.\n The derived level (asil / rpn / risk) and the approval keys are refused by name.\n\nReturns:\n { analysis_id, subtype, scheme, variant?, labels, source_function | source_req,\n rows: [{ id, written_fields, computed_level }], count, max_rows, approved: false,\n link_warnings?, warning? }\n\nSide effects:\n - Creates one row item per drafted row, attached to the analysis (row ids follow the scheme: SG-n or RSK-n, FM-n or PF-n)\n - Marks every written field field_source='mcp' and leaves each row unapproved\n - Logs each created row to change_history with actor='mcp_<client>'",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),analysis_id:o.z.string().min(1).max(20).describe("Analysis ID (e.g. HARA-001, RA-001, PFMEA-002)"),rows:o.z.array(o.z.record(o.z.string().max(64),o.z.union([o.z.string().max(5e4),o.z.number()]))).min(1).max(ht).describe(`The drafted rows (1-${ht}), each a scheme field name to value map`),source_function:o.z.string().min(1).max(100).optional().describe("Risk analysis only: the function these rows analyse"),source_req:o.z.string().min(1).max(20).optional().describe("FMEA only: the requirement these rows analyse")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!1,openWorldHint:!1}},zo("atoms_propose_rows",async e=>{const{proposeRowsHandler:t}=await Promise.resolve().then(()=>(Ro(),Ks));return t(e)})),So("atoms_suggest_field",{title:"Write a Suggested Value for One Analysis Field",description:"Write ONE value YOU have suggested for one field of one analysis row.\n\nThe suggestion is the assistant's job (Suggest evidence, Suggest safety goal, Suggest risk control\nstatement); this tool is the write half: it validates the value against the row's scheme, writes it marked as MCP-sourced and\nreturns the row. A suggested rating is written together with its rationale: pass 'rationale' and\nit lands in the scheme's evidence field for that rating (severity -> s_rationale, exposure ->\ne_rationale, controllability -> c_rationale, p1 -> p1_rationale, p2 -> p2_rationale, and the\nsingle 'rationale' column on an FMEA).\n\nAccepting a suggestion is a client action: it flips that one field's field_source to 'user'. The\nrow stays unapproved either way, until atoms_approve_row records who approved it.\n\nArgs:\n - project_id (string, UUID): Project containing the row\n - row_id (string): Analysis row ID (e.g. \"SG-001\", \"RSK-002\", \"FM-003\", \"PF-004\")\n - field (string): the field to fill (any key atoms_fill_row accepts for this row's scheme)\n - value (string | number): the suggested value; a rating must be one the scheme allows\n - rationale (string, optional): the evidence behind a suggested RATING\n\nReturns:\n { row_id, subtype, scheme, field, field_source: \"mcp\", written_fields,\n rationale_field?, approval_cleared?, row: { id, computed_level, approved, mcp_fields, ...scheme fields } }\n approval_cleared: true means the row WAS approved and this suggestion cleared approved, approved_by,\n approved_at and approved_note: a signature never covers content the approver did not see.\n\nSide effects:\n - Saves the row with stale-write protection and logs to change_history\n - Marks the written field(s) field_source='mcp'; the row stays unapproved\n - On an approved row: clears the approval (history-logged with the reason)",inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),row_id:o.z.string().min(1).max(20).describe("Analysis row ID (e.g. SG-001, FM-003)"),field:o.z.string().min(1).max(64).describe("The field to fill (a scheme key of this row)"),value:o.z.union([o.z.string().max(5e4),o.z.number()]).describe("The suggested value"),rationale:o.z.string().max(5e4).optional().describe("The evidence behind a suggested rating; written to the scheme's evidence field")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_suggest_field",async e=>{const{suggestFieldHandler:t}=await Promise.resolve().then(()=>(Ro(),Ks));return t(e)})),So("atoms_approve_row",{title:"Approve an Analysis Row in a Named Person's Name",description:'Record the sign-off of ONE analysis row, naming who approved it.\n\nRequires editor or admin role. The approver must be a member of the project\'s organization: a\nname that cannot be traced to a member is refused, never stored. The note is optional. Approving\nclears the machine-proposed (✦) markers on the row: the approver takes those values as their own.\nA row whose ratings are incomplete cannot be approved (its level is unset), matching the grid.\n\nThis tool signs off one analysis row. It has nothing to do with change control: it never\napproves, dismisses or applies a suggestion (REQ-CHG-062).\n\nArgs:\n - project_id (string, UUID): Project containing the row\n - row_id (string): Analysis row ID (e.g. "SG-001", "RSK-002", "FM-003", "PF-004")\n - approver_id (string, UUID, optional): the approving member; defaults to the calling user\n - note (string, optional): the note captured with the approval\n\nReturns:\n { row_id, subtype, scheme, approved: true, approved_by, approved_at, approved_note,\n approver_role, computed_level, cleared_markers }\n\nSide effects:\n - Saves the row with stale-write protection: approved, approved_at, approved_by, approved_note\n - Flips every field_source=\'mcp\' entry on the row to \'user\'\n - Logs the approval (previous and new values) to change_history',inputSchema:{project_id:o.z.string().uuid().describe("UUID of the project"),row_id:o.z.string().min(1).max(20).describe("Analysis row ID (e.g. SG-001, FM-003)"),approver_id:o.z.string().uuid().optional().describe("The approving project member; defaults to the calling user"),note:o.z.string().max(2e3).optional().describe("Optional note captured with the approval")},annotations:{readOnlyHint:!1,destructiveHint:!1,idempotentHint:!0,openWorldHint:!1}},zo("atoms_approve_row",async e=>{const{approveRowHandler:t}=await Promise.resolve().then(()=>(Ro(),Ks));return t(e)}))}});B(),C(),Ne(),U();var Po=c.createRequire("undefined"==typeof document?require("url").pathToFileURL(__filename).href:m&&"SCRIPT"===m.tagName.toUpperCase()&&m.src||new URL("index.cjs",document.baseURI).href)("../package.json"),Uo=process.argv.slice(2)[0];(async function(){switch(Uo){case"login":{const{login:e}=await Promise.resolve().then(()=>(Ke(),Fe));try{const{email:t}=await e();process.stderr.write(`\n [32m✓[0m Authenticated as ${t}\n`),process.stderr.write(" [32m✓[0m Credentials saved to ~/.atoms/credentials.json\n\n"),process.stderr.write(" [1mNext steps:[0m\n"),process.stderr.write(" [36m$[0m claude mcp add atoms -- npx -y @atoms-tech/atoms-mcp\n"),process.stderr.write("\n Or add to Claude Desktop (Settings → MCP → Edit Config):\n"),process.stderr.write(' [90m{\n "mcpServers": {\n "atoms": {\n "command": "npx",\n "args": ["-y", "@atoms-tech/atoms-mcp"]\n }\n }\n }[0m\n\n')}catch(e){process.stderr.write(`\n [31m✗[0m ${e instanceof Error?e.message:String(e)}\n\n`),process.exit(1)}break}case"whoami":{const{getValidToken:e}=await Promise.resolve().then(()=>(Re(),ve));try{const{email:t,user_id:r}=await e();process.stderr.write(`\n [32m✓[0m Logged in as ${t}\n [90mUser ID: ${r}[0m\n\n`)}catch(e){process.stderr.write(`\n [31m✗[0m Not authenticated: ${e instanceof Error?e.message:String(e)}\n Run: npx @atoms-tech/atoms-mcp login\n\n`),process.exit(1)}break}case"logout":{const{clearCredentials:e}=await Promise.resolve().then(()=>(oe(),J));await e(),process.stderr.write("Logged out. Credentials removed.\n"),process.stderr.write("Run 'npx @atoms-tech/atoms-mcp login' to authenticate again.\n");break}case"--version":case"-v":process.stderr.write(`@atoms-tech/atoms-mcp v${Po.version}\n`);break;case"--help":case"-h":process.stderr.write("ATOMS MCP Server — AI agent integration for requirements management\n\nUsage:\n npx @atoms-tech/atoms-mcp Start MCP server (stdio)\n npx @atoms-tech/atoms-mcp login Authenticate with ATOMS.tech\n npx @atoms-tech/atoms-mcp logout Switch account / clear credentials\n npx @atoms-tech/atoms-mcp whoami Show current user\n npx @atoms-tech/atoms-mcp --version Show version\n");break;default:{process.stderr.write("[atoms-mcp] Starting MCP server via stdio...\n");{const{getValidToken:e,readValidToken:t}=await Promise.resolve().then(()=>(Re(),ve)),{runExclusiveAuth:r}=await Promise.resolve().then(()=>(he(),de)),{login:i}=await Promise.resolve().then(()=>(Ke(),Fe));try{let a;try{a=(await e()).email}catch(e){process.stderr.write(`[atoms-mcp] Could not use the saved session: ${e instanceof Error?e.message:String(e)}\n`),process.stderr.write("[atoms-mcp] Starting login flow...\n");const n=async()=>{const e=await t();if(!e)throw new Error("no valid token yet");return{email:e.email}};a=(await r(n,async()=>({email:(await i()).email}))).email}process.stderr.write(`[atoms-mcp] Authenticated as ${a}\n`)}catch(e){process.stderr.write(`[atoms-mcp] Login failed: ${e instanceof Error?e.message:String(e)}\n[atoms-mcp] Starting server without auth. Tools will fail until you run: npx @atoms-tech/atoms-mcp login\n`)}}try{const t=await qe(),r=De(),i=await async function(e,t){const r=process.env.ATOMS_MCP_ORG_ID?.trim();if(r)return r;const{data:i,error:a}=await e.from("org_members").select("org_id, joined_at").eq("user_id",t).order("joined_at",{ascending:!0}).limit(1).maybeSingle();return a?(process.stderr.write(`[atoms-mcp] Could not resolve session org: ${a.message}\n`),null):i?.org_id??null}(t,r),a=await async function(e,t,r){if(!r)return{role:null,is_member:!1,effective:M};const{data:i,error:a}=await e.rpc("mcp_resolve_policy",{p_user_id:t,p_org_id:r});return a?(process.stderr.write(`[atoms-mcp] mcp_resolve_policy failed (${a.code}): ${a.message}. Falling back to fail-closed policy.\n`),{role:null,is_member:!1,effective:H}):function(e){if(!e||"object"!=typeof e)return{role:null,is_member:!1,effective:M};const t=e,r="string"==typeof t.role?t.role:null,i=!0===t.is_member,a=t.effective??{},n=(e,t)=>Array.isArray(e)?e.filter(e=>"string"==typeof e):t,s=(e,t)=>"boolean"==typeof e?e:t,o=a.project_scope,d=Array.isArray(o)&&o.length>0?o.filter(e=>"string"==typeof e):null;return{role:r,is_member:i,effective:{read_only:s(a.read_only,M.read_only),lockdown:s(a.lockdown,M.lockdown),block_destructive:s(a.block_destructive,M.block_destructive),block_bulk_import:s(a.block_bulk_import,M.block_bulk_import),cross_project_browse:s(a.cross_project_browse,M.cross_project_browse),allowed_toolsets:n(a.allowed_toolsets,M.allowed_toolsets),forbidden_tools:n(a.forbidden_tools,M.forbidden_tools),project_scope:d,require_confirmation_for:n(a.require_confirmation_for,M.require_confirmation_for)}}}(i)}(t,r,i);e={effective:a.effective,role:a.role,org_id:i},D=e.effective,$=e.org_id,a.is_member&&i?process.stderr.write(`[atoms-mcp] Org policy loaded: org=${i.slice(0,8)}… role=${a.role??"?"} read_only=${a.effective.read_only} lockdown=${a.effective.lockdown}\n`):process.stderr.write("[atoms-mcp] No org membership detected — running with permissive default policy.\n")}catch(e){process.stderr.write(`[atoms-mcp] Could not resolve session policy (${e instanceof Error?e.message:String(e)}). Running with permissive default — RLS still enforces row-level access.\n`)}process.stderr.write(`[atoms-mcp] Tool registry: ${function(){const e=F(),t=N(),r=[];r.push(e?"read-only":"read+write"),null===t?r.push("all toolsets"):(r.push(`toolsets=${[...t.allowed].sort().join(",")||"(none — only always-on tools)"}`),t.unknown.length>0&&r.push(`unknown=${t.unknown.join(",")}`));const i=process.env.ATOMS_MCP_PROJECT_ID?.trim();return i&&r.push(`project_scope=${i.slice(0,8)}…`),("1"===process.env.ATOMS_MCP_LOCKDOWN||"true"===process.env.ATOMS_MCP_LOCKDOWN)&&r.push("lockdown=on"),r.join(" | ")}()}\n`);const{server:t}=await Promise.resolve().then(()=>($o(),Oo)),r=new p.StdioServerTransport;await t.connect(r),process.stderr.write("[atoms-mcp] MCP server running. Waiting for tool calls...\n")}}var e})().catch(e=>{process.stderr.write(`[atoms-mcp] Fatal: ${e instanceof Error?e.message:String(e)}\n`),process.exit(1)});
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