INFO:root:about to clone! DEBUG:root:running: git clone --recursive https://github.com/HL7/fhir-ichom-breast-cancer-ig --branch master repo DEBUG:root:Time to deadline 35879.998072 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 35879.531818 seconds DEBUG:root:running: npm -g install fsh-sushi DEBUG:root:Time to deadline 35878.063342 seconds added 114 packages in 20s 8 packages are looking for funding run `npm fund` for details npm notice npm notice New minor version of npm available! 9.5.1 -> 9.8.1 npm notice Changelog: npm notice Run `npm install -g npm@9.8.1` to update! npm notice DEBUG:root:running: java -Xms19000m -Xmx19000m -jar ../publisher.jar -ig ig.json -api-key-file /etc/ig.builder.keyfile.ini -fhir-settings /etc/fhir-settings.json -auto-ig-build -tx http://tx.fhir.org -target https://build.fhir.org/ig/HL7/fhir-ichom-breast-cancer-ig/ -out /scratch/ig-build-temp-G246N2/repo DEBUG:root:Time to deadline 35858.047716 seconds FHIR IG Publisher Version 1.3.28 (Git# cad7585c587e). Built 2023-08-04T19:34:36.96Z (16 days old) Detected Java version: 21-ea from /usr/local/openjdk-21 on Linux/amd64 (64bit). 19008MB available dir = /scratch/ig-build-temp-G246N2/repo, path = /usr/local/openjdk-21/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 -fhir-settings /etc/fhir-settings.json -auto-ig-build -tx http://tx.fhir.org -target https://build.fhir.org/ig/HL7/fhir-ichom-breast-cancer-ig/ -out /scratch/ig-build-temp-G246N2/repo Start Clock @ Monday, August 21, 2023, 4:35:50 PM Coordinated Universal Time (2023-08-21T16:35:50Z) Build FHIR IG from /scratch/ig-build-temp-G246N2/repo (00:00.018) API keys loaded from /etc/fhir-settings.json (00:00.018) Package Cache: /scratch/ig-build-temp-G246N2/repo/var/lib/.fhir/packages (00:00.021) Run Sushi on /scratch/ig-build-temp-G246N2/repo (00:00.025) Sushi: info Running SUSHI v3.3.1 (implements FHIR Shorthand specification v3.0.0-ballot) (00:00.467) Sushi: info Arguments: (00:00.467) Sushi: info --require-latest (00:00.467) Sushi: info --out /scratch/ig-build-temp-G246N2/repo (00:00.467) Sushi: info /scratch/ig-build-temp-G246N2/repo (00:00.467) Sushi: info Using configuration file: /scratch/ig-build-temp-G246N2/repo/sushi-config.yaml (00:01.083) Sushi: info Importing FSH text... (00:01.212) Sushi: info Preprocessed 27 documents with 42 aliases. (00:01.493) Sushi: info Imported 104 definitions and 51 instances. (00:01.595) Sushi: info Checking /root/.fhir/packages for hl7.fhir.uv.tools#current... (00:01.596) Sushi: info Did not find hl7.fhir.uv.tools#current in /root/.fhir/packages. (00:01.598) Sushi: info Downloading hl7.fhir.uv.tools#current... https://build.fhir.org/ig/FHIR/fhir-tools-ig/branches/master/package.tgz (00:01.686) Sushi: info Downloaded hl7.fhir.uv.tools#current (00:01.720) Sushi: info Loaded package hl7.fhir.uv.tools#current (00:01.779) Sushi: info Checking /root/.fhir/packages for hl7.terminology.r4#5.0.0... (00:02.399) Sushi: info Did not find hl7.terminology.r4#5.0.0 in /root/.fhir/packages. (00:02.414) Sushi: info Downloading hl7.terminology.r4#5.0.0... https://packages.fhir.org/hl7.terminology.r4/5.0.0 (00:02.415) Sushi: info Downloaded hl7.terminology.r4#5.0.0 (00:04.349) Sushi: info Loaded package hl7.terminology.r4#5.0.0 (00:05.793) Sushi: info Checking /root/.fhir/packages for hl7.fhir.uv.sdc#3.0.0... (00:05.793) Sushi: info Did not find hl7.fhir.uv.sdc#3.0.0 in /root/.fhir/packages. (00:06.128) Sushi: info Downloading hl7.fhir.uv.sdc#3.0.0... https://packages.fhir.org/hl7.fhir.uv.sdc/3.0.0 (00:06.128) Sushi: info Downloaded hl7.fhir.uv.sdc#3.0.0 (00:07.388) Sushi: info Loaded package hl7.fhir.uv.sdc#3.0.0 (00:07.854) Sushi: info Checking /root/.fhir/packages for hl7.fhir.uv.extensions#1.0.0... (00:07.854) Sushi: info Did not find hl7.fhir.uv.extensions#1.0.0 in /root/.fhir/packages. (00:08.257) Sushi: info Downloading hl7.fhir.uv.extensions#1.0.0... https://packages.fhir.org/hl7.fhir.uv.extensions/1.0.0 (00:08.257) Sushi: info Downloaded hl7.fhir.uv.extensions#1.0.0 (00:09.814) Sushi: info Loaded package hl7.fhir.uv.extensions#1.0.0 (00:10.888) Sushi: info Checking /root/.fhir/packages for hl7.fhir.r4.core#4.0.1... (00:10.888) Sushi: info Did not find hl7.fhir.r4.core#4.0.1 in /root/.fhir/packages. (00:11.424) Sushi: info Downloading hl7.fhir.r4.core#4.0.1... https://packages.fhir.org/hl7.fhir.r4.core/4.0.1 (00:11.424) Sushi: info Downloaded hl7.fhir.r4.core#4.0.1 (00:13.863) Sushi: info Loaded package hl7.fhir.r4.core#4.0.1 (00:15.900) Sushi: info Converting FSH to FHIR resources... (00:15.943) Sushi: info Converted 43 FHIR StructureDefinitions. (00:17.575) Sushi: info Converted 16 FHIR CodeSystems. (00:18.156) Sushi: info Converted 45 FHIR ValueSets. (00:19.692) Sushi: info Converted 51 FHIR instances. (00:29.260) Sushi: info Exporting FHIR resources as JSON... (00:29.348) Sushi: info Exported 155 FHIR resources as JSON. (00:29.514) Sushi: info Assembling Implementation Guide sources... (00:29.514) Sushi: info Generated ImplementationGuide-hl7.fhir.uv.ichom-breast-cancer.json (00:29.544) Sushi: info Assembled Implementation Guide sources; ready for IG Publisher. (00:29.544) Sushi: ========================= SUSHI RESULTS =========================== (00:29.545) Sushi: | ------------------------------------------------------------- | (00:29.545) Sushi: | | Profiles | Extensions | Logicals | Resources | | (00:29.546) Sushi: | |-------------------------------------------------------------| | (00:29.546) Sushi: | | 40 | 3 | 0 | 0 | | (00:29.546) Sushi: | ------------------------------------------------------------- | (00:29.546) Sushi: | ------------------------------------------------------------- | (00:29.546) Sushi: | | ValueSets | CodeSystems | Instances | | (00:29.546) Sushi: | |-------------------------------------------------------------| | (00:29.546) Sushi: | | 45 | 16 | 51 | | (00:29.546) Sushi: | ------------------------------------------------------------- | (00:29.546) Sushi: | | (00:29.546) Sushi: =================================================================== (00:29.546) Sushi: | Well hooked and landed! 0 Errors 0 Warnings | (00:29.546) Sushi: =================================================================== (00:29.546) Unable to load IG as an r5 IG - try R4 (property code is a class com.google.gson.JsonPrimitive looking for an object) (00:30.148) Load Template from hl7.fhir.template#current (00:30.658) Installing hl7.fhir.template#current to the package cache Fetching: Installing hl7.fhir.template#current done. Load Template from hl7.base.template#current (00:31.175) Installing hl7.base.template#current to the package cache Fetching: Installing hl7.base.template#current done. Load Template from fhir.base.template#current (00:31.208) Installing fhir.base.template#current to the package cache Fetching: Installing fhir.base.template#current done. onLoad.findSpreadsheets: onLoad.updateIg: [xslt] Processing /scratch/ig-build-temp-G246N2/repo/template/onLoad-ig-working.xml to /scratch/ig-build-temp-G246N2/repo/template/onLoad-ig-updated.xml [xslt] Loading stylesheet /scratch/ig-build-temp-G246N2/repo/template/scripts/onLoad.xslt onLoad.extend: onLoad: Root directory: /scratch/ig-build-temp-G246N2/repo (00:33.567) Core Package hl7.fhir.r4.core#4.0.1 Installing hl7.fhir.r4.core#4.0.1 to the package cache Fetching: Installing hl7.fhir.r4.core#4.0.1 done. Terminology Cache is at /scratch/ig-build-temp-G246N2/repo/input-cache/txcache. Trimming now (00:45.279) Connect to Terminology Server at http://tx.fhir.org (00:45.280) Installing hl7.fhir.pubpack#0.1.4 to the package cache Fetching: Installing hl7.fhir.pubpack#0.1.4 done. Load Package hl7.fhir.pubpack#0.1.4 Installing hl7.fhir.xver-extensions#0.0.12 to the package cache Fetching: Installing hl7.fhir.xver-extensions#0.0.12 done. Load Package hl7.fhir.xver-extensions#0.0.12 Installing hl7.terminology.r4#5.0.0 to the package cache Fetching: Installing hl7.terminology.r4#5.0.0 done. Load Package hl7.terminology.r4#5.0.0 Installing hl7.fhir.uv.sdc#3.0.0 to the package cache Fetching: Installing hl7.fhir.uv.sdc#3.0.0 done. Ignore Dependency on Core FHIR hl7.fhir.r4.examples#4.0.1, from package 'hl7.fhir.uv.sdc#3.0.0' (00:56.669) Load Package hl7.fhir.uv.sdc#3.0.0 Installing hl7.fhir.uv.extensions#1.0.0 to the package cache Fetching: Installing hl7.fhir.uv.extensions#1.0.0 done. Version mismatch. This IG is version 4.0.1, while the IG 'hl7.fhir.uv.extensions' is from version 5.0.0 (will try to run anyway) (00:57.709) Installing hl7.terminology.r5#5.0.0 to the package cache Fetching: Installing hl7.terminology.r5#5.0.0 done. Ignore Dependency on Core FHIR hl7.fhir.r5.core#5.0.0, from package 'hl7.terminology.r5#5.0.0' (01:03.603) Load Package hl7.terminology.r5#5.0.0 Load Package hl7.fhir.uv.extensions#1.0.0 Installing hl7.fhir.uv.tools#current to the package cache Fetching: Installing hl7.fhir.uv.tools#current done. Version mismatch. This IG is version 4.0.1, while the IG 'hl7.fhir.uv.tools' is from version 5.0.0 (will try to run anyway) (01:04.665) Load Package hl7.fhir.uv.tools#current Load R5 SpecialsInstalling hl7.fhir.r5.core#5.0.0 to the package cache Fetching: Installing hl7.fhir.r5.core#5.0.0 done. Initialization complete (01:11.764) Fetch http://hl7.org/fhir/uv/ichom-breast-cancer/package-list.json for version check (01:11.766) Load Content (01:11.875) loadPrePages from FetchedFile[/scratch/ig-build-temp-G246N2/repo/input/includes] as /scratch/ig-build-temp-G246N2/repo/input/includes loadPrePages from FetchedFile[/scratch/ig-build-temp-G246N2/repo/fsh-generated/includes] as /scratch/ig-build-temp-G246N2/repo/fsh-generated/includes loadPrePages from FetchedFile[/scratch/ig-build-temp-G246N2/repo/input/pagecontent] as /scratch/ig-build-temp-G246N2/repo/input/pagecontent Processing Conformance Resources (01:34.131) Generating Snapshots (01:46.568) Propagating status (03:23.900) Generating Narratives (03:23.926) Validating Conformance Resources (05:07.393) Installing hl7.fhir.uv.ichom-breast-cancer#1.0.0-ballot to the package cache Fetching: Installing hl7.fhir.uv.ichom-breast-cancer#1.0.0-ballot done. Installing hl7.fhir.r4.examples#4.0.1 to the package cache Fetching: Installing hl7.fhir.r4.examples#4.0.1 done. Validating Resources (06:39.390) Processing Provenance Records (06:44.356) Generating Outputs in /scratch/ig-build-temp-G246N2/repo/output (06:44.357) Generate Native Outputs (06:46.017) Run Template (07:01.631) onGenerate.checkVersions: [xslt] Processing /scratch/ig-build-temp-G246N2/repo/template/onGenerate-ig-working.xml to /scratch/ig-build-temp-G246N2/repo/template/versions.txt [xslt] Loading stylesheet /scratch/ig-build-temp-G246N2/repo/template/scripts/onGenerate.getVersions.xslt [mkdir] Created dir: /scratch/ig-build-temp-G246N2/repo/input-cache/schemas onGenerate.r5-schemas: [mkdir] Created dir: /scratch/ig-build-temp-G246N2/repo/input-cache/schemas/R5 [get] Getting: http://build.fhir.org/fhir-single.xsd [get] To: /scratch/ig-build-temp-G246N2/repo/input-cache/schemas/R5/fhir-single.xsd [get] Getting: http://build.fhir.org/fhir-xhtml.xsd [get] To: /scratch/ig-build-temp-G246N2/repo/input-cache/schemas/R5/fhir-xhtml.xsd [get] Getting: http://build.fhir.org/xml.xsd [get] To: /scratch/ig-build-temp-G246N2/repo/input-cache/schemas/R5/xml.xsd [get] Getting: http://build.fhir.org/xmldsig-core-schema.xsd [get] To: /scratch/ig-build-temp-G246N2/repo/input-cache/schemas/R5/xmldsig-core-schema.xsd onGenerate.r4-schemas: [mkdir] Created dir: /scratch/ig-build-temp-G246N2/repo/input-cache/schemas/R4 [get] Getting: http://hl7.org/fhir/R4/fhir-single.xsd [get] To: /scratch/ig-build-temp-G246N2/repo/input-cache/schemas/R4/fhir-single.xsd [get] Getting: http://hl7.org/fhir/R4/fhir-xhtml.xsd [get] To: /scratch/ig-build-temp-G246N2/repo/input-cache/schemas/R4/fhir-xhtml.xsd [get] Getting: http://hl7.org/fhir/R4/xml.xsd [get] To: /scratch/ig-build-temp-G246N2/repo/input-cache/schemas/R4/xml.xsd [get] Getting: http://hl7.org/fhir/R4/xmldsig-core-schema.xsd [get] To: /scratch/ig-build-temp-G246N2/repo/input-cache/schemas/R4/xmldsig-core-schema.xsd onGenerate.r3-schemas: onGenerate.r2b-schemas: onGenerate.r2-schemas: onGenerate.schemas: onGenerate.data: [xslt] Processing /scratch/ig-build-temp-G246N2/repo/template/onGenerate-ig-working.xml to /scratch/ig-build-temp-G246N2/repo/temp/pages/_data/artifacts.json [xslt] Loading stylesheet /scratch/ig-build-temp-G246N2/repo/template/scripts/onGenerate.data.xslt onGenerate.setup: onGenerate.infoFile: [xslt] Processing /scratch/ig-build-temp-G246N2/repo/template/onGenerate-ig-working.xml to /scratch/ig-build-temp-G246N2/repo/temp/pages/_data/info.json [xslt] Loading stylesheet /scratch/ig-build-temp-G246N2/repo/template/scripts/onGenerate.genJson.xslt onGenerate.processIncludes: [copy] Copying 17 files to /scratch/ig-build-temp-G246N2/repo/temp/pages/_includes onGenerate.processIg: [xslt] Processing /scratch/ig-build-temp-G246N2/repo/template/onGenerate-ig-working.xml to /scratch/ig-build-temp-G246N2/repo/template/onGenerate-ig-working.1.xml [xslt] Loading stylesheet /scratch/ig-build-temp-G246N2/repo/template/scripts/onGenerate.group.xslt [xslt] Processing /scratch/ig-build-temp-G246N2/repo/template/onGenerate-ig-working.1.xml to /scratch/ig-build-temp-G246N2/repo/template/onGenerate-ig-working.2.xml [xslt] Loading stylesheet /scratch/ig-build-temp-G246N2/repo/template/scripts/onGenerate.groupSort.xslt [xslt] Processing /scratch/ig-build-temp-G246N2/repo/template/onGenerate-ig-working.2.xml to /scratch/ig-build-temp-G246N2/repo/template/onGenerate-ig-updated.xml [xslt] Loading stylesheet /scratch/ig-build-temp-G246N2/repo/template/scripts/onGenerate.final.xslt onGenerate.igQa: [xslt] Processing /scratch/ig-build-temp-G246N2/repo/template/onGenerate-ig-updated.xml to /scratch/ig-build-temp-G246N2/repo/template/ongenerate-validation-igqa.json [xslt] Loading stylesheet /scratch/ig-build-temp-G246N2/repo/template/scripts/onGenerate.qa.xslt onGenerate.artifactList: [xslt] Processing /scratch/ig-build-temp-G246N2/repo/template/onGenerate-ig-updated.xml to /scratch/ig-build-temp-G246N2/repo/temp/pages/_includes/artifacts.xml [xslt] Loading stylesheet /scratch/ig-build-temp-G246N2/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-G246N2/repo/template/onGenerate-ig-updated.xml to /scratch/ig-build-temp-G246N2/repo/template/properties.txt [xslt] Loading stylesheet /scratch/ig-build-temp-G246N2/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-G246N2/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-ichom-breastcancer.xml [get] To: /scratch/ig-build-temp-G246N2/repo/input-cache/jiraspec.xml [get] https://github.com/HL7/JIRA-Spec-Artifacts/raw/master/xml/FHIR-ichom-breastcancer.xml moved to https://raw.githubusercontent.com/HL7/JIRA-Spec-Artifacts/master/xml/FHIR-ichom-breastcancer.xml onGenerate.jira.packagelistcopy: onGenerate.jira.packagelistget: [get] Getting: http://hl7.org/fhir/uv/ichom-breast-cancer/package-list.json [get] To: /scratch/ig-build-temp-G246N2/repo/template/onGenerate.jira.workingpackage-list.json onGenerate.jira.packagelistProcess: [xslt] Processing /scratch/ig-build-temp-G246N2/repo/template/onGenerate.jira.package-list.tmp.xml to /scratch/ig-build-temp-G246N2/repo/template/onGenerate.jira.package-list.xml [xslt] Loading stylesheet /scratch/ig-build-temp-G246N2/repo/template/scripts/onGenerate.package-list.xslt onGenerate.jira.packagelistSkip: onGenerate.jira.pubrequestProcess: [xslt] Processing /scratch/ig-build-temp-G246N2/repo/template/onGenerate.jira.pubrequest.tmp.xml to /scratch/ig-build-temp-G246N2/repo/template/onGenerate.jira.pubrequest.xml [xslt] Loading stylesheet /scratch/ig-build-temp-G246N2/repo/template/scripts/onGenerate.pubrequest.xslt onGenerate.jira.pubrequestSkip: onGenerate.jira.generate: [xslt] Processing /scratch/ig-build-temp-G246N2/repo/template/onGenerate.jira.tmp.xml to /scratch/ig-build-temp-G246N2/repo/template/onGenerate.jira.tmp2.xml [xslt] Loading stylesheet /scratch/ig-build-temp-G246N2/repo/template/scripts/onGenerate.process-pkg-list.xslt [xslt] Processing /scratch/ig-build-temp-G246N2/repo/template/onGenerate.jira.tmp2.xml to /scratch/ig-build-temp-G246N2/repo/template/onGenerate.jira.xml [xslt] Loading stylesheet /scratch/ig-build-temp-G246N2/repo/template/scripts/onGenerate.jira.xslt [xslt] Processing /scratch/ig-build-temp-G246N2/repo/template/onGenerate.jira.xml to /scratch/ig-build-temp-G246N2/repo/template/jira-new.xml [xslt] Loading stylesheet /scratch/ig-build-temp-G246N2/repo/template/scripts/onGenerate.normalize.xslt [xslt] Processing /scratch/ig-build-temp-G246N2/repo/input-cache/jiraspec.xml to /scratch/ig-build-temp-G246N2/repo/template/jira-current.xml [xslt] Loading stylesheet /scratch/ig-build-temp-G246N2/repo/template/scripts/onGenerate.normalize.xslt [copy] Copying 1 file to /scratch/ig-build-temp-G246N2/repo onGenerate.jira.check: onGenerate.jira.skip-offline: onGenerate.jira.skip-missing: onGenerate.jira: onGenerate.extend: onGenerate: Template Done (07:03.592) Generate HTML Outputs (07:03.593) ERROR StatusLogger Log4j2 could not find a logging implementation. Please add log4j-core to the classpath. Using SimpleLogger to log to the console... Generate Summaries (08:04.915) Generating Summary Outputs (08:04.916) Installing hl7.fhir.r4.examples#4.0.1 to the package cache Fetching: Installing hl7.fhir.r4.examples#4.0.1 done. Sending Usage Stats to Server (08:25.445) ## Memory (MB): Use = 2880, Free = 16127, Total = 19008, Max = 19008 Reclaiming memory... ## Memory (MB): Use = 1240, Free = 17767, Total = 19008, Max = 19008 Run jekyll: jekyll build --destination "/scratch/ig-build-temp-G246N2/repo/output" (in folder /scratch/ig-build-temp-G246N2/repo/temp/pages) (08:25.964) Jekyll: Source: /scratch/ig-build-temp-G246N2/repo/temp/pages (08:26.315) Jekyll: Generating... (08:26.315) Jekyll: done in 4.406 seconds. (08:30.721) Checking Output HTML (08:36.217) found 2182 files (08:36.225) ........................................ ........................................ ... 2182 html files, 0 pages invalid xhtml (0%) (09:16.570) ... 514414 links, 0 broken links (0%) (09:16.570) Build final .zip (09:16.570) Final .zip built (09:20.335) Built. Times: loading: 00:22.254, generate: 07:48.931, propagating status: 00:00.025, narrative generation: 01:43.466, realm-rules: 00:00.000, previous-version: 00:39.633, jekyll: 00:04.782, validation: 00:57.200 (#156), template: 00:01.960 (#3) (09:23.131) Validation output in /scratch/ig-build-temp-G246N2/repo/output/qa.html Errors: 0, Warnings: 0, Info: 0, Broken Links: 0 (09:23.509) Finished (09:23.528)