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690 Commits

Author SHA1 Message Date
jamesagnew 14316147c5 Resolve some docs issues 2020-03-23 10:34:12 -04:00
James Agnew 22413911bf
Validation api changes (#1719) 
* Validation enhancements

* Work on validation api reworking

* Keep working on validation API

* Keep working on new term API

* Work on validation api

* Ongoing work on validation

* Work on integrating validation

* Work on validation API

* Add to validation API

* Work on validation

* Work on API

* Work on validation

* Work on validation API

* Work on validation API

* Work on validation api

* Work on validation API

* Work on validation api

* Validation API changes

* Work on API

* More work on validationo API

* Work on validation API

* FIxes

* WOrk on validation api

* Work on validation API

* Tests passing!

* More cleanup

* More validation API changes

* Fix intermittent test failure

* Package reorg

* Validation API work

* Work on doocumentation

* Work on API

* More work on new validation API

* Fix errorprone-reported error

* Test fixes

* Documentation updates

* Documentation tweaks

* Work on API

* Bean name adjustments

* Build fixes

* Some test fixes
 2020-03-17 13:28:59 -04:00
Jens Kristian Villadsen 80139f4800
Update pom.xml (#1709) 
A run on master using https://jeremylong.github.io/DependencyCheck/dependency-check-maven/index.html shows quartz as having a critical security issue in version 2.3.1
 2020-03-17 12:47:12 -04:00
Gary Graham ed7b9fc6b6 Initial attempt at integrating elastic APM for search performance 2020-02-28 16:09:16 -05:00
James Agnew 60f16dd91d
Update to 4.3.x core JAR (#1715) 
* Added optionality for adding resource fetcher

* Added coverage that proves invocations

* Bumped version of fhir.core to latest version. Added wrapping of AssumeValidRestReferences

* Added optionality for adding resource fetcher

* Added coverage that proves invocations

* Bumped version of fhir.core to latest version. Added wrapping of AssumeValidRestReferences

* Start working on converter

* Account for compile errors

* Test fix

* Work no validator

* Work on getting core working

* Add some test coverage

* Many test fixes

Co-authored-by: Jens Kristian Villadsen <46567685+jvitrifork@users.noreply.github.com>
 2020-02-17 14:28:29 -05:00
jamesagnew ddc7b601ee Version bump to 4.3.0-SNAPSHOT 2020-02-16 19:23:22 -05:00
jamesagnew 4fd80cfca7 Bump to 4.2.0 2020-02-16 19:00:15 -05:00
James Agnew c5c1e3196b Resolve FIXMEs (#1705) 
* Resolve FIXMEs

* Test fixes

* Test fixes

* Clean up unused code

* Add some test coverage

* Test fix

* Test fix

* Avoid intermittent
 2020-02-09 08:39:46 -05:00
James Agnew 97289b3a1f Credit for #1692 2020-02-04 17:38:42 -05:00
jamesagnew 3c965183e7 Checkstyle plugin version bump 2020-02-03 19:45:32 -05:00
dependabot[bot] b5adef43ac Bump checkstyle from 8.18 to 8.29 
Bumps [checkstyle](https://github.com/checkstyle/checkstyle) from 8.18 to 8.29.
- [Release notes](https://github.com/checkstyle/checkstyle/releases)
- [Commits](https://github.com/checkstyle/checkstyle/compare/checkstyle-8.18...checkstyle-8.29)

Signed-off-by: dependabot[bot] <support@github.com>
 2020-02-02 20:36:15 -05:00
jamesagnew beab5b3a9c Credit for #1689 2020-01-29 05:56:36 -05:00
James Agnew 39ff698dd2
Parser performance tweaks (#1660) 
* Parser improvements

* Parser tweaks

* Fix test

* Add changelog

* Bump spring mvc version

* Bump spring version

* Test fix?
 2020-01-22 14:44:12 -05:00
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