INFO:root:about to clone! DEBUG:root:running: git clone --recursive https://github.com/HL7/home-lab-report --branch master repo DEBUG:root:Time to deadline 35879.997942 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 35879.479995 seconds DEBUG:root:running: npm -g install fsh-sushi DEBUG:root:Time to deadline 35878.209544 seconds npm WARN deprecated rimraf@2.6.3: Rimraf versions prior to v4 are no longer supported npm WARN deprecated inflight@1.0.6: This module is not supported, and leaks memory. Do not use it. Check out lru-cache if you want a good and tested way to coalesce async requests by a key value, which is much more comprehensive and powerful. npm WARN deprecated glob@7.2.3: Glob versions prior to v9 are no longer supported added 119 packages in 5s 8 packages are looking for funding run `npm fund` for details npm notice npm notice New major version of npm available! 9.8.1 -> 10.8.2 npm notice Changelog: npm notice Run `npm install -g npm@10.8.2` 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/HL7/home-lab-report/ -out /scratch/repo DEBUG:root:Time to deadline 35873.370978 seconds FHIR IG Publisher Version 1.6.19 (Git# 269e97d0c958). Built 2024-08-04T20:47:09.178Z (3 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/HL7/home-lab-report/ -out /scratch/repo Start Clock @ Thursday, August 8, 2024, 4:42:29 PM Coordinated Universal Time (2024-08-08T16:42:29Z) Build FHIR IG from /scratch/repo (00:00.022 / 00:00.023, 89Mb) API keys loaded from /etc/fhir-settings.json (00:00.004 / 00:00.027, 89Mb) Package Cache: /var/lib/.fhir/packages (00:00.002 / 00:00.030, 89Mb) Run Sushi on /scratch/repo (00:00.004 / 00:00.034, 89Mb) Sushi: info Running SUSHI v3.11.0 (implements FHIR Shorthand specification v3.0.0-ballot) (00:00.531 / 00:00.566, 97Mb) Sushi: info Arguments: (00:00.000 / 00:00.566, 97Mb) Sushi: info --require-latest (00:00.000 / 00:00.566, 97Mb) Sushi: info --out /scratch/repo (00:00.000 / 00:00.566, 97Mb) Sushi: info /scratch/repo (00:00.000 / 00:00.567, 97Mb) Sushi: info Using configuration file: /scratch/repo/sushi-config.yaml (00:00.579 / 00:01.147, 97Mb) Sushi: info Importing FSH text... (00:00.129 / 00:01.276, 97Mb) Sushi: info Preprocessed 48 documents with 9 aliases. (00:00.244 / 00:01.521, 97Mb) Sushi: info Imported 14 definitions and 31 instances. (00:00.023 / 00:01.545, 97Mb) Sushi: info Checking /home/fhiruser/.fhir/packages for hl7.fhir.uv.tools#current... (00:00.001 / 00:01.546, 97Mb) Sushi: info Did not find hl7.fhir.uv.tools#current in /home/fhiruser/.fhir/packages. (00:00.027 / 00:01.574, 97Mb) Sushi: info Downloading hl7.fhir.uv.tools#current... https://build.fhir.org/ig/FHIR/fhir-tools-ig/branches/master/package.tgz (00:00.111 / 00:01.686, 97Mb) Sushi: info Downloaded hl7.fhir.uv.tools#current (00:00.017 / 00:01.703, 97Mb) Sushi: info Loaded package hl7.fhir.uv.tools#current (00:00.088 / 00:01.792, 97Mb) Sushi: info Checking /home/fhiruser/.fhir/packages for hl7.terminology.r4#6.0.2... (00:00.517 / 00:02.309, 97Mb) Sushi: info Did not find hl7.terminology.r4#6.0.2 in /home/fhiruser/.fhir/packages. (00:00.026 / 00:02.336, 97Mb) Sushi: info Downloading hl7.terminology.r4#6.0.2... https://packages.fhir.org/hl7.terminology.r4/6.0.2 (00:00.026 / 00:02.362, 97Mb) Sushi: info Downloaded hl7.terminology.r4#6.0.2 (00:02.287 / 00:04.650, 97Mb) Sushi: info Loaded package hl7.terminology.r4#6.0.2 (00:01.888 / 00:06.538, 97Mb) Sushi: info Checking /home/fhiruser/.fhir/packages for hl7.fhir.uv.extensions.r4#5.1.0... (00:00.449 / 00:06.988, 97Mb) Sushi: info Did not find hl7.fhir.uv.extensions.r4#5.1.0 in /home/fhiruser/.fhir/packages. (00:00.374 / 00:07.363, 97Mb) Sushi: info Downloading hl7.fhir.uv.extensions.r4#5.1.0... https://packages.fhir.org/hl7.fhir.uv.extensions.r4/5.1.0 (00:00.000 / 00:07.363, 97Mb) Sushi: info Downloaded hl7.fhir.uv.extensions.r4#5.1.0 (00:02.062 / 00:09.426, 97Mb) Sushi: info Loaded package hl7.fhir.uv.extensions.r4#5.1.0 (00:01.126 / 00:10.552, 97Mb) Sushi: info Checking /home/fhiruser/.fhir/packages for hl7.fhir.us.core#6.1.0... (00:00.000 / 00:10.553, 97Mb) Sushi: info Did not find hl7.fhir.us.core#6.1.0 in /home/fhiruser/.fhir/packages. (00:00.543 / 00:11.096, 97Mb) Sushi: info Downloading hl7.fhir.us.core#6.1.0... https://packages.fhir.org/hl7.fhir.us.core/6.1.0 (00:00.000 / 00:11.097, 97Mb) Sushi: info Downloaded hl7.fhir.us.core#6.1.0 (00:01.669 / 00:12.766, 97Mb) Sushi: info Loaded package hl7.fhir.us.core#6.1.0 (00:00.769 / 00:13.536, 97Mb) Sushi: info Checking /home/fhiruser/.fhir/packages for us.nlm.vsac#0.18.0... (00:00.000 / 00:13.536, 97Mb) Sushi: info Did not find us.nlm.vsac#0.18.0 in /home/fhiruser/.fhir/packages. (00:00.642 / 00:14.179, 97Mb) Sushi: info Downloading us.nlm.vsac#0.18.0... https://packages.fhir.org/us.nlm.vsac/0.18.0 (00:00.000 / 00:14.179, 97Mb) Sushi: info Downloading us.nlm.vsac#0.18.0... https://packages2.fhir.org/packages/us.nlm.vsac/0.18.0 (00:00.487 / 00:14.667, 97Mb) Sushi: info Downloaded us.nlm.vsac#0.18.0 (00:03.042 / 00:17.709, 97Mb) Sushi: info Loaded package us.nlm.vsac#0.18.0 (00:23.239 / 00:40.949, 113Mb) Sushi: info Checking /home/fhiruser/.fhir/packages for us.cdc.phinvads#0.12.0... (00:00.000 / 00:40.949, 113Mb) Sushi: info Did not find us.cdc.phinvads#0.12.0 in /home/fhiruser/.fhir/packages. (00:12.152 / 00:53.102, 113Mb) Sushi: info Downloading us.cdc.phinvads#0.12.0... https://packages.fhir.org/us.cdc.phinvads/0.12.0 (00:00.000 / 00:53.102, 113Mb) Sushi: info Downloaded us.cdc.phinvads#0.12.0 (00:02.968 / 00:56.071, 113Mb) Sushi: info Loaded package us.cdc.phinvads#0.12.0 (00:17.672 / 01:13.743, 113Mb) Sushi: info Checking /home/fhiruser/.fhir/packages for hl7.fhir.r4.core#4.0.1... (00:00.000 / 01:13.744, 113Mb) Sushi: info Did not find hl7.fhir.r4.core#4.0.1 in /home/fhiruser/.fhir/packages. (00:17.232 / 01:30.976, 121Mb) Sushi: info Downloading hl7.fhir.r4.core#4.0.1... https://packages.fhir.org/hl7.fhir.r4.core/4.0.1 (00:00.000 / 01:30.976, 121Mb) Sushi: info Downloaded hl7.fhir.r4.core#4.0.1 (00:02.929 / 01:33.906, 121Mb) Sushi: info Loaded package hl7.fhir.r4.core#4.0.1 (00:19.075 / 01:52.981, 121Mb) Sushi: info Converting FSH to FHIR resources... (00:00.046 / 01:53.027, 121Mb) Sushi: info Converted 14 FHIR StructureDefinitions. (00:01.762 / 01:54.789, 121Mb) Sushi: info Converted 31 FHIR instances. (00:01.693 / 01:56.483, 121Mb) Sushi: info Exporting FHIR resources as JSON... (00:00.020 / 01:56.503, 121Mb) Sushi: info Exported 45 FHIR resources as JSON. (00:00.065 / 01:56.568, 121Mb) Sushi: info Assembling Implementation Guide sources... (00:00.003 / 01:56.572, 121Mb) Sushi: info Generated ImplementationGuide-hl7.fhir.us.home-lab-report.json (00:00.034 / 01:56.606, 121Mb) Sushi: info Assembled Implementation Guide sources; ready for IG Publisher. (00:00.000 / 01:56.606, 121Mb) Sushi: ========================= SUSHI RESULTS =========================== (00:00.001 / 01:56.608, 121Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 01:56.608, 121Mb) Sushi: | | Profiles | Extensions | Logicals | Resources | | (00:00.000 / 01:56.608, 121Mb) Sushi: | |-------------------------------------------------------------| | (00:00.000 / 01:56.609, 121Mb) Sushi: | | 11 | 3 | 0 | 0 | | (00:00.000 / 01:56.609, 121Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 01:56.609, 121Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 01:56.609, 121Mb) Sushi: | | ValueSets | CodeSystems | Instances | | (00:00.000 / 01:56.610, 121Mb) Sushi: | |-------------------------------------------------------------| | (00:00.000 / 01:56.610, 121Mb) Sushi: | | 0 | 0 | 31 | | (00:00.000 / 01:56.610, 121Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 01:56.610, 121Mb) Sushi: | | (00:00.000 / 01:56.610, 121Mb) Sushi: =================================================================== (00:00.000 / 01:56.611, 121Mb) Sushi: | Well hooked and landed! 0 Errors 0 Warnings | (00:00.000 / 01:56.611, 121Mb) Sushi: =================================================================== (00:00.000 / 01:56.611, 121Mb) Unable to load IG as an r5 IG - try R4 (property code is a class com.google.gson.JsonPrimitive looking for an object) (00:01.000 / 01:57.611, 37Mb) Load Template from hl7.fhir.template#current (00:00.511 / 01:58.123, 70Mb) Installing hl7.fhir.template#current to the package cache Fetching: Installing hl7.fhir.template#current done. Load Template from hl7.base.template#current (00:01.184 / 01:59.308, 133Mb) Installing hl7.base.template#current to the package cache Fetching: Installing hl7.base.template#current done. Load Template from fhir.base.template#current (00:00.229 / 01:59.538, 133Mb) Installing fhir.base.template#current to the package cache Fetching: Installing fhir.base.template#current done. onLoad.findSpreadsheets: onLoad.updateIg: [xslt] Processing /scratch/repo/template/onLoad-ig-working.xml to /scratch/repo/template/onLoad-ig-updated.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/onLoad.xslt onLoad.extend: onLoad: Root directory: /scratch/repo (00:03.281 / 02:02.820, 129Mb) Terminology Cache is at /scratch/repo/input-cache/txcache. Trimming now (00:00.002 / 02:02.822, 129Mb) Core Package hl7.fhir.r4.core#4.0.1 Running Terminology Log: /tmp/ohfu-fhir-ig-13178798538773134238.log Connect to Terminology Server at http://tx.fhir.org (00:41.219 / 02:44.042, 542Mb) Installing hl7.fhir.pubpack#0.1.8 to the package cache Fetching: Installing hl7.fhir.pubpack#0.1.8 done. Load Package hl7.fhir.pubpack#0.1.8 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 Load Package hl7.terminology.r4#6.0.2 Load Package hl7.fhir.uv.extensions.r4#5.1.0 Installing hl7.terminology.r4#5.0.0 to the package cache Fetching: Installing hl7.terminology.r4#5.0.0 done. Load Package hl7.terminology.r4#5.0.0 Installing hl7.fhir.uv.extensions.r4#1.0.0 to the package cache Fetching: Installing hl7.fhir.uv.extensions.r4#1.0.0 done. Load Package hl7.fhir.uv.extensions.r4#1.0.0 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#2.1.0 to the package cache Fetching: Installing hl7.fhir.uv.smart-app-launch#2.1.0 done. Load Package hl7.fhir.uv.smart-app-launch#2.1.0 Installing us.nlm.vsac#0.11.0 to the package cache Fetching: Installing us.nlm.vsac#0.11.0 done. Load Package us.nlm.vsac#0.11.0 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' (00:54.059 / 03:38.101, 1Gb) Load Package hl7.fhir.uv.sdc#3.0.0 Load Package us.cdc.phinvads#0.12.0 Installing ihe.formatcode.fhir#1.1.0 to the package cache Fetching: Installing ihe.formatcode.fhir#1.1.0 done. Load Package ihe.formatcode.fhir#1.1.0 Load Package hl7.fhir.us.core#6.1.0 Load Package us.nlm.vsac#0.18.0 Load Package us.cdc.phinvads#0.12.0 Installing hl7.fhir.uv.tools#0.2.0 to the package cache Fetching: Installing hl7.fhir.uv.tools#0.2.0 done. Version mismatch. This IG is version 4.0.1, while the IG 'hl7.fhir.uv.tools' is from version 5.0.0 (will try to run anyway) (00:18.886 / 03:56.987, 662Mb) Load Package hl7.fhir.uv.tools#0.2.0 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 (00:03.723 / 04:00.711, 1Gb) Load Content (00:00.000 / 04:00.711, 1Gb) Using en-US as the default narrative language. (no language information in Implementation Guide or command line (00:00.094 / 04:00.806, 1Gb) loadPrePages from FetchedFile[/scratch/repo/fsh-generated/includes] as /scratch/repo/fsh-generated/includes loadPrePages from FetchedFile[/scratch/repo/input/pagecontent] as /scratch/repo/input/pagecontent Fetch http://hl7.org/fhir/us/home-lab-report/package-list.json for version check (00:01.373 / 04:02.179, 1Gb) Processing Conformance Resources (00:00.123 / 04:02.303, 1Gb) Load Dependency Info (00:00.001 / 04:02.305, 1Gb) Load Info (00:00.001 / 04:02.306, 1Gb) Load Resources (00:00.000 / 04:02.307, 1Gb) Load Paths (00:00.243 / 04:02.551, 1Gb) Generating Snapshots (00:00.000 / 04:02.551, 1Gb) Unable to generate snapshot @3 for http://hl7.org/fhir/us/home-lab-report/StructureDefinition/MessageHeader-at-home-in-vitro-test-results: Profile MessageHeaderAtHomeInVitroTestResults (http://hl7.org/fhir/us/home-lab-report/StructureDefinition/MessageHeader-at-home-in-vitro-test-results), element MessageHeader - At-Home In-Vitro Test Results.extension[[CanonicalType[http://hl7.org/fhir/us/home-lab-report/StructureDefinition/Extension-at-home-in-vitro-test-source-software-info]]].MessageHeader.source.extension. Error generating snapshot: Element MessageHeader.source.extension: derived max (*) cannot be greater than the base max (1) Check R4 / R4B (00:01.212 / 04:03.763, 771Mb) Assign Comparison Ids (00:00.013 / 04:03.777, 771Mb) Propagating status (00:00.000 / 04:03.777, 771Mb) Generating Narratives (00:00.000 / 04:03.778, 771Mb) Validating Conformance Resources (00:01.522 / 04:05.300, 641Mb) Check profiles & code systems (00:11.356 / 04:16.657, 1Gb) Check realm rules (00:00.003 / 04:16.660, 1Gb) Installing hl7.fhir.us.core#7.0.0 to the package cache Fetching: 2024-08-08 16:46:46.750 [main] INFO o.h.f.u.npm.BasePackageCacheManager [BasePackageCacheManager.java:88] Failed to resolve package hl7.fhir.us.core#7.0.0 from server: https://packages.fhir.org (Not Found) Installing hl7.fhir.us.core#7.0.0 done. US Core Comparisons Finished Previous Version Comparison (00:04.381 / 04:21.041, 1Gb) Installing hl7.fhir.us.home-lab-report#1.0.0 to the package cache Fetching: Installing hl7.fhir.us.home-lab-report#1.0.0 done. 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. 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. Installing us.nlm.vsac#0.7.0 to the package cache Fetching: Installing us.nlm.vsac#0.7.0 done. Installing hl7.fhir.r4.examples#4.0.1 to the package cache Fetching: Installing hl7.fhir.r4.examples#4.0.1 done. Installing us.nlm.vsac#0.9.0 to the package cache Fetching: Installing us.nlm.vsac#0.9.0 done. Validating Resources (05:32.396 / 09:53.438, 1Gb) Processing Provenance Records (00:04.571 / 09:58.009, 1Gb) Generating Outputs in /scratch/repo/output (00:00.000 / 09:58.013, 1Gb) Generate Native Outputs (00:00.314 / 09:58.324, 2Gb) Run Template (00:05.496 / 10:03.820, 2Gb) onGenerate.checkVersions: [xslt] Processing /scratch/repo/template/onGenerate-ig-working.xml to /scratch/repo/template/versions.txt [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.getVersions.xslt [mkdir] Created dir: /scratch/repo/input-cache/schemas onGenerate.r5-schemas: [mkdir] Created dir: /scratch/repo/input-cache/schemas/R5 [get] Getting: http://build.fhir.org/fhir-single.xsd [get] To: /scratch/repo/input-cache/schemas/R5/fhir-single.xsd [get] Getting: http://build.fhir.org/fhir-xhtml.xsd [get] To: /scratch/repo/input-cache/schemas/R5/fhir-xhtml.xsd [get] Getting: http://build.fhir.org/xml.xsd [get] To: /scratch/repo/input-cache/schemas/R5/xml.xsd [get] Getting: http://build.fhir.org/xmldsig-core-schema.xsd [get] To: /scratch/repo/input-cache/schemas/R5/xmldsig-core-schema.xsd onGenerate.r4-schemas: [mkdir] Created dir: /scratch/repo/input-cache/schemas/R4 [get] Getting: http://hl7.org/fhir/R4/fhir-single.xsd [get] To: /scratch/repo/input-cache/schemas/R4/fhir-single.xsd [get] Getting: http://hl7.org/fhir/R4/fhir-xhtml.xsd [get] To: /scratch/repo/input-cache/schemas/R4/fhir-xhtml.xsd [get] Getting: http://hl7.org/fhir/R4/xml.xsd [get] To: /scratch/repo/input-cache/schemas/R4/xml.xsd [get] Getting: http://hl7.org/fhir/R4/xmldsig-core-schema.xsd [get] To: /scratch/repo/input-cache/schemas/R4/xmldsig-core-schema.xsd onGenerate.r3-schemas: onGenerate.r2b-schemas: onGenerate.r2-schemas: onGenerate.schemas: onGenerate.data: [xslt] Processing /scratch/repo/template/onGenerate-ig-working.xml to /scratch/repo/temp/pages/_data/artifacts.json [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.data.xslt onGenerate.setup: onGenerate.infoFile: [xslt] Processing /scratch/repo/template/onGenerate-ig-working.xml to /scratch/repo/temp/pages/_data/info.json [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.genJson.xslt onGenerate.processIncludes: [copy] Copying 19 files to /scratch/repo/temp/pages/_includes onGenerate.processIg: [xslt] Processing /scratch/repo/template/onGenerate-ig-working.xml to /scratch/repo/template/onGenerate-ig-working.1.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.group.xslt [xslt] Processing /scratch/repo/template/onGenerate-ig-working.1.xml to /scratch/repo/template/onGenerate-ig-working.2.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.groupSort.xslt [xslt] Processing /scratch/repo/template/onGenerate-ig-working.2.xml to /scratch/repo/template/onGenerate-ig-updated.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.final.xslt onGenerate.igQa: [xslt] Processing /scratch/repo/template/onGenerate-ig-updated.xml to /scratch/repo/template/ongenerate-validation-igqa.json [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.qa.xslt onGenerate.artifactList: [xslt] Processing /scratch/repo/template/onGenerate-ig-updated.xml to /scratch/repo/temp/pages/_includes/artifacts.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/createArtifactSummary.xslt check-plantumlfiles: onGenerate.plantUml.ig: onGenerate.plantUml.template: onGenerate.plantUml: onGenerate.copyDataFiles: onGenerate.jira.setup: [xslt] Processing /scratch/repo/template/onGenerate-ig-updated.xml to /scratch/repo/template/properties.txt [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.genProperties.xslt [get] Getting: https://github.com/HL7/JIRA-Spec-Artifacts/raw/master/xml/_workgroups.xml [get] To: /scratch/repo/input-cache/workgroups.xml [get] https://github.com/HL7/JIRA-Spec-Artifacts/raw/master/xml/_workgroups.xml moved to https://raw.githubusercontent.com/HL7/JIRA-Spec-Artifacts/master/xml/_workgroups.xml [get] Getting: https://github.com/HL7/JIRA-Spec-Artifacts/raw/master/xml/FHIR-us-home-lab-report.xml [get] To: /scratch/repo/input-cache/jiraspec.xml [get] https://github.com/HL7/JIRA-Spec-Artifacts/raw/master/xml/FHIR-us-home-lab-report.xml moved to https://raw.githubusercontent.com/HL7/JIRA-Spec-Artifacts/master/xml/FHIR-us-home-lab-report.xml onGenerate.jira.packagelistcopy: onGenerate.jira.packagelistget: [get] Getting: http://hl7.org/fhir/us/home-lab-report/package-list.json [get] To: /scratch/repo/template/onGenerate.jira.workingpackage-list.json onGenerate.jira.packagelistProcess: [xslt] Processing /scratch/repo/template/onGenerate.jira.package-list.tmp.xml to /scratch/repo/template/onGenerate.jira.package-list.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.package-list.xslt onGenerate.jira.packagelistSkip: onGenerate.jira.pubrequestProcess: [xslt] Processing /scratch/repo/template/onGenerate.jira.pubrequest.tmp.xml to /scratch/repo/template/onGenerate.jira.pubrequest.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.pubrequest.xslt onGenerate.jira.pubrequestSkip: onGenerate.jira.generate: [xslt] Processing /scratch/repo/template/onGenerate.jira.tmp.xml to /scratch/repo/template/onGenerate.jira.tmp2.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.process-pkg-list.xslt [xslt] Processing /scratch/repo/template/onGenerate.jira.tmp2.xml to /scratch/repo/template/onGenerate.jira.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.jira.xslt [xslt] Processing /scratch/repo/template/onGenerate.jira.xml to /scratch/repo/template/jira-new.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.normalize.xslt [xslt] Processing /scratch/repo/input-cache/jiraspec.xml to /scratch/repo/template/jira-current.xml [xslt] Loading stylesheet /scratch/repo/template/scripts/onGenerate.normalize.xslt [copy] Copying 1 file to /scratch/repo onGenerate.jira.check: onGenerate.jira.skip-offline: onGenerate.jira.skip-missing: onGenerate.jira: onGenerate.extend: onGenerate: Template Done (00:01.883 / 10:05.703, 2Gb) Generate HTML Outputs (00:00.000 / 10:05.704, 2Gb) ERROR StatusLogger Log4j2 could not find a logging implementation. Please add log4j-core to the classpath. Using SimpleLogger to log to the console... Generate Summaries (00:11.256 / 10:16.961, 3Gb) Generating Summary Outputs (00:00.000 / 10:16.961, 3Gb) DB Cumulative Time invested: 00:00:00.668 Sending Usage Stats to Server (00:11.486 / 10:28.447, 9Gb) ## Memory (MB): Use = 9486, Free = 9521, Total = 19008, Max = 19008 (00:00.007 / 10:28.455, 9Gb) Reclaiming memory... (00:00.000 / 10:28.455, 9Gb) ## Memory (MB): Use = 1248, Free = 17759, Total = 19008, Max = 19008 (00:01.292 / 10:29.748, 1Gb) Run jekyll: jekyll build --destination "/scratch/repo/output" (in folder /scratch/repo/temp/pages) (00:00.001 / 10:29.749, 1Gb) Troubleshooting Note: usual cases for Jekyll to fail are: (00:00.000 / 10:29.749, 1Gb) * A failure to produce a fragment that is already logged in the output above (00:00.000 / 10:29.749, 1Gb) * A reference to a manually edited file that hasn't been provided (00:00.000 / 10:29.749, 1Gb) Jekyll: Source: /scratch/repo/temp/pages (00:00.453 / 10:30.203, 1Gb) Jekyll: Generating... (00:00.000 / 10:30.203, 1Gb) Jekyll: done in 1.937 seconds. (00:01.936 / 10:32.139, 1Gb) Checking Output HTML (00:02.159 / 10:34.299, 2Gb) found 1029 files (00:00.007 / 10:34.307, 2Gb) ......................................... ......................................... ... 1029 html files, 0 pages invalid xhtml (0%) (00:08.000 / 10:42.307, 1Gb) ... 150952 links, 0 broken links (0%) (00:00.000 / 10:42.307, 1Gb) Generate fragment-usage-analysis.csv (00:00.000 / 10:42.307, 1Gb) Build final .zip (00:00.005 / 10:42.313, 1Gb) Final .zip built (00:02.422 / 10:44.736, 1Gb) Built. Times: loading: 00:01.591, generate: 06:47.085, narrative generation: 00:01.522, realm-rules: 00:04.381, previous-version: 05:32.365, jekyll: 00:02.416, validation: 00:15.701 (#46), template: 00:01.882 (#3) (00:04.665 / 10:49.401, 3Gb) Generating QA (00:00.000 / 10:49.402, 3Gb) Validation output in /scratch/repo/output/qa.html Errors: 0, Warnings: 0, Info: 0, Broken Links: 0 (00:01.325 / 10:50.727, 3Gb) Finished. Max Memory Used = 9Gb (00:00.010 / 10:50.738, 3Gb)