INFO:root:about to clone! DEBUG:root:running: git clone --recursive https://github.com/HL7/PDDI-CDS --branch master repo DEBUG:root:Time to deadline 35879.997788 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 35873.558334 seconds DEBUG:root:running: npm -g install fsh-sushi DEBUG:root:Time to deadline 35872.436694 seconds npm WARN deprecated inflight@1.0.6: This module is not supported, and leaks memory. Do not use it. Check out lru-cache if you want a good and tested way to coalesce async requests by a key value, which is much more comprehensive and powerful. npm WARN deprecated glob@7.2.3: Glob versions prior to v9 are no longer supported npm WARN deprecated rimraf@2.6.3: Rimraf versions prior to v4 are no longer supported added 177 packages in 7s 28 packages are looking for funding run `npm fund` for details npm notice npm notice New major version of npm available! 9.8.1 -> 11.2.0 npm notice Changelog: npm notice Run `npm install -g npm@11.2.0` 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/PDDI-CDS/ -out /scratch/repo DEBUG:root:Time to deadline 35864.611173 seconds FHIR IG Publisher Version 1.8.21 (Git# 405adfe2fb91). Built 2025-03-17T08:32:10.338Z (36 hours 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/PDDI-CDS/ -out /scratch/repo Character encoding = UTF-8 / UTF-8 Start Clock @ Tuesday, March 18, 2025, 8:58:19 PM Coordinated Universal Time (2025-03-18T20:58:19Z) Build FHIR IG from /scratch/repo (00:00.027 / 00:00.028, 97Mb) API keys loaded from /etc/fhir-settings.json (00:00.002 / 00:00.030, 97Mb) Package Cache: /var/lib/.fhir/packages (00:00.003 / 00:00.033, 97Mb) Load Template from hl7.fhir.template#current (00:01.196 / 00:01.230, 85Mb) Installing hl7.fhir.template#current to the package cache Fetching: Installing hl7.fhir.template#current done. Load Template from hl7.base.template#current (00:01.562 / 00:02.793, 149Mb) Installing hl7.base.template#current to the package cache Fetching: Installing hl7.base.template#current done. Load Template from fhir.base.template#current (00:00.295 / 00:03.088, 149Mb) Installing fhir.base.template#current to the package cache Fetching: Installing fhir.base.template#current done. Root directory: /scratch/repo (00:04.014 / 00:07.103, 136Mb) Terminology Cache is at /scratch/repo/input-cache/txcache. Trimming now (00:00.002 / 00:07.105, 136Mb) 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. Running Terminology Log: /tmp/ohfu-fhir-ig-5810528135740032227.log Connect to Terminology Server at http://tx.fhir.org (01:00.650 / 01:07.755, 945Mb) Installing hl7.fhir.pubpack#0.2.1 to the package cache Fetching: Installing hl7.fhir.pubpack#0.2.1 done. Load Package hl7.fhir.pubpack#0.2.1 Installing hl7.fhir.xver-extensions#0.1.0 to the package cache Fetching: Installing hl7.fhir.xver-extensions#0.1.0 done. Load Package hl7.fhir.xver-extensions#0.1.0 Installing hl7.terminology.r4#6.2.0 to the package cache Fetching: Installing hl7.terminology.r4#6.2.0 done. Load Package hl7.terminology.r4#6.2.0 Installing hl7.fhir.uv.extensions.r4#5.2.0 to the package cache Fetching: Installing hl7.fhir.uv.extensions.r4#5.2.0 done. Load Package hl7.fhir.uv.extensions.r4#5.2.0 Installing hl7.fhir.uv.tools.r4#0.4.1 to the package cache Fetching: Installing hl7.fhir.uv.tools.r4#0.4.1 done. Load Package hl7.fhir.uv.tools.r4#0.4.1 Load R5 Specials Installing hl7.fhir.r5.core#5.0.0 to the package cache Fetching: Installing hl7.fhir.r5.core#5.0.0 done. Initialization complete (00:14.597 / 01:22.353, 323Mb) Load Content (00:00.000 / 01:22.354, 323Mb) Using en-US as the default narrative language. (no language information in Implementation Guide) (00:00.162 / 01:22.516, 331Mb) Process Loaded Resources (00:03.928 / 01:26.445, 803Mb) Generating Snapshots (00:00.842 / 01:27.287, 979Mb) loadPrePages from FetchedFile[/scratch/repo/input/includes] as /scratch/repo/input/includes loadPrePages from FetchedFile[/scratch/repo/input/data] as /scratch/repo/input/data loadPrePages from FetchedFile[/scratch/repo/input/pagecontent] as /scratch/repo/input/pagecontent Fetch http://hl7.org/fhir/uv/pddi/package-list.json for version check (00:00.075 / 01:27.363, 995Mb) Processing Conformance Resources (00:00.160 / 01:27.524, 995Mb) Checking Language (00:00.000 / 01:27.524, 995Mb) Load Dependency Info (00:00.003 / 01:27.528, 995Mb) Load Info (00:00.002 / 01:27.530, 995Mb) Load Paths (00:00.000 / 01:27.531, 998Mb) Check R4 / R4B (00:00.001 / 01:27.532, 998Mb) Assign Comparison Ids (00:00.091 / 01:27.624, 1019Mb) Propagating status (00:00.001 / 01:27.625, 1019Mb) Generating Narratives (00:00.000 / 01:27.626, 1019Mb) Validating Conformance Resources (00:16.342 / 01:43.968, 616Mb) Check profiles & code systems (05:12.574 / 06:56.542, 2Gb) Check realm rules (00:00.002 / 06:56.545, 2Gb) Previous Version Comparison (00:00.000 / 06:56.545, 2Gb) Validating Resources (00:00.027 / 06:56.573, 2Gb) Processing Provenance Records (00:02.129 / 06:58.702, 5Gb) Generating Outputs in /scratch/repo/output (00:00.000 / 06:58.702, 5Gb) Generate Native Outputs (00:00.277 / 06:58.980, 5Gb) Run Template (00:04.815 / 07:03.796, 5Gb) Generate HTML Outputs (00:02.474 / 07:06.271, 5Gb) Only XHTML-namespaced content is permitted XSLT Error: Processing terminated by xsl:message at line 14 in Exception generating xslt page /scratch/repo/temp/pages/_includes/breadcrumb.html for _includes/breadcrumb.html in /scratch/repo/temp/pages: Processing terminated by xsl:message at line 14 in (01:19.805 / 08:26.077, 7Gb) XSLT Error: Error reported by XML parser: XML document structures must start and end within the same entity. Exception generating xslt page /scratch/repo/temp/pages/_includes/header.html for _includes/header.html in /scratch/repo/temp/pages: org.xml.sax.SAXParseException; lineNumber: 35; columnNumber: 1; XML document structures must start and end within the same entity. (00:00.047 / 08:26.125, 7Gb) XSLT Error: Error reported by XML parser: The markup in the document preceding the root element must be well-formed. Exception generating xslt page /scratch/repo/temp/pages/_includes/container-start.html for _includes/container-start.html in /scratch/repo/temp/pages: org.xml.sax.SAXParseException; lineNumber: 1; columnNumber: 4; The markup in the document preceding the root element must be well-formed. (00:00.028 / 08:26.153, 7Gb) XSLT Error: Error reported by XML parser: The markup in the document following the root element must be well-formed. Exception generating xslt page /scratch/repo/temp/pages/_includes/container-end.html for _includes/container-end.html in /scratch/repo/temp/pages: org.xml.sax.SAXParseException; lineNumber: 2; columnNumber: 4; The markup in the document following the root element must be well-formed. (00:00.025 / 08:26.178, 7Gb) XSLT Error: Error reported by XML parser: The markup in the document preceding the root element must be well-formed. Exception generating xslt page /scratch/repo/temp/pages/_includes/footer.html for _includes/footer.html in /scratch/repo/temp/pages: org.xml.sax.SAXParseException; lineNumber: 2; columnNumber: 2; The markup in the document preceding the root element must be well-formed. (00:00.020 / 08:26.199, 7Gb) Generate Spreadsheets (00:00.034 / 08:26.233, 7Gb) Generate Summaries (00:00.000 / 08:26.234, 7Gb) Generating Summary Outputs (00:00.000 / 08:26.234, 7Gb) DB Cumulative Time invested: 00:00:59.615 Sending Usage Stats to Server (00:09.842 / 08:36.076, 8Gb) ## Memory (MB): Use = 8784, Free = 10223, Total = 19008, Max = 19008 (00:00.008 / 08:36.085, 8Gb) Reclaiming memory... (00:00.000 / 08:36.085, 8Gb) ## Memory (MB): Use = 589, Free = 18418, Total = 19008, Max = 19008 (00:00.902 / 08:36.989, 601Mb) Run jekyll: jekyll build --destination "/scratch/repo/output" (in folder /scratch/repo/temp/pages) (00:00.039 / 08:37.028, 601Mb) Troubleshooting Note: usual cases for Jekyll to fail are: (00:00.039 / 08:37.067, 601Mb) * A failure to produce a fragment that is already logged in the output above (00:00.000 / 08:37.068, 601Mb) * A reference to a manually edited file that hasn't been provided (00:00.000 / 08:37.068, 601Mb) Jekyll: Source: /scratch/repo/temp/pages (00:00.619 / 08:37.688, 621Mb) Jekyll: Generating... (00:00.000 / 08:37.688, 621Mb) Jekyll: done in 4.083 seconds. (00:04.082 / 08:41.770, 621Mb) Checking Output HTML (00:03.121 / 08:44.891, 1Gb) found 1823 files (00:00.009 / 08:44.901, 1Gb) ........................................ ........................................ ... 1823 html files, 0 pages invalid xhtml (0%) (00:08.640 / 08:53.542, 653Mb) ... 110569 links, 0 broken links (0%) (00:00.000 / 08:53.542, 653Mb) Generate fragment-usage-analysis.csv (00:00.000 / 08:53.542, 653Mb) Build final .zip (00:00.007 / 08:53.549, 653Mb) Final .zip built (00:01.945 / 08:55.495, 661Mb) Built. Times: loading: 00:05.169, generate: 07:29.184, narrative generation: 00:16.341, realm-rules: 00:00.000, previous-version: 00:00.000, jekyll: 00:04.814, validation: 05:14.693 (#126), template: 00:02.487 (#3) (00:01.677 / 08:57.172, 924Mb) Generating QA (00:00.000 / 08:57.173, 924Mb) Validation output in /scratch/repo/output/qa.html Errors: 4, Warnings: 199, Info: 31, Broken Links: 0 (00:01.387 / 08:58.560, 2Gb) Finished. Max Memory Used = 8Gb (00:00.025 / 08:58.585, 2Gb)