INFO:root:about to clone! DEBUG:root:running: git clone --recursive https://github.com/HL7/fhir-gender-harmony --branch main repo DEBUG:root:Time to deadline 35879.998375 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 35879.430722 seconds DEBUG:root:running: npm -g install fsh-sushi DEBUG:root:Time to deadline 35878.109745 seconds added 114 packages in 5s 8 packages are looking for funding run `npm fund` for details npm notice npm notice New major version of npm available! 9.6.7 -> 10.2.3 npm notice Changelog: npm notice Run `npm install -g npm@10.2.3` 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-gender-harmony/ -out /scratch/repo DEBUG:root:Time to deadline 35872.820212 seconds FHIR IG Publisher Version 1.5.1 (Git# 788bebf16780). Built 2023-10-31T17:41:32.455Z (5 days old) Detected Java version: 21-ea from /usr/local/openjdk-21 on Linux/amd64 (64bit). 19008MB available dir = /scratch/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-gender-harmony/ -out /scratch/repo Start Clock @ Monday, November 6, 2023, 3:37:14 PM Coordinated Universal Time (2023-11-06T15:37:14Z) Build FHIR IG from /scratch/repo (00:00.025 / 00:00.025, 89Mb) API keys loaded from /etc/fhir-settings.json (00:00.004 / 00:00.030, 89Mb) Package Cache: /var/lib/.fhir/packages (00:00.002 / 00:00.032, 89Mb) Run Sushi on /scratch/repo (00:00.004 / 00:00.037, 89Mb) Sushi: info Running SUSHI v3.5.0 (implements FHIR Shorthand specification v3.0.0-ballot) (00:00.585 / 00:00.622, 97Mb) Sushi: info Arguments: (00:00.000 / 00:00.623, 97Mb) Sushi: info --require-latest (00:00.000 / 00:00.623, 97Mb) Sushi: info --out /scratch/repo (00:00.000 / 00:00.624, 97Mb) Sushi: info /scratch/repo (00:00.000 / 00:00.624, 97Mb) Sushi: info Using configuration file: /scratch/repo/sushi-config.yaml (00:00.677 / 00:01.301, 97Mb) Sushi: info Importing FSH text... (00:00.166 / 00:01.467, 97Mb) Sushi: info Preprocessed 2 documents with 1 aliases. (00:00.023 / 00:01.490, 97Mb) Sushi: info Imported 0 definitions and 0 instances. (00:00.001 / 00:01.492, 97Mb) Sushi: info Checking /home/fhiruser/.fhir/packages for hl7.fhir.uv.tools#current... (00:00.002 / 00:01.494, 97Mb) Sushi: info Did not find hl7.fhir.uv.tools#current in /home/fhiruser/.fhir/packages. (00:00.038 / 00:01.533, 97Mb) Sushi: info Downloading hl7.fhir.uv.tools#current... https://build.fhir.org/ig/FHIR/fhir-tools-ig/branches/master/package.tgz (00:00.088 / 00:01.621, 97Mb) Sushi: info Downloaded hl7.fhir.uv.tools#current (00:00.015 / 00:01.637, 97Mb) Sushi: info Loaded package hl7.fhir.uv.tools#current (00:00.085 / 00:01.723, 97Mb) Sushi: info Checking /home/fhiruser/.fhir/packages for hl7.terminology.r5#5.3.0... (00:00.512 / 00:02.235, 97Mb) Sushi: info Did not find hl7.terminology.r5#5.3.0 in /home/fhiruser/.fhir/packages. (00:00.024 / 00:02.260, 97Mb) Sushi: info Downloading hl7.terminology.r5#5.3.0... https://packages.fhir.org/hl7.terminology.r5/5.3.0 (00:00.000 / 00:02.260, 97Mb) Sushi: info Downloaded hl7.terminology.r5#5.3.0 (00:02.039 / 00:04.300, 97Mb) Sushi: info Loaded package hl7.terminology.r5#5.3.0 (00:01.844 / 00:06.145, 97Mb) Sushi: info Checking /home/fhiruser/.fhir/packages for hl7.fhir.uv.extensions.r5#1.0.0... (00:00.467 / 00:06.612, 97Mb) Sushi: info Did not find hl7.fhir.uv.extensions.r5#1.0.0 in /home/fhiruser/.fhir/packages. (00:00.438 / 00:07.051, 97Mb) Sushi: info Downloading hl7.fhir.uv.extensions.r5#1.0.0... https://packages.fhir.org/hl7.fhir.uv.extensions.r5/1.0.0 (00:00.001 / 00:07.052, 97Mb) Sushi: info Downloaded hl7.fhir.uv.extensions.r5#1.0.0 (00:01.795 / 00:08.847, 97Mb) Sushi: info Loaded package hl7.fhir.uv.extensions.r5#1.0.0 (00:01.056 / 00:09.904, 97Mb) Sushi: info Checking /home/fhiruser/.fhir/packages for hl7.fhir.r5.core#5.0.0... (00:00.001 / 00:09.905, 97Mb) Sushi: info Did not find hl7.fhir.r5.core#5.0.0 in /home/fhiruser/.fhir/packages. (00:00.530 / 00:10.435, 97Mb) Sushi: info Downloading hl7.fhir.r5.core#5.0.0... https://packages.fhir.org/hl7.fhir.r5.core/5.0.0 (00:00.000 / 00:10.436, 97Mb) Sushi: info Downloaded hl7.fhir.r5.core#5.0.0 (00:03.102 / 00:13.539, 97Mb) Sushi: info Loaded package hl7.fhir.r5.core#5.0.0 (00:02.841 / 00:16.381, 97Mb) Sushi: info Converting FSH to FHIR resources... (00:00.048 / 00:16.429, 97Mb) Sushi: info Exporting FHIR resources as JSON... (00:00.011 / 00:16.441, 97Mb) Sushi: info Exported 0 FHIR resources as JSON. (00:00.000 / 00:16.442, 97Mb) Sushi: info Assembling Implementation Guide sources... (00:00.000 / 00:16.442, 97Mb) Sushi: info Generated ImplementationGuide-hl7.xprod.uv.gender-harmony.json (00:00.010 / 00:16.452, 97Mb) Sushi: info Assembled Implementation Guide sources; ready for IG Publisher. (00:00.000 / 00:16.453, 97Mb) Sushi: ========================= SUSHI RESULTS =========================== (00:00.001 / 00:16.454, 97Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:16.454, 97Mb) Sushi: | | Profiles | Extensions | Logicals | Resources | | (00:00.000 / 00:16.454, 97Mb) Sushi: | |-------------------------------------------------------------| | (00:00.000 / 00:16.455, 97Mb) Sushi: | | 0 | 0 | 0 | 0 | | (00:00.000 / 00:16.455, 97Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:16.455, 97Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:16.455, 97Mb) Sushi: | | ValueSets | CodeSystems | Instances | | (00:00.000 / 00:16.455, 97Mb) Sushi: | |-------------------------------------------------------------| | (00:00.000 / 00:16.456, 97Mb) Sushi: | | 0 | 0 | 0 | | (00:00.000 / 00:16.456, 97Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:16.456, 97Mb) Sushi: | | (00:00.000 / 00:16.456, 97Mb) Sushi: =================================================================== (00:00.000 / 00:16.457, 97Mb) Sushi: | You've proven any-fin is possible. 0 Errors 0 Warnings | (00:00.000 / 00:16.458, 97Mb) Sushi: =================================================================== (00:00.000 / 00:16.458, 97Mb) Load Template from hl7.other.template#current (00:00.710 / 00:17.168, 37Mb) Installing hl7.other.template#current to the package cache Fetching: Installing hl7.other.template#current done. Load Template from hl7.base.template#current (00:01.449 / 00:18.618, 101Mb) Installing hl7.base.template#current to the package cache Fetching: Installing hl7.base.template#current done. Load Template from fhir.base.template#current (00:00.240 / 00:18.859, 101Mb) Installing fhir.base.template#current to the package cache Fetching: Installing fhir.base.template#current done. onLoad.findSpreadsheets: onLoad.updateIg: [xslt] Processing /scratch/repo/template/onLoad-ig-working.xml to /scratch/repo/template/onLoad-ig-updated.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/onLoad.xslt onLoad.extend: onLoad: Root directory: /scratch/repo (00:03.787 / 00:22.646, 129Mb) Core Package hl7.fhir.r5.core#5.0.0 Terminology Cache is at /scratch/repo/input-cache/txcache. Trimming now (00:07.193 / 00:29.839, 491Mb) Connect to Terminology Server at http://tx.fhir.org (00:00.001 / 00:29.841, 491Mb) Installing hl7.fhir.pubpack#0.1.6 to the package cache Fetching: Installing hl7.fhir.pubpack#0.1.6 done. Load Package hl7.fhir.pubpack#0.1.6 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 Load Package hl7.terminology.r5#5.3.0 Load Package hl7.fhir.uv.extensions.r5#1.0.0 Load Package hl7.fhir.uv.tools#1.0.0-candidate Initialization complete (00:05.149 / 00:34.990, 901Mb) Fetch http://hl7.org/xprod/ig/uv/gender-harmony/package-list.json for version check (00:00.002 / 00:34.992, 901Mb) Load Content (00:00.099 / 00:35.092, 901Mb) loadPrePages from FetchedFile[/scratch/repo/input/includes] as /scratch/repo/input/includes loadPrePages from FetchedFile[/scratch/repo/fsh-generated/includes] as /scratch/repo/fsh-generated/includes loadPrePages from FetchedFile[/scratch/repo/input/pagecontent] as /scratch/repo/input/pagecontent Processing Conformance Resources (00:00.193 / 00:35.286, 917Mb) Load Dependency Info (00:00.000 / 00:35.286, 917Mb) Load Info (00:00.000 / 00:35.287, 917Mb) Load Resources (00:00.000 / 00:35.288, 917Mb) Load Paths (00:00.083 / 00:35.371, 933Mb) Generating Snapshots (00:00.000 / 00:35.371, 933Mb) Check R4 / R4B (00:00.003 / 00:35.374, 933Mb) Propagating status (00:00.007 / 00:35.382, 933Mb) Generating Narratives (00:00.000 / 00:35.383, 933Mb) Validating Conformance Resources (00:00.144 / 00:35.527, 973Mb) Check profiles & code systems (00:00.871 / 00:36.398, 418Mb) Check realm rules (00:00.000 / 00:36.399, 418Mb) Previous Version Comparison (00:00.000 / 00:36.399, 418Mb) Validating Resources (00:00.017 / 00:36.416, 418Mb) Processing Provenance Records (00:00.000 / 00:36.416, 418Mb) Generating Outputs in /scratch/repo/output (00:00.000 / 00:36.416, 418Mb) Generate Native Outputs (00:00.305 / 00:36.722, 434Mb) Run Template (00:00.085 / 00:36.807, 442Mb) onGenerate.checkVersions: [xslt] Processing /scratch/repo/template/onGenerate-ig-working.xml to /scratch/repo/template/versions.txt [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.getVersions.xslt [mkdir] Created dir: /scratch/repo/input-cache/schemas onGenerate.r5-schemas: [mkdir] Created dir: /scratch/repo/input-cache/schemas/R5 [get] Getting: http://build.fhir.org/fhir-single.xsd [get] To: /scratch/repo/input-cache/schemas/R5/fhir-single.xsd [get] Getting: http://build.fhir.org/fhir-xhtml.xsd [get] To: /scratch/repo/input-cache/schemas/R5/fhir-xhtml.xsd [get] Getting: http://build.fhir.org/xml.xsd [get] To: /scratch/repo/input-cache/schemas/R5/xml.xsd [get] Getting: http://build.fhir.org/xmldsig-core-schema.xsd [get] To: /scratch/repo/input-cache/schemas/R5/xmldsig-core-schema.xsd onGenerate.r4-schemas: onGenerate.r3-schemas: onGenerate.r2b-schemas: onGenerate.r2-schemas: onGenerate.schemas: onGenerate.data: [xslt] Processing /scratch/repo/template/onGenerate-ig-working.xml to /scratch/repo/temp/pages/_data/artifacts.json [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.data.xslt onGenerate.setup: onGenerate.infoFile: [xslt] Processing /scratch/repo/template/onGenerate-ig-working.xml to /scratch/repo/temp/pages/_data/info.json [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.genJson.xslt onGenerate.processIncludes: [copy] Copying 20 files to /scratch/repo/temp/pages/_includes onGenerate.processIg: [xslt] Processing /scratch/repo/template/onGenerate-ig-working.xml to /scratch/repo/template/onGenerate-ig-working.1.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.group.xslt [xslt] Processing /scratch/repo/template/onGenerate-ig-working.1.xml to /scratch/repo/template/onGenerate-ig-working.2.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.groupSort.xslt [xslt] Processing /scratch/repo/template/onGenerate-ig-working.2.xml to /scratch/repo/template/onGenerate-ig-updated.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.final.xslt onGenerate.igQa: [xslt] Processing /scratch/repo/template/onGenerate-ig-updated.xml to /scratch/repo/template/ongenerate-validation-igqa.json [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.qa.xslt onGenerate.artifactList: [xslt] Processing /scratch/repo/template/onGenerate-ig-updated.xml to /scratch/repo/temp/pages/_includes/artifacts.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/createArtifactSummary.xslt check-plantumlfiles: onGenerate.plantUml.ig: onGenerate.plantUml.template: onGenerate.plantUml: onGenerate.copyDataFiles: onGenerate.jira.setup: [xslt] Processing /scratch/repo/template/onGenerate-ig-updated.xml to /scratch/repo/template/properties.txt [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.genProperties.xslt [get] Getting: https://github.com/HL7/JIRA-Spec-Artifacts/raw/master/xml/_workgroups.xml [get] To: /scratch/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/OTHER-gender-harmony.xml [get] To: /scratch/repo/input-cache/jiraspec.xml [get] https://github.com/HL7/JIRA-Spec-Artifacts/raw/master/xml/OTHER-gender-harmony.xml moved to https://raw.githubusercontent.com/HL7/JIRA-Spec-Artifacts/master/xml/OTHER-gender-harmony.xml onGenerate.jira.packagelistcopy: onGenerate.jira.packagelistget: [get] Getting: http://hl7.org/xprod/ig/uv/gender-harmony/package-list.json [get] To: /scratch/repo/template/onGenerate.jira.workingpackage-list.json onGenerate.jira.packagelistProcess: [xslt] Processing /scratch/repo/template/onGenerate.jira.package-list.tmp.xml to /scratch/repo/template/onGenerate.jira.package-list.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.package-list.xslt onGenerate.jira.packagelistSkip: onGenerate.jira.pubrequestProcess: [xslt] Processing /scratch/repo/template/onGenerate.jira.pubrequest.tmp.xml to /scratch/repo/template/onGenerate.jira.pubrequest.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.pubrequest.xslt onGenerate.jira.pubrequestSkip: onGenerate.jira.generate: [xslt] Processing /scratch/repo/template/onGenerate.jira.tmp.xml to /scratch/repo/template/onGenerate.jira.tmp2.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.process-pkg-list.xslt [xslt] Processing /scratch/repo/template/onGenerate.jira.tmp2.xml to /scratch/repo/template/onGenerate.jira.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.jira.xslt [xslt] Processing /scratch/repo/template/onGenerate.jira.xml to /scratch/repo/template/jira-new.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.normalize.xslt [xslt] Processing /scratch/repo/input-cache/jiraspec.xml to /scratch/repo/template/jira-current.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.normalize.xslt [copy] Copying 1 file to /scratch/repo onGenerate.jira.check: onGenerate.jira.skip-offline: onGenerate.jira.skip-missing: onGenerate.jira: onGenerate.extend: onGenerate: Template Done (00:03.204 / 00:40.012, 538Mb) Generate HTML Outputs (00:00.000 / 00:40.012, 538Mb) Generate Summaries (00:00.103 / 00:40.116, 554Mb) Generating Summary Outputs (00:00.000 / 00:40.116, 554Mb) ERROR StatusLogger Log4j2 could not find a logging implementation. Please add log4j-core to the classpath. Using SimpleLogger to log to the console... DB Cumulative Time invested: 0:0:0.243 Sending Usage Stats to Server (00:04.506 / 00:44.622, 580Mb) ## Memory (MB): Use = 580, Free = 18427, Total = 19008, Max = 19008 Reclaiming memory... ## Memory (MB): Use = 535, Free = 18472, Total = 19008, Max = 19008 Run jekyll: jekyll build --destination "/scratch/repo/output" (in folder /scratch/repo/temp/pages) (00:00.535 / 00:45.158, 535Mb) Jekyll: Source: /scratch/repo/temp/pages (00:00.464 / 00:45.623, 551Mb) Jekyll: Generating... (00:00.000 / 00:45.623, 551Mb) Jekyll: done in 0.957 seconds. (00:00.955 / 00:46.579, 551Mb) Checking Output HTML (00:00.217 / 00:46.797, 559Mb) found 621 files (00:00.004 / 00:46.801, 559Mb) ......................................... ......................................... ... 621 html files, 0 pages invalid xhtml (0%) (00:01.201 / 00:48.003, 1Gb) ... 1960 links, 0 broken links (0%) (00:00.001 / 00:48.004, 1Gb) Build final .zip (00:00.000 / 00:48.004, 1Gb) Final .zip built (00:00.234 / 00:48.239, 1Gb) Built. Times: loading: 00:00.193, generate: 00:14.509, narrative generation: 00:00.144, validation: 00:00.869, realm-rules: 00:00.000, previous-version: 00:00.000, jekyll: 00:01.434, template: 00:03.203 (#3) (00:01.575 / 00:49.815, 1Gb) Validation output in /scratch/repo/output/qa.html Errors: 0, Warnings: 0, Info: 0, Broken Links: 0 (00:00.099 / 00:49.915, 1Gb) Finished. Max Memory Used = 1Gb (00:00.002 / 00:49.917, 1Gb)