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1442 Commits

Author SHA1 Message Date
James Agnew 328541f537 Test fix 2018-07-01 12:57:05 -04:00
James Agnew b929864873 Merge branch 'improve_jpa_indexes' 2018-07-01 12:08:03 -04:00
James Agnew 6ef34a8c5f
Merge pull request #1018 from jamesagnew/jpa_view 
Jpa view
 2018-07-01 11:47:17 -04:00
James Agnew 495fd9f68e Add support for patch in AuthorizationInterceptor 2018-07-01 11:46:11 -04:00
frankjtao 2c06a1437b merged master to jpa_view 2018-06-30 22:16:30 -04:00
frankjtao 0ab15a05d6 Merge branch 'jpa_view' of https://github.com/jamesagnew/hapi-fhir.git into jpa_view 
Conflicts:
	hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/entity/ResourceSearchView.java
 2018-06-29 22:18:22 -04:00
frankjtao ccf3c17f59 impl ResourceSearchView, reduce sql to db 2018-06-29 21:24:43 -04:00
frankjtao af4b9f1c7b impl ResourceSearchView, reduce sql to db 2018-06-29 21:24:02 -04:00
James Agnew 6afc2a7296 Improve indexing 2018-06-29 16:25:11 -04:00
James Agnew bb637c5433 Work on presence API 2018-06-29 14:32:08 -04:00
James Agnew 03fc593cb9 Fix broken test 2018-06-28 18:11:19 -04:00
James Agnew 32fefefcd8 Allw successful deletion of concept maps 2018-06-28 18:01:00 -04:00
James Agnew 7b809f059a Terminology updates 2018-06-27 18:48:36 -04:00
James Agnew 32ddfff191 Improve indexing 2018-06-27 18:33:04 -04:00
James Agnew 24beebe32f Fix valueset URI for loinc groups 2018-06-27 13:15:37 -04:00
James Agnew 79ede4c5ee Remove orphanremoval 2018-06-27 11:31:53 -04:00
James Agnew 4dca271735 Clean up concept deletion 2018-06-27 11:19:11 -04:00
James Agnew 050f9939ac Merge branch 'master' into improve_jpa_indexes 2018-06-27 10:44:18 -04:00
James Agnew 2b992cfb3b Fix compile issue 2018-06-27 10:34:06 -04:00
James Agnew 8c849b16a4
Merge pull request #1015 from jschneid-nmdp/resolve-term-upload-deferred-short-circuit 
avoid potential short circuit during saveDeferred processing of uploaded (e.g. LOINC) terminology
 2018-06-27 10:33:06 -04:00
James Agnew fb2976d0d2 Improve code system deletion from terminology service 2018-06-27 10:22:13 -04:00
Joel Schneider b2853b3f9d modify BaseHapiTerminologySvcImpl saveDeferred method to avoid short circuit that could potentially prevent processing of some deferred value sets and concept maps 2018-06-27 02:20:12 -05:00
James Agnew 52e3c9496e Fix slow upload 2018-06-26 21:59:01 -04:00
James Agnew 74bca0562e Merge branch 'improve_jpa_indexes' of github.com:jamesagnew/hapi-fhir into improve_jpa_indexes 2018-06-26 21:54:32 -04:00
James Agnew a63205ecff Merge branch 'master' into improve_jpa_indexes 2018-06-26 21:54:12 -04:00
James Agnew f7029b9a0f Update part code url for loinc 2018-06-26 17:17:31 -04:00
jamesagnew a77896ff2d Add callback for resource deletion 2018-06-26 07:54:21 -04:00
James Agnew f0da7a33de Fix expunge transaction boundaries 2018-06-25 10:22:49 -04:00
jamesagnew e5cb609f4d Performance improvements 2018-06-24 20:02:27 -04:00
jamesagnew 9a880361b6 Merge branch 'master' into improve_jpa_indexes 2018-06-24 15:15:31 -04:00
jamesagnew 2d57699066 Work on index improvements 2018-06-24 15:09:53 -04:00
frankjtao f38f71cf0a Merge remote-tracking branch 'origin/master' into 
1008_fix_jpa_sql_loop_issue
 2018-06-22 15:34:56 -04:00
James Agnew 60ed0dab48 Merge branch 'master' of github.com:jamesagnew/hapi-fhir 2018-06-22 11:22:36 -04:00
James Agnew e9fffd3cdc Allow indexing in custom search params to descend into contained 
resources
 2018-06-22 11:22:07 -04:00
James Agnew d46b9b00be Liinc updates 2018-06-22 09:59:54 -04:00
Frank Tao 103b587ab5 #1008: Fixed sql looping issue 2018-06-21 22:32:08 -04:00
James Agnew cef4596211 Loinc updates 2018-06-21 19:23:23 -04:00
James Agnew d6bfce4a1d Make all loinc files mandatory 2018-06-21 18:30:57 -04:00
James Agnew 1b40188aab FIx missing import 2018-06-21 14:48:39 -04:00
jamesagnew b3f7ab274d License header updates 2018-06-21 14:44:34 -04:00
James Agnew b9a4e1ae0f Merge branch 'improve_jpa_indexes' of github.com:jamesagnew/hapi-fhir into improve_jpa_indexes 2018-06-21 13:48:27 -04:00
James Agnew 5b6cde8a9f Merge branch 'master' into improve_jpa_indexes 2018-06-21 13:48:04 -04:00
jamesagnew ecc8e1eda0 More work on indexes 2018-06-21 13:42:34 -04:00
James Agnew cc98f65500 Merge branch 'master' into valueset_expansion_fixes 2018-06-21 10:20:24 -04:00
James Agnew 2dc445fd10 ValueSet enhancements 2018-06-21 10:19:14 -04:00
James Agnew e63604afc9
Merge pull request #1000 from rhausam/update-filenames 
Updated LOINC filenames to match 2.64 and future releases.
 2018-06-21 10:18:36 -04:00
James Agnew 218937e425 Several fixes 2018-06-20 05:53:32 -04:00
frankjtao 6e7d67ba70 Update due to Spring version change 2018-06-19 20:16:27 -04:00
James Agnew 127efd55b0
Merge branch 'master' into 963_jpa_performance 2018-06-19 06:50:05 -04:00
frankjtao 299cf5b230 Changed retval to resource id instead of SearchResult in SearchResultDao 2018-06-16 22:37:12 -04:00
jamesagnew 24ad8870cf Add to indexes 2018-06-16 18:23:05 -04:00
James Agnew d13d53c8ef Add a bit of logging 2018-06-15 14:01:07 -04:00
Rob Hausam 215e224e3d Updated terminology upload tests and artifacts to the new LOINC filenames. 2018-06-14 20:30:32 -05:00
James Agnew 99f80eef88 Performance enhancements to JPA searching 2018-06-15 01:13:44 +08:00
Rob Hausam 75c1b7baa8 Updated LOINC filenames to match 2.64 and future releases. 2018-06-14 11:33:35 -05:00
James Agnew a46b4a4637 Reindexing shouldn't stop unexpectedly 2018-06-13 22:03:15 +08:00
James Agnew cc0e836680
Auth interceptor early checks (#995) 
* Validator fix

* Enhance AuthorizationInterceptor so that it tries to deny access earlier
for compartment searches that are outside the allowable compartment.

* FIx DSTU2 test that wasn't updated

* More test fixes
 2018-06-10 17:48:20 -04:00
frankjtao 35991cd21b #963: renamed the parameter to 'the*' 2018-06-07 14:19:44 -04:00
Diederik Muylwyk 903df68d2a
978 cli tools for importing exporting terminology mappings need to be fixed (#988) 
* Fixed export issue.

* Fixed import issue.

* Fixed tests.

* Fixed tests.
 2018-06-07 10:22:41 -04:00
James Agnew 6feb23896f Hopefully fix #983 2018-06-06 15:51:23 -04:00
James Agnew e7804b881c Fix CI issue 2018-06-06 11:39:06 -04:00
jamesagnew 583437d656 Prevent a crash if the application context has been set incorrectly in 
embedded deployments
 2018-06-06 08:37:25 -04:00
jamesagnew 987679483a Version bumps 2018-06-03 15:29:10 -04:00
James Agnew e36bc3889c
Merge pull request #974 from Romanow88/master 
Fixes #972 Update Spring Data 1.11.6.RELEASE to 2.0.7.RELEASE
 2018-06-03 15:28:05 -04:00
James Agnew 30dd3c00b9 Merge branch 'master' of github.com:jamesagnew/hapi-fhir 2018-06-02 08:59:48 -04:00
Roman Doboni 8f1effe5e3
Merge branch 'master' into master 2018-06-02 09:37:56 +02:00
James Agnew d52c1ed090 Add a bit more logging for occasional failing test 2018-06-01 17:43:29 -04:00
jamesagnew fedf4a870a License header updates 2018-06-01 07:41:01 -04:00
James Agnew 7f87def432 Fix tests 2018-06-01 07:40:33 -04:00
James Agnew a9cb4dae2f Allow storage of messages 2018-06-01 07:07:24 -04:00
frankjtao 73f12744ae #963 Improved performance for tag loading 2018-05-31 21:30:46 -04:00
jamesagnew abcf7852b1 Tests pasing locally 2018-05-31 09:10:34 -04:00
Romanow a336f33b4b Update Spring Data 1.11.6.RELEASE to 2.0.7.RELEASE 2018-05-31 14:42:15 +02:00
James Agnew 7e0584af2f Merge branch 'java9' of github.com:jamesagnew/hapi-fhir into java9 2018-05-30 21:59:51 -04:00
James Agnew 2f07066c59 Test fixes 2018-05-30 21:59:41 -04:00
James Agnew c2afd9728d More test fixes 2018-05-30 21:57:17 -04:00
jamesagnew 432bc66208 Merge branch 'java9' of github.com:jamesagnew/hapi-fhir into java9 2018-05-30 21:24:01 -04:00
James Agnew bb5d4110a2 Test fixes 2018-05-30 21:23:20 -04:00
jamesagnew 2684e2b030 Build fixes 2018-05-30 16:17:36 -04:00
jamesagnew d127a89047 Some test fixes 2018-05-30 11:01:43 -04:00
jamesagnew 833a46d07e Work on test compilation 2018-05-30 08:27:09 -04:00
jamesagnew 5a96482860 More work o JDK9 tests 2018-05-30 08:04:01 -04:00
James Agnew a52805e504 Work on JDK9 support 2018-05-30 05:45:08 -04:00
James Agnew 7951d883d0 Merge branch 'master' into java9 2018-05-29 08:43:21 -04:00
Frank Tao 404d37cedc Fixed #963 : load history table once instead of one by one in the loop 
in the SearchBuilder class.
 2018-05-28 22:45:45 -04:00
Diederik Muylwyk 0e2c57fa60 Bumping version. 2018-05-28 17:44:38 -04:00
Diederik Muylwyk 2871920734 Preparing release. 2018-05-28 10:45:47 -04:00
James Agnew a7eac969d9 Site enhancements for release 2018-05-28 08:53:36 -04:00
jamesagnew 67f21426cb Disable content header on response for non-create operations 2018-05-25 07:28:01 -04:00
jamesagnew 49aaa01db8 Fix compile issues 2018-05-23 17:42:48 -04:00
James Agnew 850aa99ddb Merge branch 'master' of github.com:jamesagnew/hapi-fhir 2018-05-23 16:28:35 -04:00
James Agnew ed6609e414 One more test fix 2018-05-23 16:28:13 -04:00
jamesagnew b146a80502 Merge branch 'master' of github.com:jamesagnew/hapi-fhir 2018-05-23 16:09:34 -04:00
jamesagnew 92dc258c6e Update license headers 2018-05-23 16:09:23 -04:00
James Agnew ba8827091a Reindexing fixes 2018-05-23 16:07:48 -04:00
James Agnew a3687e446e Correctly handle missing search params with new indexing infrastructure 2018-05-23 11:42:38 -04:00
James Agnew 0c5c347db7 FIx broken reindex process 2018-05-23 10:48:07 -04:00
James Agnew 2f2900e837 Improve indexing on JPA server in anticipation of a new indexing 
strategy in HAPI FHIR 3.5.0
 2018-05-23 08:09:57 -04:00
jamesagnew e8139192e0 FIx test issues 2018-05-21 13:07:11 -04:00
James Agnew c588e01a4d Handle invalid paths in Consent resource 2018-05-16 21:45:23 -04:00