INFO:root:about to clone! DEBUG:root:running: git clone --recursive https://github.com/HL7/fhir-radiation-dose-summary-ig --branch master repo DEBUG:root:Time to deadline 35879.997762 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 35879.3791 seconds DEBUG:root:running: npm -g install fsh-sushi DEBUG:root:Time to deadline 35878.208487 seconds 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 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. added 140 packages in 8s 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-radiation-dose-summary-ig/ -out /scratch/repo DEBUG:root:Time to deadline 35869.689617 seconds FHIR IG Publisher Version 2.0.16 (Git# b88a2ed37ef7). Built 2025-08-27T17:19:52.105Z (8 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-radiation-dose-summary-ig/ -out /scratch/repo Character encoding = UTF-8 / UTF-8 Start Clock @ Friday, September 5, 2025, 1:48:49 PM Coordinated Universal Time (2025-09-05T13:48:49Z) Build FHIR IG from /scratch/repo (00:00.030 / 00:00.031, 97Mb) API keys loaded from /etc/fhir-settings.json (00:00.003 / 00:00.034, 97Mb) Package Cache: /var/lib/.fhir/packages (00:00.003 / 00:00.038, 97Mb) Found dependency on hl7.fhir.uv.ips#1.1.0 in Sushi config. Pre-installing (00:00.005 / 00:00.043, 97Mb) Installing hl7.fhir.uv.ips#1.1.0 to the package cache  Fetching:  Installing hl7.fhir.uv.ips#1.1.0  done. Found dependency on fhir.dicom#2025.2.20250411 in Sushi config. Pre-installing (00:03.208 / 00:03.251, 80Mb) Installing fhir.dicom#2025.2.20250411 to the package cache  Fetching:  Installing fhir.dicom#2025.2.20250411  done. Run Sushi on /scratch/repo (00:12.447 / 00:15.699, 185Mb) Sushi: info Running SUSHI v3.16.3 (implements FHIR Shorthand specification v3.0.0) (00:00.849 / 00:16.549, 194Mb) Sushi: info Arguments: (00:00.000 / 00:16.550, 194Mb) Sushi: info --require-latest (00:00.000 / 00:16.550, 194Mb) Sushi: info --out /scratch/repo (00:00.000 / 00:16.551, 194Mb) Sushi: info /scratch/repo (00:00.000 / 00:16.551, 194Mb) Sushi: info Using configuration file: /scratch/repo/sushi-config.yaml (00:01.087 / 00:17.638, 194Mb) Sushi: info Importing FSH text... (00:00.190 / 00:17.829, 194Mb) Sushi: info Preprocessed 13 documents with 6 aliases. (00:00.538 / 00:18.367, 194Mb) Sushi: info Imported 9 definitions and 18 instances. (00:00.042 / 00:18.409, 194Mb) Sushi: info Loaded virtual package sushi-r5forR4#1.0.0 with 7 resources (00:00.175 / 00:18.585, 194Mb) Sushi: info Resolved hl7.fhir.uv.tools.r4#latest to concrete version 0.8.0 (00:00.671 / 00:19.256, 194Mb) 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 (00:00.001 / 00:19.257, 194Mb) Sushi: info Downloaded hl7.fhir.uv.tools.r4#0.8.0 (00:00.930 / 00:20.188, 194Mb) Sushi: info Cached hl7.fhir.uv.tools.r4#0.8.0 to /home/fhiruser/.fhir/packages/hl7.fhir.uv.tools.r4#0.8.0 (00:00.003 / 00:20.192, 194Mb) Sushi: info Loaded hl7.fhir.uv.tools.r4#0.8.0 with 110 resources (00:00.092 / 00:20.284, 194Mb) Sushi: info Resolved hl7.terminology.r4#latest to concrete version 6.5.0 (00:00.467 / 00:20.752, 194Mb) 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 / 00:20.753, 194Mb) Sushi: info Downloaded hl7.terminology.r4#6.5.0 (00:03.293 / 00:24.046, 194Mb) Sushi: info Cached hl7.terminology.r4#6.5.0 to /home/fhiruser/.fhir/packages/hl7.terminology.r4#6.5.0 (00:00.001 / 00:24.048, 194Mb) Sushi: info Loaded hl7.terminology.r4#6.5.0 with 4392 resources (00:01.848 / 00:25.896, 194Mb) Sushi: info Resolved hl7.fhir.uv.extensions.r4#latest to concrete version 5.2.0 (00:00.475 / 00:26.372, 194Mb) 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 / 00:26.372, 194Mb) Sushi: info Downloaded hl7.fhir.uv.extensions.r4#5.2.0 (00:01.519 / 00:27.892, 194Mb) 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 / 00:27.894, 194Mb) Sushi: info Loaded hl7.fhir.uv.extensions.r4#5.2.0 with 759 resources (00:00.323 / 00:28.217, 194Mb) Sushi: info Loaded hl7.fhir.uv.ips#1.1.0 with 104 resources (00:00.134 / 00:28.351, 194Mb) Sushi: info Loaded fhir.dicom#2025.2.20250411 with 1398 resources (00:00.495 / 00:28.847, 194Mb) 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 / 00:28.847, 194Mb) Sushi: info Downloaded hl7.fhir.r4.core#4.0.1 (00:03.611 / 00:32.459, 194Mb) Sushi: info Cached hl7.fhir.r4.core#4.0.1 to /home/fhiruser/.fhir/packages/hl7.fhir.r4.core#4.0.1 (00:00.002 / 00:32.462, 194Mb) Sushi: info Loaded hl7.fhir.r4.core#4.0.1 with 4581 resources (00:01.649 / 00:34.111, 194Mb) Sushi: info Loaded virtual package sushi-local#LOCAL with 4 resources (00:00.055 / 00:34.166, 194Mb) Sushi: info Converting FSH to FHIR resources... (00:00.032 / 00:34.199, 194Mb) Sushi: info Converted 4 FHIR StructureDefinitions. (00:01.716 / 00:35.915, 194Mb) Sushi: info Converted 1 FHIR CodeSystems. (00:00.061 / 00:35.976, 194Mb) Sushi: info Converted 4 FHIR ValueSets. (00:00.311 / 00:36.288, 194Mb) Sushi: info Converted 18 FHIR instances. (00:03.395 / 00:39.683, 194Mb) Sushi: info Exporting FHIR resources as JSON... (00:00.031 / 00:39.714, 194Mb) Sushi: info Exported 27 FHIR resources as JSON. (00:00.079 / 00:39.794, 194Mb) Sushi: info Assembling Implementation Guide sources... (00:00.002 / 00:39.797, 194Mb) Sushi: info Generated ImplementationGuide-hl7.fhir.uv.radiation-dose-summary.json (00:00.082 / 00:39.880, 194Mb) Sushi: info Assembled Implementation Guide sources; ready for IG Publisher. (00:00.000 / 00:39.880, 194Mb) Sushi: ========================= SUSHI RESULTS =========================== (00:00.003 / 00:39.884, 194Mb) Sushi: | ------------------------------------------------------------- | (00:00.002 / 00:39.887, 194Mb) Sushi: | | Profiles | Extensions | Logicals | Resources | | (00:00.000 / 00:39.887, 194Mb) Sushi: | |-------------------------------------------------------------| | (00:00.000 / 00:39.887, 194Mb) Sushi: | | 4 | 0 | 0 | 0 | | (00:00.000 / 00:39.887, 194Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:39.888, 194Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:39.888, 194Mb) Sushi: | | ValueSets | CodeSystems | Instances | | (00:00.000 / 00:39.888, 194Mb) Sushi: | |-------------------------------------------------------------| | (00:00.000 / 00:39.888, 194Mb) Sushi: | | 4 | 1 | 18 | | (00:00.000 / 00:39.889, 194Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:39.889, 194Mb) Sushi: | | (00:00.000 / 00:39.889, 194Mb) Sushi: =================================================================== (00:00.000 / 00:39.895, 194Mb) Sushi: | Why pun? Just for for the halibut. 0 Errors 0 Warnings | (00:00.006 / 00:39.896, 194Mb) Sushi: =================================================================== (00:00.000 / 00:39.896, 194Mb) Root directory: /scratch/repo (00:00.031 / 00:39.928, 194Mb) Unable to load IG as an r5 IG - try R4 (property code is a class com.google.gson.JsonPrimitive looking for an object) (00:00.841 / 00:40.769, 57Mb) Load Template from hl7.fhir.template#current (00:00.785 / 00:41.554, 57Mb) Installing hl7.fhir.template#current to the package cache  Fetching:  Installing hl7.fhir.template#current  done.  Load Template from hl7.base.template#current (00:00.886 / 00:42.440, 97Mb) Installing hl7.base.template#current to the package cache  Fetching:  Installing hl7.base.template#current  done.  Load Template from fhir.base.template#current (00:00.257 / 00:42.698, 97Mb) 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 (00:05.691 / 00:48.390, 392Mb) Core Package hl7.fhir.r4.core#4.0.1 (00:00.000 / 00:48.390, 392Mb) Running Terminology Log: /tmp/ohfu-fhir-ig-17726961923428394962.html Connect to Terminology Server at http://tx.fhir.org (00:43.342 / 01:31.733, 777Mb) 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.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 fhir.dicom#2022.4.20221006 to the package cache  Fetching:  Installing fhir.dicom#2022.4.20221006  done. Load Package fhir.dicom#2022.4.20221006 Load Package hl7.fhir.uv.ips#1.1.0 Load Package fhir.dicom#2025.2.20250411 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 (00:59.203 / 02:30.937, 701Mb) Load IG (00:00.000 / 02:30.937, 701Mb) Load Content (00:00.000 / 02:30.938, 701Mb) Using en-US as the default narrative language. (no language information in Implementation Guide) (00:00.101 / 02:31.039, 709Mb) Process Loaded Resources (00:01.181 / 02:32.221, 765Mb) Generating Snapshots (00:00.312 / 02:32.533, 797Mb) 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/radiation-dose-summary/package-list.json for version check (00:00.664 / 02:33.197, 981Mb) Processing Conformance Resources (00:00.106 / 02:33.304, 981Mb) Checking Language (00:00.000 / 02:33.304, 981Mb) Load Dependency Info (00:00.002 / 02:33.307, 981Mb) Load Info (00:00.003 / 02:33.310, 981Mb) Load Paths (00:00.000 / 02:33.310, 987Mb) Check R4 / R4B (00:00.000 / 02:33.311, 987Mb) Assign Comparison Ids (00:00.083 / 02:33.394, 995Mb) Propagating status (00:00.000 / 02:33.395, 995Mb) Generating Narratives (00:00.094 / 02:33.489, 1005Mb) Validating Conformance Resources (00:03.667 / 02:37.157, 612Mb) Check profiles & code systems (00:10.747 / 02:47.903, 1Gb) Check realm rules (00:00.002 / 02:47.905, 1Gb) Previous Version Comparison (00:00.000 / 02:47.906, 1Gb) Installing hl7.fhir.uv.radiation-dose-summary#0.1.0 to the package cache  Fetching:  Installing hl7.fhir.uv.radiation-dose-summary#0.1.0  done. Installing hl7.fhir.uv.ips#1.0.0 to the package cache  Fetching:  Installing hl7.fhir.uv.ips#1.0.0  done. Installing fhir.dicom#2021.4.20210910 to the package cache  Fetching:  Installing fhir.dicom#2021.4.20210910  done. Checking for Bundles to sign (00:18.130 / 03:06.036, 1Gb) Validating Resources (00:00.000 / 03:06.036, 1Gb) Processing Provenance Records (00:01.476 / 03:07.513, 1Gb) Generating Outputs in /scratch/repo/output (00:00.000 / 03:07.514, 1Gb) Generate Native Outputs (00:00.276 / 03:07.790, 1Gb) Run Template (00:03.225 / 03:11.016, 626Mb) Generate HTML Outputs (00:05.033 / 03:16.049, 746Mb) Generate Spreadsheets (00:12.108 / 03:28.158, 857Mb) Generate Summaries (00:03.905 / 03:32.063, 1Gb) Generating Summary Outputs (00:00.000 / 03:32.063, 1Gb) DB Cumulative Time invested: 00:00:00.723 Sending Usage Stats to Server (00:08.638 / 03:40.702, 1Gb) ## Memory (MB): Use = 1049, Free = 17958, Total = 19008, Max = 19008 (00:00.007 / 03:40.710, 1Gb) Reclaiming memory... (00:00.000 / 03:40.710, 1Gb) ## Memory (MB): Use = 552, Free = 18455, Total = 19008, Max = 19008 (00:00.836 / 03:41.547, 560Mb) Run jekyll: jekyll build --destination "/scratch/repo/output" (in folder /scratch/repo/temp/pages) (00:00.001 / 03:41.548, 569Mb) Troubleshooting Note: usual cases for Jekyll to fail are: (00:00.000 / 03:41.548, 569Mb) * A failure to produce a fragment that is already logged in the output above (00:00.000 / 03:41.548, 569Mb) * A reference to a manually edited file that hasn't been provided (00:00.000 / 03:41.548, 569Mb) Jekyll: Source: /scratch/repo/temp/pages (00:00.584 / 03:42.133, 576Mb) Jekyll: Generating... (00:00.000 / 03:42.134, 576Mb) Jekyll: done in 2.262 seconds. (00:02.261 / 03:44.396, 576Mb) Checking Output HTML (00:02.237 / 03:46.633, 1Gb) found 931 files (00:00.005 / 03:46.638, 1Gb) ........................................ ........................................ ... 931 html files, 0 pages invalid xhtml (0%) (00:17.877 / 04:04.516, 8Gb) ... 100540 links, 0 broken links (0%) (00:00.000 / 04:04.517, 8Gb) Generate fragment-usage-analysis.csv (00:00.000 / 04:04.517, 8Gb) Build final .zip (00:00.012 / 04:04.530, 8Gb) Final .zip built (00:02.375 / 04:06.905, 8Gb) Built. Times: loading: 00:02.366, generate: 01:36.998, propagating status: 00:00.094, narrative generation: 00:03.666, realm-rules: 00:00.000, previous-version: 00:18.085, jekyll: 00:02.863, validation: 00:12.220 (#32), template: 00:05.046 (#3) (00:03.397 / 04:10.303, 9Gb) Generating QA (00:00.000 / 04:10.303, 9Gb) Validation output in /scratch/repo/output/qa.html Errors: 1, Warnings: 5, Info: 0, Broken Links: 0 (00:00.322 / 04:10.626, 9Gb) Finished @ 9/5/25, 1:52 PM. Max Memory Used = 9Gb (00:00.037 / 04:10.663, 9Gb)