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7837 Commits

Author SHA1 Message Date
Nick Goupinets 961f16a1be Initial commit 2021-04-22 09:48:40 -04:00
jamesagnew 19ff4862ec Merge branch 'ja_20210420_add_csv_import' 2021-04-21 18:03:58 -04:00
Nick Goupinets 80c972a646
Merge pull request #2519 from hapifhir/2515_MDM_survivorship_rules 
2515 mdm survivorship rules
 2021-04-21 09:16:48 -04:00
Nick Goupinets 4e266462ec Bumped up version due to breaking changes 2021-04-20 16:17:27 -04:00
James Agnew 892ed5a346
Add options to BaseCommand (#2563) 2021-04-20 11:15:37 -04:00
jamesagnew cadca518ec Add options to BaseCommand 2021-04-20 09:14:50 -04:00
Nick Goupinets 1f10a15c35 Merge branch 'master' into 2515_MDM_survivorship_rules 2021-04-19 17:33:53 -04:00
Nick Goupinets 536ca0e73d Code review updates 2021-04-19 16:27:31 -04:00
Tadgh b91a85cc2b
Merge pull request #2561 from hapifhir/issue-2556-bulk-export-bug 
Remove jetbrains annotation
 2021-04-19 11:54:22 -04:00
Tadgh 2ed4b01eb8 Remove notnull 2021-04-19 10:31:16 -04:00
Tadgh 014fa05271 Fix a present annotation 2021-04-19 09:17:35 -04:00
Tadgh 52d161c337 Add checkstyle to prevent future jetbrains annotations from sneaking in 2021-04-19 09:16:35 -04:00
Tadgh 89e56ecb98 Remove jetbrains annotation 2021-04-19 09:14:12 -04:00
Tadgh 48f93f5555
Merge pull request #2558 from hapifhir/issue-2556-bulk-export-bug 
Issue 2556 bulk export bug
 2021-04-18 20:27:18 -04:00
Tadgh c54862e772 Coding around at the speed of sound occasionally causes compilation failures 2021-04-18 18:03:37 -04:00
Tadgh 77e2768a14 Address code review comments. Create new static builder for all partitions SRD 2021-04-18 17:36:55 -04:00
Tadgh 3075a9b5e6 Still minor refactoring 2021-04-16 16:53:23 -04:00
Tadgh f91a4f9576 wip tidy implementaion 2021-04-16 14:18:01 -04:00
Tadgh fad32aa636 Partition management for expired jobs 2021-04-16 11:55:12 -04:00
Tadgh 8035d51e48 Refactor, comment 2021-04-16 11:31:43 -04:00
Tadgh efe5b7b140 Fix package cache usage 2021-04-16 11:24:42 -04:00
Tadgh 7cabcbd772 Fix partition selection for system request details 2021-04-16 11:12:40 -04:00
dependabot[bot] d94611edf6
Bump junit_version from 5.7.0 to 5.7.1 (#2554) 
Bumps `junit_version` from 5.7.0 to 5.7.1.

Updates `junit-jupiter` from 5.7.0 to 5.7.1
- [Release notes](https://github.com/junit-team/junit5/releases)
- [Commits](https://github.com/junit-team/junit5/compare/r5.7.0...r5.7.1)

Updates `junit-jupiter-api` from 5.7.0 to 5.7.1
- [Release notes](https://github.com/junit-team/junit5/releases)
- [Commits](https://github.com/junit-team/junit5/compare/r5.7.0...r5.7.1)

Updates `junit-jupiter-engine` from 5.7.0 to 5.7.1
- [Release notes](https://github.com/junit-team/junit5/releases)
- [Commits](https://github.com/junit-team/junit5/compare/r5.7.0...r5.7.1)

Updates `junit-jupiter-params` from 5.7.0 to 5.7.1
- [Release notes](https://github.com/junit-team/junit5/releases)
- [Commits](https://github.com/junit-team/junit5/compare/r5.7.0...r5.7.1)

Signed-off-by: dependabot[bot] <support@github.com>

Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
 2021-04-15 08:23:30 -04:00
jamesagnew 42c89ccedd Changelog 2021-04-15 08:22:44 -04:00
dependabot[bot] 05b1323638
Bump jarchivelib from 1.0.0 to 1.1.0 (#2553) 
Bumps [jarchivelib](https://github.com/thrau/jarchivelib) from 1.0.0 to 1.1.0.
- [Release notes](https://github.com/thrau/jarchivelib/releases)
- [Commits](https://github.com/thrau/jarchivelib/compare/v1.0.0...v1.1.0)

Signed-off-by: dependabot[bot] <support@github.com>

Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
 2021-04-15 08:21:33 -04:00
dependabot[bot] 9a67f3ee0c
Bump spring_boot_version from 2.4.1 to 2.4.4 (#2550) 
Bumps `spring_boot_version` from 2.4.1 to 2.4.4.

Updates `spring-boot-starter-test` from 2.4.1 to 2.4.4
- [Release notes](https://github.com/spring-projects/spring-boot/releases)
- [Commits](https://github.com/spring-projects/spring-boot/compare/v2.4.1...v2.4.4)

Updates `spring-boot-test` from 2.4.1 to 2.4.4
- [Release notes](https://github.com/spring-projects/spring-boot/releases)
- [Commits](https://github.com/spring-projects/spring-boot/compare/v2.4.1...v2.4.4)

Updates `spring-boot-maven-plugin` from 2.4.1 to 2.4.4
- [Release notes](https://github.com/spring-projects/spring-boot/releases)
- [Commits](https://github.com/spring-projects/spring-boot/compare/v2.4.1...v2.4.4)

Updates `spring-boot-dependencies` from 2.4.1 to 2.4.4
- [Release notes](https://github.com/spring-projects/spring-boot/releases)
- [Commits](https://github.com/spring-projects/spring-boot/compare/v2.4.1...v2.4.4)

Updates `spring-boot-autoconfigure` from 2.4.1 to 2.4.4
- [Release notes](https://github.com/spring-projects/spring-boot/releases)
- [Commits](https://github.com/spring-projects/spring-boot/compare/v2.4.1...v2.4.4)

Updates `spring-boot-configuration-processor` from 2.4.1 to 2.4.4
- [Release notes](https://github.com/spring-projects/spring-boot/releases)
- [Commits](https://github.com/spring-projects/spring-boot/compare/v2.4.1...v2.4.4)

Signed-off-by: dependabot[bot] <support@github.com>

Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
 2021-04-14 20:09:37 -04:00
jamesagnew 120605ebab Add to task 2021-04-14 19:56:25 -04:00
jamesagnew 6b43410514 Add missing constant 2021-04-14 18:50:47 -04:00
jamesagnew b294f7d208 License headers 2021-04-14 18:00:52 -04:00
James Agnew ca2088f3ad
Add framework for Bulk Import (#2538) 
* Start work on bul;k import

* Work on bulk import

* Have batch working

* Working

* Working

* More work

* More work on bulk export

* Address fixmes

* License header updates

* Test fixes

* License header updates

* Test fix

* Test fix

* Version bumps

* Work on config

* Test cleanup

* One more version bump

* Version bump

* CLeanup

* A few additions

* Test fixes

* Test fix

* Test fix

* Migration fix

* Test fix

* Test fix
 2021-04-14 17:41:32 -04:00
Kevin Dougan SmileCDR 2ebc57b8a2
2548 - Add backport changelog Tag to backported fixes for #2533 and #2543. (#2549) 2021-04-14 13:33:07 -04:00
Ken Stevens 550602b2f1
added numeric matcher (#2547) 
* added numeric matcher

* changelog

* performance optimization

* fix test
 2021-04-14 13:15:30 -04:00
IanMMarshall 4cd0409bae
Merge pull request #2546 from hapifhir/2535_ignore_logical_structuredefinition_during_package_install 
2535 ignore logical structuredefinition during package install
 2021-04-14 10:54:37 -04:00
Kevin Dougan SmileCDR b45ddcc3da
2543 - Fix issue where versionned references are not being returned properly. (#2544) 
* 2543 - Fix issue where versionned references are not being returned properly.

* 2543 - Added changelog entries for this fix plus a previous fix for 2533.
 2021-04-14 08:45:49 -04:00
ianmarshall 0cb95ad556 Change package loader to not generate snapshot for logical StructureDefinition resources. 2021-04-13 22:30:22 -04:00
ianmarshall 5a3f2e3edf Change package loader to not generate snapshot for logical StructureDefinition resources. 2021-04-13 22:22:06 -04:00
Kevin Dougan SmileCDR 129df5dc14
2533 - Fix Issue with Reference Resources Not Being Returned In Search Queries (#2539) 
* 2533 - Initial commit to show how I might fix this Bug but not ready for merge at this time as it causes some other Unit Test failures in FhirResourceDaoR4VersionedReferenceTest.

* Fix up test

* 2533 - Cleaned up Unit Test to make it ready to merge.

Co-authored-by: jamesagnew <jamesagnew@gmail.com>
 2021-04-13 05:28:39 -04:00
jamesagnew 3637dfc60f License headers 2021-04-12 09:57:08 -04:00
James Agnew bc4266d3d2
Improve narrative templates for custom structures (#2537) 
* Improve narrative templates for custom structures

* Add changelog

* Test fix
 2021-04-12 06:00:31 -04:00
Diederik Muylwyk 1bd585162d
Fix typo in docs. (#2536) 2021-04-09 18:50:12 -04:00
Tadgh 99e10de5fb
Merge pull request #2487 from hapifhir/mdm-expansion-interceptor 
MDM Expansion Interceptor (poc)
 2021-04-09 11:23:04 -04:00
Tadgh 82fc7b7457 Fix typo 2021-04-09 10:51:12 -04:00
Eric Prud'hommeaux fa921a3cc9
~ inspect instant for specific RDF datatype (#2473) 2021-04-09 05:59:26 -04:00
Diederik Muylwyk 38436e5c1b
Fix a typo in docs. (#2532) 
* Fixed poorly formatted changelog entry.

* Fixed typo.
 2021-04-08 14:57:20 -04:00
Diederik Muylwyk ec7cc8fbaa
Fixed poorly formatted changelog entry. (#2531) 2021-04-08 14:07:16 -04:00
James Agnew edfe1ae8e6
Add lastupdated to capabilitystatement (#2530) 
* Add lastupdated to capabilitystatement

* Test fix

* Test fix
 2021-04-08 13:23:21 -04:00
James Agnew f70648484a
Avoid a deadlock uploading terminology in postgres (#2529) 
* Fix #2493

* Try to fix intermittent test failure
 2021-04-08 12:28:42 -04:00
James Agnew 462d9bc6c4
Fix compartment defs for R5 (#2528) 
* Fix compartment defs for R5

* Add changelog

* Test fix
 2021-04-08 05:59:05 -04:00
jamesagnew 7cf061d76b Jetty version bump 2021-04-06 21:15:11 -04:00
James Agnew a6cbf7eebd
Add support for hierarchycal valueset expansion (#2525) 
* Add support for hierarchycal valueset expansion

* Add changelog

* Add tests

* Cleanup

* Test fix

* Test fixes
 2021-04-06 17:36:54 -04:00