FHIR IG Publisher Version 1.3.8 (Git# b97c9154f9fb). Built 2023-05-04T13:45:40.124Z (5 days old)
Detected Java version: 11.0.14.1 from /Library/Java/JavaVirtualMachines/temurin-11.jdk/Contents/Home on x86_64 (64bit). 4096MB available
dir = /Users/bmilius/Documents/src/github-nmdp-ig/matchsync-ig, path = /Users/bmilius/.rbenv/shims:/Users/bmilius/.local/bin:/usr/local/sbin:/usr/local/bin:/System/Cryptexes/App/usr/bin:/usr/bin:/bin:/usr/sbin:/sbin:/opt/X11/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/local/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/appleinternal/bin:/Users/bmilius/.rbenv/shims:/Users/bmilius/.local/bin:/usr/local/sbin:/usr/local/mysql/bin:/Users/bmilius/src/amazon/ec2-api-tools-1.6.7.1/bin:/Users/bmilius/bin:/Users/bmilius/bin/edirect:/bin:/usr/local/mysql/bin:/Users/bmilius/src/amazon/ec2-api-tools-1.6.7.1/bin:/Users/bmilius/bin:/Users/bmilius/bin/edirect
Parameters: -go-publish -source /Users/bmilius/Documents/src/github-nmdp-ig/matchsync-ig/build -web /Users/bmilius/Documents/src/github-nmdp-ig/matchsync-ig/publication/web-root -registry /Users/bmilius/Documents/src/github-nmdp-ig/matchsync-ig/publication/ig-registry/fhir-ig-list.json -history /Users/bmilius/Documents/src/github-nmdp-ig/matchsync-ig/publication/ig-history -templates /Users/bmilius/Documents/src/github-nmdp-ig/matchsync-ig/publication/web-root/history-templates
---------------
Publication Run: publish /Users/bmilius/Documents/src/github-nmdp-ig/matchsync-ig/build to /Users/bmilius/Documents/src/github-nmdp-ig/matchsync-ig/publication/web-root
Run Number: 1
Web Layout using the script nmdp.fhir.[code] & http://fhir.nmdp.org/ig/[code]
Relative directory for IG is '/matchsync'
All checks passed. Do the publication build from /Users/bmilius/Documents/src/github-nmdp-ig/matchsync-ig/build and publish to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/web-root/run-20230509/matchsync
Prepare Build space in /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0
Build IG at /Users/bmilius/Documents/src/github-nmdp-ig/matchsync-ig/build: final copy suitable for publication (in /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0)
FHIR IG Publisher Version 1.3.8 (Git# b97c9154f9fb). Built 2023-05-04T13:45:40.124Z (5 days old)
Detected Java version: 11.0.14.1 from /Library/Java/JavaVirtualMachines/temurin-11.jdk/Contents/Home on Mac OS X/x86_64 (64bit). 4096MB available
dir = /Users/bmilius/Documents/src/github-nmdp-ig/matchsync-ig, path = /Users/bmilius/.rbenv/shims:/Users/bmilius/.local/bin:/usr/local/sbin:/usr/local/bin:/System/Cryptexes/App/usr/bin:/usr/bin:/bin:/usr/sbin:/sbin:/opt/X11/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/local/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/appleinternal/bin:/Users/bmilius/.rbenv/shims:/Users/bmilius/.local/bin:/usr/local/sbin:/usr/local/mysql/bin:/Users/bmilius/src/amazon/ec2-api-tools-1.6.7.1/bin:/Users/bmilius/bin:/Users/bmilius/bin/edirect:/bin:/usr/local/mysql/bin:/Users/bmilius/src/amazon/ec2-api-tools-1.6.7.1/bin:/Users/bmilius/bin:/Users/bmilius/bin/edirect
Parameters: -ig /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0 -resetTx -publish http://fhir.nmdp.org/ig/matchsync/0.1.0 -no-exit
Start Clock @ Tuesday, May 9, 2023 at 1:29:38 PM Central Daylight Time (2023-05-09T13:29:38-05:00)
Build FHIR IG from /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0 (00:00.073)
Build Formal Publication package, intended for http://fhir.nmdp.org/ig/matchsync/0.1.0 (00:00.076)
API keys loaded from /Users/bmilius/.fhir/fhir-settings.json (00:00.079)
Package Cache: /Users/bmilius/.fhir/packages (00:00.086)
Run Sushi on /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0 (00:00.093)
Sushi: info Running SUSHI v2.10.1 (implements FHIR Shorthand specification v2.0.0) (00:01.409)
Sushi: info Arguments: (00:01.412)
Sushi: info --require-latest (00:01.414)
Sushi: info --out /private/var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0 (00:01.416)
Sushi: info /private/var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0 (00:01.419)
Sushi: (node:81207) Warning: Accessing non-existent property 'INVALID_ALT_NUMBER' of module exports inside circular dependency (00:02.950)
Sushi: (Use `node --trace-warnings ...` to show where the warning was created) (00:02.954)
Sushi: (node:81207) Warning: Accessing non-existent property 'INVALID_ALT_NUMBER' of module exports inside circular dependency (00:02.957)
Sushi: info Using configuration file: /private/var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/sushi-config.yaml (00:02.994)
Sushi: info Importing FSH text... (00:03.007)
Sushi: info Preprocessed 10 documents with 16 aliases. (00:03.166)
Sushi: info Imported 57 definitions and 40 instances. (00:03.189)
Sushi: info Checking local cache for hl7.fhir.uv.tools#current... (00:03.191)
Sushi: info Found hl7.fhir.uv.tools#current in local cache. (00:03.239)
Sushi: info Loaded package hl7.fhir.uv.tools#current (00:04.419)
Sushi: info Checking local cache for hl7.terminology.r4#5.0.0... (00:05.567)
Sushi: info Found hl7.terminology.r4#5.0.0 in local cache. (00:07.985)
Sushi: info Loaded package hl7.terminology.r4#5.0.0 (00:07.988)
Sushi: info Checking local cache for hl7.fhir.us.core#4.0.0... (00:07.990)
Sushi: info Found hl7.fhir.us.core#4.0.0 in local cache. (00:08.111)
Sushi: info Loaded package hl7.fhir.us.core#4.0.0 (00:08.113)
Sushi: info Checking local cache for hl7.fhir.us.mcode#2.0.0... (00:08.115)
Sushi: info Found hl7.fhir.us.mcode#2.0.0 in local cache. (00:08.250)
Sushi: info Loaded package hl7.fhir.us.mcode#2.0.0 (00:08.252)
Sushi: info Checking local cache for hl7.fhir.uv.genomics-reporting#2.0.0... (00:08.254)
Sushi: info Found hl7.fhir.uv.genomics-reporting#2.0.0 in local cache. (00:08.317)
Sushi: info Loaded package hl7.fhir.uv.genomics-reporting#2.0.0 (00:08.319)
Sushi: info Checking local cache for hl7.fhir.r4.core#4.0.1... (00:08.322)
Sushi: info Found hl7.fhir.r4.core#4.0.1 in local cache. (00:10.776)
Sushi: info Loaded package hl7.fhir.r4.core#4.0.1 (00:10.778)
Sushi: info Converting FSH to FHIR resources... (00:10.824)
Sushi: info Converted 28 FHIR StructureDefinitions. (00:13.053)
Sushi: info Converted 12 FHIR CodeSystems. (00:13.328)
Sushi: info Converted 17 FHIR ValueSets. (00:13.440)
Sushi: info Converted 40 FHIR instances. (00:14.345)
Sushi: info Exporting FHIR resources as JSON... (00:14.347)
Sushi: info Exported 97 FHIR resources as JSON. (00:14.714)
Sushi: info Assembling Implementation Guide sources... (00:14.718)
Sushi: info Generated ImplementationGuide-nmdp.fhir.matchsync.json (00:14.776)
Sushi: info Assembled Implementation Guide sources; ready for IG Publisher. (00:14.779)
Sushi: (00:14.781)
Sushi: ========================= SUSHI RESULTS =========================== (00:14.784)
Sushi: | ------------------------------------------------------------- | (00:14.786)
Sushi: | | Profiles | Extensions | Logicals | Resources | | (00:14.789)
Sushi: | |-------------------------------------------------------------| | (00:14.791)
Sushi: | | 27 | 1 | 0 | 0 | | (00:14.794)
Sushi: | ------------------------------------------------------------- | (00:14.797)
Sushi: | ------------------------------------------------------------- | (00:14.800)
Sushi: | | ValueSets | CodeSystems | Instances | | (00:14.802)
Sushi: | |-------------------------------------------------------------| | (00:14.804)
Sushi: | | 17 | 12 | 40 | | (00:14.807)
Sushi: | ------------------------------------------------------------- | (00:14.809)
Sushi: | | (00:14.811)
Sushi: =================================================================== (00:14.813)
Sushi: | Valedictorian of the School of FSH! 0 Errors 0 Warnings | (00:14.816)
Sushi: =================================================================== (00:14.819)
Sushi: (00:14.821)
Unable to load IG as an r5 IG - try R4 (property code is a class com.google.gson.JsonPrimitive looking for an object) (00:15.372)
Load Template from fhir.base.template#current (00:15.961)
onLoad.findSpreadsheets:
onLoad.updateIg:
[xslt] Processing /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/onLoad-ig-working.xml to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/onLoad-ig-updated.xml
[xslt] Loading stylesheet /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/scripts/onLoad.xslt
onLoad.extend:
onLoad:
Root directory: /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0 (00:22.116)
Core Package hl7.fhir.r4.core#4.0.1
.:Terminology Cache is at /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/input-cache/txcache. Clearing now (00:34.192)
Connect to Terminology Server at http://tx.fhir.org (00:34.201)
Load Package hl7.fhir.pubpack#0.1.4
Load Package hl7.fhir.xver-extensions#0.0.12
Load Package hl7.terminology.r4#5.0.0
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
Version mismatch. This IG is version 4.0.1, while the IG 'igtools' is from version 5.0.0 (will try to run anyway) (00:38.375)
Load Package hl7.fhir.uv.tools#0.1.0
Initialization complete (00:41.609)
Fetch http://fhir.nmdp.org/ig/matchsync/package-list.json for version check (00:41.613)
Load Content (00:43.009)
loadPrePages from FetchedFile[/var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/input/includes] as /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/input/includes
loadPrePages from FetchedFile[/var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/fsh-generated/includes] as /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/fsh-generated/includes
loadPrePages from FetchedFile[/var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/input/pagecontent] as /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/input/pagecontent
Processing Conformance Resources (00:44.555)
Generating Snapshots (00:45.064)
Propagating status (00:53.702)
Generating Narratives (00:53.705)
Validating Conformance Resources (01:02.637)
Validating Resources (01:17.478)
Processing Provenance Records (01:18.149)
Generating Outputs in /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/output (01:18.152)
Run Template (01:22.643)
onGenerate.checkVersions:
[xslt] Processing /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/onGenerate-ig-working.xml to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/versions.txt
[xslt] Loading stylesheet /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/scripts/onGenerate.getVersions.xslt
onGenerate.r5-schemas:
[get] Getting: http://build.fhir.org/fhir-single.xsd
[get] To: /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/input-cache/schemas/R5/fhir-single.xsd
[get] Not modified - so not downloaded
[get] Getting: http://build.fhir.org/fhir-xhtml.xsd
[get] To: /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/input-cache/schemas/R5/fhir-xhtml.xsd
[get] Not modified - so not downloaded
[get] Getting: http://build.fhir.org/xml.xsd
[get] To: /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/input-cache/schemas/R5/xml.xsd
[get] Not modified - so not downloaded
[get] Getting: http://build.fhir.org/xmldsig-core-schema.xsd
[get] To: /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/input-cache/schemas/R5/xmldsig-core-schema.xsd
[get] Not modified - so not downloaded
onGenerate.r4-schemas:
[get] Getting: http://hl7.org/fhir/R4/fhir-single.xsd
[get] To: /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/input-cache/schemas/R4/fhir-single.xsd
[get] Not modified - so not downloaded
[get] Getting: http://hl7.org/fhir/R4/fhir-xhtml.xsd
[get] To: /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/input-cache/schemas/R4/fhir-xhtml.xsd
[get] Not modified - so not downloaded
[get] Getting: http://hl7.org/fhir/R4/xml.xsd
[get] To: /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/input-cache/schemas/R4/xml.xsd
[get] Not modified - so not downloaded
[get] Getting: http://hl7.org/fhir/R4/xmldsig-core-schema.xsd
[get] To: /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/input-cache/schemas/R4/xmldsig-core-schema.xsd
[get] Not modified - so not downloaded
onGenerate.r3-schemas:
onGenerate.r2b-schemas:
onGenerate.r2-schemas:
onGenerate.schemas:
onGenerate.data:
[xslt] Processing /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/onGenerate-ig-working.xml to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/temp/pages/_data/artifacts.json
[xslt] Loading stylesheet /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/scripts/onGenerate.data.xslt
onGenerate.setup:
onGenerate.infoFile:
[xslt] Processing /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/onGenerate-ig-working.xml to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/temp/pages/_data/info.json
[xslt] Loading stylesheet /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/scripts/onGenerate.genJson.xslt
onGenerate.processIncludes:
[copy] Copying 17 files to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/temp/pages/_includes
onGenerate.processIg:
[xslt] Processing /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/onGenerate-ig-working.xml to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/onGenerate-ig-working.1.xml
[xslt] Loading stylesheet /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/scripts/onGenerate.group.xslt
[xslt] Processing /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/onGenerate-ig-working.1.xml to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/onGenerate-ig-updated.xml
[xslt] Loading stylesheet /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/scripts/onGenerate.final.xslt
onGenerate.igQa:
[xslt] Processing /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/onGenerate-ig-updated.xml to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/ongenerate-validation-igqa.json
[xslt] Loading stylesheet /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/scripts/onGenerate.qa.xslt
onGenerate.artifactList:
[xslt] Processing /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/onGenerate-ig-updated.xml to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/temp/pages/_includes/artifacts.xml
[xslt] Loading stylesheet /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/template/scripts/createArtifactSummary.xslt
check-plantumlfiles:
onGenerate.plantUml.ig:
onGenerate.plantUml.template:
onGenerate.plantUml:
onGenerate.copyDataFiles:
onGenerate.extend:
onGenerate:
Template Done (01:24.744)
Generating Summary Outputs (04:54.921)
Warning @ Unable to read the git branch: not a git repository (or any of the parent directories): .git
Sending Usage Stats to Server (05:29.202)
## Memory (MB): Use = 2423, Free = 159, Total = 2583, Max =4096
Reclaiming memory...
## Memory (MB): Use = 2378, Free = 204, Total = 2583, Max =4096
Run jekyll: jekyll build --destination "/var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/output" (in folder /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/temp/pages) (05:29.248)
Jekyll: Source: /private/var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/temp/pages (05:33.930)
Jekyll: Generating... (05:33.935)
Jekyll: done in 20.957 seconds. (05:54.887)
Installing nmdp.fhir.matchsync#0.1.0 to the package cache
Fetching:
..
Installing: .. done.
Checking Output HTML (06:03.455)
found 1583 files (06:03.481)
........................................
.................Sending usage stats failed: Operation timed out (Connection timed out)
.......................
... 1583 html files, 0 pages invalid xhtml (0%) (06:51.241)
... 763090 links, 44 broken links (0%) (06:51.244)
Build final .zip (06:51.246)
Final .zip built (06:55.625)
Built. Times: loading: 00:01.541, generate: 06:17.368, narrative generation: 00:08.930, realm-rules: 00:00.000, previous-version: 00:00.000, jekyll: 00:25.682, validation: 00:15.424 (#98), template: 00:02.098 (#3) (07:01.925)
Validation output in /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0/output/qa.html
Errors: 0, Warnings: 15, Info: 78, Broken Links: 44 (07:02.493)
Finished (07:02.498)
Done (07:02.502)
Prepare Build space in /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone
Build IG at /Users/bmilius/Documents/src/github-nmdp-ig/matchsync-ig/build: final copy suitable for publication (in /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone) (milestone build)
FHIR IG Publisher Version 1.3.8 (Git# b97c9154f9fb). Built 2023-05-04T13:45:40.124Z (5 days old)
Detected Java version: 11.0.14.1 from /Library/Java/JavaVirtualMachines/temurin-11.jdk/Contents/Home on Mac OS X/x86_64 (64bit). 4096MB available
dir = /Users/bmilius/Documents/src/github-nmdp-ig/matchsync-ig, path = /Users/bmilius/.rbenv/shims:/Users/bmilius/.local/bin:/usr/local/sbin:/usr/local/bin:/System/Cryptexes/App/usr/bin:/usr/bin:/bin:/usr/sbin:/sbin:/opt/X11/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/local/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/appleinternal/bin:/Users/bmilius/.rbenv/shims:/Users/bmilius/.local/bin:/usr/local/sbin:/usr/local/mysql/bin:/Users/bmilius/src/amazon/ec2-api-tools-1.6.7.1/bin:/Users/bmilius/bin:/Users/bmilius/bin/edirect:/bin:/usr/local/mysql/bin:/Users/bmilius/src/amazon/ec2-api-tools-1.6.7.1/bin:/Users/bmilius/bin:/Users/bmilius/bin/edirect
Parameters: -ig /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone -publish http://fhir.nmdp.org/ig/matchsync/0.1.0 -milestone -no-exit
Start Clock @ Tuesday, May 9, 2023 at 1:38:33 PM Central Daylight Time (2023-05-09T13:38:33-05:00)
Build FHIR IG from /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone (00:00.045)
Build Formal Publication package, intended for http://fhir.nmdp.org/ig/matchsync/0.1.0 (00:00.048)
API keys loaded from /Users/bmilius/.fhir/fhir-settings.json (00:00.051)
Package Cache: /Users/bmilius/.fhir/packages (00:00.054)
Run Sushi on /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone (00:00.057)
Sushi: info Running SUSHI v2.10.1 (implements FHIR Shorthand specification v2.0.0) (00:01.240)
Sushi: info Arguments: (00:01.243)
Sushi: info --require-latest (00:01.246)
Sushi: info --out /private/var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone (00:01.248)
Sushi: info /private/var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone (00:01.251)
Sushi: (node:81334) Warning: Accessing non-existent property 'INVALID_ALT_NUMBER' of module exports inside circular dependency (00:02.601)
Sushi: (Use `node --trace-warnings ...` to show where the warning was created) (00:02.606)
Sushi: (node:81334) Warning: Accessing non-existent property 'INVALID_ALT_NUMBER' of module exports inside circular dependency (00:02.611)
Sushi: info Using configuration file: /private/var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/sushi-config.yaml (00:02.645)
Sushi: info Importing FSH text... (00:02.656)
Sushi: info Preprocessed 10 documents with 16 aliases. (00:02.820)
Sushi: info Imported 57 definitions and 40 instances. (00:02.843)
Sushi: info Checking local cache for hl7.fhir.uv.tools#current... (00:02.845)
Sushi: info Found hl7.fhir.uv.tools#current in local cache. (00:02.892)
Sushi: info Loaded package hl7.fhir.uv.tools#current (00:04.002)
Sushi: info Checking local cache for hl7.terminology.r4#5.0.0... (00:05.019)
Sushi: info Found hl7.terminology.r4#5.0.0 in local cache. (00:07.420)
Sushi: info Loaded package hl7.terminology.r4#5.0.0 (00:07.423)
Sushi: info Checking local cache for hl7.fhir.us.core#4.0.0... (00:07.426)
Sushi: info Found hl7.fhir.us.core#4.0.0 in local cache. (00:07.541)
Sushi: info Loaded package hl7.fhir.us.core#4.0.0 (00:07.543)
Sushi: info Checking local cache for hl7.fhir.us.mcode#2.0.0... (00:07.546)
Sushi: info Found hl7.fhir.us.mcode#2.0.0 in local cache. (00:07.699)
Sushi: info Loaded package hl7.fhir.us.mcode#2.0.0 (00:07.701)
Sushi: info Checking local cache for hl7.fhir.uv.genomics-reporting#2.0.0... (00:07.703)
Sushi: info Found hl7.fhir.uv.genomics-reporting#2.0.0 in local cache. (00:07.762)
Sushi: info Loaded package hl7.fhir.uv.genomics-reporting#2.0.0 (00:07.764)
Sushi: info Checking local cache for hl7.fhir.r4.core#4.0.1... (00:07.766)
Sushi: info Found hl7.fhir.r4.core#4.0.1 in local cache. (00:10.346)
Sushi: info Loaded package hl7.fhir.r4.core#4.0.1 (00:10.349)
Sushi: info Converting FSH to FHIR resources... (00:10.469)
Sushi: info Converted 28 FHIR StructureDefinitions. (00:12.805)
Sushi: info Converted 12 FHIR CodeSystems. (00:13.090)
Sushi: info Converted 17 FHIR ValueSets. (00:13.202)
Sushi: info Converted 40 FHIR instances. (00:14.133)
Sushi: info Exporting FHIR resources as JSON... (00:14.135)
Sushi: info Exported 97 FHIR resources as JSON. (00:14.504)
Sushi: info Assembling Implementation Guide sources... (00:14.508)
Sushi: info Generated ImplementationGuide-nmdp.fhir.matchsync.json (00:14.571)
Sushi: info Assembled Implementation Guide sources; ready for IG Publisher. (00:14.574)
Sushi: (00:14.576)
Sushi: ========================= SUSHI RESULTS =========================== (00:14.579)
Sushi: | ------------------------------------------------------------- | (00:14.581)
Sushi: | | Profiles | Extensions | Logicals | Resources | | (00:14.584)
Sushi: | |-------------------------------------------------------------| | (00:14.586)
Sushi: | | 27 | 1 | 0 | 0 | | (00:14.589)
Sushi: | ------------------------------------------------------------- | (00:14.592)
Sushi: | ------------------------------------------------------------- | (00:14.595)
Sushi: | | ValueSets | CodeSystems | Instances | | (00:14.599)
Sushi: | |-------------------------------------------------------------| | (00:14.602)
Sushi: | | 17 | 12 | 40 | | (00:14.606)
Sushi: | ------------------------------------------------------------- | (00:14.609)
Sushi: | | (00:14.612)
Sushi: =================================================================== (00:14.615)
Sushi: | Fin-tastic job! 0 Errors 0 Warnings | (00:14.618)
Sushi: =================================================================== (00:14.621)
Sushi: (00:14.623)
Unable to load IG as an r5 IG - try R4 (property code is a class com.google.gson.JsonPrimitive looking for an object) (00:14.660)
Load Template from fhir.base.template#current (00:14.737)
onLoad.findSpreadsheets:
onLoad.updateIg:
[xslt] Processing /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/onLoad-ig-working.xml to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/onLoad-ig-updated.xml
[xslt] Loading stylesheet /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/scripts/onLoad.xslt
onLoad.extend:
onLoad:
Root directory: /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone (00:19.491)
Core Package hl7.fhir.r4.core#4.0.1
.:Terminology Cache is at /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/input-cache/txcache. 3 files in cache (00:30.186)
Connect to Terminology Server at http://tx.fhir.org (00:30.189)
Load Package hl7.fhir.pubpack#0.1.4
Load Package hl7.fhir.xver-extensions#0.0.12
Load Package hl7.terminology.r4#5.0.0
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
Version mismatch. This IG is version 4.0.1, while the IG 'igtools' is from version 5.0.0 (will try to run anyway) (00:33.559)
Load Package hl7.fhir.uv.tools#0.1.0
Initialization complete (00:37.079)
Fetch http://fhir.nmdp.org/ig/matchsync/package-list.json for version check (00:37.081)
Load Content (00:38.243)
loadPrePages from FetchedFile[/var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/input/includes] as /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/input/includes
loadPrePages from FetchedFile[/var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/fsh-generated/includes] as /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/fsh-generated/includes
loadPrePages from FetchedFile[/var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/input/pagecontent] as /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/input/pagecontent
Processing Conformance Resources (00:39.459)
Generating Snapshots (00:39.852)
Propagating status (00:47.851)
Generating Narratives (00:47.854)
Validating Conformance Resources (00:59.294)
Validating Resources (01:13.201)
Processing Provenance Records (01:15.874)
Generating Outputs in /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/output (01:15.877)
Run Template (01:20.096)
onGenerate.checkVersions:
[xslt] Processing /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/onGenerate-ig-working.xml to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/versions.txt
[xslt] Loading stylesheet /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/scripts/onGenerate.getVersions.xslt
onGenerate.r5-schemas:
[get] Getting: http://build.fhir.org/fhir-single.xsd
[get] To: /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/input-cache/schemas/R5/fhir-single.xsd
[get] Not modified - so not downloaded
[get] Getting: http://build.fhir.org/fhir-xhtml.xsd
[get] To: /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/input-cache/schemas/R5/fhir-xhtml.xsd
[get] Not modified - so not downloaded
[get] Getting: http://build.fhir.org/xml.xsd
[get] To: /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/input-cache/schemas/R5/xml.xsd
[get] Not modified - so not downloaded
[get] Getting: http://build.fhir.org/xmldsig-core-schema.xsd
[get] To: /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/input-cache/schemas/R5/xmldsig-core-schema.xsd
[get] Not modified - so not downloaded
onGenerate.r4-schemas:
[get] Getting: http://hl7.org/fhir/R4/fhir-single.xsd
[get] To: /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/input-cache/schemas/R4/fhir-single.xsd
[get] Not modified - so not downloaded
[get] Getting: http://hl7.org/fhir/R4/fhir-xhtml.xsd
[get] To: /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/input-cache/schemas/R4/fhir-xhtml.xsd
[get] Not modified - so not downloaded
[get] Getting: http://hl7.org/fhir/R4/xml.xsd
[get] To: /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/input-cache/schemas/R4/xml.xsd
[get] Not modified - so not downloaded
[get] Getting: http://hl7.org/fhir/R4/xmldsig-core-schema.xsd
[get] To: /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/input-cache/schemas/R4/xmldsig-core-schema.xsd
[get] Not modified - so not downloaded
onGenerate.r3-schemas:
onGenerate.r2b-schemas:
onGenerate.r2-schemas:
onGenerate.schemas:
onGenerate.data:
[xslt] Processing /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/onGenerate-ig-working.xml to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/temp/pages/_data/artifacts.json
[xslt] Loading stylesheet /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/scripts/onGenerate.data.xslt
onGenerate.setup:
onGenerate.infoFile:
[xslt] Processing /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/onGenerate-ig-working.xml to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/temp/pages/_data/info.json
[xslt] Loading stylesheet /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/scripts/onGenerate.genJson.xslt
onGenerate.processIncludes:
[copy] Copying 17 files to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/temp/pages/_includes
onGenerate.processIg:
[xslt] Processing /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/onGenerate-ig-working.xml to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/onGenerate-ig-working.1.xml
[xslt] Loading stylesheet /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/scripts/onGenerate.group.xslt
[xslt] Processing /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/onGenerate-ig-working.1.xml to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/onGenerate-ig-updated.xml
[xslt] Loading stylesheet /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/scripts/onGenerate.final.xslt
onGenerate.igQa:
[xslt] Processing /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/onGenerate-ig-updated.xml to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/ongenerate-validation-igqa.json
[xslt] Loading stylesheet /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/scripts/onGenerate.qa.xslt
onGenerate.artifactList:
[xslt] Processing /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/onGenerate-ig-updated.xml to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/temp/pages/_includes/artifacts.xml
[xslt] Loading stylesheet /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/template/scripts/createArtifactSummary.xslt
check-plantumlfiles:
onGenerate.plantUml.ig:
onGenerate.plantUml.template:
onGenerate.plantUml:
onGenerate.copyDataFiles:
onGenerate.extend:
onGenerate:
Template Done (01:22.350)
Generating Summary Outputs (04:29.452)
Warning @ Unable to read the git branch: not a git repository (or any of the parent directories): .git
Sending Usage Stats to Server (05:04.964)
## Memory (MB): Use = 2477, Free = 465, Total = 2943, Max =4096
Reclaiming memory...
## Memory (MB): Use = 2221, Free = 1492, Total = 3714, Max =4096
Run jekyll: jekyll build --destination "/var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/output" (in folder /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/temp/pages) (05:06.094)
Jekyll: Source: /private/var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/temp/pages (05:10.818)
Jekyll: Generating... (05:10.821)
Jekyll: done in 20.766 seconds. (05:31.585)
Installing nmdp.fhir.matchsync#0.1.0 to the package cache
Fetching:
..
Installing: Checking Output HTML (05:38.595)
found 1583 files (05:38.623)
........................................
.................Sending usage stats failed: Operation timed out (Connection timed out)
.......................
... 1583 html files, 0 pages invalid xhtml (0%) (06:24.392)
... 763090 links, 44 broken links (0%) (06:24.394)
Build final .zip (06:24.396)
Final .zip built (06:29.563)
Built. Times: loading: 00:01.213, generate: 05:57.020, narrative generation: 00:11.438, realm-rules: 00:00.000, previous-version: 00:00.000, jekyll: 00:25.534, validation: 00:16.520 (#98), template: 00:02.251 (#3) (06:36.486)
Validation output in /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/nmdp.fhir.matchsync#0.1.0-milestone/output/qa.html
Errors: 0, Warnings: 15, Info: 78, Broken Links: 44 (06:36.996)
Finished (06:37.002)
Done (06:37.004)
Keep a copy of the build directory at /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/web-root/run-20230509/ig-build-zips/nmdp.fhir.matchsync#0.1.0.zip
ok. All checks passed. Publish v0.1.0 to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/web-root/run-20230509/matchsync/0.1.0
Copy the IG to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/web-root/run-20230509/matchsync/0.1.0
Update /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/web-root/run-20230509/matchsync/package-list.json
Publish Box Statement: This page is part of the MatchSync Implementation Guide (v0.1.0: Release Draft) based on FHIR 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 
.. 630 files checked, 630 updated
.. 199 clones checked, 398 updated
.. 98 redirections (98 created/updated)
This is a milestone release - publish v0.1.0 to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/web-root/run-20230509/matchsync
Publish Box Statement: This page is part of the MatchSync Implementation Guide (v0.1.0: Release Draft) based on FHIR R4. This is the current published version. For a full list of available versions, see the Directory of published versions
.. 630 files checked, 630 updated
.. 199 clones checked, 398 updated
.. 98 redirections (98 created/updated)
Check for Files to delete
... 0 files
Copy to new IG to /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/web-root/run-20230509/matchsync
Update history page at /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/web-root/run-20230509/matchsync from /Users/bmilius/Documents/src/github-nmdp-ig/matchsync-ig/publication/ig-history and /Users/bmilius/Documents/src/github-nmdp-ig/matchsync-ig/publication/web-root/history-templates
Build is complete. Copy from /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/web-root/run-20230509
nmdp.fhir.matchsync (http://fhir.nmdp.org/ig/matchsync): MatchSync Implementation Guide @ http://nmdp-ig.github.io/matchsync-ig
candidate: Release Draft 0.1.0/4.0.1 @ http://fhir.nmdp.org/ig/matchsync/0.1.0