INFO:root:about to clone! DEBUG:root:running: git clone --recursive https://github.com/FirelyTeam/enhancing-oncology-model-ig --branch jan2025-updates repo DEBUG:root:Time to deadline 35879.996384 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 35879.325107 seconds DEBUG:root:running: npm -g install fsh-sushi DEBUG:root:Time to deadline 35878.049015 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 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 -> 11.5.2 npm notice Changelog: npm notice Run `npm install -g npm@11.5.2` 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/FirelyTeam/enhancing-oncology-model-ig/ -out /scratch/repo DEBUG:root:Time to deadline 35869.518636 seconds FHIR IG Publisher Version 2.0.13 (Git# bdf473444570). Built 2025-08-07T03:35:38.89Z (13 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/FirelyTeam/enhancing-oncology-model-ig/ -out /scratch/repo Character encoding = UTF-8 / UTF-8 Start Clock @ Wednesday, August 20, 2025, 11:02:27 PM Coordinated Universal Time (2025-08-20T23:02:27Z) Build FHIR IG from /scratch/repo (00:00.037 / 00:00.038, 97Mb) API keys loaded from /etc/fhir-settings.json (00:00.003 / 00:00.041, 97Mb) Package Cache: /var/lib/.fhir/packages (00:00.004 / 00:00.046, 97Mb) Root directory: /scratch/repo (00:00.008 / 00:00.054, 97Mb) Unable to load IG as an r5 IG - try R4 (property code is a class com.google.gson.JsonPrimitive looking for an object) (00:00.925 / 00:00.980, 37Mb) Load Template from fhir.base.template#current (00:00.899 / 00:01.879, 70Mb) 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 (00:08.015 / 00:09.894, 132Mb) Core Package hl7.fhir.r4.core#4.0.1 (00:00.000 / 00:09.895, 132Mb) 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-11484493501016107257.html Connect to Terminology Server at http://tx.fhir.org (00:50.581 / 01:00.477, 950Mb) 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 Installing hl7.terminology.r4#6.5.0 to the package cache  Fetching:  Installing hl7.terminology.r4#6.5.0  done. Load Package hl7.terminology.r4#6.5.0 Installing hl7.fhir.us.mcode#3.0.0 to the package cache  Fetching:  Installing hl7.fhir.us.mcode#3.0.0  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.us.core#5.0.1 to the package cache  Fetching:  Installing hl7.fhir.us.core#5.0.1  done. Installing hl7.terminology.r4#3.1.0 to the package cache  Fetching:  Installing hl7.terminology.r4#3.1.0  done. Load Package hl7.terminology.r4#3.1.0 Installing hl7.fhir.uv.bulkdata#2.0.0 to the package cache  Fetching:  Installing hl7.fhir.uv.bulkdata#2.0.0  done. Load Package hl7.fhir.uv.bulkdata#2.0.0 Installing hl7.fhir.uv.smart-app-launch#2.0.0 to the package cache  Fetching:  Installing hl7.fhir.uv.smart-app-launch#2.0.0  done. Load Package hl7.fhir.uv.smart-app-launch#2.0.0 Installing us.nlm.vsac#0.7.0 to the package cache  Fetching:  Installing us.nlm.vsac#0.7.0  done. Load Package us.nlm.vsac#0.7.0 Installing hl7.fhir.uv.sdc#3.0.0 to the package cache  Fetching:  Installing hl7.fhir.uv.sdc#3.0.0  done. Ignore Dependency on Core FHIR hl7.fhir.r4.examples#4.0.1, from package 'hl7.fhir.uv.sdc#3.0.0' (03:01.417 / 04:01.894, 571Mb) Load Package hl7.fhir.uv.sdc#3.0.0 Load Package hl7.fhir.us.core#5.0.1 Installing hl7.fhir.uv.genomics-reporting#2.0.0 to the package cache  Fetching:  Installing hl7.fhir.uv.genomics-reporting#2.0.0  done. Load Package hl7.fhir.uv.genomics-reporting#2.0.0 Installing hl7.fhir.uv.extensions.r4#5.1.0-ballot1 to the package cache  Fetching:  Installing hl7.fhir.uv.extensions.r4#5.1.0  done. Load Package hl7.fhir.uv.extensions.r4#5.1.0 Load Package hl7.fhir.us.mcode#3.0.0 Load Package hl7.fhir.us.core#5.0.1 Load Package hl7.fhir.uv.genomics-reporting#2.0.0 Installing hl7.fhir.uv.extensions#current to the package cache  Fetching:  Installing hl7.fhir.uv.extensions#current  done. Version mismatch. This IG is version 4.0.1, while the IG 'hl7.fhir.uv.extensions' is from version 5.0.0 (will try to run anyway) (00:08.090 / 04:09.985, 855Mb) Installing hl7.terminology.r5#6.5.0 to the package cache  Fetching:  Installing hl7.terminology.r5#6.5.0  done. Installing hl7.fhir.uv.extensions.r5#5.2.0 to the package cache  Fetching:  Installing hl7.fhir.uv.extensions.r5#5.2.0  done. Version mismatch. This IG is for FHIR version 4.0.1, while the package 'hl7.terminology.r5#6.5.0' is for FHIR version 5.0.0 (will ignore that and try to run anyway) (00:02.919 / 04:12.904, 1Gb) Ignore Dependency on Core FHIR hl7.fhir.r5.core#5.0.0, from package 'hl7.fhir.uv.extensions.r5#5.2.0' (00:00.011 / 04:12.916, 1Gb) Load Package hl7.fhir.uv.extensions.r5#5.2.0 Load Package hl7.terminology.r5#6.5.0 Load Package hl7.fhir.uv.extensions#current 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 (00:14.245 / 04:27.162, 1Gb) Load IG (00:00.000 / 04:27.162, 1Gb) Load Content (00:00.001 / 04:27.165, 1Gb) Using en-US as the default narrative language. (no language information in Implementation Guide) (00:00.178 / 04:27.343, 1Gb) Process Loaded Resources (00:03.412 / 04:30.756, 910Mb) Publishing Content Failed: Error parsing /scratch/repo/input/resources/StructureDefinition-eom-tnm-primary-tumor-category: Error parsing JSON source: JSON syntax error - found Close expecting String at Line 143 (path=[//snapshot/element[]/element/constraint[]/sourceObservation.focus.resolve().ofType(Condition).code.where(memberOf('https://globalalliantinc.com/enhancing-oncology-model/ValueSet/eom-primary-breast-cancer-disorder-vs')).exists() implies Observation.value.where(memberOf('https://globalalliantinc.com/enhancing-oncology-model/ValueSet/eom-tnm-primary-tumor-category-breast-cancer-vs'))]) (00:01.511 / 04:32.267, 1Gb) (00:00.000 / 04:32.268, 1Gb) Use -? to get command line help (00:00.000 / 04:32.268, 1Gb) (00:00.000 / 04:32.268, 1Gb) Stack Dump (for debugging): (00:00.000 / 04:32.268, 1Gb) org.hl7.fhir.exceptions.FHIRException: Error parsing /scratch/repo/input/resources/StructureDefinition-eom-tnm-primary-tumor-category: Error parsing JSON source: JSON syntax error - found Close expecting String at Line 143 (path=[//snapshot/element[]/element/constraint[]/sourceObservation.focus.resolve().ofType(Condition).code.where(memberOf('https://globalalliantinc.com/enhancing-oncology-model/ValueSet/eom-primary-breast-cancer-disorder-vs')).exists() implies Observation.value.where(memberOf('https://globalalliantinc.com/enhancing-oncology-model/ValueSet/eom-tnm-primary-tumor-category-breast-cancer-vs'))]) at org.hl7.fhir.igtools.publisher.Publisher.loadResourceContent(Publisher.java:7398) at org.hl7.fhir.igtools.publisher.Publisher.load(Publisher.java:7376) at org.hl7.fhir.igtools.publisher.Publisher.loadConformance1(Publisher.java:6394) at org.hl7.fhir.igtools.publisher.Publisher.load(Publisher.java:4904) at org.hl7.fhir.igtools.publisher.Publisher.createIg(Publisher.java:1163) at org.hl7.fhir.igtools.publisher.Publisher.execute(Publisher.java:1026) at org.hl7.fhir.igtools.publisher.Publisher.main(Publisher.java:15790) Caused by: java.io.IOException: Error parsing JSON source: JSON syntax error - found Close expecting String at Line 143 (path=[//snapshot/element[]/element/constraint[]/sourceObservation.focus.resolve().ofType(Condition).code.where(memberOf('https://globalalliantinc.com/enhancing-oncology-model/ValueSet/eom-primary-breast-cancer-disorder-vs')).exists() implies Observation.value.where(memberOf('https://globalalliantinc.com/enhancing-oncology-model/ValueSet/eom-tnm-primary-tumor-category-breast-cancer-vs'))]) at org.hl7.fhir.utilities.json.JsonTrackingParser$Lexer.error(JsonTrackingParser.java:209) at org.hl7.fhir.utilities.json.JsonTrackingParser$Lexer.consume(JsonTrackingParser.java:348) at org.hl7.fhir.utilities.json.JsonTrackingParser.parseProperty(JsonTrackingParser.java:632) at org.hl7.fhir.utilities.json.JsonTrackingParser.next(JsonTrackingParser.java:606) at org.hl7.fhir.utilities.json.JsonTrackingParser.next(JsonTrackingParser.java:583) at org.hl7.fhir.utilities.json.JsonTrackingParser.readObject(JsonTrackingParser.java:525) at org.hl7.fhir.utilities.json.JsonTrackingParser.readArray(JsonTrackingParser.java:539) at org.hl7.fhir.utilities.json.JsonTrackingParser.readObject(JsonTrackingParser.java:514) at org.hl7.fhir.utilities.json.JsonTrackingParser.readArray(JsonTrackingParser.java:539) at org.hl7.fhir.utilities.json.JsonTrackingParser.readObject(JsonTrackingParser.java:514) at org.hl7.fhir.utilities.json.JsonTrackingParser.readObject(JsonTrackingParser.java:466) at org.hl7.fhir.utilities.json.JsonTrackingParser.parse(JsonTrackingParser.java:441) at org.hl7.fhir.utilities.json.JsonTrackingParser.parse(JsonTrackingParser.java:417) at org.hl7.fhir.r4.formats.JsonParserBase.loadJson(JsonParserBase.java:220) at org.hl7.fhir.r4.formats.JsonParserBase.parse(JsonParserBase.java:130) at org.hl7.fhir.r4.formats.ParserBase.parse(ParserBase.java:58) at org.hl7.fhir.igtools.publisher.Publisher.parseContent(Publisher.java:8273) at org.hl7.fhir.igtools.publisher.Publisher.parse(Publisher.java:8360) at org.hl7.fhir.igtools.publisher.Publisher.loadResourceContent(Publisher.java:7393) ... 6 more