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8220 Commits

Author SHA1 Message Date
Tadgh 101e0d7288 Fix tests in class 2021-08-19 15:19:31 -04:00
Tadgh 77c99e47c1 TIL that anyString() wont match nulls in Mockito, but any() will 2021-08-19 15:15:51 -04:00
markiantorno ac31c4e7a1 Merge branch 'bump-hapi-core-for-5-5-0' of https://github.com/jamesagnew/hapi-fhir into bump-hapi-core-for-5-5-0 2021-08-19 13:49:13 -04:00
markiantorno 3fdb7c8408 conversion issues fixed, validation issues next 2021-08-19 13:48:59 -04:00
Tadgh 40e7653460 Bump hapi core version to new release 2021-08-19 09:12:47 -04:00
markiantorno 367b338d85 Updating HAPI to use latest core lib changes. 2021-08-18 11:06:14 -04:00
Tadgh e92fd47b16 Bump core ver 2021-08-17 18:07:23 -04:00
Tadgh cf917d0f82 Version Bump 2021-08-15 16:54:38 -04:00
Tadgh d7d2919146
Merge pull request #2889 from hapifhir/issue-2887-contained-cache-key 
Add _contained parameter to SearchParameterMap query string normalizer
 2021-08-15 13:13:00 -04:00
Tadgh 3fd5f7d6d4 Omit if set to false 2021-08-12 19:12:09 -04:00
Tadgh 669cf05b30 Modify SearchParameterMap toNormalizedQueryString to include value of _contained parameter 2021-08-12 14:25:12 -04:00
Tadgh 41ec1e03c0
Merge pull request #2880 from hapifhir/weird-contained-issue 
Contained Issue
 2021-08-11 08:27:54 -04:00
Tadgh b34d569443 Fix changelog test 2021-08-10 22:22:57 -04:00
Tadgh 6f3006f2ba Fix NPE 2021-08-10 20:56:54 -04:00
Tadgh e311835e8d Revert test 2021-08-10 18:44:42 -04:00
Tadgh a89798ad87
Merge pull request #2872 from hapifhir/issue-2871-enhance-mdm-expansion 
Add MDM expansion by golden pid
 2021-08-10 17:40:22 -04:00
Tadgh a5c850b119 Pre-review cleaning 2021-08-10 17:37:24 -04:00
Tadgh daa3bc773e remove dummy test 2021-08-10 16:46:03 -04:00
Tadgh 33fbffcff9 Bump issue number 2021-08-10 16:18:40 -04:00
Tadgh 6a46a68e82 Move file 2021-08-10 16:18:03 -04:00
Tadgh fe98162616 Add changelog 2021-08-10 14:59:03 -04:00
Tadgh 71ed25b77c Add commetn for juan 2021-08-10 14:58:47 -04:00
Tadgh 1cb6f490d6 Add dummy test. NOTE, remove before merge 2021-08-10 14:58:38 -04:00
Tadgh 2f42391ba8 wip 2021-08-10 14:58:30 -04:00
Tadgh e402804049 Add test json files 2021-08-10 14:58:24 -04:00
Tadgh 8f200c1819 Add a failing test 2021-08-10 14:58:17 -04:00
Tadgh 35afa8bbfa tidy 2021-08-10 14:57:51 -04:00
Tadgh 4c154951e2 Fully fleshed test, partial refactor 2021-08-10 14:56:57 -04:00
Tadgh 293bbe2a40
Merge pull request #2878 from hapifhir/backport-mdm-resource-util-npe 
Backport mdm resource util npe
 2021-08-09 18:53:50 -04:00
Tadgh 2d203302da Remove changelog as it will eventually create a duplicate 2021-08-09 16:20:46 -04:00
Tadgh 966e451587 Backport fix 2021-08-09 16:19:38 -04:00
Tadgh 0a303a0e11 Add MDM expansion by golden pid 2021-08-06 13:22:08 -04:00
michaelabuckley 1df270c9b9
Merge pull request #2864 from hapifhir/mb-20210804-ioob-pick-to-release 
Pick d85a4e5ec2 for release branch
 2021-08-04 16:41:07 -04:00
Michael Buckley e8e49f3ffa Pick d85a4e5ec2 for release branch 2021-08-04 16:34:48 -04:00
jmarchionatto 66e1f10f5f
Merge pull request #2821 from hapifhir/issue-2786-upload-terminology-command-add-explicit-current-version-control 
Issue 2786 upload terminology command add explicit current version control
 2021-08-03 16:55:49 -04:00
juan.marchionatto cb68c59fb5 Remove validation in code which will never reached for the conditions. 2021-08-03 15:39:02 -04:00
juan.marchionatto 45549d2bb9 Fix broken ITs. 
Add error message for non-snapshot upload with current version = false combination.
 2021-08-03 14:11:14 -04:00
juan.marchionatto 1ff1954cba Merge branch 'master' into issue-2786-upload-terminology-command-add-explicit-current-version-control 2021-07-30 11:20:23 -04:00
juan.marchionatto 4e8b1719f3 Add test for fixed use case 2021-07-30 10:48:10 -04:00
Ken Stevens f5dfc3a5ed
New reindex spring batch operation (#2845) 
* first sweep to add new $reindex job

* first cut done.  next up integration test.

* start roughing out reindex everything

* Failing test

* test passes

* add BundleUtil helper method

* rough in processEverything

* rough in processEverything

* fix mock test

* merge master

* Make BaseJpaTest.mySrd lenient.

* fix test

* reindex everything works with FIXMEs

* reindex everything more tests

* moar tests

* moar tests

* fix test

* fix test

* fix regression and fix test

* fix test cycle

* fixme

* fix test

* test provider layer

* reindex everything partition aware

* yay last fixme!

* run reindex in partitioned threads

* add fixmes for areas that require extra testing

* added transaction and log message

* manual integration testing

* changelog

* reindex all partitions

* bump hapi version

* fix test

* moar test

* pre-review cleanup

* fix javadoc

* review feedback

* review feedback

* review feedback

* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/changelog/5_5_0/2845-reindex-operation.yaml

Co-authored-by: michaelabuckley <michaelabuckley@gmail.com>

* review feedback

* review feedback

* Update hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/delete/job/ReindexJobTest.java

Co-authored-by: michaelabuckley <michaelabuckley@gmail.com>

* Update hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/delete/job/ReindexJobTest.java

Co-authored-by: michaelabuckley <michaelabuckley@gmail.com>

* Update hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/r4/MultitenantBatchOperationR4Test.java

Co-authored-by: michaelabuckley <michaelabuckley@gmail.com>

* Update hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/r4/MultitenantBatchOperationR4Test.java

Co-authored-by: michaelabuckley <michaelabuckley@gmail.com>

* Update hapi-fhir-jpaserver-searchparam/src/main/java/ca/uhn/fhir/jpa/searchparam/ResourceSearch.java

Co-authored-by: michaelabuckley <michaelabuckley@gmail.com>

* Update hapi-fhir-server/src/main/java/ca/uhn/fhir/rest/api/server/storage/IDeleteExpungeJobSubmitter.java

Co-authored-by: michaelabuckley <michaelabuckley@gmail.com>

Co-authored-by: michaelabuckley <michaelabuckley@gmail.com>
 2021-07-29 19:18:49 -04:00
juan.marchionatto 264dfee099 Merge branch 'master' into issue-2786-upload-terminology-command-add-explicit-current-version-control 2021-07-29 16:21:56 -04:00
juan.marchionatto 1fcb36d84a Fix implementation to work also for use case where version is being updated. 
Use property instead of parameter.
 2021-07-29 15:54:00 -04:00
Tadgh 1b9761c91b
Merge pull request #2840 from hapifhir/issue-2835-cve-jetty 
bump Jetty for CVEs
 2021-07-28 10:51:59 -04:00
Tadgh e076b30eef bump Jetty for CVEs 2021-07-27 15:49:00 -04:00
Tadgh 7c1d87b662
Merge pull request #2834 from hapifhir/issue-2833-commons-compress-cve 
Bump commons-compress version
 2021-07-27 11:00:19 -04:00
Tadgh 07cb3ff427 Bump commons-compress version 2021-07-27 09:14:05 -04:00
James Agnew f957661dda
Patient ID Partition Mode should support conditional create (#2828) 
* Fixes

* Test fix

* Add changelog

* Test fixes

* Test fixes

* Docs tweak

* Partitioning fixes

* Import fix

* Fix test data
 2021-07-26 14:18:58 -04:00
Ken Stevens 6bbb403fd1
When Client Id Strategy is set to NOT_ALLOWED, permit system requests to create resources (#2827) 
* resolved 2826

* fix regression
 2021-07-23 19:10:19 -04:00
Ken Stevens 92ec113775
fixed bug (#2824) 2021-07-23 16:58:53 -04:00
michaelabuckley 91bbebad27
Merge pull request #2830 from hapifhir/mb-docker-mac-m1-arm 
Upgrade net.java.dev.jna dependency to support Mac M1 ARM architecture.
 2021-07-23 16:50:31 -04:00