@medplum/cli 4.3.0 → 4.3.1

package/dist/esm/index.mjs

@@ -11,7 +11,7 @@ Configuration values come from a file named **medplum.<tag>.config.server.json**
 `+Z.yellow("**Services must be restarted to apply changes.**"))).argument("<tag>","The Medplum stack tag").option("--file [file]",kt("File to provide overrides for **apiPort**, **baseUrl**, **appDomainName** and **storageDomainName** values that appear in the config file.")).option("--dryrun","Displays the operations that would be performed using the specified command without actually running them.").option("--yes","Automatically confirm the update").action(us),y(e,new g("update-server").alias("deploy-server").description("Update the server image").argument("<tag>","The Medplum stack tag").option("--file [file]","Specifies the config file to use. If not specified, the file is based on the tag.").option("--to-version [version]","Specifies the version of the configuration to update. If not specified, the latest version is updated.").action(ds)),e.command("update-app").alias("deploy-app").description("Update the app site").argument("<tag>","The Medplum stack tag").option("--file [file]","Specifies the config file to use. If not specified, the file is based on the tag.").option("--to-version [version]","Specifies the version of the configuration to update. If not specified, the latest version is updated.").option("--dryrun","Displays the operations that would be performed using the specified command without actually running them.").option("--tar-path [tarPath]","Specifies the path to the extracted tarball of the @medplum/app package.").action(is),e.command("update-bucket-policies").description("Update S3 bucket policies").argument("<tag>","The Medplum stack tag").option("--file [file]","Specifies the config file to use. If not specified, the file is based on the tag.").option("--dryrun","Displays the operations that would be performed using the specified command without actually running them.").action(ls),e}var fs=new g("save"),hs=new g("deploy"),gs=new g("create"),be=new g("bot");y(be,fs);y(be,hs);y(be,gs);var rr=new g("save-bot"),or=new g("deploy-bot"),nr=new g("create-bot");fs.description("Saving the bot").argument("<botName>").action(async(e,t)=>{let r=await R(t);await it(r,e)});hs.description("Deploy the app to AWS").argument("<botName>").action(async(e,t)=>{let r=await R(t);await it(r,e,!0)});gs.arguments("<botName> <projectId> <sourceFile> <distFile>").description("Creating a bot").option("--runtime-version <runtimeVersion>","Runtime version (awslambda, vmcontext)").option("--no-write-config","Do not write bot to config").action(async(e,t,r,o,n)=>{let s=await R(n);await Ct(s,e,t,r,o,n.runtimeVersion,!!n.writeConfig)});async function it(e,t,r=!1){let o=Kr(t),n=[],s=[],i=0,c=0;for(let l of o)try{let u=await e.readResource("Bot",l.id);await bt(e,l,u),i++,r&&(await Pt(e,l,u),c++)}catch(u){n.push(u),s.push(`${l.name} [${l.id}]`)}if(console.log(`Number of bots saved: ${i}`),console.log(`Number of bots deployed: ${c}`),console.log(`Number of errors: ${n.length}`),n.length)throw new Error(`${n.length} bot(s) had failures. Bots with failures:
 
     ${s.join(`
-    `)}`,{cause:n})}rr.description("Saves the bot").argument("<botName>").action(async(e,t)=>{let r=await R(t);await it(r,e)});or.description("Deploy the bot to AWS").argument("<botName>").action(async(e,t)=>{let r=await R(t);await it(r,e,!0)});nr.arguments("<botName> <projectId> <sourceFile> <distFile>").description("Creates and saves the bot").action(async(e,t,r,o,n)=>{let s=await R(n);await Ct(s,e,t,r,o)});import{createReadStream as ip,writeFile as ap}from"node:fs";import{resolve as ws}from"node:path";import{createInterface as cp}from"node:readline";var Es=new g("export"),Ss=new g("import"),at=new g("bulk");y(at,Es);y(at,Ss);Es.option("-e, --export-level <exportLevel>",'Optional export level. Defaults to system level export. "Group/:id" - Group of Patients, "Patient" - All Patients.').option("-t, --types <types>","optional resource types to export").option("-s, --since <since>","optional Resources will be included in the response if their state has changed after the supplied time (e.g. if Resource.meta.lastUpdated is later than the supplied _since time).").option("-d, --target-directory <targetDirectory>","optional target directory to save files from the bulk export operations.").action(async e=>{let{exportLevel:t,types:r,since:o,targetDirectory:n}=e,s=await R(e);(await s.bulkExport(t,r,o,{pollStatusOnAccepted:!0})).output?.forEach(async({type:c,url:l})=>{let u=new URL(l),h=await s.download(l),f=`${c}_${u.pathname}`.replace(/[^a-zA-Z0-9]+/g,"_")+".ndjson",S=ws(n??"",f);ap(`${S}`,await h.text(),()=>{console.log(`${S} is created`)})})});Ss.argument("<filename>","File Name").option("--num-resources-per-request <numResourcesPerRequest>","optional number of resources to import per batch request. Defaults to 25.","25").option("--add-extensions-for-missing-values","optional flag to add extensions for missing values in a resource",!1).option("-d, --target-directory <targetDirectory>","optional target directory of file to be imported").action(async(e,t)=>{let{numResourcesPerRequest:r,addExtensionsForMissingValues:o,targetDirectory:n}=t,s=ws(n??process.cwd(),e),i=await R(t);await lp(s,Number.parseInt(r,10),i,o)});async function lp(e,t,r,o){let n=[],s=ip(e),i=cp({input:s});for await(let c of i){let l=up(c,o);n.push({resource:l,request:{method:"POST",url:l.resourceType}}),n.length%t===0&&(await ys(n,r),n=[])}n.length>0&&await ys(n,r)}async function ys(e,t){(await t.executeBatch({resourceType:"Bundle",type:"transaction",entry:e})).entry?.forEach(o=>{K(o.response)})}function up(e,t){let r=JSON.parse(e);return t?pp(r):r}function pp(e){return e.resourceType==="ExplanationOfBenefit"?dp(e):e}function dp(e){return e.provider||(e.provider=Tt()),e.item?.forEach(t=>{t?.productOrService||(t.productOrService=Tt())}),e}import{formatHl7DateTime as wp,Hl7Message as Ep}from"@medplum/core";import{connect as mp}from"node:net";import{Hl7Message as fp}from"@medplum/core";import Rs from"iconv-lite";import{sleep as gp}from"@medplum/core";import yp from"node:net";var As=class extends EventTarget{addEventListener(e,t,r){super.addEventListener(e,t,r)}removeEventListener(e,t,r){super.removeEventListener(e,t,r)}};var hp=class extends Event{constructor(e,t){super("message"),this.connection=e,this.message=t}},ct=class extends Event{constructor(e){super("error"),this.error=e}},Is=class extends Event{constructor(){super("close")}},vs=class extends As{constructor(e,t="utf-8",r=!1){super(),this.chunks=[],this.messageQueue=[],this.socket=e,this.encoding=t,this.enhancedMode=r,e.on("data",o=>{try{if(this.appendData(o),o.at(-2)===28&&o.at(-1)===13){let n=Buffer.concat(this.chunks),s=n.subarray(1,n.length-2),i=Rs.decode(s,this.encoding),c=fp.parse(i);this.dispatchEvent(new hp(this,c)),this.resetBuffer()}}catch(n){this.dispatchEvent(new ct(n))}}),e.on("error",o=>{this.resetBuffer(),this.dispatchEvent(new ct(o))}),e.on("end",()=>{this.close()}),this.addEventListener("message",o=>{r&&this.send(o.message.buildAck({ackCode:"CA"}));let n=this.messageQueue.shift();if(!n){this.dispatchEvent(new ct(new Error(`Received a message when no pending messages were in the queue. Message: ${o.message}`)));return}n.resolve?.(o.message)})}sendImpl(e,t){this.messageQueue.push(t);let r=e.toString(),o=Rs.encode(r,this.encoding),n=Buffer.alloc(o.length+3);n.writeInt8(11,0),o.copy(n,1),n.writeInt8(28,o.length+1),n.writeInt8(13,o.length+2),this.socket.write(n)}send(e){this.sendImpl(e,{message:e})}async sendAndWait(e){return new Promise((t,r)=>{let o={message:e,resolve:t,reject:r};this.sendImpl(e,o)})}close(){this.socket.end(),this.socket.destroy(),this.dispatchEvent(new Is)}appendData(e){this.chunks.push(e)}resetBuffer(){this.chunks=[]}},bs=class extends As{constructor(e){super(),this.options=e,this.host=this.options.host,this.port=this.options.port,this.encoding=this.options.encoding,this.keepAlive=this.options.keepAlive??!1,this.connectTimeout=this.options.connectTimeout??3e4}connect(){return this.connection?Promise.resolve(this.connection):(this.socket&&(this.socket.removeAllListeners(),this.socket.destroy(),this.socket=void 0),new Promise((e,t)=>{this.socket=mp({host:this.host,port:this.port,keepAlive:this.keepAlive}),this.connectTimeout>0&&(this.socket.setTimeout(this.connectTimeout),this.socket.on("timeout",()=>{let r=new Error(`Connection timeout after ${this.connectTimeout}ms`);this.socket&&(this.socket.destroy(),this.socket=void 0),t(r)})),this.socket.on("connect",()=>{if(!this.socket)return;let r;this.connection=r=new vs(this.socket,this.encoding),this.socket.setTimeout(0),r.addEventListener("close",()=>{this.socket=void 0,this.dispatchEvent(new Is)}),r.addEventListener("error",o=>{this.dispatchEvent(new ct(o.error))}),e(this.connection)}),this.socket.on("error",r=>{this.socket&&(this.socket.destroy(),this.socket=void 0),t(r)})}))}async send(e){return(await this.connect()).send(e)}async sendAndWait(e){return(await this.connect()).sendAndWait(e)}close(){this.socket&&(this.socket.removeAllListeners(),this.socket.destroy(),this.socket=void 0),this.connection&&(this.connection.close(),delete this.connection)}},Ps=class{constructor(e){this.handler=e}start(e,t,r=!1){let o=yp.createServer(s=>{let i=new vs(s,t,r);this.handler(i)}),n=async s=>{s?.code==="EADDRINUSE"&&(await gp(50),o.close(),o.listen(e))};o.on("error",n),o.once("listening",()=>{o.off("error",n)}),o.listen(e),this.server=o}async stop(){return new Promise((e,t)=>{if(!this.server){t(new Error("Stop was called but there is no server running"));return}this.server.close(r=>{if(r){t(r);return}e()}),this.server=void 0})}};import{readFileSync as Sp}from"node:fs";var Rp=new g("send").description("Send an HL7 v2 message via MLLP").argument("<host>","The destination host name or IP address").argument("<port>","The destination port number").argument("[body]","Optional HL7 message body").option("--generate-example","Generate a sample HL7 message").option("--file <file>","Read the HL7 message from a file").option("--encoding <encoding>","The encoding to use").action(async(e,t,r,o)=>{if(o.generateExample?r=Ip():o.file&&(r=Sp(o.file,"utf8")),!r)throw new Error("Missing HL7 message body");let n=new bs({host:e,port:Number.parseInt(t,10),encoding:o.encoding});try{let s=await n.sendAndWait(Ep.parse(r));console.log(s.toString().replaceAll("\r",`
+    `)}`,{cause:n})}rr.description("Saves the bot").argument("<botName>").action(async(e,t)=>{let r=await R(t);await it(r,e)});or.description("Deploy the bot to AWS").argument("<botName>").action(async(e,t)=>{let r=await R(t);await it(r,e,!0)});nr.arguments("<botName> <projectId> <sourceFile> <distFile>").description("Creates and saves the bot").action(async(e,t,r,o,n)=>{let s=await R(n);await Ct(s,e,t,r,o)});import{createReadStream as ip,writeFile as ap}from"node:fs";import{resolve as ws}from"node:path";import{createInterface as cp}from"node:readline";var Es=new g("export"),Ss=new g("import"),at=new g("bulk");y(at,Es);y(at,Ss);Es.option("-e, --export-level <exportLevel>",'Optional export level. Defaults to system level export. "Group/:id" - Group of Patients, "Patient" - All Patients.').option("-t, --types <types>","optional resource types to export").option("-s, --since <since>","optional Resources will be included in the response if their state has changed after the supplied time (e.g. if Resource.meta.lastUpdated is later than the supplied _since time).").option("-d, --target-directory <targetDirectory>","optional target directory to save files from the bulk export operations.").action(async e=>{let{exportLevel:t,types:r,since:o,targetDirectory:n}=e,s=await R(e);(await s.bulkExport(t,r,o,{pollStatusOnAccepted:!0})).output?.forEach(async({type:c,url:l})=>{let u=new URL(l),h=await s.download(l),f=`${c}_${u.pathname}`.replace(/[^a-zA-Z0-9]+/g,"_")+".ndjson",S=ws(n??"",f);ap(`${S}`,await h.text(),()=>{console.log(`${S} is created`)})})});Ss.argument("<filename>","File Name").option("--num-resources-per-request <numResourcesPerRequest>","optional number of resources to import per batch request. Defaults to 25.","25").option("--add-extensions-for-missing-values","optional flag to add extensions for missing values in a resource",!1).option("-d, --target-directory <targetDirectory>","optional target directory of file to be imported").action(async(e,t)=>{let{numResourcesPerRequest:r,addExtensionsForMissingValues:o,targetDirectory:n}=t,s=ws(n??process.cwd(),e),i=await R(t);await lp(s,Number.parseInt(r,10),i,o)});async function lp(e,t,r,o){let n=[],s=ip(e),i=cp({input:s});for await(let c of i){let l=up(c,o);n.push({resource:l,request:{method:"POST",url:l.resourceType}}),n.length%t===0&&(await ys(n,r),n=[])}n.length>0&&await ys(n,r)}async function ys(e,t){(await t.executeBatch({resourceType:"Bundle",type:"transaction",entry:e})).entry?.forEach(o=>{K(o.response)})}function up(e,t){let r=JSON.parse(e);return t?pp(r):r}function pp(e){return e.resourceType==="ExplanationOfBenefit"?dp(e):e}function dp(e){return e.provider||(e.provider=Tt()),e.item?.forEach(t=>{t?.productOrService||(t.productOrService=Tt())}),e}import{formatHl7DateTime as wp,Hl7Message as Ep}from"@medplum/core";import{connect as mp}from"node:net";import{Hl7Message as fp}from"@medplum/core";import Rs from"iconv-lite";import{sleep as gp}from"@medplum/core";import yp from"node:net";var As=class extends EventTarget{addEventListener(e,t,r){super.addEventListener(e,t,r)}removeEventListener(e,t,r){super.removeEventListener(e,t,r)}};var hp=class extends Event{constructor(e,t){super("message"),this.connection=e,this.message=t}},ct=class extends Event{constructor(e){super("error"),this.error=e}},Is=class extends Event{constructor(){super("close")}},vs=class extends As{constructor(e,t="utf-8",r=!1){super(),this.chunks=[],this.messageQueue=[],this.socket=e,this.encoding=t,this.enhancedMode=r,e.on("data",o=>{try{if(this.appendData(o),o.at(-2)===28&&o.at(-1)===13){let n=Buffer.concat(this.chunks),s=n.subarray(1,n.length-2),i=Rs.decode(s,this.encoding),c=fp.parse(i);this.dispatchEvent(new hp(this,c)),this.resetBuffer()}}catch(n){this.dispatchEvent(new ct(n))}}),e.on("error",o=>{this.resetBuffer(),this.dispatchEvent(new ct(o))}),e.on("end",()=>{this.close()}),this.addEventListener("message",o=>{r&&this.send(o.message.buildAck({ackCode:"CA"}));let n=this.messageQueue.shift();if(!n){this.dispatchEvent(new ct(new Error(`Received a message when no pending messages were in the queue. Message: ${o.message}`)));return}n.resolve?.(o.message)})}sendImpl(e,t){this.messageQueue.push(t);let r=e.toString(),o=Rs.encode(r,this.encoding),n=Buffer.alloc(o.length+3);n.writeInt8(11,0),o.copy(n,1),n.writeInt8(28,o.length+1),n.writeInt8(13,o.length+2),this.socket.write(n)}send(e){this.sendImpl(e,{message:e})}async sendAndWait(e){return new Promise((t,r)=>{let o={message:e,resolve:t,reject:r};this.sendImpl(e,o)})}close(){this.socket.end(),this.socket.destroy(),this.dispatchEvent(new Is)}appendData(e){this.chunks.push(e)}resetBuffer(){this.chunks=[]}},bs=class extends As{constructor(e){super(),this.options=e,this.host=this.options.host,this.port=this.options.port,this.encoding=this.options.encoding,this.keepAlive=this.options.keepAlive??!1,this.connectTimeout=this.options.connectTimeout??3e4}connect(){return this.connection?Promise.resolve(this.connection):(this.socket&&(this.socket.removeAllListeners(),this.socket.destroy(),this.socket=void 0),new Promise((e,t)=>{this.socket=mp({host:this.host,port:this.port,keepAlive:this.keepAlive}),this.connectTimeout>0&&(this.socket.setTimeout(this.connectTimeout),this.socket.on("timeout",()=>{let r=new Error(`Connection timeout after ${this.connectTimeout}ms`);this.socket&&(this.socket.destroy(),this.socket=void 0),t(r)})),this.socket.on("connect",()=>{if(!this.socket)return;let r;this.connection=r=new vs(this.socket,this.encoding),this.socket.setTimeout(0),r.addEventListener("close",()=>{this.socket=void 0,this.connection=void 0,this.dispatchEvent(new Is)}),r.addEventListener("error",o=>{this.dispatchEvent(new ct(o.error))}),e(this.connection)}),this.socket.on("error",r=>{this.socket&&(this.socket.destroy(),this.socket=void 0),t(r)})}))}async send(e){return(await this.connect()).send(e)}async sendAndWait(e){return(await this.connect()).sendAndWait(e)}close(){this.socket&&(this.socket.removeAllListeners(),this.socket.destroy(),this.socket=void 0),this.connection&&(this.connection.close(),delete this.connection)}},Ps=class{constructor(e){this.handler=e}start(e,t,r=!1){let o=yp.createServer(s=>{let i=new vs(s,t,r);this.handler(i)}),n=async s=>{s?.code==="EADDRINUSE"&&(await gp(50),o.close(),o.listen(e))};o.on("error",n),o.once("listening",()=>{o.off("error",n)}),o.listen(e),this.server=o}async stop(){return new Promise((e,t)=>{if(!this.server){t(new Error("Stop was called but there is no server running"));return}this.server.close(r=>{if(r){t(r);return}e()}),this.server=void 0})}};import{readFileSync as Sp}from"node:fs";var Rp=new g("send").description("Send an HL7 v2 message via MLLP").argument("<host>","The destination host name or IP address").argument("<port>","The destination port number").argument("[body]","Optional HL7 message body").option("--generate-example","Generate a sample HL7 message").option("--file <file>","Read the HL7 message from a file").option("--encoding <encoding>","The encoding to use").action(async(e,t,r,o)=>{if(o.generateExample?r=Ip():o.file&&(r=Sp(o.file,"utf8")),!r)throw new Error("Missing HL7 message body");let n=new bs({host:e,port:Number.parseInt(t,10),encoding:o.encoding});try{let s=await n.sendAndWait(Ep.parse(r));console.log(s.toString().replaceAll("\r",`
 `))}finally{n.close()}}),Ap=new g("listen").description("Starts an HL7 v2 MLLP server").argument("<port>").option("--encoding <encoding>","The encoding to use").action(async(e,t)=>{new Ps(o=>{o.addEventListener("message",({message:n})=>{console.log(n.toString().replaceAll("\r",`
 `)),o.send(n.buildAck())})}).start(Number.parseInt(e,10),t.encoding),console.log("Listening on port "+e)}),lt=new g("hl7");y(lt,Rp);y(lt,Ap);function Ip(){let e=wp(new Date),t=Date.now().toString();return`MSH|^~\\&|ADTSYS|HOSPITAL|RECEIVER|DEST|${e}||ADT^A01|${t}|P|2.5|
 EVN|A01|${e}||