INFO:root:about to clone! DEBUG:root:running: git clone --recursive https://github.com/medizininformatik-initiative/kerndatensatzmodul-molekulares-tumorboard --branch dev repo DEBUG:root:Time to deadline 35879.997806 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 35878.976898 seconds DEBUG:root:running: npm -g install fsh-sushi DEBUG:root:Time to deadline 35877.957366 seconds 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. npm WARN deprecated rimraf@2.6.3: Rimraf versions prior to v4 are no longer supported added 140 packages in 6s 14 packages are looking for funding run `npm fund` for details npm notice npm notice New major version of npm available! 9.8.1 -> 11.6.0 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/medizininformatik-initiative/kerndatensatzmodul-molekulares-tumorboard/ -out /scratch/repo DEBUG:root:Time to deadline 35871.61096 seconds FHIR IG Publisher Version 2.0.17 (Git# 98facbadd305). Built 2025-09-09T06:53:45.198Z (14 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/medizininformatik-initiative/kerndatensatzmodul-molekulares-tumorboard/ -out /scratch/repo Character encoding = UTF-8 / UTF-8 Start Clock @ Tuesday, September 23, 2025, 8:34:14 AM Coordinated Universal Time (2025-09-23T08:34:14Z) Build FHIR IG from /scratch/repo (00:00.031 / 00:00.032, 97Mb) API keys loaded from /etc/fhir-settings.json (00:00.003 / 00:00.035, 97Mb) Package Cache: /var/lib/.fhir/packages (00:00.003 / 00:00.038, 97Mb) Found dependency on de.basisprofil.r4#1.5.3 in Sushi config. Pre-installing (00:00.006 / 00:00.045, 97Mb) Installing de.basisprofil.r4#1.5.3 to the package cache  Fetching:  Installing de.basisprofil.r4#1.5.3  done. Found dependency on de.medizininformatikinitiative.kerndatensatz.biobank#2025.0.x in Sushi config. Pre-installing (00:02.845 / 00:02.890, 87Mb) Installing de.medizininformatikinitiative.kerndatensatz.biobank#2025.0.x to the package cache  Fetching:  Installing de.medizininformatikinitiative.kerndatensatz.biobank#2025.0.4  done. Found dependency on de.medizininformatikinitiative.kerndatensatz.consent#2025.0.x in Sushi config. Pre-installing (00:00.536 / 00:03.427, 87Mb) Installing de.medizininformatikinitiative.kerndatensatz.consent#2025.0.x to the package cache  Fetching:  Installing de.medizininformatikinitiative.kerndatensatz.consent#2025.0.4  done. Found dependency on de.medizininformatikinitiative.kerndatensatz.diagnose#2025.0.x in Sushi config. Pre-installing (00:00.334 / 00:03.761, 87Mb) Installing de.medizininformatikinitiative.kerndatensatz.diagnose#2025.0.x to the package cache  Fetching:  Installing de.medizininformatikinitiative.kerndatensatz.diagnose#2025.0.0  done. Found dependency on de.medizininformatikinitiative.kerndatensatz.fall#2025.0.x in Sushi config. Pre-installing (00:00.326 / 00:04.088, 100Mb) Installing de.medizininformatikinitiative.kerndatensatz.fall#2025.0.x to the package cache  Fetching:  Installing de.medizininformatikinitiative.kerndatensatz.fall#2025.0.0  done. Found dependency on de.medizininformatikinitiative.kerndatensatz.medikation#2025.0.x in Sushi config. Pre-installing (00:00.382 / 00:04.470, 103Mb) Installing de.medizininformatikinitiative.kerndatensatz.medikation#2025.0.x to the package cache  Fetching:  Installing de.medizininformatikinitiative.kerndatensatz.medikation#2025.0.0  done. Found dependency on de.medizininformatikinitiative.kerndatensatz.meta#2025.0.x in Sushi config. Pre-installing (00:00.585 / 00:05.055, 111Mb) Installing de.medizininformatikinitiative.kerndatensatz.meta#2025.0.x to the package cache  Fetching:  Installing de.medizininformatikinitiative.kerndatensatz.meta#2025.0.0  done. Found dependency on de.medizininformatikinitiative.kerndatensatz.molgen#2026.0.0-alpha.1 in Sushi config. Pre-installing (00:00.911 / 00:05.966, 127Mb) Installing de.medizininformatikinitiative.kerndatensatz.molgen#2026.0.0-alpha.1 to the package cache  Fetching:  Installing de.medizininformatikinitiative.kerndatensatz.molgen#2026.0.0-alpha.1  done. Found dependency on de.medizininformatikinitiative.kerndatensatz.onkologie#2025.1.0-beta in Sushi config. Pre-installing (00:01.003 / 00:06.970, 144Mb) Installing de.medizininformatikinitiative.kerndatensatz.onkologie#2025.1.0-beta to the package cache  Fetching:  Installing de.medizininformatikinitiative.kerndatensatz.onkologie#2025.1.0-beta  done. Found dependency on de.medizininformatikinitiative.kerndatensatz.patho#2025.0.x in Sushi config. Pre-installing (00:02.051 / 00:09.022, 183Mb) Installing de.medizininformatikinitiative.kerndatensatz.patho#2025.0.x to the package cache  Fetching:  Installing de.medizininformatikinitiative.kerndatensatz.patho#2025.0.2  done. Found dependency on de.medizininformatikinitiative.kerndatensatz.person#2025.0.x in Sushi config. Pre-installing (00:00.709 / 00:09.732, 192Mb) Installing de.medizininformatikinitiative.kerndatensatz.person#2025.0.x to the package cache  Fetching:  Installing de.medizininformatikinitiative.kerndatensatz.person#2025.0.0  done. Found dependency on de.medizininformatikinitiative.kerndatensatz.prozedur#2025.0.x in Sushi config. Pre-installing (00:00.392 / 00:10.125, 196Mb) Installing de.medizininformatikinitiative.kerndatensatz.prozedur#2025.0.x to the package cache  Fetching:  Installing de.medizininformatikinitiative.kerndatensatz.prozedur#2025.0.0  done. Found dependency on de.medizininformatikinitiative.kerndatensatz.studie#2025.0.x in Sushi config. Pre-installing (00:00.288 / 00:10.414, 207Mb) Installing de.medizininformatikinitiative.kerndatensatz.studie#2025.0.x to the package cache  Fetching:  Installing de.medizininformatikinitiative.kerndatensatz.studie#2025.0.0  done. Found dependency on hl7.fhir.uv.genomics-reporting#3.0.0 in Sushi config. Pre-installing (00:00.493 / 00:10.907, 212Mb) Installing hl7.fhir.uv.genomics-reporting#3.0.0 to the package cache  Fetching:  Installing hl7.fhir.uv.genomics-reporting#3.0.0  done. Run Sushi on /scratch/repo (00:01.736 / 00:12.643, 231Mb) Sushi: info Running SUSHI v3.16.5 (implements FHIR Shorthand specification v3.0.0) (00:00.830 / 00:13.474, 231Mb) Sushi: info Arguments: (00:00.000 / 00:13.475, 231Mb) Sushi: info --require-latest (00:00.000 / 00:13.475, 231Mb) Sushi: info --out /scratch/repo (00:00.000 / 00:13.475, 231Mb) Sushi: info /scratch/repo (00:00.000 / 00:13.476, 231Mb) Sushi: info Using configuration file: /scratch/repo/sushi-config.yaml (00:00.774 / 00:14.250, 231Mb) Sushi: info Importing FSH text... (00:00.170 / 00:14.420, 231Mb) Sushi: info Preprocessed 192 documents with 118 aliases. (00:00.995 / 00:15.416, 231Mb) Sushi: info Imported 106 definitions and 196 instances. (00:01.089 / 00:16.505, 231Mb) Sushi: info Loaded virtual package sushi-r5forR4#1.0.0 with 7 resources (00:00.192 / 00:16.697, 231Mb) Sushi: info Resolved hl7.fhir.uv.tools.r4#latest to concrete version 0.8.0 (00:00.672 / 00:17.370, 231Mb) 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 / 00:17.371, 231Mb) Sushi: info Downloaded hl7.fhir.uv.tools.r4#0.8.0 (00:00.863 / 00:18.235, 231Mb) 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 / 00:18.238, 231Mb) Sushi: info Loaded hl7.fhir.uv.tools.r4#0.8.0 with 110 resources (00:00.089 / 00:18.327, 231Mb) Sushi: info Resolved hl7.terminology.r4#latest to concrete version 6.5.0 (00:00.517 / 00:18.845, 231Mb) 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 / 00:18.846, 231Mb) Sushi: info Downloaded hl7.terminology.r4#6.5.0 (00:03.108 / 00:21.954, 239Mb) Sushi: info Cached hl7.terminology.r4#6.5.0 to /home/fhiruser/.fhir/packages/hl7.terminology.r4#6.5.0 (00:00.001 / 00:21.956, 239Mb) Sushi: info Loaded hl7.terminology.r4#6.5.0 with 4392 resources (00:01.990 / 00:23.947, 239Mb) Sushi: info Resolved hl7.fhir.uv.extensions.r4#latest to concrete version 5.2.0 (00:00.496 / 00:24.444, 239Mb) 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 / 00:24.444, 239Mb) Sushi: info Downloaded hl7.fhir.uv.extensions.r4#5.2.0 (00:01.537 / 00:25.982, 239Mb) 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 / 00:25.983, 239Mb) Sushi: info Loaded hl7.fhir.uv.extensions.r4#5.2.0 with 759 resources (00:00.323 / 00:26.307, 239Mb) Sushi: info Loaded de.basisprofil.r4#1.5.3 with 166 resources (00:00.053 / 00:26.361, 239Mb) Sushi: info Resolved de.medizininformatikinitiative.kerndatensatz.biobank#2025.0.x to concrete version 2025.0.4 (00:00.518 / 00:26.879, 239Mb) Sushi: info Loaded de.medizininformatikinitiative.kerndatensatz.biobank#2025.0.4 with 24 resources (00:00.020 / 00:26.900, 239Mb) Sushi: info Resolved de.medizininformatikinitiative.kerndatensatz.consent#2025.0.x to concrete version 2025.0.4 (00:00.478 / 00:27.378, 239Mb) Sushi: info Loaded de.medizininformatikinitiative.kerndatensatz.consent#2025.0.4 with 15 resources (00:00.006 / 00:27.385, 239Mb) Sushi: info Resolved de.medizininformatikinitiative.kerndatensatz.diagnose#2025.0.x to concrete version 2025.0.0 (00:00.476 / 00:27.862, 239Mb) Sushi: info Loaded de.medizininformatikinitiative.kerndatensatz.diagnose#2025.0.0 with 8 resources (00:00.010 / 00:27.872, 239Mb) Sushi: info Resolved de.medizininformatikinitiative.kerndatensatz.fall#2025.0.x to concrete version 2025.0.0 (00:00.467 / 00:28.340, 239Mb) Sushi: info Loaded de.medizininformatikinitiative.kerndatensatz.fall#2025.0.0 with 11 resources (00:00.011 / 00:28.351, 239Mb) Sushi: info Resolved de.medizininformatikinitiative.kerndatensatz.medikation#2025.0.x to concrete version 2025.0.0 (00:00.469 / 00:28.821, 239Mb) Sushi: info Loaded de.medizininformatikinitiative.kerndatensatz.medikation#2025.0.0 with 13 resources (00:00.033 / 00:28.854, 239Mb) Sushi: info Resolved de.medizininformatikinitiative.kerndatensatz.meta#2025.0.x to concrete version 2025.0.0 (00:00.480 / 00:29.335, 239Mb) Sushi: info Loaded de.medizininformatikinitiative.kerndatensatz.meta#2025.0.0 with 110 resources (00:00.041 / 00:29.377, 239Mb) Sushi: info Loaded de.medizininformatikinitiative.kerndatensatz.molgen#2026.0.0-alpha.1 with 34 resources (00:00.086 / 00:29.463, 239Mb) Sushi: info Loaded de.medizininformatikinitiative.kerndatensatz.onkologie#2025.1.0-beta with 184 resources (00:00.218 / 00:29.681, 239Mb) Sushi: info Resolved de.medizininformatikinitiative.kerndatensatz.patho#2025.0.x to concrete version 2025.0.2 (00:00.463 / 00:30.145, 239Mb) Sushi: info Loaded de.medizininformatikinitiative.kerndatensatz.patho#2025.0.2 with 28 resources (00:00.044 / 00:30.189, 244Mb) Sushi: info Resolved de.medizininformatikinitiative.kerndatensatz.person#2025.0.x to concrete version 2025.0.0 (00:00.475 / 00:30.664, 244Mb) Sushi: info Loaded de.medizininformatikinitiative.kerndatensatz.person#2025.0.0 with 10 resources (00:00.019 / 00:30.684, 244Mb) Sushi: info Resolved de.medizininformatikinitiative.kerndatensatz.prozedur#2025.0.x to concrete version 2025.0.0 (00:00.463 / 00:31.148, 244Mb) Sushi: info Loaded de.medizininformatikinitiative.kerndatensatz.prozedur#2025.0.0 with 8 resources (00:00.007 / 00:31.155, 244Mb) Sushi: info Resolved de.medizininformatikinitiative.kerndatensatz.studie#2025.0.x to concrete version 2025.0.0 (00:00.463 / 00:31.619, 244Mb) Sushi: info Loaded de.medizininformatikinitiative.kerndatensatz.studie#2025.0.0 with 40 resources (00:00.015 / 00:31.635, 244Mb) Sushi: info Loaded hl7.fhir.uv.genomics-reporting#3.0.0 with 93 resources (00:00.077 / 00:31.712, 244Mb) 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 / 00:31.713, 244Mb) Sushi: info Downloaded hl7.fhir.r4.core#4.0.1 (00:03.536 / 00:35.250, 244Mb) 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 / 00:35.252, 244Mb) Sushi: info Loaded hl7.fhir.r4.core#4.0.1 with 4581 resources (00:01.572 / 00:36.825, 244Mb) Sushi: info Loaded virtual package sushi-local#LOCAL with 0 resources (00:00.018 / 00:36.843, 244Mb) Sushi: info Converting FSH to FHIR resources... (00:00.029 / 00:36.873, 244Mb) Sushi: error Structure Definition https://www.medizininformatik-initiative.de/fhir/modul-studie/StructureDefinition/mii-pr-studie-studie is missing a snapshot. Snapshot is required for import. (00:03.275 / 00:40.149, 244Mb) Sushi: File: /scratch/repo/input/fsh/profiles/Beschluss-Therapieplan/mii-pr-mtb-studie.fsh (00:00.000 / 00:40.149, 244Mb) Sushi: Line: 2 - 26 (00:00.000 / 00:40.149, 244Mb) Sushi: info Converted 61 FHIR StructureDefinitions. (00:11.930 / 00:52.079, 244Mb) Sushi: info Converted 18 FHIR CodeSystems. (00:01.238 / 00:53.317, 244Mb) Sushi: info Converted 27 FHIR ValueSets. (00:02.084 / 00:55.402, 244Mb) Sushi: error InstanceOf MII_PR_MTB_Studie not found for mii-exa-mtb-study-cldn6 (00:16.620 / 01:12.022, 244Mb) Sushi: File: /scratch/repo/input/fsh/examples/bundle/mii-exa-mtb-kim-musterperson-bundle.fsh (00:00.000 / 01:12.022, 244Mb) Sushi: Line: 8 - 173 (00:00.000 / 01:12.023, 244Mb) Sushi: error InstanceOf MII_PR_MTB_Studie not found for mii-exa-mtb-study-cldn6 (00:02.312 / 01:14.335, 244Mb) Sushi: File: /scratch/repo/input/fsh/examples/bundle/mii-exa-mtb-technical-test-bundle.fsh (00:00.000 / 01:14.335, 244Mb) Sushi: Line: 1 - 271 (00:00.000 / 01:14.335, 244Mb) Sushi: error InstanceOf MII_PR_MTB_Studie not found for mii-exa-mtb-study-cldn6 (00:00.278 / 01:14.614, 244Mb) Sushi: File: /scratch/repo/input/fsh/examples/mii-exa-mtb-kim-musterperson-studienempfehlungen.fsh (00:00.000 / 01:14.615, 244Mb) Sushi: Line: 18 - 71 (00:00.000 / 01:14.615, 244Mb) Sushi: error Structure Definition https://www.medizininformatik-initiative.de/fhir/modul-studie/StructureDefinition/mii-pr-studie-beteiligte-person is missing a snapshot. Snapshot is required for import. (00:00.445 / 01:15.061, 244Mb) Sushi: File: /scratch/repo/input/fsh/examples/mii-exa-mtb-kim-musterperson-studienempfehlungen.fsh (00:00.000 / 01:15.061, 244Mb) Sushi: Line: 160 - 165 (00:00.000 / 01:15.061, 244Mb) Sushi: error InstanceOf MII_PR_MTB_Studie not found for mii-exa-mtb-study-tedova (00:00.400 / 01:15.462, 244Mb) Sushi: File: /scratch/repo/input/fsh/examples/mii-exa-mtb-kim-musterperson-studienempfehlungen.fsh (00:00.000 / 01:15.462, 244Mb) Sushi: Line: 316 - 323 (00:00.000 / 01:15.462, 244Mb) Sushi: error InstanceOf MII_PR_MTB_Studie not found for mii-exa-mtb-study-ccne1 (00:00.077 / 01:15.539, 244Mb) Sushi: File: /scratch/repo/input/fsh/examples/mii-exa-mtb-kim-musterperson-studienempfehlungen.fsh (00:00.000 / 01:15.540, 244Mb) Sushi: Line: 337 - 342 (00:00.000 / 01:15.540, 244Mb) Sushi: info Converted 196 FHIR instances. (00:07.724 / 01:23.265, 244Mb) Sushi: info Exporting FHIR resources as JSON... (00:00.006 / 01:23.271, 244Mb) Sushi: info Exported 295 FHIR resources as JSON. (00:00.969 / 01:24.240, 244Mb) Sushi: info Assembling Implementation Guide sources... (00:00.011 / 01:24.251, 244Mb) Sushi: info Generated ImplementationGuide-mii-kerndatensatzmodul-molekulares-tumorboard.json (00:00.068 / 01:24.320, 244Mb) Sushi: info Assembled Implementation Guide sources; ready for IG Publisher. (00:00.000 / 01:24.320, 244Mb) Sushi: ========================= SUSHI RESULTS =========================== (00:00.001 / 01:24.322, 244Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 01:24.322, 244Mb) Sushi: | | Profiles | Extensions | Logicals | Resources | | (00:00.000 / 01:24.323, 244Mb) Sushi: | |-------------------------------------------------------------| | (00:00.000 / 01:24.323, 244Mb) Sushi: | | 48 | 11 | 1 | 0 | | (00:00.000 / 01:24.323, 244Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 01:24.323, 244Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 01:24.323, 244Mb) Sushi: | | ValueSets | CodeSystems | Instances | | (00:00.000 / 01:24.323, 244Mb) Sushi: | |-------------------------------------------------------------| | (00:00.000 / 01:24.323, 244Mb) Sushi: | | 27 | 18 | 190 | | (00:00.000 / 01:24.323, 244Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 01:24.323, 244Mb) Sushi: | | (00:00.000 / 01:24.323, 244Mb) Sushi: =================================================================== (00:00.000 / 01:24.323, 244Mb) Sushi: | Dolphinately not the desired outcome. 7 Errors 0 Warnings | (00:00.000 / 01:24.323, 244Mb) Sushi: =================================================================== (00:00.000 / 01:24.324, 244Mb) Sushi couldn't be run. Complete output from running Sushi : (00:00.032 / 01:24.356, 244Mb) Note: Check that Sushi is installed correctly ("npm install -g fsh-sushi". On windows, get npm from https://www.npmjs.com/get-npm) (00:00.000 / 01:24.357, 244Mb) Exception: Process exited with an error: 7 (Exit value: 7) (00:00.000 / 01:24.357, 244Mb) Publishing Content Failed: Process exited with an error: 7 (Exit value: 7) (00:00.000 / 01:24.357, 244Mb) (00:00.000 / 01:24.357, 244Mb) Use -? to get command line help (00:00.000 / 01:24.357, 244Mb) (00:00.000 / 01:24.357, 244Mb) Stack Dump (for debugging): (00:00.000 / 01:24.358, 244Mb) org.apache.commons.exec.ExecuteException: Process exited with an error: 7 (Exit value: 7) 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.FSHRunner.runFsh(FSHRunner.java:89) at org.hl7.fhir.igtools.publisher.PublisherIGLoader.initialize(PublisherIGLoader.java:130) at org.hl7.fhir.igtools.publisher.Publisher.execute(Publisher.java:208) at org.hl7.fhir.igtools.publisher.Publisher.main(Publisher.java:1482)