INFO:root:about to clone! DEBUG:root:running: git clone --recursive https://github.com/hl7-eu/hdr --branch master repo DEBUG:root:Time to deadline 35879.998074 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 35878.977819 seconds DEBUG:root:running: npm -g install fsh-sushi DEBUG:root:Time to deadline 35877.957895 seconds npm WARN deprecated rimraf@2.6.3: Rimraf versions prior to v4 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. npm WARN deprecated glob@7.2.3: Glob versions prior to v9 are no longer supported added 139 packages in 5s 14 packages are looking for funding run `npm fund` for details npm notice npm notice New major version of npm available! 9.8.1 -> 11.6.2 npm notice Changelog: npm notice Run `npm install -g npm@11.6.2` 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-eu/hdr/ -out /scratch/repo DEBUG:root:Time to deadline 35872.309496 seconds FHIR IG Publisher Version 2.0.21 (Git# e2ed3297ec93). Built 2025-10-14T00:25:09.351Z (6 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-eu/hdr/ -out /scratch/repo Character encoding = UTF-8 / UTF-8 Start Clock @ Monday, October 20, 2025, 5:50:35 AM Coordinated Universal Time (2025-10-20T05:50:35Z) Build FHIR IG from /scratch/repo (00:00.027 / 00:00.027, 97Mb) API keys loaded from /etc/fhir-settings.json (00:00.003 / 00:00.030, 97Mb) Package Cache: /var/lib/.fhir/packages (00:00.002 / 00:00.033, 97Mb) Found dependency on hl7.fhir.uv.ips#1.1.0 in Sushi config. Pre-installing (00:00.006 / 00:00.039, 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 hl7.fhir.extensions.r5#4.0.1 in Sushi config. Pre-installing (00:02.541 / 00:02.580, 81Mb) Installing hl7.fhir.extensions.r5#4.0.1 to the package cache  Fetching: Error fetching https://packages2.fhir.org/packages/hl7.fhir.extensions.r5: Not Found Error fetching https://packages.fhir.org/hl7.fhir.extensions.r5: Not Found Unable to install hl7.fhir.extensions.r5#4.0.1: Unable to resolve package id hl7.fhir.extensions.r5#4.0.1 (00:00.977 / 00:03.558, 128Mb) Trying to go on (00:00.000 / 00:03.558, 128Mb) Found dependency on hl7.fhir.eu.extensions.r4#0.1.1-ballot in Sushi config. Pre-installing (00:00.000 / 00:03.559, 128Mb) Installing hl7.fhir.eu.extensions.r4#0.1.1-ballot to the package cache  Fetching:  Installing hl7.fhir.eu.extensions.r4#0.1.1-ballot  done. Found dependency on hl7.fhir.eu.laboratory#0.1.1 in Sushi config. Pre-installing (00:00.239 / 00:03.798, 133Mb) Installing hl7.fhir.eu.laboratory#0.1.1 to the package cache  Fetching:  Installing hl7.fhir.eu.laboratory#0.1.1  done. Found dependency on hl7.fhir.eu.base#0.1.0-ballot in Sushi config. Pre-installing (00:00.677 / 00:04.476, 144Mb) Installing hl7.fhir.eu.base#0.1.0-ballot to the package cache  Fetching:  Installing hl7.fhir.eu.base#0.1.0-ballot  done. Found dependency on ihe.pharm.mpd.r4#1.0.0-comment-2 in Sushi config. Pre-installing (00:00.383 / 00:04.859, 149Mb) Installing ihe.pharm.mpd.r4#1.0.0-comment-2 to the package cache  Fetching:  Installing ihe.pharm.mpd.r4#1.0.0-comment-2  done. Run Sushi on /scratch/repo (00:00.558 / 00:05.418, 160Mb) Sushi: info Running SUSHI v3.16.5 (implements FHIR Shorthand specification v3.0.0) (00:00.582 / 00:06.001, 168Mb) Sushi: info Arguments: (00:00.000 / 00:06.001, 168Mb) Sushi: info --require-latest (00:00.000 / 00:06.001, 168Mb) Sushi: info --out /scratch/repo (00:00.000 / 00:06.002, 168Mb) Sushi: info /scratch/repo (00:00.000 / 00:06.002, 168Mb) Sushi: info Using configuration file: /scratch/repo/sushi-config.yaml (00:00.564 / 00:06.566, 168Mb) Sushi: info Importing FSH text... (00:00.134 / 00:06.701, 168Mb) Sushi: info Preprocessed 106 documents with 204 aliases. (00:00.686 / 00:07.387, 168Mb) Sushi: info Imported 81 definitions and 89 instances. (00:00.398 / 00:07.786, 168Mb) Sushi: info Loaded virtual package sushi-r5forR4#1.0.0 with 7 resources (00:00.103 / 00:07.889, 168Mb) Sushi: info Resolved hl7.fhir.uv.tools.r4#latest to concrete version 0.8.0 (00:00.580 / 00:08.470, 168Mb) 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 / 00:08.470, 168Mb) Sushi: info Downloaded hl7.fhir.uv.tools.r4#0.8.0 (00:00.848 / 00:09.319, 168Mb) 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 / 00:09.322, 168Mb) Sushi: info Loaded hl7.fhir.uv.tools.r4#0.8.0 with 110 resources (00:00.062 / 00:09.384, 168Mb) Sushi: info Resolved hl7.terminology.r4#latest to concrete version 6.5.0 (00:00.466 / 00:09.850, 168Mb) 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 / 00:09.851, 168Mb) Sushi: info Downloaded hl7.terminology.r4#6.5.0 (00:03.125 / 00:12.976, 176Mb) Sushi: info Cached hl7.terminology.r4#6.5.0 to /home/fhiruser/.fhir/packages/hl7.terminology.r4#6.5.0 (00:00.001 / 00:12.977, 176Mb) Sushi: info Loaded hl7.terminology.r4#6.5.0 with 4392 resources (00:01.311 / 00:14.289, 176Mb) Sushi: info Resolved hl7.fhir.uv.extensions.r4#latest to concrete version 5.2.0 (00:00.490 / 00:14.779, 176Mb) 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 / 00:14.779, 176Mb) Sushi: info Downloaded hl7.fhir.uv.extensions.r4#5.2.0 (00:01.655 / 00:16.435, 176Mb) 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 / 00:16.436, 176Mb) Sushi: info Loaded hl7.fhir.uv.extensions.r4#5.2.0 with 759 resources (00:00.370 / 00:16.807, 176Mb) Sushi: info Loaded hl7.fhir.uv.ips#1.1.0 with 104 resources (00:00.074 / 00:16.881, 176Mb) Sushi: info Loading supplemental version of FHIR to support extensions from hl7.fhir.extensions.r5 (00:00.000 / 00:16.882, 176Mb) Sushi: info Attempting to download hl7.fhir.r5.core#5.0.0 from https://packages.fhir.org/hl7.fhir.r5.core/5.0.0 (00:00.037 / 00:16.919, 176Mb) Sushi: info Downloaded hl7.fhir.r5.core#5.0.0 (00:04.902 / 00:21.822, 176Mb) Sushi: info Cached hl7.fhir.r5.core#5.0.0 to /home/fhiruser/.fhir/packages/hl7.fhir.r5.core#5.0.0 (00:00.003 / 00:21.825, 176Mb) Sushi: info Loaded hl7.fhir.r5.core#5.0.0 with 2968 resources (00:01.042 / 00:22.867, 176Mb) Sushi: info Loaded hl7.fhir.eu.extensions.r4#0.1.1-ballot with 7 resources (00:00.004 / 00:22.872, 176Mb) Sushi: info Loaded hl7.fhir.eu.laboratory#0.1.1 with 63 resources (00:00.032 / 00:22.904, 176Mb) Sushi: info Loaded hl7.fhir.eu.base#0.1.0-ballot with 23 resources (00:00.013 / 00:22.918, 176Mb) Sushi: info Loaded ihe.pharm.mpd.r4#1.0.0-comment-2 with 48 resources (00:00.013 / 00:22.932, 176Mb) 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 / 00:22.932, 176Mb) Sushi: info Downloaded hl7.fhir.r4.core#4.0.1 (00:03.449 / 00:26.382, 176Mb) 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 / 00:26.384, 176Mb) Sushi: info Loaded hl7.fhir.r4.core#4.0.1 with 4581 resources (00:01.173 / 00:27.557, 176Mb) Sushi: info Loaded virtual package sushi-local#LOCAL with 0 resources (00:00.005 / 00:27.562, 176Mb) Sushi: info Converting FSH to FHIR resources... (00:00.017 / 00:27.580, 176Mb) Sushi: info Converted 63 FHIR StructureDefinitions. (00:25.033 / 00:52.614, 176Mb) Sushi: info Converted 1 FHIR CodeSystems. (00:00.017 / 00:52.631, 176Mb) Sushi: info Converted 17 FHIR ValueSets. (00:01.035 / 00:53.667, 176Mb) Sushi: info Converted 89 FHIR instances. (00:11.074 / 01:04.741, 176Mb) Sushi: info Exporting FHIR resources as JSON... (00:00.000 / 01:04.742, 176Mb) Sushi: info Exported 129 FHIR resources as JSON. (00:00.495 / 01:05.237, 176Mb) Sushi: info Assembling Implementation Guide sources... (00:00.003 / 01:05.241, 176Mb) Sushi: info Generated ImplementationGuide-hl7.fhir.eu.hdr.json (00:00.035 / 01:05.276, 176Mb) Sushi: info Assembled Implementation Guide sources; ready for IG Publisher. (00:00.000 / 01:05.276, 176Mb) Sushi: ========================= SUSHI RESULTS =========================== (00:00.001 / 01:05.278, 176Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 01:05.278, 176Mb) Sushi: | | Profiles | Extensions | Logicals | Resources | | (00:00.000 / 01:05.278, 176Mb) Sushi: | |-------------------------------------------------------------| | (00:00.000 / 01:05.278, 176Mb) Sushi: | | 48 | 1 | 14 | 0 | | (00:00.000 / 01:05.278, 176Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 01:05.279, 176Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 01:05.279, 176Mb) Sushi: | | ValueSets | CodeSystems | Instances | | (00:00.000 / 01:05.279, 176Mb) Sushi: | |-------------------------------------------------------------| | (00:00.000 / 01:05.279, 176Mb) Sushi: | | 17 | 1 | 89 | | (00:00.000 / 01:05.279, 176Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 01:05.279, 176Mb) Sushi: | | (00:00.000 / 01:05.279, 176Mb) Sushi: =================================================================== (00:00.000 / 01:05.280, 176Mb) Sushi: | You've proven any-fin is possible. 0 Errors 0 Warnings | (00:00.000 / 01:05.280, 176Mb) Sushi: =================================================================== (00:00.000 / 01:05.280, 176Mb) Root directory: /scratch/repo (00:00.051 / 01:05.331, 176Mb) Unable to load IG as an r5 IG - try R4 (property code is a class com.google.gson.JsonPrimitive looking for an object) (00:00.563 / 01:05.895, 64Mb) Load Template from #ig-template (00:00.499 / 01:06.395, 65Mb) Load Template from hl7.fhir.template#current (00:00.002 / 01:06.397, 65Mb) Installing hl7.fhir.template#current to the package cache  Fetching:  Installing hl7.fhir.template#current  done.  Load Template from hl7.base.template#current (00:00.375 / 01:06.773, 65Mb) Installing hl7.base.template#current to the package cache  Fetching:  Installing hl7.base.template#current  done.  Load Template from fhir2.base.template#current (00:00.202 / 01:06.975, 72Mb) Installing fhir2.base.template#current to the package cache  Fetching:  Installing fhir2.base.template#current  done. Terminology Cache is at /scratch/repo/input-cache/txcache. Trimming now (00:03.369 / 01:10.344, 376Mb) Core Package hl7.fhir.r4.core#4.0.1 (00:00.000 / 01:10.345, 376Mb) Running Terminology Log: /tmp/ohfu-fhir-ig-15076949266591069424.html Connect to Terminology Server at http://tx.fhir.org (00:34.767 / 01:45.112, 590Mb) 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 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 Load Package hl7.fhir.eu.extensions.r4#0.1.1-ballot Installing hl7.fhir.eu.extensions#0.1.x to the package cache  Fetching:  Installing hl7.fhir.eu.extensions#0.1.0  done. Installing hl7.terminology.r4#5.3.0 to the package cache  Fetching:  Installing hl7.terminology.r4#5.3.0  done. Load Package hl7.terminology.r4#5.3.0 Installing hl7.fhir.uv.extensions.r4#1.0.0 to the package cache  Fetching:  Installing hl7.fhir.uv.extensions.r4#1.0.0  done. Load Package hl7.fhir.uv.extensions.r4#1.0.0 Load Package hl7.fhir.eu.extensions#0.1.0 Load Package hl7.fhir.eu.laboratory#0.1.1 Installing hl7.terminology.r4#6.3.0 to the package cache  Fetching:  Installing hl7.terminology.r4#6.3.0  done. Load Package hl7.terminology.r4#6.3.0 Load Package hl7.fhir.eu.base#0.1.0-ballot Load Package ihe.pharm.mpd.r4#1.0.0-comment-2 Load Package hl7.fhir.uv.tools.r4#0.8.0 Load R5 Specials Initialization complete (01:05.049 / 02:50.161, 8Gb) Load IG (00:00.000 / 02:50.162, 8Gb) Load Translations (00:00.000 / 02:50.162, 8Gb) Load Content (00:00.000 / 02:50.162, 8Gb) Using en as the default narrative language. (Implementation Guide param i18n-default-lang) (00:00.122 / 02:50.285, 8Gb) Process Loaded Resources (00:02.112 / 02:52.397, 8Gb) Generating Snapshots (00:01.295 / 02:53.693, 8Gb) Can't find Quantity profile http://hl7.org/fhir/StructureDefinition/SimpleQuantity but trying to go on 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.eu/fhir/hdr/package-list.json for version check (00:04.367 / 02:58.060, 1Gb) Processing Conformance Resources (00:00.729 / 02:58.789, 1Gb) Checking Language (00:00.000 / 02:58.789, 1Gb) Load Dependency Info (00:00.003 / 02:58.792, 1Gb) Load Info (00:00.001 / 02:58.794, 1Gb) Load Paths (00:00.001 / 02:58.795, 1Gb) Check R4 / R4B (00:00.000 / 02:58.795, 1Gb) Assign Comparison Ids (00:00.054 / 02:58.850, 1Gb) Propagating status (00:00.000 / 02:58.851, 1Gb) Generating Narratives (00:00.000 / 02:58.851, 1Gb) Validating Conformance Resources (00:21.789 / 03:20.641, 1Gb) Failed to determine latest version of package hl7.fhir.eu.base from server: https://packages2.fhir.org/packages Failed to determine latest version of package hl7.fhir.eu.base from server: https://packages.fhir.org Failed to determine latest version of package hl7.fhir.eu.base from server: build.fhir.org Latest version of package hl7.fhir.eu.base found locally is 0.1.0-ballot - using that Check profiles & code systems (01:52.353 / 05:12.994, 2Gb) Check realm rules (00:00.013 / 05:13.008, 2Gb) Previous Version Comparison (00:00.000 / 05:13.008, 2Gb) Checking for Bundles to sign (00:00.075 / 05:13.084, 2Gb) Validating Resources (00:00.000 / 05:13.084, 2Gb) Processing Provenance Records (00:15.022 / 05:28.107, 3Gb) Generating Translation artifacts (00:00.000 / 05:28.107, 3Gb) Generating Outputs in /scratch/repo/output (00:00.001 / 05:28.109, 3Gb) Generate Native Outputs (00:00.291 / 05:28.400, 3Gb) Run Template (00:22.175 / 05:50.576, 2Gb) **WARNING** Jira file generation will not be correct because multiple artifacts have the same name (ignoring content in "()"): Allergy Intolerance **WARNING** Jira file generation will not be correct because multiple artifacts have the same name (ignoring content in "()"): Allergy Intolerance **WARNING** Jira file generation will not be correct because multiple artifacts have the same name (ignoring content in "()"): Bundle: complete HL7 Europe Hospital Discharge Report **WARNING** Jira file generation will not be correct because multiple artifacts have the same name (ignoring content in "()"): Bundle: complete HL7 Europe Hospital Discharge Report **WARNING** Jira file generation will not be correct because multiple artifacts have the same name (ignoring content in "()"): Bundle: complete HL7 Europe Hospital Discharge Report **WARNING** Jira file generation will not be correct because multiple artifacts have the same name (ignoring content in "()"): Observation: Imaging Finding Generate HTML Outputs (00:05.099 / 05:55.676, 2Gb) Generate Spreadsheets (03:19.464 / 09:15.141, 3Gb) Generate Summaries (00:13.397 / 09:28.538, 3Gb) Generating Summary Outputs (en) (00:00.000 / 09:28.538, 3Gb) DB Cumulative Time invested: 00:01:47.171 Sending Usage Stats to Server (00:28.018 / 09:56.557, 2Gb) ## Memory (MB): Use = 2910, Free = 16097, Total = 19008, Max = 19008 (00:00.017 / 09:56.574, 2Gb) Reclaiming memory... (00:00.000 / 09:56.574, 2Gb) ## Memory (MB): Use = 1456, Free = 17551, Total = 19008, Max = 19008 (00:01.170 / 09:57.746, 1Gb) Run jekyll: jekyll build --destination "/scratch/repo/output" (in folder /scratch/repo/temp/pages) (00:00.002 / 09:57.747, 1Gb) Troubleshooting Note: usual cases for Jekyll to fail are: (00:00.000 / 09:57.747, 1Gb) * A failure to produce a fragment that is already logged in the output above (00:00.000 / 09:57.747, 1Gb) * A reference to a manually edited file that hasn't been provided (00:00.000 / 09:57.748, 1Gb) Jekyll: Source: /scratch/repo/temp/pages (00:00.448 / 09:58.196, 1Gb) Jekyll: Generating... (00:00.000 / 09:58.196, 1Gb) Jekyll has failed. Complete output from running Jekyll:  Liquid Exception: Could not locate the included file 'ip-statements.xhtml' in any of ["/scratch/repo/temp/pages/_includes"]. Ensure it exists in one of those directories and, if it is a symlink, does not point outside your site source. in en/copyrig (00:08.757 / 10:06.953, 1Gb) Note: Check that Jekyll is installed correctly (00:00.000 / 10:06.954, 1Gb) Publishing Content Failed: Process exited with an error: 1 (Exit value: 1) (00:00.030 / 10:06.984, 1Gb) (00:00.000 / 10:06.984, 1Gb) Use -? to get command line help (00:00.000 / 10:06.985, 1Gb) (00:00.000 / 10:06.985, 1Gb) Stack Dump (for debugging): (00:00.000 / 10:06.985, 1Gb) org.apache.commons.exec.ExecuteException: Process exited with an error: 1 (Exit value: 1) at org.apache.commons.exec.DefaultExecutor.executeInternal(DefaultExecutor.java:404) at org.apache.commons.exec.DefaultExecutor.execute(DefaultExecutor.java:166) at org.apache.commons.exec.DefaultExecutor.execute(DefaultExecutor.java:153) at org.hl7.fhir.igtools.publisher.PublisherGenerator.runJekyll(PublisherGenerator.java:3707) at org.hl7.fhir.igtools.publisher.PublisherGenerator.runTool(PublisherGenerator.java:3594) at org.hl7.fhir.igtools.publisher.PublisherGenerator.generate(PublisherGenerator.java:361) at org.hl7.fhir.igtools.publisher.Publisher.createIg(Publisher.java:396) at org.hl7.fhir.igtools.publisher.Publisher.execute(Publisher.java:218) at org.hl7.fhir.igtools.publisher.Publisher.main(Publisher.java:1487)