INFO:root:about to clone! DEBUG:root:running: git clone --recursive https://github.com/costateixeira/commonprofiles --branch master repo DEBUG:root:Time to deadline 35879.997301 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 35879.626391 seconds DEBUG:root:running: npm -g install fsh-sushi DEBUG:root:Time to deadline 35878.653365 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 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 -> 11.5.1 npm notice Changelog: npm notice Run `npm install -g npm@11.5.1` 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/costateixeira/commonprofiles/ -out /scratch/repo DEBUG:root:Time to deadline 35870.134833 seconds FHIR IG Publisher Version 2.0.11 (Git# 321ce468cbb9). Built 2025-07-23T06:49:49.649Z (61 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/costateixeira/commonprofiles/ -out /scratch/repo Character encoding = UTF-8 / UTF-8 Start Clock @ Friday, July 25, 2025, 8:00:27 PM Coordinated Universal Time (2025-07-25T20:00:27Z) Build FHIR IG from /scratch/repo (00:00.032 / 00:00.032, 97Mb) API keys loaded from /etc/fhir-settings.json (00:00.002 / 00:00.035, 97Mb) Package Cache: /var/lib/.fhir/packages (00:00.003 / 00:00.038, 97Mb) Run Sushi on /scratch/repo (00:00.006 / 00:00.044, 97Mb) Sushi: info Running SUSHI v3.16.3 (implements FHIR Shorthand specification v3.0.0) (00:00.789 / 00:00.834, 113Mb) Sushi: info Arguments: (00:00.000 / 00:00.835, 113Mb) Sushi: info --require-latest (00:00.000 / 00:00.835, 113Mb) Sushi: info --out /scratch/repo (00:00.000 / 00:00.835, 113Mb) Sushi: info /scratch/repo (00:00.000 / 00:00.836, 113Mb) Sushi: info Using configuration file: /scratch/repo/sushi-config.yaml (00:00.623 / 00:01.459, 113Mb) Sushi: info Importing FSH text... (00:00.122 / 00:01.582, 113Mb) Sushi: info Preprocessed 0 documents with 0 aliases. (00:00.000 / 00:01.583, 113Mb) Sushi: info Imported 0 definitions and 0 instances. (00:00.000 / 00:01.583, 113Mb) Sushi: info Loaded virtual package sushi-r5forR4#1.0.0 with 7 resources (00:00.125 / 00:01.709, 113Mb) Sushi: info Resolved hl7.fhir.uv.tools.r4#latest to concrete version 0.7.0 (00:00.592 / 00:02.302, 113Mb) Sushi: info Attempting to download hl7.fhir.uv.tools.r4#0.7.0 from https://packages.fhir.org/hl7.fhir.uv.tools.r4/0.7.0 (00:00.001 / 00:02.303, 113Mb) Sushi: info Downloaded hl7.fhir.uv.tools.r4#0.7.0 (00:00.814 / 00:03.118, 113Mb) Sushi: info Cached hl7.fhir.uv.tools.r4#0.7.0 to /home/fhiruser/.fhir/packages/hl7.fhir.uv.tools.r4#0.7.0 (00:00.003 / 00:03.121, 113Mb) Sushi: info Loaded hl7.fhir.uv.tools.r4#0.7.0 with 105 resources (00:00.059 / 00:03.181, 113Mb) Sushi: info Resolved hl7.terminology.r4#latest to concrete version 6.5.0 (00:00.463 / 00:03.644, 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 / 00:03.645, 113Mb) Sushi: info Downloaded hl7.terminology.r4#6.5.0 (00:02.949 / 00:06.594, 113Mb) Sushi: info Cached hl7.terminology.r4#6.5.0 to /home/fhiruser/.fhir/packages/hl7.terminology.r4#6.5.0 (00:00.001 / 00:06.596, 113Mb) Sushi: info Loaded hl7.terminology.r4#6.5.0 with 4392 resources (00:01.485 / 00:08.081, 113Mb) Sushi: info Resolved hl7.fhir.uv.extensions.r4#latest to concrete version 5.2.0 (00:00.433 / 00:08.515, 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 / 00:08.515, 113Mb) Sushi: info Downloaded hl7.fhir.uv.extensions.r4#5.2.0 (00:01.364 / 00:09.880, 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 / 00:09.881, 113Mb) Sushi: info Loaded hl7.fhir.uv.extensions.r4#5.2.0 with 759 resources (00:00.274 / 00:10.156, 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 / 00:10.157, 113Mb) Sushi: info Downloaded hl7.fhir.r4.core#4.0.1 (00:03.229 / 00:13.386, 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 / 00:13.388, 113Mb) Sushi: info Loaded hl7.fhir.r4.core#4.0.1 with 4581 resources (00:01.289 / 00:14.677, 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. (00:00.011 / 00:14.689, 113Mb) Sushi: info Found 1 non-JSON / non-XML file(s) in directory: /scratch/repo/input/extensions. Only resource files with JSON or XML extensions are supported. To see the skipped files in the logs, use debug logging. (00:00.000 / 00:14.689, 113Mb) Sushi: info Found 1 non-JSON / non-XML file(s) in directory: /scratch/repo/input/models. Only resource files with JSON or XML extensions are supported. To see the skipped files in the logs, use debug logging. (00:00.000 / 00:14.690, 113Mb) Sushi: info Found 1 non-JSON / non-XML file(s) in directory: /scratch/repo/input/profiles. Only resource files with JSON or XML extensions are supported. To see the skipped files in the logs, use debug logging. (00:00.000 / 00:14.690, 113Mb) Sushi: info Found 1 non-JSON / non-XML file(s) in directory: /scratch/repo/input/resources. Only resource files with JSON or XML extensions are supported. To see the skipped files in the logs, use debug logging. (00:00.000 / 00:14.690, 113Mb) Sushi: info Found 1 non-JSON / non-XML file(s) in directory: /scratch/repo/input/vocabulary. Only resource files with JSON or XML extensions are supported. To see the skipped files in the logs, use debug logging. (00:00.000 / 00:14.691, 113Mb) Sushi: info Loaded virtual package sushi-local#LOCAL with 0 resources (00:00.001 / 00:14.692, 113Mb) Sushi: info Converting FSH to FHIR resources... (00:00.016 / 00:14.709, 113Mb) Sushi: info Exporting FHIR resources as JSON... (00:00.006 / 00:14.715, 113Mb) Sushi: info Exported 0 FHIR resources as JSON. (00:00.000 / 00:14.716, 113Mb) Sushi: info Assembling Implementation Guide sources... (00:00.002 / 00:14.719, 113Mb) Sushi: warn (00:00.018 / 00:14.738, 113Mb) Sushi: !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!! IMPORTANT !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!! (00:00.000 / 00:14.738, 113Mb) Sushi: Your ig.ini file does NOT point to the Implementation Guide resource that SUSHI generates. As a (00:00.000 / 00:14.738, 113Mb) Sushi: result, the IG Publisher will IGNORE the SUSHI-generated ImplementationGuide resource. To fix this, (00:00.000 / 00:14.739, 113Mb) Sushi: please do one of the following: (00:00.000 / 00:14.739, 113Mb) Sushi: - Update your ig.ini file with 'ig = fsh-generated/resources/ImplementationGuide-my-ig.json' (recommended), or (00:00.000 / 00:14.739, 113Mb) Sushi: - Update your sushi-config.yaml file with 'FSHOnly: true' to tell SUSHI NOT to generate the IG resource (00:00.000 / 00:14.739, 113Mb) Sushi: info Generated ImplementationGuide-my-ig.json (00:00.000 / 00:14.740, 113Mb) Sushi: info Assembled Implementation Guide sources; ready for IG Publisher. (00:00.000 / 00:14.740, 113Mb) Sushi: ========================= SUSHI RESULTS =========================== (00:00.003 / 00:14.744, 113Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:14.744, 113Mb) Sushi: | | Profiles | Extensions | Logicals | Resources | | (00:00.000 / 00:14.745, 113Mb) Sushi: | |-------------------------------------------------------------| | (00:00.000 / 00:14.745, 113Mb) Sushi: | | 0 | 0 | 0 | 0 | | (00:00.000 / 00:14.745, 113Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:14.745, 113Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:14.746, 113Mb) Sushi: | | ValueSets | CodeSystems | Instances | | (00:00.000 / 00:14.746, 113Mb) Sushi: | |-------------------------------------------------------------| | (00:00.000 / 00:14.746, 113Mb) Sushi: | | 0 | 0 | 0 | | (00:00.000 / 00:14.746, 113Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:14.746, 113Mb) Sushi: | | (00:00.000 / 00:14.747, 113Mb) Sushi: =================================================================== (00:00.000 / 00:14.747, 113Mb) Sushi: | Don't get stuck in the doldrums. 0 Errors 1 Warning | (00:00.000 / 00:14.747, 113Mb) Sushi: =================================================================== (00:00.000 / 00:14.747, 113Mb) Unable to load IG as an r5 IG - try R4 (/scratch/repo/fsh-generated/ImplementationGuide-my-ig.json) (00:00.028 / 00:14.776, 113Mb) Publishing Content Failed: Error Parsing File /scratch/repo/fsh-generated/ImplementationGuide-my-ig.json: /scratch/repo/fsh-generated/ImplementationGuide-my-ig.json (00:00.058 / 00:14.835, 119Mb) (00:00.000 / 00:14.835, 119Mb) Use -? to get command line help (00:00.000 / 00:14.835, 119Mb) (00:00.000 / 00:14.835, 119Mb) Stack Dump (for debugging): (00:00.000 / 00:14.835, 119Mb) java.lang.Exception: Error Parsing File /scratch/repo/fsh-generated/ImplementationGuide-my-ig.json: /scratch/repo/fsh-generated/ImplementationGuide-my-ig.json at org.hl7.fhir.igtools.publisher.Publisher.initializeFromIg(Publisher.java:2963) at org.hl7.fhir.igtools.publisher.Publisher.initialize(Publisher.java:2761) at org.hl7.fhir.igtools.publisher.Publisher.execute(Publisher.java:1023) at org.hl7.fhir.igtools.publisher.Publisher.main(Publisher.java:15805) Caused by: java.nio.file.NoSuchFileException: /scratch/repo/fsh-generated/ImplementationGuide-my-ig.json at java.base/sun.nio.fs.UnixException.translateToIOException(UnixException.java:92) at java.base/sun.nio.fs.UnixException.rethrowAsIOException(UnixException.java:106) at java.base/sun.nio.fs.UnixException.rethrowAsIOException(UnixException.java:111) at java.base/sun.nio.fs.UnixFileSystemProvider.newByteChannel(UnixFileSystemProvider.java:261) at java.base/java.nio.file.Files.newByteChannel(Files.java:379) at java.base/java.nio.file.Files.newByteChannel(Files.java:431) at java.base/java.nio.file.Files.readAllBytes(Files.java:3267) at org.hl7.fhir.utilities.FileUtilities.fileToBytes(FileUtilities.java:108) at org.hl7.fhir.r4.formats.FormatUtilities.loadFile(FormatUtilities.java:179) at org.hl7.fhir.igtools.publisher.Publisher.initializeFromIg(Publisher.java:2960) ... 3 more