INFO:root:about to clone! DEBUG:root:running: git clone --recursive https://github.com/HL7/davinci-pcde --branch master repo DEBUG:root:Time to deadline 35879.996677 seconds Cloning into 'repo'... DEBUG:root:running: wget -q https://github.com/HL7/fhir-ig-publisher/releases/latest/download/publisher.jar -O publisher.jar DEBUG:root:Time to deadline 35878.647338 seconds DEBUG:root:running: npm -g install fsh-sushi DEBUG:root:Time to deadline 35877.347523 seconds /usr/local/bin/sushi -> /usr/local/lib/node_modules/fsh-sushi/dist/app.js > es5-ext@0.10.61 postinstall /usr/local/lib/node_modules/fsh-sushi/node_modules/es5-ext > node -e "try{require('./_postinstall')}catch(e){}" || exit 0 npm WARN optional SKIPPING OPTIONAL DEPENDENCY: fsevents@2.3.2 (node_modules/fsh-sushi/node_modules/fsevents): npm WARN notsup SKIPPING OPTIONAL DEPENDENCY: Unsupported platform for fsevents@2.3.2: wanted {"os":"darwin","arch":"any"} (current: {"os":"linux","arch":"x64"}) + fsh-sushi@2.6.1 added 952 packages from 491 contributors in 21.677s DEBUG:root:running: java -Xms19000m -Xmx19000m -jar ../publisher.jar -ig ig.json -api-key-file /etc/ig.builder.keyfile.ini -auto-ig-build -tx http://tx.fhir.org/r4 -target https://build.fhir.org/ig/HL7/davinci-pcde/ -out /scratch/ig-build-temp-I2WLFF/repo DEBUG:root:Time to deadline 35854.931396 seconds FHIR IG Publisher Version 1.1.128 (Git# 89f581f54afc). Built 2022-08-03T17:24:21.398Z (25 days old) Detected Java version: 11.0.9 from /usr/local/openjdk-11 on Linux/amd64 (64bit). 18366MB available dir = /scratch/ig-build-temp-I2WLFF/repo, path = /usr/local/rvm/bin:/usr/local/rvm/rubies/ruby-2.5.1/bin:/usr/local/openjdk-11/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin Parameters: -ig ig.json -api-key-file /etc/ig.builder.keyfile.ini -auto-ig-build -tx http://tx.fhir.org/r4 -target https://build.fhir.org/ig/HL7/davinci-pcde/ -out /scratch/ig-build-temp-I2WLFF/repo Start Clock @ Monday, August 29, 2022 at 2:42:19 PM Coordinated Universal Time (2022-08-29T14:42:19Z) API keys loaded from /etc/ig.builder.keyfile.ini (00:00.008) Package Cache: var/lib/.fhir/packages (00:00.012) Load Template from hl7.fhir.template#current (00:00.810) Installing hl7.fhir.template#current to the package cache Fetching: Installing: done. Load Template from hl7.base.template#current (00:01.478) Installing hl7.base.template#current to the package cache Fetching: Installing: done. Load Template from fhir.base.template#current (00:01.497) Installing fhir.base.template#current to the package cache Fetching: . Installing: . done. onLoad.findSpreadsheets: onLoad.updateIg: [xslt] Processing /scratch/ig-build-temp-I2WLFF/repo/template/onLoad-ig-working.xml to /scratch/ig-build-temp-I2WLFF/repo/template/onLoad-ig-updated.xml [xslt] Loading stylesheet /scratch/ig-build-temp-I2WLFF/repo/template/scripts/onLoad.xslt onLoad.extend: onLoad: Root directory: /scratch/ig-build-temp-I2WLFF/repo (00:05.565) Core Package hl7.fhir.r4.core#4.0.1 Installing hl7.fhir.r4.core#4.0.1 to the package cache Fetching: .................................................................................................... Installing: .................................................................................................... done. Terminology Cache is at /scratch/ig-build-temp-I2WLFF/repo/input-cache/txcache. Trimming now (00:24.989) Connect to Terminology Server at http://tx.fhir.org/r4 (00:25.095) 2022-08-29 14:42:46.255 [main] INFO o.h.f.u.npm.BasePackageCacheManager [BasePackageCacheManager.java:83] Failed to resolve package hl7.fhir.pubpack#0.1.1 from server: http://packages.fhir.org (Invalid HTTP response 404 from http://packages.fhir.org/hl7.fhir.pubpack/0.1.1 (Not Found) (content in /tmp/fhir-http-2.log)) Installing hl7.fhir.pubpack#0.1.1 to the package cache Fetching: .......... Installing: .......... done. Load Package hl7.fhir.pubpack#0.1.1 Installing hl7.fhir.xver-extensions#0.0.11 to the package cache Fetching: Installing: done. Load Package hl7.fhir.xver-extensions#0.0.11 Installing hl7.terminology.r4#3.1.0 to the package cache Fetching: ................................................................................... Installing: ................................................................................... done. Load Package hl7.terminology.r4#3.1.0 Installing hl7.fhir.us.core#3.1.0 to the package cache Fetching: ..... Installing: ..... done. Load Package hl7.fhir.us.core#3.1.0 Installing hl7.fhir.us.davinci-hrex#0.2.0 to the package cache Fetching: Installing: done. Load Package hl7.fhir.us.davinci-hrex#0.2.0 Installing hl7.fhir.us.davinci-pdex#1.0.0 to the package cache Fetching: . Installing: . done. Installing hl7.fhir.us.core#3.1.1 to the package cache Fetching: ..... Installing: ..... done. Load Package hl7.fhir.us.core#3.1.1 Load Package hl7.fhir.us.davinci-pdex#1.0.0 Installing hl7.fhir.us.davinci-pas#1.0.0 to the package cache Fetching: .. Installing: .. done. Load Package hl7.fhir.us.davinci-pas#1.0.0 Installing hl7.fhir.uv.subscriptions-backport#0.1.0 to the package cache Fetching: Installing: done. Load Package hl7.fhir.uv.subscriptions-backport#0.1.0 Load R5 ExtensionsInstalling hl7.fhir.r5.core#current to the package cache Fetching: .......................................................................................... Installing: .......................................................................................... done. - 106 resources (00:52.962) Initialization complete (00:53.061) Fetch http://hl7.org/fhir/us/davinci-pcde/package-list.json for version check (00:53.064) Load Content (00:53.149) loadPrePages from FetchedFile[/scratch/ig-build-temp-I2WLFF/repo/input/includes] as /scratch/ig-build-temp-I2WLFF/repo/input/includes loadPrePages from FetchedFile[/scratch/ig-build-temp-I2WLFF/repo/input/data] as /scratch/ig-build-temp-I2WLFF/repo/input/data loadPrePages from FetchedFile[/scratch/ig-build-temp-I2WLFF/repo/input/intro-notes] as /scratch/ig-build-temp-I2WLFF/repo/input/intro-notes loadPrePages from FetchedFile[/scratch/ig-build-temp-I2WLFF/repo/input/pagecontent] as /scratch/ig-build-temp-I2WLFF/repo/input/pagecontent Processing Conformance Resources (00:53.646) Generating Snapshots (00:53.912) Propagating status (00:54.255) Generating Narratives (00:54.256) Validating Conformance Resources (01:00.942) Installing hl7.fhir.us.core#current to the package cache Fetching: ........ Installing: ........ done. US Core Comparisons Finished Installing hl7.fhir.us.davinci-pcde#1.0.0 to the package cache Fetching: Installing: done. Installing hl7.fhir.r4.core#4.0.1 to the package cache Fetching: .................................................................................................... Installing: .................................................................................................... done. Installing hl7.fhir.us.core#3.1.0 to the package cache Fetching: ..... Installing: ..... done. Installing hl7.fhir.us.davinci-hrex#0.2.0 to the package cache Fetching: Installing: done. Installing hl7.fhir.us.davinci-pdex#1.0.0 to the package cache Fetching: . Installing: . done. Installing hl7.fhir.us.core#3.1.1 to the package cache Fetching: ..... Installing: ..... done. org.hl7.fhir.exceptions.FHIRException: Error reading /root/.fhir/packages/hl7.fhir.us.core#3.1.1/package/ImplementationGuide-hl7.fhir.us.core.json from package hl7.fhir.us.core#3.1.1: Duplicate Resource http://hl7.org/fhir/us/core/ImplementationGuide/hl7.fhir.us.core of type ImplementationGuide at org.hl7.fhir.r5.context.SimpleWorkerContext.loadFromPackageInt(SimpleWorkerContext.java:502) at org.hl7.fhir.r5.context.SimpleWorkerContext.loadFromPackageAndDependenciesInt(SimpleWorkerContext.java:458) at org.hl7.fhir.r5.context.SimpleWorkerContext.loadFromPackageAndDependenciesInt(SimpleWorkerContext.java:455) at org.hl7.fhir.r5.context.SimpleWorkerContext.loadFromPackageAndDependenciesInt(SimpleWorkerContext.java:455) at org.hl7.fhir.r5.context.SimpleWorkerContext.loadFromPackageAndDependencies(SimpleWorkerContext.java:444) at org.hl7.fhir.igtools.publisher.comparators.PreviousVersionComparator.startChecks(PreviousVersionComparator.java:218) at org.hl7.fhir.igtools.publisher.Publisher.checkConformanceResources(Publisher.java:4874) at org.hl7.fhir.igtools.publisher.Publisher.loadConformance(Publisher.java:4788) at org.hl7.fhir.igtools.publisher.Publisher.createIg(Publisher.java:1021) at org.hl7.fhir.igtools.publisher.Publisher.execute(Publisher.java:871) at org.hl7.fhir.igtools.publisher.Publisher.main(Publisher.java:10297) Caused by: org.hl7.fhir.exceptions.DefinitionException: Duplicate Resource http://hl7.org/fhir/us/core/ImplementationGuide/hl7.fhir.us.core of type ImplementationGuide at org.hl7.fhir.r5.context.BaseWorkerContext.registerResourceFromPackage(BaseWorkerContext.java:334) at org.hl7.fhir.r5.context.SimpleWorkerContext.loadFromPackageInt(SimpleWorkerContext.java:499) ... 10 more Validating Resources (01:17.582) Processing Provenance Records (01:19.556) Generating Outputs in /scratch/ig-build-temp-I2WLFF/repo/output (01:19.556) Run Template (01:19.962) onGenerate.checkVersions: [xslt] Processing /scratch/ig-build-temp-I2WLFF/repo/template/onGenerate-ig-working.xml to /scratch/ig-build-temp-I2WLFF/repo/template/versions.txt [xslt] Loading stylesheet /scratch/ig-build-temp-I2WLFF/repo/template/scripts/onGenerate.getVersions.xslt onGenerate.r5-schemas: [get] Getting: http://build.fhir.org/fhir-single.xsd [get] To: /scratch/ig-build-temp-I2WLFF/repo/input-cache/schemas/R5/fhir-single.xsd [get] Not modified - so not downloaded [get] Getting: http://build.fhir.org/fhir-xhtml.xsd [get] To: /scratch/ig-build-temp-I2WLFF/repo/input-cache/schemas/R5/fhir-xhtml.xsd [get] Not modified - so not downloaded [get] Getting: http://build.fhir.org/xml.xsd [get] To: /scratch/ig-build-temp-I2WLFF/repo/input-cache/schemas/R5/xml.xsd [get] Not modified - so not downloaded [get] Getting: http://build.fhir.org/xmldsig-core-schema.xsd [get] To: /scratch/ig-build-temp-I2WLFF/repo/input-cache/schemas/R5/xmldsig-core-schema.xsd [get] Not modified - so not downloaded onGenerate.r4-schemas: [get] Getting: http://hl7.org/fhir/R4/fhir-single.xsd [get] To: /scratch/ig-build-temp-I2WLFF/repo/input-cache/schemas/R4/fhir-single.xsd [get] Not modified - so not downloaded [get] Getting: http://hl7.org/fhir/R4/fhir-xhtml.xsd [get] To: /scratch/ig-build-temp-I2WLFF/repo/input-cache/schemas/R4/fhir-xhtml.xsd [get] Not modified - so not downloaded [get] Getting: http://hl7.org/fhir/R4/xml.xsd [get] To: /scratch/ig-build-temp-I2WLFF/repo/input-cache/schemas/R4/xml.xsd [get] Not modified - so not downloaded [get] Getting: http://hl7.org/fhir/R4/xmldsig-core-schema.xsd [get] To: /scratch/ig-build-temp-I2WLFF/repo/input-cache/schemas/R4/xmldsig-core-schema.xsd [get] Not modified - so not downloaded onGenerate.r3-schemas: onGenerate.r2b-schemas: onGenerate.r2-schemas: onGenerate.schemas: onGenerate.data: [xslt] Processing /scratch/ig-build-temp-I2WLFF/repo/template/onGenerate-ig-working.xml to /scratch/ig-build-temp-I2WLFF/repo/temp/pages/_data/artifacts.json [xslt] Loading stylesheet /scratch/ig-build-temp-I2WLFF/repo/template/scripts/onGenerate.data.xslt onGenerate.setup: onGenerate.infoFile: [xslt] Processing /scratch/ig-build-temp-I2WLFF/repo/template/onGenerate-ig-working.xml to /scratch/ig-build-temp-I2WLFF/repo/temp/pages/_data/info.json [xslt] Loading stylesheet /scratch/ig-build-temp-I2WLFF/repo/template/scripts/onGenerate.genJson.xslt onGenerate.processIncludes: [copy] Copying 17 files to /scratch/ig-build-temp-I2WLFF/repo/temp/pages/_includes onGenerate.processIg: [xslt] Processing /scratch/ig-build-temp-I2WLFF/repo/template/onGenerate-ig-working.xml to /scratch/ig-build-temp-I2WLFF/repo/template/onGenerate-ig-working.1.xml [xslt] Loading stylesheet /scratch/ig-build-temp-I2WLFF/repo/template/scripts/onGenerate.group.xslt [xslt] Processing /scratch/ig-build-temp-I2WLFF/repo/template/onGenerate-ig-working.1.xml to /scratch/ig-build-temp-I2WLFF/repo/template/onGenerate-ig-updated.xml [xslt] Loading stylesheet /scratch/ig-build-temp-I2WLFF/repo/template/scripts/onGenerate.final.xslt onGenerate.igQa: [xslt] Processing /scratch/ig-build-temp-I2WLFF/repo/template/onGenerate-ig-updated.xml to /scratch/ig-build-temp-I2WLFF/repo/template/ongenerate-validation-igqa.json [xslt] Loading stylesheet /scratch/ig-build-temp-I2WLFF/repo/template/scripts/onGenerate.qa.xslt onGenerate.artifactList: [xslt] Processing /scratch/ig-build-temp-I2WLFF/repo/template/onGenerate-ig-updated.xml to /scratch/ig-build-temp-I2WLFF/repo/temp/pages/_includes/artifacts.xml [xslt] Loading stylesheet /scratch/ig-build-temp-I2WLFF/repo/template/scripts/createArtifactSummary.xslt check-plantumlfiles: onGenerate.plantUml.ig: onGenerate.plantUml.template: onGenerate.plantUml: onGenerate.copyDataFiles: onGenerate.jira.setup: [xslt] Processing /scratch/ig-build-temp-I2WLFF/repo/template/onGenerate-ig-updated.xml to /scratch/ig-build-temp-I2WLFF/repo/template/properties.txt [xslt] Loading stylesheet /scratch/ig-build-temp-I2WLFF/repo/template/scripts/onGenerate.genProperties.xslt [get] Getting: https://github.com/HL7/JIRA-Spec-Artifacts/raw/master/xml/_workgroups.xml [get] To: /scratch/ig-build-temp-I2WLFF/repo/input-cache/workgroups.xml [get] https://github.com/HL7/JIRA-Spec-Artifacts/raw/master/xml/_workgroups.xml moved to https://raw.githubusercontent.com/HL7/JIRA-Spec-Artifacts/master/xml/_workgroups.xml [get] Getting: https://github.com/HL7/JIRA-Spec-Artifacts/raw/master/xml/FHIR-us-davinci-pcde.xml [get] To: /scratch/ig-build-temp-I2WLFF/repo/input-cache/jiraspec.xml [get] https://github.com/HL7/JIRA-Spec-Artifacts/raw/master/xml/FHIR-us-davinci-pcde.xml moved to https://raw.githubusercontent.com/HL7/JIRA-Spec-Artifacts/master/xml/FHIR-us-davinci-pcde.xml onGenerate.jira.generate: [xslt] Processing /scratch/ig-build-temp-I2WLFF/repo/template/package-list.tmp.xml to /scratch/ig-build-temp-I2WLFF/repo/template/package-list.xml [xslt] Loading stylesheet /scratch/ig-build-temp-I2WLFF/repo/template/scripts/onGenerate.package-list.xslt [xslt] Processing /scratch/ig-build-temp-I2WLFF/repo/template/jira.tmp.xml to /scratch/ig-build-temp-I2WLFF/repo/template/jira.xml [xslt] Loading stylesheet /scratch/ig-build-temp-I2WLFF/repo/template/scripts/onGenerate.jira.xslt [xslt] Processing /scratch/ig-build-temp-I2WLFF/repo/template/jira.xml to /scratch/ig-build-temp-I2WLFF/repo/template/jira-new.xml [xslt] Loading stylesheet /scratch/ig-build-temp-I2WLFF/repo/template/scripts/onGenerate.normalize.xslt [xslt] Processing /scratch/ig-build-temp-I2WLFF/repo/input-cache/jiraspec.xml to /scratch/ig-build-temp-I2WLFF/repo/template/jira-current.xml [xslt] Loading stylesheet /scratch/ig-build-temp-I2WLFF/repo/template/scripts/onGenerate.normalize.xslt onGenerate.jira.check: onGenerate.jira.skip-offline: onGenerate.jira.skip-missing: onGenerate.jira: onGenerate.extend: onGenerate: Template Done (01:21.249) Generating Summary Outputs (01:30.075) Sending Usage Stats to Server (03:43.459) ## Memory (MB): Use = 2120, Free = 16246, Total = 18366, Max =18366 Reclaiming memory... ## Memory (MB): Use = 735, Free = 17630, Total = 18366, Max =18366 Run jekyll: jekyll build --destination "/scratch/ig-build-temp-I2WLFF/repo/output" (in folder /scratch/ig-build-temp-I2WLFF/repo/temp/pages) (03:46.787) Jekyll: Source: /scratch/ig-build-temp-I2WLFF/repo/temp/pages (03:47.756) Jekyll: Generating... (03:47.756) Jekyll: done in 1.6 seconds. (03:49.355) Checking Output HTML (03:50.021) found 683 files (03:50.025) ........................................ ........................................ ... 683 html files, 0 pages invalid xhtml (0%) (03:56.668) ... 89636 links, 0 broken links (0%) (03:56.668) Build final .zip (03:56.669) Final .zip built (03:58.830) Built. Times: loading: 00:00.496, generate: 03:06.563, narrative generation: 00:06.685, realm-rules: 00:02.693, previous-version: 00:11.483, jekyll: 00:02.592, validation: 00:04.418 (#15), template: 00:01.286 (#3) (04:00.213) Validation output in /scratch/ig-build-temp-I2WLFF/repo/output/qa.html Errors: 0, Warnings: 1, Info: 0, Broken Links: 0 (04:00.593) Finished (04:00.593) Done (04:00.593)