FHIR IG Publisher Version 1.8.23 (Git# ffc7678c1988). Built 2025-04-04T22:01:54.432Z (10 days old)
Detected Java version: 17.0.14 from /usr/lib/jvm/java-17-openjdk-amd64 on amd64 (64bit). 3942MB available
dir = /mnt/c/Users/mbrisson/.vscode/matchsync-ig, path = /home/mbrisson/gems/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/usr/lib/wsl/lib:/mnt/c/windows/system32:/mnt/c/windows:/mnt/c/windows/System32/Wbem:/mnt/c/windows/System32/WindowsPowerShell/v1.0/:/mnt/c/windows/System32/OpenSSH/:/mnt/c/Program Files/PolicyPak/:/mnt/c/DEVAPPS/Oracle-SQLDeveloper-18.4.0-376.1900-x64:/mnt/c/Users/mbrisson/AppData/Roaming/nvm:/mnt/c/Program Files/nodejs:/mnt/c/Program Files/nodejs/:/mnt/c/Ruby33-x64/bin:/mnt/c/Users/mbrisson/AppData/Local/Microsoft/WindowsApps:/mnt/c/Users/mbrisson/AppData/Local/Programs/Git/cmd:/mnt/c/Users/mbrisson/OneDrive - NMDP/Desktop/Maven/apache-maven-3.8.3/bin:/mnt/c/Users/mbrisson/AppData/Local/Programs/Microsoft VS Code/bin:/mnt/c/Users/mbrisson/AppData/Roaming/npm:/mnt/c/Users/mbrisson/.jdks/corretto-17.0.12/bin:/mnt/c/Users/mbrisson/AppData/Roaming/nvm:/snap/bin
Parameters: -go-publish -source /mnt/c/Users/mbrisson/.vscode/matchsync-ig/build -web /mnt/c/Users/mbrisson/.vscode/matchsync-ig/publication/web-root -registry /mnt/c/Users/mbrisson/.vscode/matchsync-ig/publication/web-root/ig-registry/fhir-ig-list.json -history /mnt/c/Users/mbrisson/.vscode/matchsync-ig/publication/web-root/ig-history -templates /mnt/c/Users/mbrisson/.vscode/matchsync-ig/publication/web-root/history-templates -resetTxErrors
---------------
Publication Run: publish /mnt/c/Users/mbrisson/.vscode/matchsync-ig/build to /mnt/c/Users/mbrisson/.vscode/matchsync-ig/publication/web-root
Relative directory for IG is '/matchsync'
===== Web Publication Run Details ===============================
Source IG: nmdp.fhir.matchsync#0.1.3 : http://fhir.nmdp.org/ig/matchsync (R4) from /mnt/c/Users/mbrisson/.vscode/matchsync-ig/build
All checks passed. Do the publication build from /mnt/c/Users/mbrisson/.vscode/matchsync-ig/build and publish to /tmp/web-root/run-20250415/matchsync
Prepare Build space in /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3
Build IG at /mnt/c/Users/mbrisson/.vscode/matchsync-ig/build: final copy suitable for publication (in /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3)
FHIR IG Publisher Version 1.8.23 (Git# ffc7678c1988). Built 2025-04-04T22:01:54.432Z (10 days old)
Detected Java version: 17.0.14 from /usr/lib/jvm/java-17-openjdk-amd64 on Linux/amd64 (64bit). 3942MB available
dir = /mnt/c/Users/mbrisson/.vscode/matchsync-ig, path = /home/mbrisson/gems/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/usr/lib/wsl/lib:/mnt/c/windows/system32:/mnt/c/windows:/mnt/c/windows/System32/Wbem:/mnt/c/windows/System32/WindowsPowerShell/v1.0/:/mnt/c/windows/System32/OpenSSH/:/mnt/c/Program Files/PolicyPak/:/mnt/c/DEVAPPS/Oracle-SQLDeveloper-18.4.0-376.1900-x64:/mnt/c/Users/mbrisson/AppData/Roaming/nvm:/mnt/c/Program Files/nodejs:/mnt/c/Program Files/nodejs/:/mnt/c/Ruby33-x64/bin:/mnt/c/Users/mbrisson/AppData/Local/Microsoft/WindowsApps:/mnt/c/Users/mbrisson/AppData/Local/Programs/Git/cmd:/mnt/c/Users/mbrisson/OneDrive - NMDP/Desktop/Maven/apache-maven-3.8.3/bin:/mnt/c/Users/mbrisson/AppData/Local/Programs/Microsoft VS Code/bin:/mnt/c/Users/mbrisson/AppData/Roaming/npm:/mnt/c/Users/mbrisson/.jdks/corretto-17.0.12/bin:/mnt/c/Users/mbrisson/AppData/Roaming/nvm:/snap/bin
Parameters: -ig /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3 -resetTx -publish http://fhir.nmdp.org/ig/matchsync/0.1.1 -no-exit
Character encoding = UTF-8 / UTF-8
Start Clock @ Tuesday, April 15, 2025 at 3:35:56 PM Central Daylight Time (2025-04-15T15:35:56-05:00)
Build FHIR IG from /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3 (00:00.026 / 00:00.027, 58Mb)
Build Formal Publication package, intended for http://fhir.nmdp.org/ig/matchsync/0.1.1 (00:00.002 / 00:00.028, 58Mb)
API keys loaded from /home/mbrisson/.fhir/fhir-settings.json (00:00.000 / 00:00.029, 58Mb)
Package Cache: /home/mbrisson/.fhir/packages (00:00.007 / 00:00.037, 58Mb)
Run Sushi on /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3 (00:00.001 / 00:00.038, 58Mb)
Sushi: info Running SUSHI v3.15.0 (implements FHIR Shorthand specification v3.0.0) (00:00.667 / 00:00.706, 61Mb)
Sushi: info Arguments: (00:00.000 / 00:00.707, 61Mb)
Sushi: info --require-latest (00:00.000 / 00:00.707, 61Mb)
Sushi: info --out /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3 (00:00.000 / 00:00.708, 61Mb)
Sushi: info /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3 (00:00.000 / 00:00.708, 61Mb)
Sushi: info Using configuration file: /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3/sushi-config.yaml (00:00.773 / 00:01.482, 61Mb)
Sushi: info Importing FSH text... (00:00.060 / 00:01.542, 61Mb)
Sushi: info Preprocessed 10 documents with 17 aliases. (00:00.129 / 00:01.672, 61Mb)
Sushi: info Imported 67 definitions and 44 instances. (00:00.023 / 00:01.696, 61Mb)
Sushi: info Loaded virtual package sushi-r5forR4#1.0.0 with 7 resources (00:00.058 / 00:01.755, 61Mb)
Sushi: info Resolved hl7.fhir.uv.tools.r4#latest to concrete version 0.4.1 (00:01.223 / 00:02.978, 61Mb)
Sushi: info Loaded hl7.fhir.uv.tools.r4#0.4.1 with 86 resources (00:00.052 / 00:03.031, 61Mb)
Sushi: info Resolved hl7.terminology.r4#latest to concrete version 6.2.0 (00:00.688 / 00:03.720, 61Mb)
Sushi: info Loaded hl7.terminology.r4#6.2.0 with 4323 resources (00:01.341 / 00:05.061, 61Mb)
Sushi: info Resolved hl7.fhir.uv.extensions.r4#latest to concrete version 5.2.0 (00:00.985 / 00:06.046, 61Mb)
Sushi: info Loaded hl7.fhir.uv.extensions.r4#5.2.0 with 759 resources (00:00.324 / 00:06.370, 61Mb)
Sushi: info Loaded hl7.fhir.us.core#4.0.0 with 148 resources (00:00.086 / 00:06.456, 61Mb)
Sushi: info Loaded hl7.fhir.us.mcode#2.0.0 with 153 resources (00:00.084 / 00:06.541, 61Mb)
Sushi: info Loaded hl7.fhir.uv.genomics-reporting#2.0.0 with 50 resources (00:00.042 / 00:06.583, 61Mb)
Sushi: info Loaded hl7.fhir.r4.core#4.0.1 with 4581 resources (00:01.321 / 00:07.905, 61Mb)
Sushi: info Loaded virtual package sushi-local#LOCAL with 0 resources (00:00.004 / 00:07.910, 61Mb)
Sushi: info Converting FSH to FHIR resources... (00:00.008 / 00:07.918, 61Mb)
Sushi: info Converted 31 FHIR StructureDefinitions. (00:01.416 / 00:09.335, 61Mb)
Sushi: info Converted 16 FHIR CodeSystems. (00:00.262 / 00:09.597, 61Mb)
Sushi: info Converted 20 FHIR ValueSets. (00:00.188 / 00:09.786, 61Mb)
Sushi: info Converted 44 FHIR instances. (00:01.617 / 00:11.403, 61Mb)
Sushi: info Exporting FHIR resources as JSON... (00:00.000 / 00:11.404, 61Mb)
Sushi: info Exported 111 FHIR resources as JSON. (00:00.186 / 00:11.590, 61Mb)
Sushi: info Assembling Implementation Guide sources... (00:00.002 / 00:11.592, 61Mb)
Sushi: info Generated ImplementationGuide-nmdp.fhir.matchsync.json (00:00.033 / 00:11.625, 61Mb)
Sushi: info Assembled Implementation Guide sources; ready for IG Publisher. (00:00.000 / 00:11.626, 61Mb)
Sushi: ========================= SUSHI RESULTS =========================== (00:00.000 / 00:11.626, 61Mb)
Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:11.627, 61Mb)
Sushi: | | Profiles | Extensions | Logicals | Resources | | (00:00.000 / 00:11.627, 61Mb)
Sushi: | |-------------------------------------------------------------| | (00:00.000 / 00:11.627, 61Mb)
Sushi: | | 30 | 1 | 0 | 0 | | (00:00.000 / 00:11.627, 61Mb)
Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:11.628, 61Mb)
Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:11.628, 61Mb)
Sushi: | | ValueSets | CodeSystems | Instances | | (00:00.000 / 00:11.628, 61Mb)
Sushi: | |-------------------------------------------------------------| | (00:00.000 / 00:11.628, 61Mb)
Sushi: | | 20 | 16 | 44 | | (00:00.000 / 00:11.629, 61Mb)
Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:11.629, 61Mb)
Sushi: | | (00:00.000 / 00:11.629, 61Mb)
Sushi: =================================================================== (00:00.000 / 00:11.629, 61Mb)
Sushi: | Valedictorian of the School of FSH! 0 Errors 0 Warnings | (00:00.000 / 00:11.630, 61Mb)
Sushi: =================================================================== (00:00.000 / 00:11.630, 61Mb)
Unable to load IG as an r5 IG - try R4 (property code is a class com.google.gson.JsonPrimitive looking for an object) (00:00.645 / 00:12.276, 68Mb)
Load Template from fhir.base.template#current (00:00.655 / 00:12.931, 32Mb)
Root directory: /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3 (02:42.174 / 02:55.105, 65Mb)
Terminology Cache is at /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3/input-cache/txcache. Clearing now (00:00.327 / 02:55.433, 54Mb)
Core Package hl7.fhir.r4.core#4.0.1
Running Terminology Log: /tmp/ohfu-fhir-ig-17535021335829039335.log
Connect to Terminology Server at http://tx.fhir.org (00:02.008 / 02:57.442, 187Mb)
Load Package hl7.fhir.pubpack#0.2.1
Load Package hl7.fhir.xver-extensions#0.1.0
Load Package hl7.terminology.r4#6.2.0
Load Package hl7.fhir.uv.extensions.r4#5.2.0
Load Package hl7.fhir.uv.bulkdata#1.0.1
Load Package us.nlm.vsac#0.3.0
Load Package hl7.fhir.us.core#4.0.0
Load Package hl7.fhir.us.mcode#2.0.0
Load Package hl7.fhir.uv.genomics-reporting#2.0.0
Load Package hl7.fhir.uv.tools.r4#0.4.1
Load R5 Specials
Initialization complete (00:06.628 / 03:04.070, 441Mb)
Load Content (00:00.000 / 03:04.071, 441Mb)
Using en-US as the default narrative language. (no language information in Implementation Guide) (00:00.044 / 03:04.115, 453Mb)
Process Loaded Resources (00:01.377 / 03:05.492, 545Mb)
Generating Snapshots (00:00.429 / 03:05.922, 370Mb)
The slice definition for Observation.code.coding has a minimum of 0 but the slices add up to a minimum of 1
The slice definition for Observation.code.coding has a minimum of 0 but the slices add up to a minimum of 1
loadPrePages from FetchedFile[/tmp/ig-builds/nmdp.fhir.matchsync#0.1.3/input/includes] as /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3/input/includes
loadPrePages from FetchedFile[/tmp/ig-builds/nmdp.fhir.matchsync#0.1.3/fsh-generated/includes] as /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3/fsh-generated/includes
loadPrePages from FetchedFile[/tmp/ig-builds/nmdp.fhir.matchsync#0.1.3/input/pagecontent] as /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3/input/pagecontent
Fetch http://fhir.nmdp.org/ig/matchsync/package-list.json for version check (00:01.181 / 03:07.103, 761Mb)
Processing Conformance Resources (00:15.172 / 03:22.276, 767Mb)
Checking Language (00:00.000 / 03:22.277, 767Mb)
Load Dependency Info (00:00.001 / 03:22.278, 768Mb)
Load Info (00:00.003 / 03:22.282, 768Mb)
Load Paths (00:00.000 / 03:22.283, 769Mb)
Check R4 / R4B (00:00.000 / 03:22.283, 769Mb)
Assign Comparison Ids (00:00.006 / 03:22.290, 772Mb)
Propagating status (00:00.000 / 03:22.290, 772Mb)
Generating Narratives (00:00.000 / 03:22.290, 772Mb)
Validating Conformance Resources (00:08.603 / 03:30.894, 707Mb)
Check profiles & code systems (00:28.639 / 03:59.534, 1002Mb)
Check realm rules (00:00.004 / 03:59.538, 1003Mb)
Previous Version Comparison (00:00.000 / 03:59.538, 1003Mb)
Validating Resources (00:00.061 / 03:59.600, 1Gb)
Processing Provenance Records (00:08.450 / 04:08.051, 1Gb)
Generating Outputs in /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3/output (00:00.001 / 04:08.052, 1Gb)
Warning @ Unable to read the git branch: not a git repository (or any of the parent directories): .git
Warning @ Unable to read the git source: not a git repository (or any of the parent directories): .git
Generate Native Outputs (00:00.162 / 04:08.214, 1Gb)
Run Template (00:06.946 / 04:15.161, 1Gb)
Generate HTML Outputs (00:01.673 / 04:16.835, 749Mb)
Generate Spreadsheets (00:34.717 / 04:51.552, 2Gb)
Generate Summaries (00:06.568 / 04:58.120, 2Gb)
Generating Summary Outputs (00:00.000 / 04:58.121, 2Gb)
DB Cumulative Time invested: 00:00:01.963
Sending Usage Stats to Server (00:08.497 / 05:06.618, 2Gb)
## Memory (MB): Use = 2504, Free = 1437, Total = 3942, Max = 3942 (00:00.002 / 05:06.621, 2Gb)
Reclaiming memory... (00:00.000 / 05:06.621, 2Gb)
## Memory (MB): Use = 2143, Free = 1798, Total = 3942, Max = 3942 (00:00.226 / 05:06.848, 2Gb)
Run jekyll: jekyll build --destination "/tmp/ig-builds/nmdp.fhir.matchsync#0.1.3/output" (in folder /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3/temp/pages) (00:00.000 / 05:06.849, 2Gb)
Troubleshooting Note: usual cases for Jekyll to fail are: (00:00.000 / 05:06.849, 2Gb)
* A failure to produce a fragment that is already logged in the output above (00:00.000 / 05:06.849, 2Gb)
* A reference to a manually edited file that hasn't been provided (00:00.000 / 05:06.849, 2Gb)
Jekyll: Source: /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3/temp/pages (00:00.313 / 05:07.162, 2Gb)
Jekyll: Generating... (00:00.000 / 05:07.163, 2Gb)
Jekyll: done in 2.449 seconds. (00:02.449 / 05:09.612, 2Gb)
Installing nmdp.fhir.matchsync#0.1.2
Checking Output HTML (00:04.056 / 05:13.668, 2Gb)
found 1764 files (00:00.003 / 05:13.672, 2Gb)
........................................
........................................
... 1764 html files, 0 pages invalid xhtml (0%) (00:30.466 / 05:44.138, 2Gb)
... 843934 links, 0 broken links (0%) (00:00.000 / 05:44.139, 2Gb)
Generate fragment-usage-analysis.csv (00:00.000 / 05:44.139, 2Gb)
Build final .zip (00:00.004 / 05:44.143, 2Gb)
Final .zip built (00:02.441 / 05:46.585, 2Gb)
Built. Times: loading: 00:18.203, generate: 02:45.610, narrative generation: 00:08.603, realm-rules: 00:00.000, previous-version: 00:00.000, jekyll: 00:02.778, validation: 00:37.070 (#112), template: 00:01.677 (#3) (00:21.310 / 06:07.896, 2Gb)
Generating QA (00:00.000 / 06:07.896, 2Gb)
Validation output in /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3/output/qa.html
Errors: 5, Warnings: 164, Info: 122, Broken Links: 0 (00:00.936 / 06:08.832, 3Gb)
Finished. Max Memory Used = 3Gb. Log file saved in /tmp/fhir-ig-publisher-tmp.log (00:00.007 / 06:08.840, 3Gb)
Prepare Build space in /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone
Build IG at /mnt/c/Users/mbrisson/.vscode/matchsync-ig/build: final copy suitable for publication (in /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone) (milestone build)
FHIR IG Publisher Version 1.8.23 (Git# ffc7678c1988). Built 2025-04-04T22:01:54.432Z (10 days old)
Detected Java version: 17.0.14 from /usr/lib/jvm/java-17-openjdk-amd64 on Linux/amd64 (64bit). 3942MB available
dir = /mnt/c/Users/mbrisson/.vscode/matchsync-ig, path = /home/mbrisson/gems/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/usr/lib/wsl/lib:/mnt/c/windows/system32:/mnt/c/windows:/mnt/c/windows/System32/Wbem:/mnt/c/windows/System32/WindowsPowerShell/v1.0/:/mnt/c/windows/System32/OpenSSH/:/mnt/c/Program Files/PolicyPak/:/mnt/c/DEVAPPS/Oracle-SQLDeveloper-18.4.0-376.1900-x64:/mnt/c/Users/mbrisson/AppData/Roaming/nvm:/mnt/c/Program Files/nodejs:/mnt/c/Program Files/nodejs/:/mnt/c/Ruby33-x64/bin:/mnt/c/Users/mbrisson/AppData/Local/Microsoft/WindowsApps:/mnt/c/Users/mbrisson/AppData/Local/Programs/Git/cmd:/mnt/c/Users/mbrisson/OneDrive - NMDP/Desktop/Maven/apache-maven-3.8.3/bin:/mnt/c/Users/mbrisson/AppData/Local/Programs/Microsoft VS Code/bin:/mnt/c/Users/mbrisson/AppData/Roaming/npm:/mnt/c/Users/mbrisson/.jdks/corretto-17.0.12/bin:/mnt/c/Users/mbrisson/AppData/Roaming/nvm:/snap/bin
Parameters: -ig /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone -publish http://fhir.nmdp.org/ig/matchsync/0.1.1 -milestone -no-exit
Character encoding = UTF-8 / UTF-8
Start Clock @ Tuesday, April 15, 2025 at 3:42:07 PM Central Daylight Time (2025-04-15T15:42:07-05:00)
Build FHIR IG from /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone (00:00.001 / 00:00.001, 3Gb)
Build Formal Publication package, intended for http://fhir.nmdp.org/ig/matchsync/0.1.1 (00:00.000 / 00:00.001, 3Gb)
API keys loaded from /home/mbrisson/.fhir/fhir-settings.json (00:00.000 / 00:00.001, 3Gb)
Package Cache: /home/mbrisson/.fhir/packages (00:00.000 / 00:00.001, 3Gb)
Run Sushi on /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone (00:00.000 / 00:00.001, 3Gb)
Sushi: info Running SUSHI v3.15.0 (implements FHIR Shorthand specification v3.0.0) (00:00.628 / 00:00.630, 3Gb)
Sushi: info Arguments: (00:00.000 / 00:00.631, 3Gb)
Sushi: info --require-latest (00:00.000 / 00:00.631, 3Gb)
Sushi: info --out /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone (00:00.000 / 00:00.631, 3Gb)
Sushi: info /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone (00:00.000 / 00:00.631, 3Gb)
Sushi: info Using configuration file: /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone/sushi-config.yaml (00:00.735 / 00:01.366, 3Gb)
Sushi: info Importing FSH text... (00:00.060 / 00:01.427, 3Gb)
Sushi: info Preprocessed 10 documents with 17 aliases. (00:00.134 / 00:01.561, 3Gb)
Sushi: info Imported 67 definitions and 44 instances. (00:00.024 / 00:01.586, 3Gb)
Sushi: info Loaded virtual package sushi-r5forR4#1.0.0 with 7 resources (00:00.058 / 00:01.645, 3Gb)
Sushi: info Resolved hl7.fhir.uv.tools.r4#latest to concrete version 0.4.1 (00:00.772 / 00:02.417, 3Gb)
Sushi: info Loaded hl7.fhir.uv.tools.r4#0.4.1 with 86 resources (00:00.041 / 00:02.459, 3Gb)
Sushi: info Resolved hl7.terminology.r4#latest to concrete version 6.2.0 (00:00.800 / 00:03.259, 3Gb)
Sushi: info Loaded hl7.terminology.r4#6.2.0 with 4323 resources (00:00.839 / 00:04.099, 3Gb)
Sushi: info Resolved hl7.fhir.uv.extensions.r4#latest to concrete version 5.2.0 (00:00.760 / 00:04.860, 3Gb)
Sushi: info Loaded hl7.fhir.uv.extensions.r4#5.2.0 with 759 resources (00:00.139 / 00:05.000, 3Gb)
Sushi: info Loaded hl7.fhir.us.core#4.0.0 with 148 resources (00:00.056 / 00:05.056, 3Gb)
Sushi: info Loaded hl7.fhir.us.mcode#2.0.0 with 153 resources (00:00.038 / 00:05.095, 3Gb)
Sushi: info Loaded hl7.fhir.uv.genomics-reporting#2.0.0 with 50 resources (00:00.020 / 00:05.115, 3Gb)
Sushi: info Loaded hl7.fhir.r4.core#4.0.1 with 4581 resources (00:00.986 / 00:06.101, 3Gb)
Sushi: info Loaded virtual package sushi-local#LOCAL with 0 resources (00:00.004 / 00:06.106, 3Gb)
Sushi: info Converting FSH to FHIR resources... (00:00.008 / 00:06.114, 3Gb)
Sushi: info Converted 31 FHIR StructureDefinitions. (00:01.431 / 00:07.546, 3Gb)
Sushi: info Converted 16 FHIR CodeSystems. (00:00.275 / 00:07.822, 3Gb)
Sushi: info Converted 20 FHIR ValueSets. (00:00.194 / 00:08.016, 3Gb)
Sushi: info Converted 44 FHIR instances. (00:01.688 / 00:09.705, 3Gb)
Sushi: info Exporting FHIR resources as JSON... (00:00.000 / 00:09.705, 3Gb)
Sushi: info Exported 111 FHIR resources as JSON. (00:00.193 / 00:09.898, 3Gb)
Sushi: info Assembling Implementation Guide sources... (00:00.002 / 00:09.901, 3Gb)
Sushi: info Generated ImplementationGuide-nmdp.fhir.matchsync.json (00:00.024 / 00:09.926, 3Gb)
Sushi: info Assembled Implementation Guide sources; ready for IG Publisher. (00:00.000 / 00:09.926, 3Gb)
Sushi: ========================= SUSHI RESULTS =========================== (00:00.000 / 00:09.927, 3Gb)
Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:09.927, 3Gb)
Sushi: | | Profiles | Extensions | Logicals | Resources | | (00:00.000 / 00:09.927, 3Gb)
Sushi: | |-------------------------------------------------------------| | (00:00.000 / 00:09.927, 3Gb)
Sushi: | | 30 | 1 | 0 | 0 | | (00:00.000 / 00:09.928, 3Gb)
Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:09.928, 3Gb)
Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:09.928, 3Gb)
Sushi: | | ValueSets | CodeSystems | Instances | | (00:00.000 / 00:09.928, 3Gb)
Sushi: | |-------------------------------------------------------------| | (00:00.000 / 00:09.928, 3Gb)
Sushi: | | 20 | 16 | 44 | | (00:00.000 / 00:09.928, 3Gb)
Sushi: | ------------------------------------------------------------- | (00:00.000 / 00:09.929, 3Gb)
Sushi: | | (00:00.000 / 00:09.929, 3Gb)
Sushi: =================================================================== (00:00.000 / 00:09.929, 3Gb)
Sushi: | You really made a splash! 0 Errors 0 Warnings | (00:00.000 / 00:09.929, 3Gb)
Sushi: =================================================================== (00:00.000 / 00:09.929, 3Gb)
Unable to load IG as an r5 IG - try R4 (property code is a class com.google.gson.JsonPrimitive looking for an object) (00:00.008 / 00:09.938, 3Gb)
Load Template from fhir.base.template#current (00:00.004 / 00:09.943, 3Gb)
Root directory: /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone (01:58.298 / 02:08.241, 2Gb)
Terminology Cache is at /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone/input-cache/txcache. 13 files in cache (00:00.216 / 02:08.458, 2Gb)
Core Package hl7.fhir.r4.core#4.0.1
Running Terminology Log: /tmp/ohfu-fhir-ig-11142720157406916077.log
Connect to Terminology Server at http://tx.fhir.org (00:00.845 / 02:09.303, 2Gb)
Load Package hl7.fhir.pubpack#0.2.1
Load Package hl7.fhir.xver-extensions#0.1.0
Load Package hl7.terminology.r4#6.2.0
Load Package hl7.fhir.uv.extensions.r4#5.2.0
Load Package hl7.fhir.uv.bulkdata#1.0.1
Load Package us.nlm.vsac#0.3.0
Load Package hl7.fhir.us.core#4.0.0
Load Package hl7.fhir.us.mcode#2.0.0
Load Package hl7.fhir.uv.genomics-reporting#2.0.0
Load Package hl7.fhir.uv.tools.r4#0.4.1
Load R5 Specials
Initialization complete (00:04.326 / 02:13.630, 577Mb)
Load Content (00:00.000 / 02:13.630, 577Mb)
Using en-US as the default narrative language. (no language information in Implementation Guide) (00:00.005 / 02:13.636, 586Mb)
Process Loaded Resources (00:00.394 / 02:14.030, 674Mb)
Generating Snapshots (00:00.140 / 02:14.171, 541Mb)
The slice definition for Observation.code.coding has a minimum of 0 but the slices add up to a minimum of 1
The slice definition for Observation.code.coding has a minimum of 0 but the slices add up to a minimum of 1
loadPrePages from FetchedFile[/tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone/input/includes] as /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone/input/includes
loadPrePages from FetchedFile[/tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone/fsh-generated/includes] as /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone/fsh-generated/includes
loadPrePages from FetchedFile[/tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone/input/pagecontent] as /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone/input/pagecontent
Fetch http://fhir.nmdp.org/ig/matchsync/package-list.json for version check (00:00.628 / 02:14.799, 791Mb)
Processing Conformance Resources (00:15.161 / 02:29.961, 797Mb)
Checking Language (00:00.000 / 02:29.961, 797Mb)
Load Dependency Info (00:00.000 / 02:29.962, 798Mb)
Load Info (00:00.000 / 02:29.962, 798Mb)
Load Paths (00:00.000 / 02:29.963, 799Mb)
Check R4 / R4B (00:00.000 / 02:29.963, 799Mb)
Assign Comparison Ids (00:00.005 / 02:29.968, 802Mb)
Propagating status (00:00.000 / 02:29.968, 802Mb)
Generating Narratives (00:00.000 / 02:29.968, 802Mb)
Validating Conformance Resources (00:02.063 / 02:32.032, 1Gb)
Check profiles & code systems (00:18.801 / 02:50.834, 887Mb)
Check realm rules (00:00.003 / 02:50.838, 887Mb)
Previous Version Comparison (00:00.000 / 02:50.838, 887Mb)
Validating Resources (00:00.016 / 02:50.855, 900Mb)
Processing Provenance Records (00:00.349 / 02:51.205, 1Gb)
Generating Outputs in /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone/output (00:00.000 / 02:51.205, 1Gb)
Warning @ Unable to read the git branch: not a git repository (or any of the parent directories): .git
Warning @ Unable to read the git source: not a git repository (or any of the parent directories): .git
Generate Native Outputs (00:00.107 / 02:51.313, 1Gb)
Run Template (00:05.855 / 02:57.168, 2Gb)
Generate HTML Outputs (00:01.526 / 02:58.695, 2Gb)
Generate Spreadsheets (00:18.612 / 03:17.307, 3Gb)
Generate Summaries (00:05.603 / 03:22.911, 3Gb)
Generating Summary Outputs (00:00.000 / 03:22.911, 3Gb)
DB Cumulative Time invested: 00:00:01.654
Sending Usage Stats to Server (00:05.162 / 03:28.074, 3Gb)
## Memory (MB): Use = 3511, Free = 430, Total = 3942, Max = 3942 (00:00.001 / 03:28.076, 3Gb)
Reclaiming memory... (00:00.000 / 03:28.076, 3Gb)
## Memory (MB): Use = 2146, Free = 1795, Total = 3942, Max = 3942 (00:00.240 / 03:28.317, 2Gb)
Run jekyll: jekyll build --destination "/tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone/output" (in folder /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone/temp/pages) (00:00.000 / 03:28.317, 2Gb)
Troubleshooting Note: usual cases for Jekyll to fail are: (00:00.000 / 03:28.318, 2Gb)
* A failure to produce a fragment that is already logged in the output above (00:00.000 / 03:28.318, 2Gb)
* A reference to a manually edited file that hasn't been provided (00:00.000 / 03:28.318, 2Gb)
Jekyll: Source: /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone/temp/pages (00:00.170 / 03:28.489, 2Gb)
Jekyll: Generating... (00:00.000 / 03:28.489, 2Gb)
Jekyll: done in 2.08 seconds. (00:02.080 / 03:30.570, 2Gb)
Installing nmdp.fhir.matchsync#0.1.2
Checking Output HTML (00:02.571 / 03:33.141, 2Gb)
found 1764 files (00:00.002 / 03:33.144, 2Gb)
........................................
........................................
... 1764 html files, 0 pages invalid xhtml (0%) (00:25.913 / 03:59.057, 2Gb)
... 843934 links, 0 broken links (0%) (00:00.000 / 03:59.057, 2Gb)
Generate fragment-usage-analysis.csv (00:00.000 / 03:59.057, 2Gb)
Build final .zip (00:00.003 / 03:59.061, 2Gb)
Final .zip built (00:02.355 / 04:01.417, 2Gb)
Built. Times: loading: 00:16.330, generate: 01:51.724, narrative generation: 00:02.063, realm-rules: 00:00.000, previous-version: 00:00.000, jekyll: 00:02.263, validation: 00:19.136 (#112), template: 00:01.536 (#3) (00:20.270 / 04:21.687, 3Gb)
Generating QA (00:00.000 / 04:21.687, 3Gb)
Validation output in /tmp/ig-builds/nmdp.fhir.matchsync#0.1.3-milestone/output/qa.html
Errors: 5, Warnings: 164, Info: 122, Broken Links: 0 (00:00.835 / 04:22.523, 2Gb)
Finished. Max Memory Used = 3Gb. Log file saved in /tmp/fhir-ig-publisher-tmp.log (00:00.004 / 04:22.527, 2Gb)
Keep a copy of the build directory at /tmp/web-root/run-20250415/ig-build-zips/nmdp.fhir.matchsync#0.1.3.zip
ok. All checks passed. Publish v0.1.3 to /tmp/web-root/run-20250415/matchsync/0.1.1
Copy the IG to /tmp/web-root/run-20250415/matchsync/0.1.1
Update /tmp/web-root/run-20250415/matchsync/package-list.json
Publish Box Statement: This page is part of the MatchSync Implementation Guide (v0.1.1: Release Draft) based on FHIR (HL7® FHIR® Standard) R4. This is the current published version in its permanent home (it will always be available at this URL). For a full list of available versions, see the Directory of published versions
.. 719 files checked, 719 updated
.. 227 clones checked, 454 updated
.. 112 redirections (112 created/updated)
This is a milestone release - publish v0.1.3 to /tmp/web-root/run-20250415/matchsync
Publish Box Statement: This page is part of the MatchSync Implementation Guide (v0.1.1: Release Draft) based on FHIR (HL7® FHIR® Standard) R4. This is the current published version. For a full list of available versions, see the Directory of published versions
.. 719 files checked, 719 updated
.. 227 clones checked, 454 updated
.. 112 redirections (112 created/updated)
Check for Files to delete
... 0 files
Copy to new IG /tmp/web-root/run-20250415/matchsync
nmdp.fhir.matchsync (http://fhir.nmdp.org/ig/matchsync): MatchSync Implementation Guide @ http://nmdp-ig.github.io/matchsync-ig
candidate: Release Draft 0.1.1/4.0.1 @ http://fhir.nmdp.org/ig/matchsync/0.1.1
Build is complete. Copy from /tmp/web-root/run-20250415
Update history page at /tmp/web-root/run-20250415/matchsync from /mnt/c/Users/mbrisson/.vscode/matchsync-ig/publication/web-root/ig-history and /mnt/c/Users/mbrisson/.vscode/matchsync-ig/publication/web-root/history-templates