@atomic-ehr/codegen 0.0.3-canary.20251204115318.cfff12f → 0.0.3-canary.20251204134016.a4491f8

package/dist/cli/index.js

@@ -1,12 +1,12 @@
 #!/usr/bin/env node
-import k from'picocolors';import Pn from'yargs';import {hideBin}from'yargs/helpers';import*as C from'fs';import C__default,{existsSync}from'fs';import*as P from'path';import P__default,{dirname,resolve}from'path';import*as M from'fs/promises';import {mkdir,writeFile,readFile}from'fs/promises';import {CanonicalManager}from'@atomic-ehr/fhir-canonical-manager';import*as gt from'@atomic-ehr/fhirschema';import {isStructureDefinition}from'@atomic-ehr/fhirschema';import*as Ct from'yaml';var _=class n{options;dryWarnSet=new Set;constructor(e={}){this.options={timestamp:false,verbose:false,...e};}static consoleLevelsMap={1:console.log,2:console.warn,3:console.error,0:console.log,4:()=>{}};formatMessage(e,t,r){let o=this.options.timestamp?`${k.gray(new Date().toLocaleTimeString())} `:"",i=this.options.prefix?`${k.cyan(`[${this.options.prefix}]`)} `:"";return `${o}${r(e)} ${i}${t}`}isSuppressed(e){return this.options.suppressLoggingLevel==="all"||this.options.suppressLoggingLevel?.includes(e)||false}tryWriteToConsole(e,t){if(this.isSuppressed(e))return;(n.consoleLevelsMap[e]||console.log)(t);}success(e){this.tryWriteToConsole(1,this.formatMessage("",e,k.green));}error(e,t){this.isSuppressed(3)||(console.error(this.formatMessage("X",e,k.red)),t&&this.options.verbose&&(console.error(k.red(`   ${t.message}`)),t.stack&&console.error(k.gray(t.stack))));}warn(e){this.tryWriteToConsole(2,this.formatMessage("!",e,k.yellow));}dry_warn(e){this.dryWarnSet.has(e)||(this.warn(e),this.dryWarnSet.add(e));}info(e){this.tryWriteToConsole(1,this.formatMessage("i",e,k.blue));}debug(e){this.options.verbose&&this.tryWriteToConsole(0,this.formatMessage("\u{1F41B}",e,k.magenta));}step(e){this.tryWriteToConsole(1,this.formatMessage("\u{1F680}",e,k.cyan));}progress(e){this.tryWriteToConsole(1,this.formatMessage("\u23F3",e,k.blue));}plain(e,t=r=>r){let r=this.options.timestamp?`${k.gray(new Date().toLocaleTimeString())} `:"",o=this.options.prefix?`${k.cyan(`[${this.options.prefix}]`)} `:"";this.tryWriteToConsole(1,`${r}${o}${t(e)}`);}dim(e){this.plain(e,k.gray);}child(e){return new n({...this.options,prefix:this.options.prefix?`${this.options.prefix}:${e}`:e})}configure(e){this.options={...this.options,...e};}},j=new _;function ve(n){j.success(n);}function F(n,e){j.error(n,e);}function Ge(n){j.warn(n);}function Te(n){j.info(n);}function ze(n){j.step(n);}function Bt(n){j.dim(n);}function We(n){j.configure(n);}function N(n={}){return new _(n)}function qe(n){console.log(),console.log(k.cyan(k.bold(`\u2501\u2501\u2501 ${n} \u2501\u2501\u2501`)));}function Je(n,e,t){let r=n;e&&(r+=` ${k.gray(`(${e}ms)`)}`),ve(r),t&&Object.entries(t).forEach(([o,i])=>{Bt(`  ${o}: ${i}`);});}function G(n,e="\u2022"){n.forEach(t=>{console.log(k.gray(`  ${e} ${t}`));});}var ke=n=>n.split(/(?<=[a-z])(?=[A-Z])|[-_.\s]/).filter(Boolean),Ke=n=>ke(n).map(e=>e.toLowerCase()).join("-"),Xe=n=>{if(n.length===0)throw new Error("Empty string");return n[0]?.toUpperCase()+n.substring(1).toLowerCase()},Ye=n=>{if(n.length===0)throw new Error("Empty string");let[e,...t]=ke(n);return [e?.toLowerCase(),...t.map(Xe)].join("")},ne=n=>ke(n).map(Xe).join("");var I=n=>!n||n.length===0?n:n.charAt(0).toUpperCase()+n.slice(1),re=n=>n.map(e=>I(e));var Ze=n=>`<${n.identifier.url}> from ${n.identifier.package}#${n.identifier.version}`;var Re=class{opts;currentDir;currentFile;writtenFilesBuffer={};constructor(e){this.opts=e;}setOutputDir(e){if(this.currentDir)throw new Error("Can't change output dir while writing");this.opts.outputDir=e;}logger(){return this.opts.logger}onDiskMkDir(e){this.opts.inMemoryOnly||C.existsSync(e)||C.mkdirSync(e,{recursive:true});}onDiskOpenFile(e){return this.opts.inMemoryOnly?-1:C.openSync(e,"w")}onDiskCloseFile(e){this.opts.inMemoryOnly||(C.fsyncSync(e),C.closeSync(e));}onDiskWrite(e,t){this.opts.inMemoryOnly||C.writeSync(e,t);}cd(e,t){let r=this.currentDir;this.currentDir=e.startsWith("/")?P.join(this.opts.outputDir,e):P.join(this.currentDir??this.opts.outputDir,e),this.onDiskMkDir(this.currentDir),this.logger()?.debug(`cd '${this.currentDir}'`),t(),this.currentDir=r;}cat(e,t){if(this.currentFile)throw new Error("Can't open file when another file is open");if(e.includes("/"))throw new Error(`Change file path separatly: ${e}`);let r=P.normalize(`${this.currentDir}/${e}`);try{let o=this.onDiskOpenFile(r);this.logger()?.debug(`cat > '${r}'`),this.currentFile={descriptor:o,relPath:r},this.writtenFilesBuffer[this.currentFile.relPath]={relPath:r,absPath:P.resolve(r),tokens:[]},t();}finally{this.currentFile&&this.onDiskCloseFile(this.currentFile.descriptor),this.currentFile=void 0;}}write(e){if(!this.currentFile)throw new Error("No file 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+import x from'picocolors';import Pr from'yargs';import {hideBin}from'yargs/helpers';import*as T from'fs';import T__default,{existsSync}from'fs';import*as P from'path';import P__default,{dirname,resolve}from'path';import*as M from'fs/promises';import {mkdir,writeFile,readFile}from'fs/promises';import {CanonicalManager}from'@atomic-ehr/fhir-canonical-manager';import*as gt from'@atomic-ehr/fhirschema';import {isStructureDefinition}from'@atomic-ehr/fhirschema';import*as Tt from'yaml';import nr from'assert';var _=class r{options;dryWarnSet=new Set;constructor(e={}){this.options={timestamp:false,verbose:false,...e};}static consoleLevelsMap={1:console.log,2:console.warn,3:console.error,0:console.log,4:()=>{}};formatMessage(e,t,n){let o=this.options.timestamp?`${x.gray(new Date().toLocaleTimeString())} `:"",i=this.options.prefix?`${x.cyan(`[${this.options.prefix}]`)} `:"";return `${o}${n(e)} ${i}${t}`}isSuppressed(e){return this.options.suppressLoggingLevel==="all"||this.options.suppressLoggingLevel?.includes(e)||false}tryWriteToConsole(e,t){if(this.isSuppressed(e))return;(r.consoleLevelsMap[e]||console.log)(t);}success(e){this.tryWriteToConsole(1,this.formatMessage("",e,x.green));}error(e,t){this.isSuppressed(3)||(console.error(this.formatMessage("X",e,x.red)),t&&this.options.verbose&&(console.error(x.red(`   ${t.message}`)),t.stack&&console.error(x.gray(t.stack))));}warn(e){this.tryWriteToConsole(2,this.formatMessage("!",e,x.yellow));}dry_warn(e){this.dryWarnSet.has(e)||(this.warn(e),this.dryWarnSet.add(e));}info(e){this.tryWriteToConsole(1,this.formatMessage("i",e,x.blue));}debug(e){this.options.verbose&&this.tryWriteToConsole(0,this.formatMessage("\u{1F41B}",e,x.magenta));}step(e){this.tryWriteToConsole(1,this.formatMessage("\u{1F680}",e,x.cyan));}progress(e){this.tryWriteToConsole(1,this.formatMessage("\u23F3",e,x.blue));}plain(e,t=n=>n){let n=this.options.timestamp?`${x.gray(new Date().toLocaleTimeString())} `:"",o=this.options.prefix?`${x.cyan(`[${this.options.prefix}]`)} `:"";this.tryWriteToConsole(1,`${n}${o}${t(e)}`);}dim(e){this.plain(e,x.gray);}child(e){return new r({...this.options,prefix:this.options.prefix?`${this.options.prefix}:${e}`:e})}configure(e){this.options={...this.options,...e};}},B=new _;function ve(r){B.success(r);}function I(r,e){B.error(r,e);}function ze(r){B.warn(r);}function xe(r){B.info(r);}function We(r){B.step(r);}function Lt(r){B.dim(r);}function qe(r){B.configure(r);}function N(r={}){return new _(r)}function Je(r){console.log(),console.log(x.cyan(x.bold(`\u2501\u2501\u2501 ${r} \u2501\u2501\u2501`)));}function Ke(r,e,t){let n=r;e&&(n+=` ${x.gray(`(${e}ms)`)}`),ve(n),t&&Object.entries(t).forEach(([o,i])=>{Lt(`  ${o}: ${i}`);});}function G(r,e="\u2022"){r.forEach(t=>{console.log(x.gray(`  ${e} ${t}`));});}var ke=r=>r.split(/(?<=[a-z])(?=[A-Z])|[-_.\s]/).filter(Boolean),Qe=r=>ke(r).map(e=>e.toLowerCase()).join("-"),Xe=r=>{if(r.length===0)throw new Error("Empty string");return r[0]?.toUpperCase()+r.substring(1).toLowerCase()},Ye=r=>{if(r.length===0)throw new Error("Empty string");let[e,...t]=ke(r);return [e?.toLowerCase(),...t.map(Xe)].join("")},re=r=>ke(r).map(Xe).join("");var F=r=>!r||r.length===0?r:r.charAt(0).toUpperCase()+r.slice(1),ne=r=>r.map(e=>F(e));var Ze=r=>`<${r.identifier.url}> from ${r.identifier.package}#${r.identifier.version}`;var Te=class{opts;currentDir;currentFile;writtenFilesBuffer={};constructor(e){this.opts=e;}setOutputDir(e){if(this.currentDir)throw new Error("Can't change output dir while writing");this.opts.outputDir=e;}logger(){return this.opts.logger}onDiskMkDir(e){this.opts.inMemoryOnly||T.existsSync(e)||T.mkdirSync(e,{recursive:true});}onDiskOpenFile(e){return this.opts.inMemoryOnly?-1:T.openSync(e,"w")}onDiskCloseFile(e){this.opts.inMemoryOnly||(T.fsyncSync(e),T.closeSync(e));}onDiskWrite(e,t){this.opts.inMemoryOnly||T.writeSync(e,t);}cd(e,t){let n=this.currentDir;this.currentDir=e.startsWith("/")?P.join(this.opts.outputDir,e):P.join(this.currentDir??this.opts.outputDir,e),this.onDiskMkDir(this.currentDir),this.logger()?.debug(`cd '${this.currentDir}'`),t(),this.currentDir=n;}cat(e,t){if(this.currentFile)throw new Error("Can't open file when another file is open");if(e.includes("/"))throw new Error(`Change file path separatly: ${e}`);let n=P.normalize(`${this.currentDir}/${e}`);try{let o=this.onDiskOpenFile(n);this.logger()?.debug(`cat > '${n}'`),this.currentFile={descriptor:o,relPath:n},this.writtenFilesBuffer[this.currentFile.relPath]={relPath:n,absPath:P.resolve(n),tokens:[]},t();}finally{this.currentFile&&this.onDiskCloseFile(this.currentFile.descriptor),this.currentFile=void 0;}}write(e){if(!this.currentFile)throw new Error("No file opened");this.onDiskWrite(this.currentFile.descriptor,e);let t=this.writtenFilesBuffer[this.currentFile.relPath];if(!t)throw new Error("No buffer found");t.tokens.push(e);}writtenFiles(){return Object.values(this.writtenFilesBuffer).map(({relPath:e,absPath:t,tokens:n})=>({relPath:e,absPath:t,content:n.join()})).sort((e,t)=>e.relPath.localeCompare(t.relPath))}},z=class extends Te{currentIndent=0;indent(){this.currentIndent+=this.opts.tabSize;}deindent(){this.currentIndent-=this.opts.tabSize;}writeIndent(){this.write(" ".repeat(this.currentIndent));}line(...e){e.length===0?this.write(`
 `):(this.writeIndent(),this.write(`${e.join(" ")}
 `));}lineSM(...e){this.writeIndent(),this.write(`${e.join(" ")};
 `);}comment(...e){let t=e.join(" ").split(`
-`);for(let r of t)this.line(this.opts.commentLinePrefix,r);}debugComment(...e){this.opts.withDebugComment&&(e=e.map(t=>typeof t=="string"?t:JSON.stringify(t,null,2)),this.comment(...e));}disclaimer(){return ["WARNING: This file is autogenerated by @atomic-ehr/codegen.","GitHub: https://github.com/atomic-ehr/codegen","Any manual changes made to this file may be overwritten."]}generateDisclaimer(){this.disclaimer().forEach(e=>{this.comment(e);}),this.line();}indentBlock(e){this.indent(),e(),this.deindent();}curlyBlock(e,t,r){this.line(`${e.filter(Boolean).join(" ")} {`),this.indent(),t(),this.deindent(),this.line(`}${r?.filter(Boolean).join(" ")??""}`);}squareBlock(e,t,r){this.line(`${e.filter(Boolean).join(" ")} [`),this.indent(),t(),this.deindent(),this.line(`]${r?.filter(Boolean).join(" ")??""}`);}};var ie=(n,e=true)=>{let t=n.split("/").pop();if(t&&(e&&t.includes("#")&&(t=t.split("#")[0]),!!t))return /^\d/.test(t)&&(t=`number_${t}`),t};var v=n=>`${n.name}#${n.version}`,Ce=n=>`${n.name}@${n.version}`;var xe=(n,e)=>(e||(e={name:"undefined",version:"undefined"}),{...n,package_meta:n.package_meta||e,name:n.name,url:n.url,base:n.base}),q=n=>n?.kind==="primitive-type",O=n=>n?.kind==="nested",Qe=n=>n?.kind==="complex-type",et=n=>n?.kind==="profile";var V=n=>n?.identifier.kind==="resource"||n?.identifier.kind==="complex-type"||n?.identifier.kind==="logical",tt=n=>n?.identifier.kind==="complex-type",w=n=>n?.identifier.kind==="resource",nt=n=>n?.identifier.kind==="primitive-type",D=n=>n?.identifier.kind==="logical",oe=n=>n?.identifier.kind==="profile";function rt(n){return n?.identifier.kind==="binding"}function it(n){return n?.identifier.kind==="value-set"}var J=n=>n?n.choices===void 0:false,U=n=>n?n.choices!==void 0:false,Fe=n=>n?.resourceType==="ValueSet",ot=n=>n?.resourceType==="CodeSystem",st=(n,e)=>{if(!n.url)throw new Error("ValueSet must have a URL");if(!n.name)throw new Error("ValueSet must have a name");return 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At={boolean:"bool",instant:"string",time:"string",date:"string",dateTime:"string",decimal:"decimal",integer:"int",unsignedInt:"long",positiveInt:"long",integer64:"long",base64Binary:"string",uri:"string",url:"string",canonical:"string",oid:"string",uuid:"string",string:"string",code:"string",markdown:"string",id:"string",xhtml:"string"},_t=["Reference","Expression"],Gt=n=>n.required?["required"]:[],zt=n=>{let e=ut(dt(n.identifier));return I(e)},Wt=n=>n.base?`: ${n.base.name}`:"",qt=(n,e=true)=>{if(!n)return;let t=n.split("/").pop();if(t&&(e&&t.includes("#")&&(t=t.split("#")[0]),!!t))return /^\d/.test(t)&&(t=`number_${t}`),$(t)},dt=n=>{if(n.kind==="nested"){let e=n.url,t=qt(e,false);if(!t)return "";let[r,o]=t.split("#"),i=re((o??"").split(".")).join("");return $([r,i].join(""))}return $(n.name)},Jt=n=>_t.includes(n),ut=n=>Jt(n)?`Resource${n}`:n,se=class extends z{enums={};constructor(e){super({tabSize:4,withDebugComment:false,commentLinePrefix:"//",...e});}async generate(e){let t=e.collectComplexTypes(),r=e.collectResources(),o=Array.from(new Set(r.map(i=>$(i.identifier.package))));this.generateAllFiles(t,r,o),this.copyStaticFiles();}generateAllFiles(e,t,r){this.generateUsingFile(r),this.generateBaseTypes(e),this.generateResources(t),this.generateEnumFiles(r),this.generateResourceDictionaries(t,r),this.generateHelperFile();}generateType(e,t){let r=zt(e),o=Wt(e);this.curlyBlock(["public","class",r,o],()=>{this.generateFields(e,t),this.generateNestedTypes(e,t),this.line(),this.includeHelperMethods();}),this.line();}generateFields(e,t){if(!e.fields)return;let r=Object.entries(e.fields).sort(([o],[i])=>o.localeCompare(i));for(let[o,i]of r)this.generateField(o,i,t);}generateNestedTypes(e,t){if(!(!("nested"in e)||!e.nested)){this.line();for(let r of e.nested)this.generateType(r,t);}}generateField(e,t,r){try{if(U(t))return;let o=this.buildFieldDeclaration(e,t,r);this.line(...o);}catch(o){this.logger()?.error(`Error processing field ${e}: 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Helper.JsonSerializerOptions);"),this.line();}generateUsingFile(e){this.cd("/",async()=>{this.cat("Usings.cs",()=>{this.generateDisclaimer(),this.generateGlobalUsings(e);});});}generateGlobalUsings(e){let t=["CSharpSDK","System.Text.Json","System.Text.Json.Serialization",this.opts.targetNamespace,...e.map(r=>`${this.opts.targetNamespace}.${r}`)];for(let r of t)this.lineSM("global","using",r);}generateBaseTypes(e){this.cd("/",async()=>{this.cat("base.cs",()=>{this.generateDisclaimer(),this.line(),this.lineSM("namespace",this.opts.targetNamespace);for(let t of e){let r=$(t.identifier.package);this.generateType(t,r);}});});}generateResources(e){for(let t of e)this.generateResourceFile(t);}generateResourceFile(e){let t=$(e.identifier.package);this.cd(`/${t}`,async()=>{this.cat(`${e.identifier.name}.cs`,()=>{this.generateDisclaimer(),this.line(),this.lineSM("namespace",`${this.opts.targetNamespace}.${t}`),this.line(),this.generateType(e,t);});});}generateEnumFiles(e){for(let t of e)this.generatePackageEnums(t);}generatePackageEnums(e){let t=this.enums[e];!t||Object.keys(t).length===0||this.cd(`/${e}`,async()=>{this.cat(`${e}Enums.cs`,()=>{this.generateDisclaimer(),this.generateEnumFileContent(e,t);});});}generateEnumFileContent(e,t){this.lineSM("using","System.ComponentModel"),this.line(),this.lineSM(`namespace ${this.opts.targetNamespace}.${e}`);for(let[r,o]of Object.entries(t))this.generateEnum(r,o);}generateEnum(e,t){this.curlyBlock(["public","enum",e],()=>{for(let r of t)this.line(`[Description("${r}")]`),this.line(`${ct(r)},`);}),this.line();}generateResourceDictionaries(e,t){this.cd("/",async()=>{for(let r of t){let o=e.filter(i=>$(i.identifier.package)===r);if(o.length===0)return;this.cat(`${r}ResourceDictionary.cs`,()=>{this.generateDisclaimer(),this.line(),this.lineSM(`namespace 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ue(n,e,t){if(!e.url)throw new Error("ValueSet URL is required");let r=ae(n,e.package_meta,e.url),o=Ne(n,e.package_meta,e.url);return {identifier:r,description:e.description,concept:o,compose:o?void 0:e.compose}}function Oe(n,e,t,r){let o=[];e&&o.push(e),t&&o.push(...an(t)),r&&o.push(...St(r));let i={};for(let a of o)a.url!==n.url&&(i[a.url]=a);let s=new Set(r?.map(a=>a.identifier.url)),c=Object.values(i).filter(a=>et(n)||!O(a)?true:!s.has(a.url)).sort((a,l)=>a.url.localeCompare(l.url));return c.length>0?c:void 0}function ln(n,e,t){let r=H(e),o;if(e.base&&e.type!=="Element"){let d=n.resolveFs(e.package_meta,n.ensureSpecializationCanonicalUrl(e.base));if(!d)throw new Error(`Base resource not found '${e.base}' for <${e.url}> from ${v(e.package_meta)}`);o=H(d);}let i=sn(n,e,[],e.elements,t),s=$e(n,e,t),c=Oe(r,o,i,s),a={identifier:r,base:o,fields:i,nested:s,description:e.description,dependencies:c},l=kt(n,e,t);return [a,...l]}async function fe(n,e,t){let r=ln(n,e,t);if(cn(e,H(e))){let o=r[0];if(!o)throw new Error("Expected schema to be defined");o.metadata={isExtension:true};}return r}var De=n=>{let e={};for(let t of n){let r=t.identifier.package;e[r]||(e[r]=[]),e[r].push(t);}for(let[t,r]of Object.entries(e)){let o={};for(let s of r)o[JSON.stringify(s.identifier)]=s;let i=Object.values(o);i.sort((s,c)=>s.identifier.name.localeCompare(c.identifier.name)),e[t]=i;}return e},pn=(n,e,t)=>{if(n=structuredClone(n),nt(n)||it(n)||rt(n))return n;for(let r of e.ignoreFields??[]){if(n.fields&&!n.fields[r])throw new Error(`Field ${r} not found`);n.fields&&delete n.fields[r];}return n.dependencies=Oe(n.identifier,n.base,n.fields,n.nested),n},xt=(n,e,{resolutionTree:t,logger:r})=>{let o=[];for(let[c,a]of Object.entries(e))for(let[l,d]of Object.entries(a)){let h=n.resolveByUrl(c,l);if(!h)throw new Error(`Schema not found for ${c} ${l}`);let m=pn(h,d);o.push(m);}let i=(c,a)=>{if(c.length===0)return Object.values(a);for(let d of c)a[JSON.stringify(d.identifier)]=d;let l=[];for(let d of c)if(V(d)){if(!d.dependencies)continue;if(d.dependencies.forEach(h=>{let m=n.resolve(h);if(!m)throw new Error(`Schema not found for ${h}`);let p=JSON.stringify(m.identifier);a[p]||l.push(m);}),d.nested)for(let h of d.nested){if(O(h.identifier))continue;let m=JSON.stringify(h.identifier);a[m]||l.push(h);}}return i(l,a)},s=i(o,{});return Me(s,{resolutionTree:t,logger:r})},dn=n=>{let e=n.filter(i=>w(i)||D(i)),t=[];for(let i of e)i.base&&t.push({parent:i.base,child:i.identifier});let r=[...t],o=i=>{let s=t.filter(a=>a.parent.name===i.name).map(a=>a.child),c=[];for(let a of s)c.push(...o(a));return [...s,...c]};for(let i of t){let s=o(i.child);for(let c of s)t.some(a=>a.parent.name===i.parent.name&&a.child.name===c.name)||r.push({parent:i.parent,child:c});}return r},Me=(n,{resolutionTree:e,logger:t})=>{let r={},o=u=>{let f=u.identifier.url,S=u.identifier.package;if(r[f]||(r[f]={}),r[f][u.identifier.package]&&S!=="shared"){let T=JSON.stringify(u.identifier,void 0,2),b=JSON.stringify(r[f][S]?.identifier,void 0,2);if(T!==b)throw new Error(`Duplicate schema: ${T} and ${b}`);return}r[f][S]=u;};for(let u of n)o(u);let i=dn(n),s=u=>r[u.url]?.[u.package],c=(u,f)=>{if(e){let S=e[u]?.[f]?.[0];if(S)return r[f]?.[S.pkg.name]}return r[f]?.[u]},a=u=>i.filter(f=>f.parent.name===u.name).map(f=>f.child),l=u=>{let f=[],S=u;for(;S;){f.push(S);let T=S.base;if(T===void 0)break;let b=s(T);if(!b){t?.warn(`Failed to resolve base type: ${f.map(x=>`${x.identifier.url} (${x.identifier.kind})`).join(", ")}`);return}S=b;}return f},d=u=>{let f=l(u);if(f===void 0)throw new Error(`Failed to resolve base type: ${u.identifier.url} (${u.identifier.kind})`);return f},h=u=>{let f=d(u).find(S=>S.identifier.kind!=="profile");if(!f)throw new Error(`No non-constraint schema found in hierarchy for: ${u.identifier.name}`);return f};return {_schemaIndex:r,_relations:i,collectComplexTypes:()=>n.filter(tt),collectResources:()=>n.filter(w),collectLogicalModels:()=>n.filter(D),collectProfiles:()=>n.filter(oe),resolve:s,resolveByUrl:c,resourceChildren:a,tryHierarchy:l,hierarchy:d,findLastSpecialization:h,findLastSpecializationByIdentifier:u=>{let f=s(u);return f?h(f).identifier:u},flatProfile:u=>{let f=d(u),S=f.filter(E=>E.identifier.kind==="profile"),T=f.find(E=>E.identifier.kind!=="profile");if(!T)throw new Error(`No non-constraint schema found in hierarchy for ${u.identifier.name}`);let b={};for(let E of S.slice().reverse()){let ee=E;if(ee.fields)for(let[te,_e]of Object.entries(ee.fields))b[te]?b[te]={...b[te],..._e}:b[te]={..._e};}let x={};for(let E of S.flatMap(ee=>ee.dependencies??[]))x[E.url]=E;let L=Object.values(x);return {...u,base:T.identifier,fields:b,dependencies:L}},isWithMetaField:u=>{let f=l(u);return f?f.filter(V).some(S=>S.fields?.meta!==void 0):false},exportTree:async u=>{let f={};for(let[T,b]of Object.entries(De(n))){f[T]={"primitive-type":{},"complex-type":{},resource:{},"value-set":{},nested:{},binding:{},profile:{},logical:{}};for(let x of b)f[T][x.identifier.kind][x.identifier.url]={};}let S=u.endsWith(".yaml")?Ct.stringify(f):JSON.stringify(f,void 0,2);await M.mkdir(P.dirname(u),{recursive:true}),await M.writeFile(u,S);}}};var Y=class{manager;options;logger;constructor(e={}){this.options={verbose:false,...e},this.manager=e.manager||CanonicalManager({packages:[],workingDir:"tmp/fhir"}),this.logger=e.logger||N({verbose:this.options.verbose,prefix:"TypeSchema"});}async registerFromPackageMetas(e){let t=e.map(v);return this.logger?.step(`Loading FHIR packages: ${t.join(", ")}`),await this.manager.init(),K(this.manager,{focusedPackages:e})}generateFhirSchemas(e){this.logger?.progress(`Converting ${e.length} StructureDefinitions to FHIRSchemas`);let t=[],r=0,o=0;for(let i of e)try{let s=gt.translate(i);t.push(s),r++,this.logger?.debug(`Converted StructureDefinition: 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this.registerFromPackageMetas([o]),s=await this.generateValueSetSchemas(i.allVs(),r);return [...(await Promise.all(i.allFs().map(async l=>await fe(i,l,r)))).flat(),...s]}};var Z="Use CodeableReference which is not provided by FHIR R4.",fn="Use Availability which is not provided by FHIR R4.",It={"hl7.fhir.uv.extensions.r4#1.0.0":{"http://hl7.org/fhir/StructureDefinition/extended-contact-availability":fn,"http://hl7.org/fhir/StructureDefinition/immunization-procedure":Z,"http://hl7.org/fhir/StructureDefinition/specimen-additive":Z,"http://hl7.org/fhir/StructureDefinition/workflow-barrier":Z,"http://hl7.org/fhir/StructureDefinition/workflow-protectiveFactor":Z,"http://hl7.org/fhir/StructureDefinition/workflow-reason":Z},"hl7.fhir.r5.core#5.0.0":{"http://hl7.org/fhir/StructureDefinition/shareablecodesystem":"FIXME: CodeSystem.concept.concept defined by ElementReference. FHIR Schema generator output broken value in it, so we just skip it for now."}},wt=async(n,e)=>{let t=[];for(let r of n.allFs()){let o=v(r.package_meta);if(It[o]?.[r.url]){e?.dry_warn(`Skip ${r.url} from ${o}. Reason: ${It[o]?.[r.url]}`);continue}t.push(...await fe(n,r,e));}for(let r of n.allVs())t.push(await ue(n,r));return t};var gn={boolean:"boolean",instant:"string",time:"string",date:"string",dateTime:"string",decimal:"number",integer:"number",unsignedInt:"number",positiveInt:"number",integer64:"number",base64Binary:"string",uri:"string",url:"string",canonical:"string",oid:"string",uuid:"string",string:"string",code:"string",markdown:"string",id:"string",xhtml:"string"},$t=n=>{let e=gn[n];if(e===void 0)throw new Error(`Unknown primitive type ${n}`);return e},Et=n=>Ke(n),Be=n=>n.kind==="profile"?`${R(n)}_profile`:ne(n.name),mn=n=>`${Be(n)}.ts`,me=n=>`${Et(n.package)}/${Be(n)}`,Le=(n,e=true)=>{if(!n)return;let t=ie(n,e);if(t)return je(t)},R=n=>{if(n.kind==="nested"){let e=n.url,t=Le(e,false);if(!t)return "";let[r,o]=t.split("#"),i=re((o??"").split(".")).join("");return je([r,i].join(""))}return je(n.name)},Nt=new Set(["class","function","return","if","for","while","const","let","var","import","export","interface"]),W=n=>Nt.has(n)?`"${n}"`:n.includes(" ")||n.includes("-")?`"${n}"`:n,je=n=>(Nt.has(n)&&(n=`${n}_`),n.replace(/[- ]/g,"_")),A=(n,e)=>e.startsWith('"')?`${n}[${e}]`:`${n}.${e}`,Pt=n=>`(${n.map(e=>`"${e}"`).join(" | ")})`,he=class extends z{tsImportType(e,...t){this.lineSM(`import type { ${t.join(", ")} } from "${e}"`);}generateFhirPackageIndexFile(e){this.cat("index.ts",()=>{let t=e.flatMap(r=>[{identifier:r.identifier,tsPackageName:Be(r.identifier),resourceName:R(r.identifier),nestedTypes:w(r)&&r.nested||D(r)&&r.nested?r.nested.map(o=>R(o.identifier)):[],helpers:w(r)||D(r)?[`is${R(r.identifier)}`]:[]}]).sort((r,o)=>r.resourceName.localeCompare(o.resourceName));t=Array.from(new Map(t.map(r=>[r.resourceName.toLowerCase(),r])).values()).sort((r,o)=>r.resourceName.localeCompare(o.resourceName));for(let r of t)this.debugComment(r.identifier),this.lineSM(`export type { ${[r.resourceName,...r.nestedTypes].join(", ")} } from "./${r.tsPackageName}"`),r.helpers.length>0&&this.lineSM(`export { ${r.helpers.join(", ")} } from "./${r.tsPackageName}"`);});}generateDependenciesImports(e,t){if(t.dependencies){let r=[],o=[];for(let i of t.dependencies)if(["complex-type","resource","logical"].includes(i.kind))r.push({tsPackage:`../${me(i)}`,name:I(i.name),dep:i});else if(O(i)){let s={...i};s.name=Le(i.url),r.push({tsPackage:`../${me(s)}`,name:R(i),dep:i});}else o.push(i);r.sort((i,s)=>i.name.localeCompare(s.name));for(let i of r)this.debugComment(i.dep),this.tsImportType(i.tsPackage,i.name);for(let i of o)this.debugComment("skip:",i);if(this.line(),this.withPrimitiveTypeExtension(t)&&t.identifier.name!=="Element"&&t.dependencies.find(i=>i.name==="Element")===void 0){let i="http://hl7.org/fhir/StructureDefinition/Element",s=e.resolveByUrl(t.identifier.package,i);if(!s)throw new Error(`'${i}' not found for ${t.identifier.package}.`);this.tsImportType(`../${me(s.identifier)}`,"Element");}}}generateComplexTypeReexports(e){let t=e.dependencies?.filter(Qe).map(r=>({tsPackage:`../${me(r)}`,name:I(r.name)}));if(t&&t.length>0){for(let r of t)this.lineSM(`export type { ${r.name} } from "${r.tsPackage}"`);this.line();}}addFieldExtension(e){let t=W(`_${e}`);this.lineSM(`${t}?: Element`);}generateType(e,t){let r;t.identifier.name==="Reference"?r="Reference<T extends string = string>":(t.identifier.kind,r=R(t.identifier));let o;if(t.base&&(o=`extends ${Le(t.base.url)}`),this.debugComment(t.identifier),!t.fields&&!o&&!w(t)){this.lineSM(`export type ${r} = object`);return}this.curlyBlock(["export","interface",r,o],()=>{if(w(t)||D(t)){let s=[t.identifier];s.push(...e.resourceChildren(t.identifier));let c=this.opts.openResourceTypeSet&&s.length>1?" | string":"";this.lineSM(`resourceType: ${s.sort((a,l)=>a.name.localeCompare(l.name)).map(a=>`"${a.name}"`).join(" | ")}${c}`),this.line();}if(!t.fields)return;let i=Object.entries(t.fields).sort((s,c)=>s[0].localeCompare(c[0]));for(let[s,c]of i){if(U(c))continue;this.debugComment(s,":",c);let a=W(s),l;c.enum?l=Pt(c.enum):t.identifier.name==="Reference"&&a==="reference"?l="`${T}/${string}`":c.reference&&c.reference.length>0?l=`Reference<${c.reference.map(p=>`"${p.name}"`).join(" | ")}>`:q(c.type)?l=$t(c.type.name):O(c.type)?l=R(c.type):l=c.type.name;let d=c.required?"":"?",h=c.array?"[]":"";this.lineSM(`${a}${d}: ${l}${h}`),this.withPrimitiveTypeExtension(t)&&q(c.type)&&this.addFieldExtension(s);}});}withPrimitiveTypeExtension(e){if(!this.opts.primitiveTypeExtension||!V(e))return  false;for(let t of Object.values(e.fields??{}))if(!U(t)&&q(t.type))return  true;return  false}generateResourceTypePredicate(e){if(!w(e)&&!D(e))return;let t=R(e.identifier);this.curlyBlock(["export","const",`is${t}`,"=",`(resource: unknown): resource is ${t}`,"=>"],()=>{this.lineSM(`return resource !== null && typeof resource === "object" && (resource as {resourceType: string}).resourceType === "${e.identifier.name}"`);});}generateNestedTypes(e,t){if(t.nested)for(let r of t.nested)this.generateType(e,r),this.line();}generateProfileType(e,t){this.debugComment("flatProfile",t);let r=R(t.identifier);this.debugComment("identifier",t.identifier),this.debugComment("base",t.base),this.curlyBlock(["export","interface",r],()=>{this.lineSM(`__profileUrl: "${t.identifier.url}"`),this.line();for(let[o,i]of Object.entries(t.fields??{})){if(U(i))continue;this.debugComment(o,i);let s=W(o),c;if(i.enum)c=Pt(i.enum);else if(i.reference&&i.reference.length>0){let a=e.findLastSpecialization(t);if(!V(a))throw new Error(`Invalid specialization for ${t.identifier}`);let l=a.fields?.[o];if(l===void 0||U(l)||l.reference===void 0)throw new Error(`Invalid field declaration for ${o}`);let d=l.reference.map(m=>m.name),h=i.reference.map(m=>{let p=e.findLastSpecializationByIdentifier(m);return p.name!==m.name?`"${p.name}" /*${m.name}*/`:`'${m.name}'`}).join(" | ");d.length===1&&d[0]==="Resource"&&h!=='"Resource"'?c=`Reference<"Resource" /* ${h} */ >`:c=`Reference<${h}>`;}else if(O(i.type))c=R(i.type);else if(q(i.type))c=$t(i.type.name);else {if(i.type===void 0)throw new Error(`Undefined type for '${o}' field at ${Ze(t)}`);c=i.type.name;}this.lineSM(`${s}${i.required?"":"?"}: ${c}${i.array?"[]":""}`);}}),this.line();}generateAttachProfile(e){let t=R(e.base),r=R(e.identifier),o=Object.entries(e.fields||{}).filter(([i,s])=>s&&J(s)&&s.type!==void 0).map(([i])=>W(i));this.curlyBlock([`export const attach_${r}_to_${t} =`,`(resource: ${t}, profile: ${r}): ${t}`,"=>"],()=>{this.curlyBlock(["return"],()=>{this.line("...resource,"),this.curlyBlock(["meta:"],()=>{this.line(`profile: ['${e.identifier.url}']`);},[","]),o.forEach(i=>{this.line(`${i}: ${A("profile",i)},`);});});}),this.line();}generateExtractProfile(e,t){let r=R(t.base),o=R(t.identifier),i=Object.entries(t.fields||{}).filter(([a,l])=>J(l)&&l.type!==void 0).map(([a])=>a),s=e.findLastSpecialization(t);if(!V(s))throw new Error(`Specialization not found for ${t.identifier.url}`);let c={};this.curlyBlock([`export const extract_${o}_from_${r} =`,`(resource: ${r}): ${o}`,"=>"],()=>{i.forEach(a=>{let l=W(a),d=t.fields?.[a],h=s.fields?.[a];if(!J(d)||!J(h))return;d.required&&!h.required&&this.curlyBlock([`if (${A("resource",l)} === undefined)`],()=>this.lineSM(`throw new Error("'${l}' is required for ${t.identifier.url}")`));let m=d?.reference?.map(g=>g.name),p=h?.reference?.map(g=>g.name);if(m&&p&&m.length!==p.length){let g=`reference_is_valid_${l}`;this.curlyBlock(["const",g,"=","(ref?: Reference)","=>"],()=>{this.line("return !ref"),this.indentBlock(()=>{p.forEach(u=>{this.line(`|| ref.reference?.startsWith('${u}/')`);}),this.line(";");});});let y=d?.required?"":`!${A("resource",l)} || `;d.array?y+=`${A("resource",l)}.every( (ref) => ${g}(ref) )`:y+=`!${g}(${A("resource",l)})`,this.curlyBlock(["if (",y,")"],()=>{this.lineSM(`throw new Error("'${a}' has different references in profile and specialization")`);}),this.line(),c[a]=true;}}),this.curlyBlock(["return"],()=>{this.line(`__profileUrl: '${t.identifier.url}',`),i.forEach(a=>{let l=W(a);c[a]?this.line(`${l}:`,`${A("resource",l)} as ${o}['${l}'],`):this.line(`${l}:`,`${A("resource",l)},`);});});});}generateResourceModule(e,t){this.cat(`${mn(t.identifier)}`,()=>{if(this.generateDisclaimer(),["complex-type","resource","logical"].includes(t.identifier.kind))this.generateDependenciesImports(e,t),this.generateComplexTypeReexports(t),this.generateNestedTypes(e,t),this.comment("CanonicalURL:",t.identifier.url),this.generateType(e,t),this.generateResourceTypePredicate(t);else if(oe(t)){let r=e.flatProfile(t);this.generateDependenciesImports(e,r),this.comment("CanonicalURL:",t.identifier.url),this.generateProfileType(e,r),this.generateAttachProfile(r),this.generateExtractProfile(e,r);}else throw new Error(`Profile generation not implemented for kind: ${t.identifier.kind}`)});}async generate(e){let t=[...e.collectComplexTypes(),...e.collectResources(),...e.collectLogicalModels(),...this.opts.generateProfile?e.collectProfiles().filter(o=>e.isWithMetaField(o)):[]],r=De(t);this.cd("/",()=>{for(let[o,i]of Object.entries(r)){let s=Et(o);this.cd(s,()=>{for(let c of i)this.generateResourceModule(e,c);this.generateFhirPackageIndexFile(i);});}});}};var Ot=n=>{let e=n.replace(/[^a-zA-Z0-9\-_.@#()]/g,"");return e.length===0?"unknown":e},yn=async(n,e)=>{e.info("Cleaning outputs...");try{e.info(`Clean ${n.outputDir}`),C.rmSync(n.outputDir,{recursive:!0,force:!0}),n.typeSchemaOutputDir&&(e.info(`Clean ${n.typeSchemaOutputDir}`),C.rmSync(n.typeSchemaOutputDir,{recursive:!0,force:!0})),n.exportTypeTree&&(e.info(`Clean ${n.exportTypeTree}`),C.rmSync(n.exportTypeTree,{recursive:!0,force:!0}));}catch(t){e.warn(`Error cleaning output directory: ${t instanceof Error?t.message:String(t)}`);}},Sn=async(n,e,t)=>{await M.mkdir(e,{recursive:true}),t.info(`Writing TypeSchema files to ${e}/...`);let r={};for(let o of n){let i={name:o.identifier.package,version:o.identifier.version},s=Ot(v(i)),c=Ot(`${o.identifier.name}(${ie(o.identifier.url)})`),a=JSON.stringify(o,null,2),l=P.join(e,s,c);r[l]||(r[l]=[]),r[l]?.some(d=>d===a)||r[l].push(a);}for(let[o,i]of Object.entries(r))await Promise.all(i.map(async(s,c)=>{let a;c===0?a=`${o}.typeschema.json`:a=`${o}-${c}.typeschema.json`,await M.mkdir(P.dirname(a),{recursive:true}),await M.writeFile(a,s);}));},bn=async(n,e,t)=>{t.info(`Writing TypeSchema files to: ${e}`),await M.mkdir(P.dirname(e),{recursive:true}),t.info(`Writing TypeSchemas to one file 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-`);}},vn=async(n,e,t)=>{if(e.typeSchemaOutputDir)try{P.extname(e.typeSchemaOutputDir)===".ndjson"?await bn(n,e.typeSchemaOutputDir,t):await Sn(n,e.typeSchemaOutputDir,t),t.info("Writing TypeSchema - DONE");}catch(r){if(t.error("Failed to write TypeSchema output",r instanceof Error?r:new Error(String(r))),e.throwException)throw r}},Q=class{schemas=[];options;generators=new Map;logger;packages=[];progressCallback;typeSchemaConfig;constructor(e={}){this.options={outputDir:e.outputDir||"./generated",verbose:e.verbose??false,overwrite:e.overwrite??true,cache:e.cache??true,cleanOutput:e.cleanOutput??true,typeSchemaConfig:e.typeSchemaConfig,manager:e.manager||null,throwException:e.throwException||false,typeSchemaOutputDir:e.typeSchemaOutputDir,exportTypeTree:e.exportTypeTree,treeShake:e.treeShake},this.typeSchemaConfig=e.typeSchemaConfig,this.logger=e.logger||N({verbose:this.options.verbose,prefix:"API"});}fromPackage(e,t){let r=Ce({name:e,version:t||"latest"});return this.packages.push(r),this}fromPackageRef(e){return this.packages.push(e),this}fromSchemas(e){return this.logger.debug(`Adding ${e.length} TypeSchemas to generation`),this.schemas=[...this.schemas,...e],this}typescript(e){let o={...{...{logger:this.logger,outputDir:P.join(this.options.outputDir,"/types"),tabSize:4,withDebugComment:false,commentLinePrefix:"//",generateProfile:true},openResourceTypeSet:false,primitiveTypeExtension:true},...Object.fromEntries(Object.entries(e).filter(([s,c])=>c!==void 0))},i=new he(o);return this.generators.set("typescript",i),this.logger.debug(`Configured TypeScript generator (${JSON.stringify(o,void 0,2)})`),this}csharp(e,t){let r=new se({outputDir:P.join(this.options.outputDir,"/types"),staticSourceDir:t??void 0,targetNamespace:e,logger:new _({prefix:"C#",timestamp:true,verbose:true,suppressLoggingLevel:[]})});return this.generators.set("C#",r),this.logger.debug("Configured C# generator"),this}onProgress(e){return this.progressCallback=e,this}outputTo(e){this.logger.debug(`Setting output directory: ${e}`),this.options.outputDir=e;for(let t of this.generators.values())t.setOutputDir(e);return this}verbose(e=true){return this.options.verbose=e,this.logger?.configure({verbose:e}),this}throwException(e=true){return this.options.throwException=e,this}cleanOutput(e=true){return this.options.cleanOutput=e,this}writeTypeTree(e){return this.options.exportTypeTree=e,this}treeShake(e){return this.options.treeShake=e,this}writeTypeSchemas(e){return this.options.typeSchemaOutputDir=e,this}async generate(){let e=performance.now(),t={success:false,outputDir:this.options.outputDir,filesGenerated:[],errors:[],warnings:[],duration:0};this.logger.debug(`Starting generation with ${this.generators.size} generators`);try{this.options.cleanOutput&&yn(this.options,this.logger),this.logger.info("Initialize Canonical Manager");let r=CanonicalManager({packages:this.packages,workingDir:".codegen-cache/canonical-manager-cache"}),o=await r.init(),i=Object.values(o),s=await K(r,{logger:this.logger,focusedPackages:i}),c=await wt(s,this.logger);await vn(c,this.options,this.logger);let a={resolutionTree:s.resolutionTree(),logger:this.logger},l=Me(c,a);this.options.treeShake&&(l=xt(l,this.options.treeShake,a)),this.options.exportTypeTree&&await l.exportTree(this.options.exportTypeTree),this.logger.debug(`Executing ${this.generators.size} generators`),await this.executeGenerators(t,l),this.logger.info("Generation completed successfully"),t.success=t.errors.length===0,this.logger.debug(`Generation completed: ${t.filesGenerated.length} files`);}catch(r){if(this.logger.error("Code generation failed",r instanceof Error?r:new Error(String(r))),t.errors.push(r instanceof Error?r.message:String(r)),this.options.throwException)throw r}return {...t,success:t.errors.length===0,duration:performance.now()-e}}reset(){return this.schemas=[],this.generators.clear(),this.progressCallback=void 0,this}getSchemas(){return [...this.schemas]}getGenerators(){return Array.from(this.generators.keys())}async executeGenerators(e,t){for(let[r,o]of this.generators.entries()){this.logger.info(`Generating ${r}...`);try{await o.generate(t);let i=o.writtenFiles();e.filesGenerated.push(...i.map(s=>s.absPath)),this.logger.info(`Generating ${r} finished successfully`);}catch(i){if(e.errors.push(`${r} generator failed: ${i instanceof Error?i.message:String(i)}`),this.options.throwException)throw i}}}};var Ve={outputDir:"./generated",verbose:false,overwrite:true,validate:true,cache:true,cleanOutput:true,typescript:{moduleFormat:"esm",generateIndex:true,includeDocuments:false,namingConvention:"PascalCase",strictMode:true,includeProfiles:true,includeExtensions:false,includeCodeSystems:false,includeOperations:false,generateValueSets:false,valueSetDirectory:"valuesets",valueSetMode:"required-only",valueSetStrengths:["required"],includeValueSetHelpers:false,fhirVersion:"R4",resourceTypes:[],maxDepth:10,profileOptions:{generateKind:"interface",includeConstraints:true,includeDocumentation:true,strictMode:false,subfolder:"profiles"},generateBuilders:false,builderOptions:{includeValidation:true,includeFactoryMethods:true,includeInterfaces:true,generateNestedBuilders:true,includeHelperMethods:true,supportPartialBuild:true,includeJSDoc:true,generateFactories:true,includeTypeGuards:true,handleChoiceTypes:true,generateArrayHelpers:true},validatorOptions:{includeCardinality:true,includeTypes:true,includeConstraints:true,includeInvariants:false,validateRequired:true,allowAdditional:false,strictValidation:false,collectMetrics:false,generateAssertions:true,generatePartialValidators:true,optimizePerformance:true,includeJSDoc:true,generateCompositeValidators:true},guardOptions:{includeRuntimeValidation:true,includeErrorMessages:true,treeShakeable:true,targetTSVersion:"5.0",strictGuards:false,includeNullChecks:true,verbose:false}},typeSchema:{enablePersistence:true,cacheDir:".typeschema-cache",maxAge:1440*60*1e3,validateCached:true,forceRegenerate:false,shareCache:true,cacheKeyPrefix:"",treeshake:[],singleFile:false,profiles:{autoDetect:true}},packages:[],files:[],$schema:""},Se=["atomic-codegen.config.ts","atomic-codegen.config","atomic-codegen.config.json",".atomic-codegenrc","atomic-codegen.json",".atomic-codegen.json","codegen.config.json","codegen.json"],Ue=class{validate(e){let t={valid:true,errors:[],warnings:[]};if(!e||typeof e!="object")return t.valid=false,t.errors.push({path:"root",message:"Configuration must be an object",value:e}),t;let r=e;r.outputDir!==void 0&&typeof r.outputDir!="string"&&t.errors.push({path:"outputDir",message:"outputDir must be a string",value:r.outputDir});let o=["verbose","overwrite","validate","cache"];for(let i of o)r[i]!==void 0&&typeof r[i]!="boolean"&&t.errors.push({path:i,message:`${i} must be a boolean`,value:r[i]});if(r.typescript!==void 0){let i=this.validateTypeScriptConfig(r.typescript);t.errors.push(...i);}if(r.typeSchema!==void 0){let i=this.validateTypeSchemaConfig(r.typeSchema);t.errors.push(...i);}return r.packages!==void 0&&(Array.isArray(r.packages)?r.packages.forEach((i,s)=>{typeof i!="string"&&t.errors.push({path:`packages[${s}]`,message:"package name must be a string",value:i});}):t.errors.push({path:"packages",message:"packages must be an array",value:r.packages})),r.files!==void 0&&(Array.isArray(r.files)?r.files.forEach((i,s)=>{typeof i!="string"&&t.errors.push({path:`files[${s}]`,message:"file path must be a string",value:i});}):t.errors.push({path:"files",message:"files must be an array",value:r.files})),t.valid=t.errors.length===0,t.valid&&(t.config=r),t}validateTypeScriptConfig(e){let t=[];if(typeof e!="object"||e===null)return t.push({path:"typescript",message:"typescript config must be an object",value:e}),t;let r=e;r.moduleFormat!==void 0&&(["esm","cjs"].includes(r.moduleFormat)||t.push({path:"typescript.moduleFormat",message:'moduleFormat must be "esm" or "cjs"',value:r.moduleFormat})),r.namingConvention!==void 0&&(["PascalCase","camelCase"].includes(r.namingConvention)||t.push({path:"typescript.namingConvention",message:'namingConvention must be "PascalCase" or "camelCase"',value:r.namingConvention}));let o=["generateIndex","includeDocuments","strictMode","includeProfiles","includeExtensions","includeCodeSystems","includeOperations","generateValueSets","includeValueSetHelpers"];for(let i of o)r[i]!==void 0&&typeof r[i]!="boolean"&&t.push({path:`typescript.${i}`,message:`${i} must be a boolean`,value:r[i]});if(r.validatorOptions!==void 0){let i=this.validateValidatorOptions(r.validatorOptions);t.push(...i);}if(r.guardOptions!==void 0){let i=this.validateGuardOptions(r.guardOptions);t.push(...i);}if(r.profileOptions!==void 0){let i=this.validateProfileOptions(r.profileOptions);t.push(...i);}return t}validateValidatorOptions(e){let t=[];if(typeof e!="object"||e===null)return t.push({path:"typescript.validatorOptions",message:"validatorOptions must be an object",value:e}),t;let 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r[i]!="boolean"&&t.push({path:`typescript.guardOptions.${i}`,message:`${i} must be a boolean`,value:r[i]});return t}validateProfileOptions(e){let t=[];if(typeof e!="object"||e===null)return t.push({path:"typescript.profileOptions",message:"profileOptions must be an object",value:e}),t;let r=e;r.generateKind!==void 0&&(["interface","type","both"].includes(r.generateKind)||t.push({path:"typescript.profileOptions.generateKind",message:'generateKind must be "interface", "type", or "both"',value:r.generateKind})),r.subfolder!==void 0&&typeof r.subfolder!="string"&&t.push({path:"typescript.profileOptions.subfolder",message:"subfolder must be a string",value:r.subfolder});let o=["includeConstraints","includeDocumentation","strictMode"];for(let i of o)r[i]!==void 0&&typeof r[i]!="boolean"&&t.push({path:`typescript.profileOptions.${i}`,message:`${i} must be a boolean`,value:r[i]});return t}validateTypeSchemaConfig(e){let t=[];if(typeof e!="object"||e===null)return 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i=r.resolveAny(o.system);if(i?.concept){let s=(c,a)=>{for(let l of c)n.push({system:a,code:l.code,display:l.display}),l.concept&&s(l.concept,a);};s(i.concept,o.system);}}catch{}}return n.length>0?n:void 0}var vt=100;function Ne(r,e,t,n){if(!t.binding)return;let o=t.binding.strength,i=t.binding.valueSet;if(!i||!(o==="required"||o==="extensible"&&(t.type==="code"||t.type==="Coding")||o==="preferred"&&(t.type==="code"||t.type==="Coding")))return;let c=Oe(r,e.package_meta,i);if(!c||c.length===0)return;let a=c.map(l=>l.code).filter(l=>l&&typeof l=="string"&&l.trim().length>0);if(a.length>vt){n?.dry_warn(`Value set ${i} has ${a.length} which is more than ${vt} codes, which may cause issues with code generation.`);return}return a.length>0?a:void 0}function or(r,e,t,n,o){if(!n.binding?.valueSet)return;let i=le(e,t,n.binding.bindingName),s=Ee(r,e,t,n,o),c=ce(r,e.package_meta,n.binding.valueSet),a=[];s&&a.push(s),a.push(c);let l=Ne(r,e,n,o);return {identifier:i,type:s,valueset:c,strength:n.binding.strength,enum:l,dependencies:a}}function xt(r,e,t){let n=new Set;if(!e.elements)return [];let o=[];function i(a,l){for(let[d,h]of Object.entries(a)){let m=[...l,d],p=m.join(".");if(!n.has(p)){if(n.add(p),h.binding){let g=or(r,e,m,h,t);g&&o.push(g);}h.elements&&i(h.elements,m);}}}i(e.elements,[]),o.sort((a,l)=>a.identifier.name.localeCompare(l.identifier.name));let s=[],c=new Set;for(let a of o)c.has(a.identifier.url)||(c.add(a.identifier.url),s.push(a));return s}function sr(r,e,t,n,o){if(!n)return;let i={};for(let s of r.getAllElementKeys(n)){let c=[...t,s],a=r.resolveElementSnapshot(e,c);Q(a)?i[s]=ue(r,e,c,a,o):i[s]=de(r,e,c,a,o);}return i}function ar(r){let e=[];for(let t of Object.values(r))"type"in t&&t.type&&e.push(t.type),"binding"in t&&t.binding&&e.push(t.binding);return e}function cr(r,e){return !!(r.base==="Extension"||r.base==="http://hl7.org/fhir/StructureDefinition/Extension"||r.url?.includes("/extension/")||r.url?.includes("-extension")||r.name?.toLowerCase().includes("extension")||r.type==="Extension")}async function fe(r,e,t){if(!e.url)throw new Error("ValueSet URL is required");let n=ce(r,e.package_meta,e.url),o=Oe(r,e.package_meta,e.url);return {identifier:n,description:e.description,concept:o,compose:o?void 0:e.compose}}function De(r,e,t,n){let o=[];e&&o.push(e),t&&o.push(...ar(t)),n&&o.push(...St(n));let i={};for(let a of o)a.url!==r.url&&(i[a.url]=a);let s=new Set(n?.map(a=>a.identifier.url)),c=Object.values(i).filter(a=>tt(r)||!O(a)?true:!s.has(a.url)).sort((a,l)=>a.url.localeCompare(l.url));return c.length>0?c:void 0}function lr(r,e,t){let n=H(e),o;if(e.base&&e.type!=="Element"){let d=r.resolveFs(e.package_meta,r.ensureSpecializationCanonicalUrl(e.base));if(!d)throw new Error(`Base resource not found '${e.base}' for <${e.url}> from ${C(e.package_meta)}`);o=H(d);}let i=sr(r,e,[],e.elements,t),s=Pe(r,e,t),c=De(n,o,i,s),a={identifier:n,base:o,fields:i,nested:s,description:e.description,dependencies:c},l=xt(r,e,t);return [a,...l]}async function ge(r,e,t){let n=lr(r,e,t);if(cr(e,H(e))){let o=n[0];if(!o)throw new Error("Expected schema to be defined");o.metadata={isExtension:true};}return n}var Me=r=>{let e={};for(let t of r){let n=t.identifier.package;e[n]||(e[n]=[]),e[n].push(t);}for(let[t,n]of Object.entries(e)){let o={};for(let s of n)o[JSON.stringify(s.identifier)]=s;let i=Object.values(o);i.sort((s,c)=>s.identifier.name.localeCompare(c.identifier.name)),e[t]=i;}return e},pr=(r,e,t)=>{if(r=structuredClone(r),nt(r)||ot(r)||it(r))return r;for(let n of e.ignoreFields??[]){if(r.fields&&!r.fields[n])throw new Error(`Field ${n} not found`);r.fields&&delete r.fields[n];}return r.dependencies=De(r.identifier,r.base,r.fields,r.nested),r},Rt=(r,e,{resolutionTree:t,logger:n})=>{let o=[];for(let[c,a]of Object.entries(e))for(let[l,d]of Object.entries(a)){let h=r.resolveByUrl(c,l);if(!h)throw new Error(`Schema not found for ${c} ${l}`);let m=pr(h,d);o.push(m);}let i=(c,a)=>{if(c.length===0)return Object.values(a);for(let d of c)a[JSON.stringify(d.identifier)]=d;let l=[];for(let d of c)if(j(d)){if(!d.dependencies)continue;if(d.dependencies.forEach(h=>{let m=r.resolve(h);if(!m)throw new Error(`Schema not found for ${h}`);let p=JSON.stringify(m.identifier);a[p]||l.push(m);}),d.nested)for(let h of d.nested){if(O(h.identifier))continue;let m=JSON.stringify(h.identifier);a[m]||l.push(h);}}return i(l,a)},s=i(o,{});return Ve(s,{resolutionTree:t,logger:n})},dr=r=>{let e=r.filter(i=>w(i)||D(i)),t=[];for(let i of e)i.base&&t.push({parent:i.base,child:i.identifier});let n=[...t],o=i=>{let s=t.filter(a=>a.parent.name===i.name).map(a=>a.child),c=[];for(let a of s)c.push(...o(a));return [...s,...c]};for(let i of t){let s=o(i.child);for(let c of s)t.some(a=>a.parent.name===i.parent.name&&a.child.name===c.name)||n.push({parent:i.parent,child:c});}return n},Ve=(r,{resolutionTree:e,logger:t})=>{let n={},o=u=>{let f=u.identifier.url,S=u.identifier.package;if(n[f]||(n[f]={}),n[f][u.identifier.package]&&S!=="shared"){let v=JSON.stringify(u.identifier,void 0,2),b=JSON.stringify(n[f][S]?.identifier,void 0,2);if(v!==b)throw new Error(`Duplicate schema: ${v} and ${b}`);return}n[f][S]=u;};for(let u of r)o(u);let i=dr(r),s=u=>n[u.url]?.[u.package],c=(u,f)=>{if(e){let S=e[u]?.[f]?.[0];if(S)return n[f]?.[S.pkg.name]}return n[f]?.[u]},a=u=>i.filter(f=>f.parent.name===u.name).map(f=>f.child),l=u=>{let f=[],S=u;for(;S;){f.push(S);let v=S.base;if(v===void 0)break;let b=s(v);if(!b){t?.warn(`Failed to resolve base type: ${f.map(R=>`${R.identifier.url} (${R.identifier.kind})`).join(", ")}`);return}S=b;}return f},d=u=>{let f=l(u);if(f===void 0)throw new Error(`Failed to resolve base type: ${u.identifier.url} (${u.identifier.kind})`);return f},h=u=>{let f=d(u).find(S=>S.identifier.kind!=="profile");if(!f)throw new Error(`No non-constraint schema found in hierarchy for: ${u.identifier.name}`);return f};return {_schemaIndex:n,_relations:i,collectComplexTypes:()=>r.filter(rt),collectResources:()=>r.filter(w),collectLogicalModels:()=>r.filter(D),collectProfiles:()=>r.filter(oe),resolve:s,resolveByUrl:c,resourceChildren:a,tryHierarchy:l,hierarchy:d,findLastSpecialization:h,findLastSpecializationByIdentifier:u=>{let f=s(u);return f?h(f).identifier:u},flatProfile:u=>{let f=d(u),S=f.filter(E=>E.identifier.kind==="profile"),v=f.find(E=>E.identifier.kind!=="profile");if(!v)throw new Error(`No non-constraint schema found in hierarchy for ${u.identifier.name}`);let b={};for(let E of S.slice().reverse()){let ee=E;if(ee.fields)for(let[te,Ge]of Object.entries(ee.fields))b[te]?b[te]={...b[te],...Ge}:b[te]={...Ge};}let R={};for(let E of S.flatMap(ee=>ee.dependencies??[]))R[E.url]=E;let V=Object.values(R);return {...u,base:v.identifier,fields:b,dependencies:V}},isWithMetaField:u=>{let f=l(u);return f?f.filter(j).some(S=>S.fields?.meta!==void 0):false},exportTree:async u=>{let f={};for(let[v,b]of Object.entries(Me(r))){f[v]={"primitive-type":{},"complex-type":{},resource:{},"value-set":{},nested:{},binding:{},profile:{},logical:{}};for(let R of b)f[v][R.identifier.kind][R.identifier.url]={};}let S=u.endsWith(".yaml")?Tt.stringify(f):JSON.stringify(f,void 0,2);await M.mkdir(P.dirname(u),{recursive:true}),await M.writeFile(u,S);}}};var X=class{manager;options;logger;constructor(e={}){this.options={verbose:false,...e},this.manager=e.manager||CanonicalManager({packages:[],workingDir:"tmp/fhir"}),this.logger=e.logger||N({verbose:this.options.verbose,prefix:"TypeSchema"});}async registerFromPackageMetas(e){let t=e.map(C);return this.logger?.step(`Loading FHIR packages: ${t.join(", ")}`),await this.manager.init(),K(this.manager,{focusedPackages:e})}generateFhirSchemas(e){this.logger?.progress(`Converting ${e.length} StructureDefinitions to FHIRSchemas`);let t=[],n=0,o=0;for(let i of e)try{let s=gt.translate(i);t.push(s),n++,this.logger?.debug(`Converted StructureDefinition: ${i.name||i.id} (${i.resourceType})`);}catch(s){o++,this.logger?.warn(`Failed to convert StructureDefinition ${i.name||i.id}: ${s instanceof Error?s.message:String(s)}`);}return this.logger?.success(`FHIR Schema conversion completed: ${n}/${e.length} successful, ${o} failed`),t}async generateValueSetSchemas(e,t){e.length>0&&this.logger?.debug(`${e.length} ValueSets available for enum extraction`);let n=await K(this.manager,{logger:this.logger}),o=[];if(e.length>0){this.logger?.progress(`Converting ${e.length} ValueSets to TypeSchema`);let i=0,s=0;for(let c of e)try{let a=await fe(n,c,t);a&&(o.push(a),i++,this.logger?.debug(`Converted ValueSet: ${c.name||c.id}`));}catch(a){s++,this.logger?.warn(`Failed to 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R4.",Ft={"hl7.fhir.uv.extensions.r4#1.0.0":{"http://hl7.org/fhir/StructureDefinition/extended-contact-availability":fr,"http://hl7.org/fhir/StructureDefinition/immunization-procedure":Y,"http://hl7.org/fhir/StructureDefinition/specimen-additive":Y,"http://hl7.org/fhir/StructureDefinition/workflow-barrier":Y,"http://hl7.org/fhir/StructureDefinition/workflow-protectiveFactor":Y,"http://hl7.org/fhir/StructureDefinition/workflow-reason":Y},"hl7.fhir.r5.core#5.0.0":{"http://hl7.org/fhir/StructureDefinition/shareablecodesystem":"FIXME: CodeSystem.concept.concept defined by ElementReference. 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Set(["class","function","return","if","for","while","const","let","var","import","export","interface"]),W=r=>Nt.has(r)?`"${r}"`:r.includes(" ")||r.includes("-")?`"${r}"`:r,Le=r=>(Nt.has(r)&&(r=`${r}_`),r.replace(/[- ]/g,"_")),A=(r,e)=>e.startsWith('"')?`${r}[${e}]`:`${r}.${e}`,Pt=r=>`(${r.map(e=>`"${e}"`).join(" | ")})`,ye=class extends z{tsImportType(e,...t){this.lineSM(`import type { ${t.join(", ")} } from "${e}"`);}generateFhirPackageIndexFile(e){this.cat("index.ts",()=>{let t=e.flatMap(n=>[{identifier:n.identifier,tsPackageName:je(n.identifier),resourceName:k(n.identifier),nestedTypes:w(n)&&n.nested||D(n)&&n.nested?n.nested.map(o=>k(o.identifier)):[],helpers:w(n)||D(n)?[`is${k(n.identifier)}`]:[]}]).sort((n,o)=>n.resourceName.localeCompare(o.resourceName));t=Array.from(new Map(t.map(n=>[n.resourceName.toLowerCase(),n])).values()).sort((n,o)=>n.resourceName.localeCompare(o.resourceName));for(let n of t)this.debugComment(n.identifier),this.lineSM(`export type { 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")}${c}`),this.line();}if(!t.fields)return;let i=Object.entries(t.fields).sort((s,c)=>s[0].localeCompare(c[0]));for(let[s,c]of i){if(U(c))continue;this.debugComment(s,":",c);let a=W(s),l;c.enum?l=Pt(c.enum):t.identifier.name==="Reference"&&a==="reference"?l="`${T}/${string}`":c.reference&&c.reference.length>0?l=`Reference<${c.reference.map(p=>`"${p.name}"`).join(" | ")}>`:q(c.type)?l=$t(c.type.name):O(c.type)?l=k(c.type):l=c.type.name;let d=c.required?"":"?",h=c.array?"[]":"";this.lineSM(`${a}${d}: ${l}${h}`),this.withPrimitiveTypeExtension(t)&&q(c.type)&&this.addFieldExtension(s);}});}withPrimitiveTypeExtension(e){if(!this.opts.primitiveTypeExtension||!j(e))return  false;for(let t of Object.values(e.fields??{}))if(!U(t)&&q(t.type))return  true;return  false}generateResourceTypePredicate(e){if(!w(e)&&!D(e))return;let t=k(e.identifier);this.curlyBlock(["export","const",`is${t}`,"=",`(resource: unknown): resource is ${t}`,"=>"],()=>{this.lineSM(`return resource !== null && typeof resource === "object" && (resource as {resourceType: string}).resourceType === "${e.identifier.name}"`);});}generateNestedTypes(e,t){if(t.nested)for(let n of t.nested)this.generateType(e,n),this.line();}generateProfileType(e,t){this.debugComment("flatProfile",t);let n=k(t.identifier);this.debugComment("identifier",t.identifier),this.debugComment("base",t.base),this.curlyBlock(["export","interface",n],()=>{this.lineSM(`__profileUrl: "${t.identifier.url}"`),this.line();for(let[o,i]of Object.entries(t.fields??{})){if(U(i))continue;this.debugComment(o,i);let s=W(o),c;if(i.enum)c=Pt(i.enum);else if(i.reference&&i.reference.length>0){let a=e.findLastSpecialization(t);if(!j(a))throw new Error(`Invalid specialization for ${t.identifier}`);let l=a.fields?.[o];if(l===void 0||U(l)||l.reference===void 0)throw new Error(`Invalid field declaration for ${o}`);let d=l.reference.map(m=>m.name),h=i.reference.map(m=>{let p=e.findLastSpecializationByIdentifier(m);return p.name!==m.name?`"${p.name}" /*${m.name}*/`:`'${m.name}'`}).join(" | ");d.length===1&&d[0]==="Resource"&&h!=='"Resource"'?c=`Reference<"Resource" /* ${h} */ >`:c=`Reference<${h}>`;}else if(O(i.type))c=k(i.type);else if(q(i.type))c=$t(i.type.name);else {if(i.type===void 0)throw new Error(`Undefined type for '${o}' field at ${Ze(t)}`);c=i.type.name;}this.lineSM(`${s}${i.required?"":"?"}: ${c}${i.array?"[]":""}`);}}),this.line();}generateAttachProfile(e){let t=k(e.base),n=k(e.identifier),o=Object.entries(e.fields||{}).filter(([i,s])=>s&&J(s)&&s.type!==void 0).map(([i])=>W(i));this.curlyBlock([`export const attach_${n}_to_${t} =`,`(resource: ${t}, profile: ${n}): ${t}`,"=>"],()=>{this.curlyBlock(["return"],()=>{this.line("...resource,"),this.curlyBlock(["meta:"],()=>{this.line(`profile: ['${e.identifier.url}']`);},[","]),o.forEach(i=>{this.line(`${i}: ${A("profile",i)},`);});});}),this.line();}generateExtractProfile(e,t){let n=k(t.base),o=k(t.identifier),i=Object.entries(t.fields||{}).filter(([a,l])=>J(l)&&l.type!==void 0).map(([a])=>a),s=e.findLastSpecialization(t);if(!j(s))throw new Error(`Specialization not found for ${t.identifier.url}`);let c={};this.curlyBlock([`export const extract_${o}_from_${n} =`,`(resource: ${n}): ${o}`,"=>"],()=>{i.forEach(a=>{let l=W(a),d=t.fields?.[a],h=s.fields?.[a];if(!J(d)||!J(h))return;d.required&&!h.required&&this.curlyBlock([`if (${A("resource",l)} === undefined)`],()=>this.lineSM(`throw new Error("'${l}' is required for ${t.identifier.url}")`));let m=d?.reference?.map(g=>g.name),p=h?.reference?.map(g=>g.name);if(m&&p&&m.length!==p.length){let g=`reference_is_valid_${l}`;this.curlyBlock(["const",g,"=","(ref?: Reference)","=>"],()=>{this.line("return !ref"),this.indentBlock(()=>{p.forEach(u=>{this.line(`|| ref.reference?.startsWith('${u}/')`);}),this.line(";");});});let y=d?.required?"":`!${A("resource",l)} || `;d.array?y+=`${A("resource",l)}.every( (ref) => ${g}(ref) )`:y+=`!${g}(${A("resource",l)})`,this.curlyBlock(["if (",y,")"],()=>{this.lineSM(`throw new Error("'${a}' has different references in profile and specialization")`);}),this.line(),c[a]=true;}}),this.curlyBlock(["return"],()=>{this.line(`__profileUrl: '${t.identifier.url}',`),i.forEach(a=>{let l=W(a);c[a]?this.line(`${l}:`,`${A("resource",l)} as ${o}['${l}'],`):this.line(`${l}:`,`${A("resource",l)},`);});});});}generateResourceModule(e,t){this.cat(`${mr(t.identifier)}`,()=>{if(this.generateDisclaimer(),["complex-type","resource","logical"].includes(t.identifier.kind))this.generateDependenciesImports(e,t),this.generateComplexTypeReexports(t),this.generateNestedTypes(e,t),this.comment("CanonicalURL:",t.identifier.url),this.generateType(e,t),this.generateResourceTypePredicate(t);else if(oe(t)){let n=e.flatProfile(t);this.generateDependenciesImports(e,n),this.comment("CanonicalURL:",t.identifier.url),this.generateProfileType(e,n),this.generateAttachProfile(n),this.generateExtractProfile(e,n);}else throw new Error(`Profile generation not implemented for kind: ${t.identifier.kind}`)});}async generate(e){let t=[...e.collectComplexTypes(),...e.collectResources(),...e.collectLogicalModels(),...this.opts.generateProfile?e.collectProfiles().filter(o=>e.isWithMetaField(o)):[]],n=Me(t);this.cd("/",()=>{for(let[o,i]of Object.entries(n)){let s=Et(o);this.cd(s,()=>{for(let c of i)this.generateResourceModule(e,c);this.generateFhirPackageIndexFile(i);});}});}};var Ot=r=>{let e=r.replace(/[^a-zA-Z0-9\-_.@#()]/g,"");return e.length===0?"unknown":e},yr=async(r,e)=>{e.info("Cleaning outputs...");try{e.info(`Clean ${r.outputDir}`),T.rmSync(r.outputDir,{recursive:!0,force:!0}),r.typeSchemaOutputDir&&(e.info(`Clean ${r.typeSchemaOutputDir}`),T.rmSync(r.typeSchemaOutputDir,{recursive:!0,force:!0})),r.exportTypeTree&&(e.info(`Clean ${r.exportTypeTree}`),T.rmSync(r.exportTypeTree,{recursive:!0,force:!0}));}catch(t){e.warn(`Error cleaning output directory: ${t instanceof Error?t.message:String(t)}`);}},Sr=async(r,e,t)=>{await M.mkdir(e,{recursive:true}),t.info(`Writing TypeSchema files to ${e}/...`);let n={};for(let o of r){let i={name:o.identifier.package,version:o.identifier.version},s=Ot(C(i)),c=Ot(`${o.identifier.name}(${ie(o.identifier.url)})`),a=JSON.stringify(o,null,2),l=P.join(e,s,c);n[l]||(n[l]=[]),n[l]?.some(d=>d===a)||n[l].push(a);}for(let[o,i]of Object.entries(n))await Promise.all(i.map(async(s,c)=>{let a;c===0?a=`${o}.typeschema.json`:a=`${o}-${c}.typeschema.json`,await M.mkdir(P.dirname(a),{recursive:true}),await M.writeFile(a,s);}));},br=async(r,e,t)=>{t.info(`Writing TypeSchema files to: ${e}`),await M.mkdir(P.dirname(e),{recursive:true}),t.info(`Writing TypeSchemas to one file ${e}...`);for(let n of r){let o=JSON.stringify(n,null,2);await M.appendFile(e,`${o}
+`);}},Cr=async(r,e,t)=>{if(e.typeSchemaOutputDir)try{P.extname(e.typeSchemaOutputDir)===".ndjson"?await br(r,e.typeSchemaOutputDir,t):await Sr(r,e.typeSchemaOutputDir,t),t.info("Writing TypeSchema - DONE");}catch(n){if(t.error("Failed to write TypeSchema output",n instanceof Error?n:new Error(String(n))),e.throwException)throw n}},Z=class{schemas=[];options;generators=new Map;logger;packages=[];progressCallback;typeSchemaConfig;constructor(e={}){this.options={outputDir:e.outputDir||"./generated",verbose:e.verbose??false,overwrite:e.overwrite??true,cache:e.cache??true,cleanOutput:e.cleanOutput??true,typeSchemaConfig:e.typeSchemaConfig,manager:e.manager||null,throwException:e.throwException||false,typeSchemaOutputDir:e.typeSchemaOutputDir,exportTypeTree:e.exportTypeTree,treeShake:e.treeShake},this.typeSchemaConfig=e.typeSchemaConfig,this.logger=e.logger||N({verbose:this.options.verbose,prefix:"API"});}fromPackage(e,t){let n=Re({name:e,version:t||"latest"});return this.packages.push(n),this}fromPackageRef(e){return this.packages.push(e),this}fromSchemas(e){return this.logger.debug(`Adding ${e.length} TypeSchemas to generation`),this.schemas=[...this.schemas,...e],this}typescript(e){let o={...{...{logger:this.logger,outputDir:P.join(this.options.outputDir,"/types"),tabSize:4,withDebugComment:false,commentLinePrefix:"//",generateProfile:true},openResourceTypeSet:false,primitiveTypeExtension:true},...Object.fromEntries(Object.entries(e).filter(([s,c])=>c!==void 0))},i=new ye(o);return this.generators.set("typescript",i),this.logger.debug(`Configured TypeScript generator (${JSON.stringify(o,void 0,2)})`),this}csharp(e,t){let n=new se({outputDir:P.join(this.options.outputDir,"/types"),staticSourceDir:t??void 0,targetNamespace:e,logger:new _({prefix:"C#",timestamp:true,verbose:true,suppressLoggingLevel:[]})});return this.generators.set("C#",n),this.logger.debug("Configured C# generator"),this}onProgress(e){return this.progressCallback=e,this}outputTo(e){this.logger.debug(`Setting output directory: ${e}`),this.options.outputDir=e;for(let t of this.generators.values())t.setOutputDir(e);return this}verbose(e=true){return this.options.verbose=e,this.logger?.configure({verbose:e}),this}throwException(e=true){return this.options.throwException=e,this}cleanOutput(e=true){return this.options.cleanOutput=e,this}writeTypeTree(e){return this.options.exportTypeTree=e,this}treeShake(e){return this.options.treeShake=e,this}writeTypeSchemas(e){return this.options.typeSchemaOutputDir=e,this}async generate(){let e=performance.now(),t={success:false,outputDir:this.options.outputDir,filesGenerated:[],errors:[],warnings:[],duration:0};this.logger.debug(`Starting generation with ${this.generators.size} generators`);try{this.options.cleanOutput&&yr(this.options,this.logger),this.logger.info("Initialize Canonical Manager");let n=CanonicalManager({packages:this.packages,workingDir:".codegen-cache/canonical-manager-cache"}),o=await n.init(),i=Object.values(o),s=await K(n,{logger:this.logger,focusedPackages:i}),c=await wt(s,this.logger);await Cr(c,this.options,this.logger);let a={resolutionTree:s.resolutionTree(),logger:this.logger},l=Ve(c,a);this.options.treeShake&&(l=Rt(l,this.options.treeShake,a)),this.options.exportTypeTree&&await l.exportTree(this.options.exportTypeTree),this.logger.debug(`Executing ${this.generators.size} generators`),await this.executeGenerators(t,l),this.logger.info("Generation completed successfully"),t.success=t.errors.length===0,this.logger.debug(`Generation completed: ${t.filesGenerated.length} files`);}catch(n){if(this.logger.error("Code generation failed",n instanceof Error?n:new Error(String(n))),t.errors.push(n instanceof Error?n.message:String(n)),this.options.throwException)throw n}return {...t,success:t.errors.length===0,duration:performance.now()-e}}reset(){return this.schemas=[],this.generators.clear(),this.progressCallback=void 0,this}getSchemas(){return [...this.schemas]}getGenerators(){return Array.from(this.generators.keys())}async executeGenerators(e,t){for(let[n,o]of this.generators.entries()){this.logger.info(`Generating ${n}...`);try{await o.generate(t);let i=o.writtenFiles();e.filesGenerated.push(...i.map(s=>s.absPath)),this.logger.info(`Generating ${n} finished successfully`);}catch(i){if(e.errors.push(`${n} generator failed: ${i instanceof Error?i.message:String(i)}`),this.options.throwException)throw i}}}};var Ue={outputDir:"./generated",verbose:false,overwrite:true,validate:true,cache:true,cleanOutput:true,typescript:{moduleFormat:"esm",generateIndex:true,includeDocuments:false,namingConvention:"PascalCase",strictMode:true,includeProfiles:true,includeExtensions:false,includeCodeSystems:false,includeOperations:false,generateValueSets:false,valueSetDirectory:"valuesets",valueSetMode:"required-only",valueSetStrengths:["required"],includeValueSetHelpers:false,fhirVersion:"R4",resourceTypes:[],maxDepth:10,profileOptions:{generateKind:"interface",includeConstraints:true,includeDocumentation:true,strictMode:false,subfolder:"profiles"},generateBuilders:false,builderOptions:{includeValidation:true,includeFactoryMethods:true,includeInterfaces:true,generateNestedBuilders:true,includeHelperMethods:true,supportPartialBuild:true,includeJSDoc:true,generateFactories:true,includeTypeGuards:true,handleChoiceTypes:true,generateArrayHelpers:true},validatorOptions:{includeCardinality:true,includeTypes:true,includeConstraints:true,includeInvariants:false,validateRequired:true,allowAdditional:false,strictValidation:false,collectMetrics:false,generateAssertions:true,generatePartialValidators:true,optimizePerformance:true,includeJSDoc:true,generateCompositeValidators:true},guardOptions:{includeRuntimeValidation:true,includeErrorMessages:true,treeShakeable:true,targetTSVersion:"5.0",strictGuards:false,includeNullChecks:true,verbose:false}},typeSchema:{enablePersistence:true,cacheDir:".typeschema-cache",maxAge:1440*60*1e3,validateCached:true,forceRegenerate:false,shareCache:true,cacheKeyPrefix:"",treeshake:[],singleFile:false,profiles:{autoDetect:true}},packages:[],files:[],$schema:""},be=["atomic-codegen.config.ts","atomic-codegen.config","atomic-codegen.config.json",".atomic-codegenrc","atomic-codegen.json",".atomic-codegen.json","codegen.config.json","codegen.json"],He=class{validate(e){let t={valid:true,errors:[],warnings:[]};if(!e||typeof e!="object")return t.valid=false,t.errors.push({path:"root",message:"Configuration must be an object",value:e}),t;let n=e;n.outputDir!==void 0&&typeof n.outputDir!="string"&&t.errors.push({path:"outputDir",message:"outputDir must be a string",value:n.outputDir});let o=["verbose","overwrite","validate","cache"];for(let i of o)n[i]!==void 0&&typeof n[i]!="boolean"&&t.errors.push({path:i,message:`${i} must be a boolean`,value:n[i]});if(n.typescript!==void 0){let i=this.validateTypeScriptConfig(n.typescript);t.errors.push(...i);}if(n.typeSchema!==void 0){let i=this.validateTypeSchemaConfig(n.typeSchema);t.errors.push(...i);}return n.packages!==void 0&&(Array.isArray(n.packages)?n.packages.forEach((i,s)=>{typeof i!="string"&&t.errors.push({path:`packages[${s}]`,message:"package name must be a string",value:i});}):t.errors.push({path:"packages",message:"packages must be an array",value:n.packages})),n.files!==void 0&&(Array.isArray(n.files)?n.files.forEach((i,s)=>{typeof i!="string"&&t.errors.push({path:`files[${s}]`,message:"file path must be a string",value:i});}):t.errors.push({path:"files",message:"files must be an array",value:n.files})),t.valid=t.errors.length===0,t.valid&&(t.config=n),t}validateTypeScriptConfig(e){let t=[];if(typeof e!="object"||e===null)return t.push({path:"typescript",message:"typescript config must be an object",value:e}),t;let n=e;n.moduleFormat!==void 0&&(["esm","cjs"].includes(n.moduleFormat)||t.push({path:"typescript.moduleFormat",message:'moduleFormat must be "esm" or "cjs"',value:n.moduleFormat})),n.namingConvention!==void 0&&(["PascalCase","camelCase"].includes(n.namingConvention)||t.push({path:"typescript.namingConvention",message:'namingConvention must be "PascalCase" or "camelCase"',value:n.namingConvention}));let o=["generateIndex","includeDocuments","strictMode","includeProfiles","includeExtensions","includeCodeSystems","includeOperations","generateValueSets","includeValueSetHelpers"];for(let i of o)n[i]!==void 0&&typeof n[i]!="boolean"&&t.push({path:`typescript.${i}`,message:`${i} must be a boolean`,value:n[i]});if(n.validatorOptions!==void 0){let i=this.validateValidatorOptions(n.validatorOptions);t.push(...i);}if(n.guardOptions!==void 0){let i=this.validateGuardOptions(n.guardOptions);t.push(...i);}if(n.profileOptions!==void 0){let i=this.validateProfileOptions(n.profileOptions);t.push(...i);}return t}validateValidatorOptions(e){let t=[];if(typeof e!="object"||e===null)return t.push({path:"typescript.validatorOptions",message:"validatorOptions must be an object",value:e}),t;let n=e,o=["includeCardinality","includeTypes","includeConstraints","includeInvariants","validateRequired","allowAdditional","strictValidation","collectMetrics","generateAssertions","generatePartialValidators","optimizePerformance","includeJSDoc","generateCompositeValidators"];for(let i of o)n[i]!==void 0&&typeof n[i]!="boolean"&&t.push({path:`typescript.validatorOptions.${i}`,message:`${i} must be a boolean`,value:n[i]});return t}validateGuardOptions(e){let t=[];if(typeof e!="object"||e===null)return t.push({path:"typescript.guardOptions",message:"guardOptions must be an object",value:e}),t;let n=e;n.targetTSVersion!==void 0&&(["3.8","4.0","4.5","5.0"].includes(n.targetTSVersion)||t.push({path:"typescript.guardOptions.targetTSVersion",message:'targetTSVersion must be one of: "3.8", "4.0", "4.5", "5.0"',value:n.targetTSVersion}));let o=["includeRuntimeValidation","includeErrorMessages","treeShakeable","strictGuards","includeNullChecks","verbose"];for(let i of o)n[i]!==void 0&&typeof n[i]!="boolean"&&t.push({path:`typescript.guardOptions.${i}`,message:`${i} must be a boolean`,value:n[i]});return t}validateProfileOptions(e){let t=[];if(typeof e!="object"||e===null)return t.push({path:"typescript.profileOptions",message:"profileOptions must be an object",value:e}),t;let n=e;n.generateKind!==void 0&&(["interface","type","both"].includes(n.generateKind)||t.push({path:"typescript.profileOptions.generateKind",message:'generateKind must be "interface", "type", or "both"',value:n.generateKind})),n.subfolder!==void 0&&typeof n.subfolder!="string"&&t.push({path:"typescript.profileOptions.subfolder",message:"subfolder must be a string",value:n.subfolder});let o=["includeConstraints","includeDocumentation","strictMode"];for(let i of o)n[i]!==void 0&&typeof n[i]!="boolean"&&t.push({path:`typescript.profileOptions.${i}`,message:`${i} must be a boolean`,value:n[i]});return t}validateTypeSchemaConfig(e){let t=[];if(typeof e!="object"||e===null)return t.push({path:"typeSchema",message:"typeSchema config must be an object",value:e}),t;let n=e,o=["enablePersistence","validateCached","forceRegenerate","shareCache"];for(let s of o)n[s]!==void 0&&typeof n[s]!="boolean"&&t.push({path:`typeSchema.${s}`,message:`${s} must be a boolean`,value:n[s]});let i=["cacheDir","cacheKeyPrefix"];for(let s of i)n[s]!==void 0&&typeof n[s]!="string"&&t.push({path:`typeSchema.${s}`,message:`${s} must be a string`,value:n[s]});if(n.maxAge!==void 0&&(typeof n.maxAge!="number"||n.maxAge<=0)&&t.push({path:"typeSchema.maxAge",message:"maxAge must be a positive number",value:n.maxAge}),n.profiles!==void 0)if(typeof n.profiles!="object"||n.profiles===null)t.push({path:"typeSchema.profiles",message:"profiles must be an object",value:n.profiles});else {let s=n.profiles;s.autoDetect!==void 0&&typeof s.autoDetect!="boolean"&&t.push({path:"typeSchema.profiles.autoDetect",message:"autoDetect must be a boolean",value:s.autoDetect});}return t}},Ae=class{validator=new He;async autoload(e=process.cwd()){let t=await this.findConfigFile(e);return t?this.loadFromFile(t):{...Ue}}async loadFromFile(e){try{let t;if(e.endsWith(".ts")||e.endsWith("")){let i=await import(resolve(e));t=i.default||i;}else {let o=await readFile(e,"utf-8");t=JSON.parse(o);}let n=this.validator.validate(t);if(!n.valid){let o=n.errors.map(i=>`${i.path}: ${i.message}`).join(`
 `);throw new Error(`Configuration validation failed:
-${o}`)}if(!r.config)throw new Error("Invalid configuration");return this.mergeWithDefaults(r.config)}catch(t){throw t instanceof Error?new Error(`Failed to load config from ${e}: ${t.message}`):t}}async findConfigFile(e){for(let t of Se){let r=resolve(e,t);if(existsSync(r))return r}return null}mergeWithDefaults(e){return {...Ve,...e,typescript:{...Ve.typescript,...e.typescript}}}},Rn=new He;async function be(n){return Rn.autoload(n)}var Mt={command:"generate",describe:"Generate code based on configuration file settings",builder:n=>n.option("verbose",{alias:"v",type:"boolean",default:false,description:"Enable verbose output"}).example("$0 generate","Generate code using settings from config file").example("$0 generate --verbose","Generate with verbose output"),handler:async n=>{if(n._.length>1){let s=n._.slice(1).join(" ");F(`Invalid syntax: 'atomic-codegen generate ${s}'
+${o}`)}if(!n.config)throw new Error("Invalid configuration");return this.mergeWithDefaults(n.config)}catch(t){throw t instanceof Error?new Error(`Failed to load config from ${e}: ${t.message}`):t}}async findConfigFile(e){for(let t of be){let n=resolve(e,t);if(existsSync(n))return n}return null}mergeWithDefaults(e){return {...Ue,...e,typescript:{...Ue.typescript,...e.typescript}}}},kr=new Ae;async function Ce(r){return kr.autoload(r)}var Mt={command:"generate",describe:"Generate code based on configuration file settings",builder:r=>r.option("verbose",{alias:"v",type:"boolean",default:false,description:"Enable verbose output"}).example("$0 generate","Generate code using settings from config file").example("$0 generate --verbose","Generate with verbose output"),handler:async r=>{if(r._.length>1){let s=r._.slice(1).join(" ");I(`Invalid syntax: 'atomic-codegen generate ${s}'
 
 The CLI has been simplified and no longer uses subcommands.
 
@@ -14,8 +14,8 @@ The CLI has been simplified and no longer uses subcommands.
 \u274C Old: atomic-codegen generate typescript
 
 All generation settings are now configured in your config file.
-Create an atomic-codegen.config.ts file to get started.`),process.exit(1);}let e=process.cwd(),t=await Fn(e);if(!t){let s=Se.map(c=>`  - ${c}`).join(`
-`);F(`No configuration file found. Please create one of the following files in your project root:
+Create an atomic-codegen.config.ts file to get started.`),process.exit(1);}let e=process.cwd(),t=await Ir(e);if(!t){let s=be.map(c=>`  - ${c}`).join(`
+`);I(`No configuration file found. Please create one of the following files in your project root:
 ${s}
 
 Example atomic-codegen.config.ts:
@@ -27,13 +27,13 @@ export default defineConfig({
   typescript: {
     generateIndex: true
   }
-});`),process.exit(1);}let r=await be(e),o=n.verbose??r.verbose??false,i=N({verbose:o,prefix:"Generate"});try{ze("Starting generation from config"),o&&(i.info(`Config file: ${t}`),i.info(`Output directory: ${r.outputDir||"./generated"}`),i.info(`Packages: ${r.packages?.length||0}`),i.info(`Files: ${r.files?.length||0}`),i.info(`TypeScript generation: ${r.typescript?"enabled":"disabled"}`));let s=new Q({outputDir:r.outputDir||"./generated",verbose:o,overwrite:r.overwrite??!0,cache:r.cache??!0,typeSchemaConfig:r.typeSchema,logger:i});if(r.packages&&r.packages.length>0){i.info(`Loading packages from config: ${r.packages.join(", ")}`);for(let a of r.packages){let[l,d]=a.includes("@")?a.split("@"):[a,void 0];s.fromPackage(l,d);}}else throw r.files&&r.files.length>0?(i.info(`Loading files from config: ${r.files.join(", ")}`),new Error("Not Implemented")):new Error("No data source specified in config. Please configure 'packages' or 'files' in your config file.");if(r.typescript)throw new Error("Not Implemented");if(!r.typescript)throw new Error("No generators configured. Please enable 'typescript' in your config file.");o&&s.onProgress((a,l,d,h)=>{let m=Math.round(l/d*100);i.progress(`[${a}] ${m}% - ${h||"Processing..."}`);}),i.step("Executing generation...");let c=await s.generate();if(c.success){if(ve(`Generated ${c.filesGenerated.length} files in ${c.duration.toFixed(2)}ms`),i.dim(`Output directory: ${c.outputDir}`),c.warnings.length>0)for(let a of c.warnings)Ge(a);}else {F(`Generation failed with ${c.errors.length} errors`);for(let a of c.errors)i.dim(`  ${a}`);process.exit(1);}}catch(s){F("Generation failed with unexpected error",s instanceof Error?s:new Error(String(s))),process.exit(1);}}};async function Fn(n){for(let e of Se){let t=resolve(n,e);if(existsSync(t))return t}return null}var Lt={command:"generate <packages..>",describe:"Generate TypeSchema files from FHIR packages",builder:{packages:{type:"string",array:true,demandOption:true,describe:"FHIR packages to process (e.g., hl7.fhir.r4.core@4.0.1)"},output:{alias:"o",type:"string",describe:"Output file or directory",default:"./schemas.ndjson"},format:{alias:"f",type:"string",choices:["ndjson","json"],default:"ndjson",describe:"Output format for TypeSchema files"},treeshake:{alias:"t",type:"string",array:true,describe:"Only generate TypeSchemas for specific ResourceTypes (treeshaking)"},singleFile:{alias:"s",type:"boolean",default:false,describe:"Generate single TypeSchema file instead of multiple files (NDJSON format)"},verbose:{alias:"v",type:"boolean",default:false,describe:"Enable verbose output"}},handler:async n=>{let e=N({verbose:n.verbose,prefix:"TypeSchema"});try{let t=await be(process.cwd());e.step("Generating TypeSchema from FHIR packages"),e.info(`Packages: ${n.packages.join(", ")}`),e.info(`Output: ${n.output}`);let r=n.singleFile!==void 0?n.singleFile:t.typeSchema?.singleFile??!1,o=r?"ndjson":n.format;e.debug(`Format: ${o}${r&&n.format==="json"?" (forced from json due to singleFile)":""}`);let i=n.treeshake&&n.treeshake.length>0?n.treeshake:t.typeSchema?.treeshake;i&&i.length>0&&e.info(`Treeshaking enabled for ResourceTypes: ${i.join(", ")}`),r&&e.info("Single file output enabled (NDJSON format)");let s=Date.now(),c=new Y({verbose:n.verbose,treeshake:i}),a=[];for(let m of n.packages){let[p,g]=m.includes("@")?m.split("@"):[m,void 0];e.progress(`Processing package: ${p}${g?`@${g}`:""}`);let y=await c.generateFromPackage(p,g,e);a.push(...y);}if(a.length===0)throw new Error("No schemas were generated from the specified packages");let l=n.output;if(!l)throw new Error("Output format not specified");await mkdir(dirname(l),{recursive:!0});let d;o==="json"?d=JSON.stringify(a,null,2):d=a.map(m=>JSON.stringify(m)).join(`
-`),await writeFile(l,d,"utf-8");let h=Date.now()-s;if(Je(`Generated ${a.length} TypeSchema definitions`,h,{schemas:a.length}),e.dim(`Output: ${l}`),n.verbose){e.debug("Generated schemas:");let m=a.map(p=>`${p.identifier?.name||"Unknown"} (${p.identifier?.kind||"unknown"})`);G(m);}}catch(t){e.error("Failed to generate TypeSchema",t instanceof Error?t:new Error(String(t))),process.exit(1);}}};var jt={command:"typeschema [subcommand]",describe:"TypeSchema operations - generate, validate and merge schemas",builder:n=>n.command(Lt).help().example("$0 typeschema generate hl7.fhir.r4.core@4.0.1","Generate TypeSchema from FHIR R4 core package"),handler:n=>{if(!n.subcommand&&n._.length===1){Te("Available typeschema subcommands:"),G(["generate    Generate TypeSchema files from FHIR packages"]),console.log(`
+});`),process.exit(1);}let n=await Ce(e),o=r.verbose??n.verbose??false,i=N({verbose:o,prefix:"Generate"});try{We("Starting generation from config"),o&&(i.info(`Config file: ${t}`),i.info(`Output directory: ${n.outputDir||"./generated"}`),i.info(`Packages: ${n.packages?.length||0}`),i.info(`Files: ${n.files?.length||0}`),i.info(`TypeScript generation: ${n.typescript?"enabled":"disabled"}`));let s=new Z({outputDir:n.outputDir||"./generated",verbose:o,overwrite:n.overwrite??!0,cache:n.cache??!0,typeSchemaConfig:n.typeSchema,logger:i});if(n.packages&&n.packages.length>0){i.info(`Loading packages from config: ${n.packages.join(", ")}`);for(let a of n.packages){let[l,d]=a.includes("@")?a.split("@"):[a,void 0];s.fromPackage(l,d);}}else throw n.files&&n.files.length>0?(i.info(`Loading files from config: ${n.files.join(", ")}`),new Error("Not Implemented")):new Error("No data source specified in config. Please configure 'packages' or 'files' in your config file.");if(n.typescript)throw new Error("Not Implemented");if(!n.typescript)throw new Error("No generators configured. Please enable 'typescript' in your config file.");o&&s.onProgress((a,l,d,h)=>{let m=Math.round(l/d*100);i.progress(`[${a}] ${m}% - ${h||"Processing..."}`);}),i.step("Executing generation...");let c=await s.generate();if(c.success){if(ve(`Generated ${c.filesGenerated.length} files in ${c.duration.toFixed(2)}ms`),i.dim(`Output directory: ${c.outputDir}`),c.warnings.length>0)for(let a of c.warnings)ze(a);}else {I(`Generation failed with ${c.errors.length} errors`);for(let a of c.errors)i.dim(`  ${a}`);process.exit(1);}}catch(s){I("Generation failed with unexpected error",s instanceof Error?s:new Error(String(s))),process.exit(1);}}};async function Ir(r){for(let e of be){let t=resolve(r,e);if(existsSync(t))return t}return null}var Vt={command:"generate <packages..>",describe:"Generate TypeSchema files from FHIR packages",builder:{packages:{type:"string",array:true,demandOption:true,describe:"FHIR packages to process (e.g., hl7.fhir.r4.core@4.0.1)"},output:{alias:"o",type:"string",describe:"Output file or directory",default:"./schemas.ndjson"},format:{alias:"f",type:"string",choices:["ndjson","json"],default:"ndjson",describe:"Output format for TypeSchema files"},treeshake:{alias:"t",type:"string",array:true,describe:"Only generate TypeSchemas for specific ResourceTypes (treeshaking)"},singleFile:{alias:"s",type:"boolean",default:false,describe:"Generate single TypeSchema file instead of multiple files (NDJSON format)"},verbose:{alias:"v",type:"boolean",default:false,describe:"Enable verbose output"}},handler:async r=>{let e=N({verbose:r.verbose,prefix:"TypeSchema"});try{let t=await Ce(process.cwd());e.step("Generating TypeSchema from FHIR packages"),e.info(`Packages: ${r.packages.join(", ")}`),e.info(`Output: ${r.output}`);let n=r.singleFile!==void 0?r.singleFile:t.typeSchema?.singleFile??!1,o=n?"ndjson":r.format;e.debug(`Format: ${o}${n&&r.format==="json"?" (forced from json due to singleFile)":""}`);let i=r.treeshake&&r.treeshake.length>0?r.treeshake:t.typeSchema?.treeshake;i&&i.length>0&&e.info(`Treeshaking enabled for ResourceTypes: ${i.join(", ")}`),n&&e.info("Single file output enabled (NDJSON format)");let s=Date.now(),c=new X({verbose:r.verbose,treeshake:i}),a=[];for(let m of r.packages){let[p,g]=m.includes("@")?m.split("@"):[m,void 0];e.progress(`Processing package: ${p}${g?`@${g}`:""}`);let y=await c.generateFromPackage(p,g,e);a.push(...y);}if(a.length===0)throw new Error("No schemas were generated from the specified packages");let l=r.output;if(!l)throw new Error("Output format not specified");await mkdir(dirname(l),{recursive:!0});let d;o==="json"?d=JSON.stringify(a,null,2):d=a.map(m=>JSON.stringify(m)).join(`
+`),await writeFile(l,d,"utf-8");let h=Date.now()-s;if(Ke(`Generated ${a.length} TypeSchema definitions`,h,{schemas:a.length}),e.dim(`Output: ${l}`),r.verbose){e.debug("Generated schemas:");let m=a.map(p=>`${p.identifier?.name||"Unknown"} (${p.identifier?.kind||"unknown"})`);G(m);}}catch(t){e.error("Failed to generate TypeSchema",t instanceof Error?t:new Error(String(t))),process.exit(1);}}};var Bt={command:"typeschema [subcommand]",describe:"TypeSchema operations - generate, validate and merge schemas",builder:r=>r.command(Vt).help().example("$0 typeschema generate hl7.fhir.r4.core@4.0.1","Generate TypeSchema from FHIR R4 core package"),handler:r=>{if(!r.subcommand&&r._.length===1){xe("Available typeschema subcommands:"),G(["generate    Generate TypeSchema files from FHIR packages"]),console.log(`
 Use 'atomic-codegen typeschema <subcommand> --help' for more information about a subcommand.`),console.log(`
-Examples:`),G(["atomic-codegen typeschema generate hl7.fhir.r4.core@4.0.1 -o schemas.ndjson","atomic-codegen typeschema validate schemas.ndjson","atomic-codegen typeschema merge schema1.ndjson schema2.ndjson -o merged.ndjson"]);return}n.subcommand&&!["generate","validate","merge"].includes(n.subcommand)&&(F(`Unknown typeschema subcommand: ${n.subcommand}
-`),Te("Available typeschema subcommands:"),G(["generate    Generate TypeSchema files from FHIR packages","validate    Validate TypeSchema files for correctness and consistency","merge       Merge multiple TypeSchema files into a single file"]),console.log(`
-Use 'atomic-codegen typeschema <subcommand> --help' for more information about a subcommand.`),process.exit(1));}};async function Nn(n){We({verbose:n.verbose||n.debug,timestamp:n.debug});}function On(){return Pn(hideBin(process.argv)).scriptName("atomic-codegen").usage("$0 <command> [options]").middleware(Nn).command(jt).command(Mt).option("verbose",{alias:"v",type:"boolean",description:"Enable verbose output",default:false,global:true}).option("debug",{alias:"d",type:"boolean",description:"Enable debug output with detailed logging",default:false,global:true}).option("config",{alias:"c",type:"string",description:"Path to configuration file (.atomic-codegen.json by default)",global:true}).demandCommand(0).middleware(n=>{n._.length===0&&(qe("Welcome to Atomic Codegen!"),console.log("Available commands:"),console.log("  typeschema   Generate, validate and merge TypeSchema files"),console.log("  generate     Generate code based on configuration file"),console.log(`
+Examples:`),G(["atomic-codegen typeschema generate hl7.fhir.r4.core@4.0.1 -o schemas.ndjson","atomic-codegen typeschema validate schemas.ndjson","atomic-codegen typeschema merge schema1.ndjson schema2.ndjson -o merged.ndjson"]);return}r.subcommand&&!["generate","validate","merge"].includes(r.subcommand)&&(I(`Unknown typeschema subcommand: ${r.subcommand}
+`),xe("Available typeschema subcommands:"),G(["generate    Generate TypeSchema files from FHIR packages","validate    Validate TypeSchema files for correctness and consistency","merge       Merge multiple TypeSchema files into a single file"]),console.log(`
+Use 'atomic-codegen typeschema <subcommand> --help' for more information about a subcommand.`),process.exit(1));}};async function Nr(r){qe({verbose:r.verbose||r.debug,timestamp:r.debug});}function Or(){return Pr(hideBin(process.argv)).scriptName("atomic-codegen").usage("$0 <command> [options]").middleware(Nr).command(Bt).command(Mt).option("verbose",{alias:"v",type:"boolean",description:"Enable verbose output",default:false,global:true}).option("debug",{alias:"d",type:"boolean",description:"Enable debug output with detailed logging",default:false,global:true}).option("config",{alias:"c",type:"string",description:"Path to configuration file (.atomic-codegen.json by default)",global:true}).demandCommand(0).middleware(r=>{r._.length===0&&(Je("Welcome to Atomic Codegen!"),console.log("Available commands:"),console.log("  typeschema   Generate, validate and merge TypeSchema files"),console.log("  generate     Generate code based on configuration file"),console.log(`
 Use 'atomic-codegen <command> --help' for more information about a command.`),console.log(`
 Quick examples:`),console.log("  atomic-codegen typeschema generate hl7.fhir.r4.core@4.0.1 -o schemas.ndjson"),console.log("  atomic-codegen generate  # Uses atomic-codegen.config.ts"),console.log(`
-Use 'atomic-codegen --help' to see all options.`),process.exit(0));}).help().version("0.1.0").example("$0 generate","Generate code using atomic-codegen.config.ts").example("$0 generate --verbose","Generate with detailed progress output").example("$0 --config custom-config.ts generate","Use custom configuration file").example("$0 typeschema generate hl7.fhir.r4.core@4.0.1 -o schemas.ndjson","Generate TypeSchemas from FHIR package").fail((n,e,t)=>{e?F(e.message,e):F(n),F(`
-Use --help for usage information`),process.exit(1);}).wrap(Math.min(120,process.stdout.columns||80))}async function Ae(){await On().parseAsync();}import.meta.main&&Ae().catch(n=>{n("Unexpected error:",n),process.exit(1);});Ae().catch(n=>{console.error("CLI Error:",n instanceof Error?n.message:n),process.exit(1);});
+Use 'atomic-codegen --help' to see all options.`),process.exit(0));}).help().version("0.1.0").example("$0 generate","Generate code using atomic-codegen.config.ts").example("$0 generate --verbose","Generate with detailed progress output").example("$0 --config custom-config.ts generate","Use custom configuration file").example("$0 typeschema generate hl7.fhir.r4.core@4.0.1 -o schemas.ndjson","Generate TypeSchemas from FHIR package").fail((r,e,t)=>{e?I(e.message,e):I(r),I(`
+Use --help for usage information`),process.exit(1);}).wrap(Math.min(120,process.stdout.columns||80))}async function _e(){await Or().parseAsync();}import.meta.main&&_e().catch(r=>{r("Unexpected error:",r),process.exit(1);});_e().catch(r=>{console.error("CLI Error:",r instanceof Error?r.message:r),process.exit(1);});

package/dist/index.d.ts

@@ -76,6 +76,50 @@ declare class CodegenLogger {
     configure(options: Partial<LogOptions>): void;
 }
 
+interface Element {
+    id?: string;
+}
+
+interface BackboneElement extends Element {
+}
+
+interface Coding extends Element {
+    code?: string;
+    display?: string;
+    system?: string;
+    userSelected?: boolean;
+    version?: string;
+}
+
+interface ValueSetCompose extends BackboneElement {
+    exclude?: ValueSetComposeInclude[];
+    inactive?: boolean;
+    include: ValueSetComposeInclude[];
+    lockedDate?: string;
+}
+interface ValueSetComposeInclude extends BackboneElement {
+    concept?: ValueSetComposeIncludeConcept[];
+    filter?: ValueSetComposeIncludeFilter[];
+    system?: string;
+    valueSet?: string[];
+    version?: string;
+}
+interface ValueSetComposeIncludeConcept extends BackboneElement {
+    code: string;
+    designation?: ValueSetComposeIncludeConceptDesignation[];
+    display?: string;
+}
+interface ValueSetComposeIncludeConceptDesignation extends BackboneElement {
+    language?: string;
+    use?: Coding;
+    value: string;
+}
+interface ValueSetComposeIncludeFilter extends BackboneElement {
+    op: ("=" | "is-a" | "descendent-of" | "is-not-a" | "regex" | "in" | "not-in" | "generalizes" | "exists");
+    property: string;
+    value: string;
+}
+
 type Name = string & {
     readonly __brand: unique symbol;
 };
@@ -244,13 +288,6 @@ interface BindingTypeSchema {
     dependencies?: Identifier[];
 }
 type Field = RegularField | ChoiceFieldDeclaration | ChoiceFieldInstance;
-type ValueSetCompose = {
-    include: {
-        concept?: Concept[];
-        system?: string;
-        filter?: unknown[];
-    }[];
-};
 
 type TypeSchemaShakeRule = {
     ignoreFields?: string[];

package/dist/index.js

@@ -8,6 +8,7 @@ import { CanonicalManager } from '@atomic-ehr/fhir-canonical-manager';
 import * as fhirschema from '@atomic-ehr/fhirschema';
 import { isStructureDefinition } from '@atomic-ehr/fhirschema';
 import * as YAML from 'yaml';
+import assert from 'assert';
 import pc from 'picocolors';
 
 // src/api/builder.ts
@@ -259,12 +260,6 @@ var isChoiceDeclarationField = (field) => {
   if (!field) return false;
   return field.choices !== void 0;
 };
-var isValueSet = (res) => {
-  return res?.resourceType === "ValueSet";
-};
-var isCodeSystem = (res) => {
-  return res?.resourceType === "CodeSystem";
-};
 var enrichValueSet = (vs, packageMeta) => {
   if (!vs.url) throw new Error("ValueSet must have a URL");
   if (!vs.name) throw new Error("ValueSet must have a name");
@@ -594,6 +589,18 @@ var CSharp = class extends Writer {
     fs__default.copyFileSync(sourceFile, destFile);
   }
 };
+
+// src/fhir-types/hl7-fhir-r4-core/CodeSystem.ts
+var isCodeSystem = (resource) => {
+  return resource !== null && typeof resource === "object" && resource.resourceType === "CodeSystem";
+};
+
+// src/fhir-types/hl7-fhir-r4-core/ValueSet.ts
+var isValueSet = (resource) => {
+  return resource !== null && typeof resource === "object" && resource.resourceType === "ValueSet";
+};
+
+// src/typeschema/register.ts
 var readPackageDependencies = async (manager, packageMeta) => {
   const packageJSON = await manager.packageJson(packageMeta.name);
   const dependencies = packageJSON.dependencies;
@@ -1056,7 +1063,16 @@ function extractValueSetConceptsByUrl(register, pkg, valueSetUrl, logger) {
   return extractValueSetConcepts(register, valueSet);
 }
 function extractValueSetConcepts(register, valueSet, _logger) {
-  if (valueSet.expansion?.contains) return valueSet.expansion.contains;
+  if (valueSet.expansion?.contains) {
+    return valueSet.expansion.contains.filter((item) => item.code !== void 0).map((item) => {
+      assert(item.code);
+      return {
+        code: item.code,
+        display: item.display,
+        system: item.system
+      };
+    });
+  }
   const concepts = [];
   if (valueSet.compose?.include) {
     for (const include of valueSet.compose.include) {