INFO:root:about to clone! DEBUG:root:running: git clone --recursive https://github.com/HL7/fhir-shc-vaccination-ig --branch master repo DEBUG:root:Time to deadline 35879.997856 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 35872.857427 seconds DEBUG:root:running: npm -g install fsh-sushi DEBUG:root:Time to deadline 35871.286057 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 rimraf@2.6.3: Rimraf versions prior to v4 are no longer supported npm WARN deprecated glob@7.2.3: Glob versions prior to v9 are no longer supported added 140 packages in 7s 15 packages are looking for funding run `npm fund` for details npm notice npm notice New major version of npm available! 9.8.1 -> 11.6.0 npm notice Changelog: npm notice Run `npm install -g npm@11.6.0` 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/fhir-shc-vaccination-ig/ -out /scratch/repo DEBUG:root:Time to deadline 35864.380811 seconds FHIR IG Publisher Version 2.0.16 (Git# b88a2ed37ef7). Built 2025-08-27T17:19:52.105Z (7 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-shc-vaccination-ig/ -out /scratch/repo Character encoding = UTF-8 / UTF-8 Start Clock @ Wednesday, September 3, 2025, 8:15:06 PM Coordinated Universal Time (2025-09-03T20:15:06Z) Build FHIR IG from /scratch/repo (00:00.024 / 00:00.025, 97Mb) API keys loaded from /etc/fhir-settings.json (00:00.002 / 00:00.027, 97Mb) Package Cache: /var/lib/.fhir/packages (00:00.002 / 00:00.029, 97Mb) Run Sushi on /scratch/repo (00:00.004 / 00:00.034, 97Mb) Sushi: info Running SUSHI v3.16.3 (implements FHIR Shorthand specification v3.0.0) (00:00.585 / 00:00.619, 113Mb) Sushi: info Arguments: (00:00.000 / 00:00.620, 113Mb) Sushi: info --require-latest (00:00.000 / 00:00.620, 113Mb) Sushi: info --out /scratch/repo (00:00.000 / 00:00.621, 113Mb) Sushi: info /scratch/repo (00:00.000 / 00:00.621, 113Mb) Sushi: info Using configuration file: /scratch/repo/sushi-config.yaml (00:00.570 / 00:01.191, 113Mb) Sushi: info Importing FSH text... (00:00.125 / 00:01.317, 113Mb) Sushi: info Preprocessed 8 documents with 14 aliases. (00:00.214 / 00:01.531, 113Mb) Sushi: info Imported 26 definitions and 0 instances. (00:00.052 / 00:01.584, 113Mb) Sushi: info Loaded virtual package sushi-r5forR4#1.0.0 with 7 resources (00:00.101 / 00:01.685, 113Mb) Sushi: info Resolved hl7.fhir.uv.tools.r4#latest to concrete version 0.8.0 (00:00.634 / 00:02.319, 113Mb) Sushi: info Attempting to download hl7.fhir.uv.tools.r4#0.8.0 from https://packages.fhir.org/hl7.fhir.uv.tools.r4/0.8.0 (00:00.000 / 00:02.320, 113Mb) Sushi: info Downloaded hl7.fhir.uv.tools.r4#0.8.0 (00:00.819 / 00:03.140, 113Mb) Sushi: info Cached hl7.fhir.uv.tools.r4#0.8.0 to /home/fhiruser/.fhir/packages/hl7.fhir.uv.tools.r4#0.8.0 (00:00.002 / 00:03.143, 113Mb) Sushi: info Loaded hl7.fhir.uv.tools.r4#0.8.0 with 110 resources (00:00.060 / 00:03.203, 113Mb) Sushi: info Resolved hl7.terminology.r4#latest to concrete version 6.5.0 (00:00.459 / 00:03.662, 113Mb) Sushi: info Attempting to download hl7.terminology.r4#6.5.0 from https://packages.fhir.org/hl7.terminology.r4/6.5.0 (00:00.000 / 00:03.663, 113Mb) Sushi: info Downloaded hl7.terminology.r4#6.5.0 (00:02.585 / 00:06.249, 113Mb) Sushi: info Cached hl7.terminology.r4#6.5.0 to /home/fhiruser/.fhir/packages/hl7.terminology.r4#6.5.0 (00:00.001 / 00:06.250, 113Mb) Sushi: info Loaded hl7.terminology.r4#6.5.0 with 4392 resources (00:01.321 / 00:07.571, 113Mb) Sushi: info Resolved hl7.fhir.uv.extensions.r4#latest to concrete version 5.2.0 (00:00.460 / 00:08.032, 113Mb) Sushi: info Attempting to download hl7.fhir.uv.extensions.r4#5.2.0 from https://packages.fhir.org/hl7.fhir.uv.extensions.r4/5.2.0 (00:00.000 / 00:08.032, 113Mb) Sushi: info Downloaded hl7.fhir.uv.extensions.r4#5.2.0 (00:01.414 / 00:09.447, 113Mb) Sushi: info Cached hl7.fhir.uv.extensions.r4#5.2.0 to /home/fhiruser/.fhir/packages/hl7.fhir.uv.extensions.r4#5.2.0 (00:00.001 / 00:09.448, 113Mb) Sushi: info Loaded hl7.fhir.uv.extensions.r4#5.2.0 with 759 resources (00:00.230 / 00:09.678, 113Mb) Sushi: info Attempting to download hl7.fhir.r4.core#4.0.1 from https://packages.fhir.org/hl7.fhir.r4.core/4.0.1 (00:00.000 / 00:09.679, 113Mb) Sushi: info Downloaded hl7.fhir.r4.core#4.0.1 (00:02.865 / 00:12.544, 113Mb) Sushi: info Cached hl7.fhir.r4.core#4.0.1 to /home/fhiruser/.fhir/packages/hl7.fhir.r4.core#4.0.1 (00:00.001 / 00:12.546, 113Mb) Sushi: info Loaded hl7.fhir.r4.core#4.0.1 with 4581 resources (00:01.132 / 00:13.678, 113Mb) Sushi: info Found 1 non-JSON / non-XML file(s) in directory: /scratch/repo/input/examples. Only resource files with JSON or XML extensions are supported. To see the skipped files in the logs, use debug logging. (00:00.016 / 00:13.694, 113Mb) Sushi: info Loaded virtual package sushi-local#LOCAL with 26 resources (00:00.000 / 00:13.694, 113Mb) Sushi: info Converting FSH to FHIR resources... (00:00.019 / 00:13.714, 113Mb) Sushi: info Converted 16 FHIR StructureDefinitions. (00:02.924 / 00:16.639, 113Mb) Sushi: info Converted 1 FHIR CodeSystems. (00:00.027 / 00:16.666, 113Mb) Sushi: info Converted 9 FHIR ValueSets. (00:00.205 / 00:16.871, 113Mb) Sushi: info Exporting FHIR resources as JSON... (00:00.001 / 00:16.873, 113Mb) Sushi: info Exported 26 FHIR resources as JSON. (00:00.136 / 00:17.009, 113Mb) Sushi: info Assembling Implementation Guide sources... (00:00.003 / 00:17.013, 113Mb) Sushi: info Generated ImplementationGuide-hl7.fhir.uv.shc-vaccination.json (00:00.011 / 00:17.025, 113Mb) Sushi: info Assembled Implementation Guide sources; ready for IG Publisher. (00:00.000 / 00:17.025, 113Mb) Sushi: ========================= SUSHI RESULTS =========================== (00:00.001 / 00:17.027, 113Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:17.027, 113Mb) Sushi: | | Profiles | Extensions | Logicals | Resources | | (00:00.000 / 00:17.027, 113Mb) Sushi: | |-------------------------------------------------------------| | (00:00.000 / 00:17.028, 113Mb) Sushi: | | 16 | 0 | 0 | 0 | | (00:00.000 / 00:17.028, 113Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:17.028, 113Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:17.029, 113Mb) Sushi: | | ValueSets | CodeSystems | Instances | | (00:00.000 / 00:17.029, 113Mb) Sushi: | |-------------------------------------------------------------| | (00:00.000 / 00:17.029, 113Mb) Sushi: | | 9 | 1 | 0 | | (00:00.000 / 00:17.029, 113Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:17.030, 113Mb) Sushi: | | (00:00.000 / 00:17.030, 113Mb) Sushi: =================================================================== (00:00.000 / 00:17.030, 113Mb) Sushi: | FSHing for compliments? Super job! 0 Errors 0 Warnings | (00:00.000 / 00:17.030, 113Mb) Sushi: =================================================================== (00:00.000 / 00:17.031, 113Mb) Root directory: /scratch/repo (00:00.029 / 00:17.060, 113Mb) Unable to load IG as an r5 IG - try R4 (property code is a class com.google.gson.JsonPrimitive looking for an object) (00:00.509 / 00:17.570, 37Mb) Load Template from hl7.fhir.template#current (00:00.496 / 00:18.066, 94Mb) Installing hl7.fhir.template#current to the package cache  Fetching:  Installing hl7.fhir.template#current  done.  Load Template from hl7.base.template#current (00:01.107 / 00:19.174, 150Mb) Installing hl7.base.template#current to the package cache  Fetching:  Installing hl7.base.template#current  done.  Load Template from fhir.base.template#current (00:00.186 / 00:19.361, 150Mb) Installing fhir.base.template#current to the package cache  Fetching:  Installing fhir.base.template#current  done. Terminology Cache is at /scratch/repo/input-cache/txcache. Trimming now (00:03.357 / 00:22.718, 147Mb) Core Package hl7.fhir.r4.core#4.0.1 (00:00.000 / 00:22.718, 147Mb) Running Terminology Log: /tmp/ohfu-fhir-ig-7756234603308236107.html Connect to Terminology Server at http://tx.fhir.org (00:30.759 / 00:53.478, 899Mb) Installing hl7.fhir.pubpack#0.2.3 to the package cache  Fetching:  Installing hl7.fhir.pubpack#0.2.3  done. Load Package hl7.fhir.pubpack#0.2.3 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 Load Package hl7.terminology.r4#6.5.0 Load Package hl7.fhir.uv.extensions.r4#5.2.0 Installing hl7.fhir.uv.tools.r4#0.7.1 to the package cache  Fetching:  Installing hl7.fhir.uv.tools.r4#0.7.1  done. Load Package hl7.fhir.uv.tools.r4#0.7.1 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 (00:08.316 / 01:01.794, 654Mb) Load IG (00:00.000 / 01:01.794, 654Mb) Load Content (00:00.000 / 01:01.795, 654Mb) Using en-US as the default narrative language. (no language information in Implementation Guide) (00:00.098 / 01:01.893, 670Mb) Process Loaded Resources (00:00.768 / 01:02.661, 742Mb) Generating Snapshots (00:00.277 / 01:02.939, 830Mb) Signing Certificate: RSA key for Subject: OU=IG Publisher, L=Ann Arbor, CN=hl7.org, O=HL7, ST=Missouri, C=us from: OU=IG Publisher, L=Ann Arbor, CN=hl7.org, O=HL7, ST=Missouri, C=us Fetch http://hl7.org/fhir/uv/shc-vaccination/package-list.json for version check (00:01.482 / 01:04.422, 652Mb) Processing Conformance Resources (00:00.283 / 01:04.705, 668Mb) Checking Language (00:00.000 / 01:04.705, 668Mb) Load Dependency Info (00:00.001 / 01:04.707, 668Mb) Load Info (00:00.001 / 01:04.708, 668Mb) Load Paths (00:00.000 / 01:04.708, 672Mb) Check R4 / R4B (00:00.000 / 01:04.708, 672Mb) Assign Comparison Ids (00:00.038 / 01:04.747, 680Mb) Propagating status (00:00.000 / 01:04.747, 680Mb) Generating Narratives (00:00.102 / 01:04.850, 740Mb) Validating Conformance Resources (00:01.817 / 01:06.667, 773Mb) Check profiles & code systems (00:13.606 / 01:20.274, 613Mb) Check realm rules (00:00.005 / 01:20.280, 613Mb) Previous Version Comparison (00:00.000 / 01:20.280, 613Mb) Installing hl7.fhir.uv.shc-vaccination#0.6.2 to the package cache  Fetching:  Installing hl7.fhir.uv.shc-vaccination#0.6.2  done. Installing us.cdc.phinvads#0.7.0 to the package cache  Fetching:  Installing us.cdc.phinvads#0.7.0  done. FHIR Version mismatch in package us.cdc.phinvads#0.7.0: version is 4.0 but must be 4.0.1 (path: hl7.fhir.uv.shc-vaccination#0.6.2) Installing us.nlm.vsac#0.4.0 to the package cache  Fetching:  Installing us.nlm.vsac#0.4.0  done. FHIR Version mismatch in package us.nlm.vsac#0.4.0: version is 4.0 but must be 4.0.1 (path: hl7.fhir.uv.shc-vaccination#0.6.2) Checking for Bundles to sign (01:18.499 / 02:38.780, 1Gb) Validating Resources (00:00.000 / 02:38.780, 1Gb) Processing Provenance Records (00:01.042 / 02:39.823, 1Gb) Generating Outputs in /scratch/repo/output (00:00.000 / 02:39.823, 1Gb) Generate Native Outputs (00:00.248 / 02:40.071, 1Gb) Run Template (00:05.537 / 02:45.608, 1Gb) **WARNING** Jira file generation will not be correct because multiple artifacts have the same name (ignoring content in "()"): Infectious Disease Generate HTML Outputs (00:05.438 / 02:51.046, 744Mb) Generate Spreadsheets (00:22.238 / 03:13.285, 1Gb) Generate Summaries (00:05.480 / 03:18.765, 2Gb) Generating Summary Outputs (00:00.000 / 03:18.766, 2Gb) DB Cumulative Time invested: 00:00:09.778 Sending Usage Stats to Server (00:06.117 / 03:24.883, 3Gb) ## Memory (MB): Use = 3723, Free = 15284, Total = 19008, Max = 19008 (00:00.012 / 03:24.895, 3Gb) Reclaiming memory... (00:00.000 / 03:24.895, 3Gb) ## Memory (MB): Use = 580, Free = 18427, Total = 19008, Max = 19008 (00:00.592 / 03:25.488, 596Mb) Run jekyll: jekyll build --destination "/scratch/repo/output" (in folder /scratch/repo/temp/pages) (00:00.004 / 03:25.492, 596Mb) Troubleshooting Note: usual cases for Jekyll to fail are: (00:00.000 / 03:25.492, 596Mb) * A failure to produce a fragment that is already logged in the output above (00:00.000 / 03:25.492, 596Mb) * A reference to a manually edited file that hasn't been provided (00:00.000 / 03:25.492, 596Mb) Jekyll: Source: /scratch/repo/temp/pages (00:00.443 / 03:25.936, 612Mb) Jekyll: Generating... (00:00.000 / 03:25.936, 612Mb) Jekyll: done in 2.783 seconds. (00:02.782 / 03:28.719, 612Mb) Checking Output HTML (00:03.336 / 03:32.055, 2Gb) found 1185 files (00:00.007 / 03:32.063, 2Gb) ........................................ ........................................ ... 1185 html files, 0 pages invalid xhtml (0%) (00:19.132 / 03:51.195, 3Gb) ... 344520 links, 0 broken links (0%) (00:00.000 / 03:51.195, 3Gb) Generate fragment-usage-analysis.csv (00:00.000 / 03:51.195, 3Gb) Build final .zip (00:00.007 / 03:51.203, 3Gb) Final .zip built (00:02.890 / 03:54.093, 3Gb) Built. Times: loading: 00:02.910, generate: 02:51.498, propagating status: 00:00.101, narrative generation: 00:01.816, realm-rules: 00:00.000, previous-version: 01:18.451, jekyll: 00:03.257, validation: 00:14.644 (#53), template: 00:05.447 (#3) (00:02.110 / 03:56.204, 4Gb) Generating QA (00:00.000 / 03:56.204, 4Gb) Validation output in /scratch/repo/output/qa.html Errors: 13, Warnings: 1, Info: 30, Broken Links: 0 (00:00.261 / 03:56.466, 4Gb) Finished @ 9/3/25, 8:19 PM. Max Memory Used = 4Gb (00:00.022 / 03:56.488, 4Gb)