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677 Commits

Author SHA1 Message Date
James Agnew 1390ea3c06
Update FHIR R5 structures to 4.2.0 version (#1665) 
* Work on upgrading core

* Work on R5 updates

* Work on core updates

* Test fix

* Update model version properties file for R5

* Bump core version

* Test fixes

* Add 4.2.0-SNAPSHOT version to versions page in docs
 2020-01-14 10:27:01 +08:00
jamesagnew f963906545 Bump postgres version 2019-12-27 09:57:40 -05:00
James Agnew 5cfc75eac2 Test fixes 2019-12-25 13:05:33 -05:00
James Agnew 0a21ab6941 Use datasource for migrator 2019-12-18 14:23:46 -05:00
James Agnew c0c85d7c8c Logging fixes 2019-12-16 10:30:04 -05:00
jamesagnew f2221bcc69 Restore errorprone to the build 2019-12-15 19:11:27 -05:00
James Agnew e1f2d044ed Add errorprone back into build 2019-12-15 09:42:51 -05:00
jamesagnew ba8f50f0c8 Docs updates 2019-12-14 18:19:09 -05:00
Ken Stevens 0b30033b0a upgrade flyway to latest version 
automatically repair failed migrations
 2019-12-09 11:19:18 -05:00
dependabot[bot] fadaad9e96
Bump jetty_version from 9.4.23.v20191118 to 9.4.24.v20191120 
Bumps `jetty_version` from 9.4.23.v20191118 to 9.4.24.v20191120.

Updates `jetty-http` from 9.4.23.v20191118 to 9.4.24.v20191120
- [Release notes](https://github.com/eclipse/jetty.project/releases)
- [Commits](https://github.com/eclipse/jetty.project/compare/jetty-9.4.23.v20191118...jetty-9.4.24.v20191120)

Updates `jetty-servlets` from 9.4.23.v20191118 to 9.4.24.v20191120
- [Release notes](https://github.com/eclipse/jetty.project/releases)
- [Commits](https://github.com/eclipse/jetty.project/compare/jetty-9.4.23.v20191118...jetty-9.4.24.v20191120)

Updates `jetty-io` from 9.4.23.v20191118 to 9.4.24.v20191120
- [Release notes](https://github.com/eclipse/jetty.project/releases)
- [Commits](https://github.com/eclipse/jetty.project/compare/jetty-9.4.23.v20191118...jetty-9.4.24.v20191120)

Updates `jetty-continuation` from 9.4.23.v20191118 to 9.4.24.v20191120
- [Release notes](https://github.com/eclipse/jetty.project/releases)
- [Commits](https://github.com/eclipse/jetty.project/compare/jetty-9.4.23.v20191118...jetty-9.4.24.v20191120)

Updates `jetty-security` from 9.4.23.v20191118 to 9.4.24.v20191120
- [Release notes](https://github.com/eclipse/jetty.project/releases)
- [Commits](https://github.com/eclipse/jetty.project/compare/jetty-9.4.23.v20191118...jetty-9.4.24.v20191120)

Updates `jetty-servlet` from 9.4.23.v20191118 to 9.4.24.v20191120
- [Release notes](https://github.com/eclipse/jetty.project/releases)
- [Commits](https://github.com/eclipse/jetty.project/compare/jetty-9.4.23.v20191118...jetty-9.4.24.v20191120)

Updates `jetty-server` from 9.4.23.v20191118 to 9.4.24.v20191120
- [Release notes](https://github.com/eclipse/jetty.project/releases)
- [Commits](https://github.com/eclipse/jetty.project/compare/jetty-9.4.23.v20191118...jetty-9.4.24.v20191120)

Updates `jetty-util` from 9.4.23.v20191118 to 9.4.24.v20191120
- [Release notes](https://github.com/eclipse/jetty.project/releases)
- [Commits](https://github.com/eclipse/jetty.project/compare/jetty-9.4.23.v20191118...jetty-9.4.24.v20191120)

Updates `jetty-webapp` from 9.4.23.v20191118 to 9.4.24.v20191120
- [Release notes](https://github.com/eclipse/jetty.project/releases)
- [Commits](https://github.com/eclipse/jetty.project/compare/jetty-9.4.23.v20191118...jetty-9.4.24.v20191120)

Updates `jetty-xml` from 9.4.23.v20191118 to 9.4.24.v20191120
- [Release notes](https://github.com/eclipse/jetty.project/releases)
- [Commits](https://github.com/eclipse/jetty.project/compare/jetty-9.4.23.v20191118...jetty-9.4.24.v20191120)

Updates `websocket-api` from 9.4.23.v20191118 to 9.4.24.v20191120

Updates `websocket-client` from 9.4.23.v20191118 to 9.4.24.v20191120

Updates `websocket-server` from 9.4.23.v20191118 to 9.4.24.v20191120

Updates `jetty-maven-plugin` from 9.4.23.v20191118 to 9.4.24.v20191120
- [Release notes](https://github.com/eclipse/jetty.project/releases)
- [Commits](https://github.com/eclipse/jetty.project/compare/jetty-9.4.23.v20191118...jetty-9.4.24.v20191120)

Signed-off-by: dependabot[bot] <support@github.com>
 2019-12-02 23:16:19 +00:00
Jafer Khan 2115721940 Corrected typos and fixed grammatical mistakes in documentation 2019-12-01 03:35:35 +05:00
Ken Stevens a32c62f83b Merge remote-tracking branch 'remotes/origin/master' into ks-flyway 
# Conflicts:
#	src/changes/changes.xml
 2019-11-24 16:42:23 -05:00
James Agnew dc9650e32c Bump greenmail dep 2019-11-23 20:52:21 +01:00
James Agnew 51b608188b
Some CI surefire improvements (#1602) 
* Some CI surefire improvements

* Build tweak

* More tweak

* Update azure-pipelines.yml for Azure Pipelines

* Update azure-pipelines.yml for Azure Pipelines

* One more CI attempt

* Update azure-pipelines.yml for Azure Pipelines

* Tweak command line

* Another build test fixc

* More build cleanup
 2019-11-23 19:51:02 +01:00
James Agnew a2f77b23d2
Fix #1583 - Index local refs in canonical types (#1593) 
* Fix #1583 - Index local refs in canonical types

* Add fix to pre-expansion

* Test fix

* Rework ID handling

* Test fixes

* Fix test
 2019-11-23 16:32:37 +01:00
Ken Stevens 6543da1470 Merge remote-tracking branch 'remotes/origin/master' into ks-flyway 2019-11-15 09:28:30 -05:00
James Agnew 497a96ae68 Version bump for next round of development 2019-11-12 22:09:21 -05:00
jamesagnew f99ad981b5 Version bump to 4.1.0 2019-11-12 16:08:20 -05:00
James Agnew aa0301084b
Don't succeed validation on unknown codesystem (#1575) 
* Don't succeed validation on unknown codesystem

* Test fixes

* Work on error messages

* Work on code validation API

* work on tests

* Work on validation

* Test fix

* Update DSTU3 validation reources

* Upgrade structures

* Test fixes
 2019-11-12 14:35:49 -05:00
Ken Stevens 7525e70bbc added message type to channel api. needed by kafka listeners when more than one message type needs to be supported 2019-11-09 18:31:08 -05:00
Jens Kristian Villadsen 37cc5a4a72 Update pom.xml 
Bump version of awaitility (https://github.com/awaitility/awaitility/pull/138) due to issues on Windows
 2019-11-05 05:29:06 -05:00
Ken Stevens 1c4b73b86a pre-review cleanup 2019-11-04 08:27:34 -05:00
Ken Stevens 4c732ce977 Merge remote-tracking branch 'remotes/origin/master' into ks-flyway 2019-11-03 21:07:59 -05:00
Ken Stevens 6ff1aaae61 Merge remote-tracking branch 'remotes/origin/master' into ks-flyway 2019-11-03 13:46:51 -05:00
James Agnew 60628356a8 Version bump spring 2019-11-03 11:29:22 -05:00
James Agnew ac51098cb3 Version bump H2 2019-11-02 23:48:14 -04:00
Ken Stevens bb0f71f271 Merge remote-tracking branch 'remotes/origin/master' into ks-flyway 2019-11-02 21:51:47 -04:00
James Agnew 3b6709e1d1
Merge pull request #1566 from jamesagnew/ja_20190928_rationalize_search_param_extractor 
Rationalize search param extractors across FHIR versions
 2019-11-02 16:18:23 -04:00
Ken Stevens bee993a0ec Merge remote-tracking branch 'remotes/origin/master' into ks-flyway 
# Conflicts:
#	hapi-fhir-jpaserver-migrate/src/main/java/ca/uhn/fhir/jpa/migrate/taskdef/DropIndexTask.java
#	hapi-fhir-jpaserver-migrate/src/main/java/ca/uhn/fhir/jpa/migrate/taskdef/DropTableTask.java
 2019-11-01 13:37:00 -04:00
Stig Rohde Døssing 80bfb9af37 Issue-1077: Make CapabilityStatementProvider use the closest common superclass of provided resources when generating rest.resource.profile, instead of always using the base definition. 2019-11-01 10:20:16 -04:00
James Agnew e29462bcab Version bump some dependencies 2019-11-01 10:15:27 -04:00
Ken Stevens 9c9193b401 Merge remote-tracking branch 'remotes/origin/master' into ks-flyway 2019-10-31 09:38:30 -04:00
James Agnew 97d5edc0b0 Credit for #1538 2019-10-31 08:21:11 -04:00
James Agnew 817f9ae36e Merge branch 'master' into ja_20190928_rationalize_search_param_extractor 2019-10-27 17:25:20 -04:00
Ken Stevens 18e8604494 Merge remote-tracking branch 'remotes/origin/master' into ks-flyway 
# Conflicts:
#	hapi-fhir-cli/hapi-fhir-cli-api/pom.xml
 2019-10-27 08:29:52 -04:00
James Agnew 464c6c5b45
Upgrade dependencies and addess Semmle issues (#1554) 
* Version bumps

* FIx build issues

* Address a few Semmle issues

* Work on tests

* Some test fixes

* Test fix

* Fix deletions

* Test fix

* Fix intermittent test failure

* One more dependency bump

* Add some test logging

* Remove bad import

* Add some tests

* Test updates
 2019-10-22 17:10:58 -04:00
James Agnew a375f761cb FIx typo in pom 2019-10-22 14:17:25 -04:00
James Agnew 5809457335 Credit for #1526 2019-10-22 14:01:21 -04:00
jelmer.terwal c003047ca9 Split test from example 2019-10-22 13:58:52 -04:00
James Agnew 0af79b84d9
Use webjars instead of including JS deps (#1551) 
* Use webjars instead of including JS deps

* Add changelog
 2019-10-21 07:22:55 -04:00
James Agnew e6ae368424 Credit for #1547 2019-10-18 07:07:02 -04:00
James Agnew 2725797610
Implement Terminology Delta Operations (#1536) 
* Start refactoring terminology delta operations

* Work on delta operations

* Work on concept saving

* Split term services into smaller services

* Work on term delta operations

* Work on term svcs

* Work on term operations

* More work on delta uploader

* Add a test

* Wrk on term service

* Fix compile error

* Some refactoring

* Test fix

* Test fix

* Test fixes

* Test fix

* Test fixes

* Test fixes

* Work on delta

* Work on tests#

* Test fixes

* Improve resequencing logic

* Build test

* More testing

* More build testing

* More work on tests

* CHange test logging

* Fix term service PID issue

* Update src/changes/changes.xml

Co-Authored-By: Diederik Muylwyk <diederik.muylwyk@gmail.com>

* Address review comment

* Some cleanup

* Test fix

* Fix some tests

* Test fixes
 2019-10-14 19:14:41 -04:00
Ken Stevens 790f655a95 flyway initial implementation (with FIXMEs) 2019-10-06 17:55:10 -04:00
jamesagnew 55491fd1bf Add a couple of exclusions 2019-10-03 07:21:53 -04:00
James Agnew da9efaea0b Credit for https://github.com/hapifhir/hapi-fhir-jpaserver-starter/pull/54 2019-10-01 15:22:03 -04:00
jamesagnew 48d191cbe5 Credit for #1473 2019-10-01 05:32:54 -04:00
James Agnew 557a8ccc66
Add top level support for ElasticSearch (#1514) 
* ElasticSearch work

* Add ElasticSearch properties builder

* Clean up POM

* Remove redundant project

* Try to troubleshoot embedded elasticsearch

* Another test attempt

* Add credentials to elasticsearch config

* Work on lastn

* Address review comments

* A couple of test fixes
 2019-09-30 09:30:39 -04:00
jamesagnew b2c13f3018 Work on codecov integration 2019-09-25 13:25:59 -04:00
James Agnew 5f563057c0
Set up CI with Azure Pipelines (#1502) 
* Set up CI with Azure Pipelines

[skip ci]

* Update azure-pipelines.yml for Azure Pipelines

* Skip tests for a build

* Work on pipeline

* Update azure-pipelines.yml for Azure Pipelines

* Interceptors docs

* Test fix

* Disable releases from snapshot repo

* Try disabling jitpack

* Fix dependency issue

* A couple of test fixes

* Change to trigger a build

* Force a change to trigger a build

* Force a build

* FIx test
 2019-09-24 14:38:38 -04:00
jamesagnew 936587df6e Work on migrating docs 2019-09-22 15:52:49 -04:00