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1741 Commits

Author SHA1 Message Date
James Agnew b265c0281b Expand search range when searching by date 2018-10-03 21:31:01 -04:00
James Agnew 5d5ee78873 API cleanup following JPA search performance enhancements 2018-10-03 07:43:01 -04:00
James Agnew 62d6771814 Use a select count query for summary count searches in JPA server 2018-09-29 21:58:14 -04:00
James Agnew 3e445faf47 Squashed commit of the following: 
commit df641506885e09e63f80efc6c658d01a1a3a8142
Author: James Agnew <jamesagnew@gmail.com>
Date:   Sat Sep 29 13:47:22 2018 -0400

    Shrink validation resources

commit 4c1550eafa26f4235b4b8804741aecc03276b5c6
Author: James Agnew <jamesagnew@gmail.com>
Date:   Fri Sep 28 22:45:28 2018 -0400

    Updates to get R4 working

commit 8332f15291006691ed9b07ead3e3524b0fc85510
Author: jamesagnew <jamesagnew@gmail.com>
Date:   Fri Sep 28 09:02:13 2018 -0400

    Ongoing work on gettign R4 working

commit f7146cab7aed937bb625a8aec95744d76db00041
Author: James Agnew <jamesagnew@gmail.com>
Date:   Fri Sep 28 05:21:01 2018 -0400

    More work on sync

commit f48de4a10b1bab2584fee813017d9b27b237bfa9
Merge: 9e4f3cc722 aacb78b779
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu Sep 27 20:11:29 2018 -0400

    Merge branch 'sync_r4' of github.com:jamesagnew/hapi-fhir into sync_r4

commit 9e4f3cc722668aae31a77b19bf9b032af3ae01b0
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu Sep 27 20:11:19 2018 -0400

    Fix compile error

commit 7ec29e0ceda8f9013cbabb95767cbe15b4b81303
Merge: 23f7517325 002c4b3ff7
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu Sep 27 20:04:23 2018 -0400

    Merge branch 'master' into sync_r4

commit aacb78b7793ab2c71e0a2a774240ee2b5d3f9e7f
Author: jamesagnew <jamesagnew@gmail.com>
Date:   Thu Sep 27 20:01:42 2018 -0400

    Keep working on getting R4 building

commit 4950de46d99897e74d41dfdb10d3d8a3435cb0c9
Author: jamesagnew <jamesagnew@gmail.com>
Date:   Tue Sep 25 13:11:27 2018 -0400

    Ongoing work to get R4 working

commit 819d69c20e112dd3c72569ec50114ddb8263c300
Author: jamesagnew <jamesagnew@gmail.com>
Date:   Thu Sep 20 08:15:36 2018 -0400

    Work on getting build working

commit 2c61b6cd1205ced5d7b822cf10942c69272ea078
Merge: 16b5bb06c8 dfb4de86f1
Author: jamesagnew <jamesagnew@gmail.com>
Date:   Thu Sep 20 05:16:53 2018 -0400

    Merge branch 'master' into sync_r4

commit 16b5bb06c8cdaf8d67c3b80f5aa9be9fccd99aef
Author: jamesagnew <jamesagnew@gmail.com>
Date:   Mon Sep 17 05:30:39 2018 -0400

    Work on R4 sync

commit 23f7517325a14dd2ca1eb5641296ead2776634ae
Author: James Agnew <jamesagnew@gmail.com>
Date:   Sun Sep 16 10:19:00 2018 -0400

    Work on sync

commit 6cc413c1f1dea538295aa4c16c21a5677494ac4c
Author: James Agnew <jamesagnew@gmail.com>
Date:   Fri Sep 14 17:28:28 2018 -0400

    Work on R$ sync

commit df6f6ad2ce783b07ccc383134705d874bc5d2cf1
Author: jamesagnew <jamesagnew@gmail.com>
Date:   Fri Sep 14 08:33:07 2018 -0400

    Work on R4
 2018-09-29 13:48:35 -04:00
Heinz-Dieter Conradi ea5cf9f956 Fix the null pointer problems in the DataRangeParam class 2018-09-27 11:25:56 +02:00
Heinz-Dieter Conradi 734835de96 Add some test demonstrating null pointer problems in the DateRangeParam class 2018-09-27 11:25:56 +02:00
James Agnew c0051f309b Avoid NPE on parser 2018-09-21 09:48:18 -04:00
jamesagnew dfb4de86f1 License updates 2018-09-20 05:16:15 -04:00
James Agnew 706e004b9d Bump to 3.6.0-SNAPSHOT 2018-09-19 10:24:48 -04:00
jamesagnew 321e88c811 License header updates 2018-09-14 05:25:07 -04:00
James Agnew ce6a9dbc36 Fix regression from new jetty version 2018-09-11 08:27:34 -04:00
James Agnew daef975734 Version bump to 3.5.0 2018-09-08 07:22:21 +08:00
James Agnew f5d567cd00 Work on migrator 2018-09-08 03:30:35 +08:00
James Agnew 0f7c4219cb Merge branch 'master' into jpa_migration 2018-09-02 06:05:11 +08:00
James Agnew f4a21eadda Fix this issue 2018-09-01 14:38:52 +08:00
James Agnew 07cfed14b8 Work on migrator 2018-08-27 08:21:20 -04:00
jamesagnew df651c830e Remove dynamic mode 2018-08-19 17:35:08 -04:00
James Agnew bc1ee1f9dc Merge branch 'master' of github.com:jamesagnew/hapi-fhir 2018-08-13 11:54:36 -04:00
James Agnew ea1f17762e Don't apply last updated to includes 2018-08-11 12:20:07 -04:00
jamesagnew 64b3b64208 License header updates 2018-08-06 19:06:09 -04:00
James Agnew 4eb3281fa6 Merge branch 'client_enhancements' 2018-07-30 18:34:49 -04:00
James Agnew 709a5dbd0a
Merge pull request #965 from jbalbien/fixBundleUtilBug 
fix bundle util bug
 2018-07-30 09:45:09 -04:00
James Agnew d6293cf9b3 Merge branch 'client_enhancements' 2018-07-30 09:42:38 -04:00
James Agnew db0f082222
Merge pull request #996 from anamariaradu10/master 
Changes regarding behavior for Prefer header
 2018-07-30 09:16:20 -04:00
jamesagnew 0f1724ac0a Credit and a unit test for #912 2018-07-30 05:48:38 -04:00
James Agnew d50dda19ae
Merge pull request #912 from InfiniteLoop90/911-contains-modifier 
Fixes #911 - Adds support for :contains modifier
 2018-07-30 05:39:27 -04:00
jamesagnew fc9f2ec0fb FIx test issue 2018-07-29 18:20:09 -04:00
James Agnew 518092cbd4 More updates 2018-07-29 17:10:26 -04:00
anamariaradu10 3a5556006b
Merge branch 'master' into master 2018-07-27 16:59:52 +03:00
Ana Maria Radu 9c39733aff Fixed issues 2018-07-27 16:48:44 +03:00
James Agnew 75a68a0332 Unit test fix 2018-07-26 18:58:23 +07:00
James Agnew a4e4111376 Fix a unit test 2018-07-26 18:08:59 +07:00
James Agnew 3c80238f0e Ongoing work on interceptors 2018-07-24 17:22:21 +07:00
James Agnew 23083a9283 Improvements to client and SP indexing in JPA server 2018-07-23 17:37:49 +09:00
James Agnew b4aa4c0e89 Add protection against HTML injection attacks 2018-07-19 08:56:22 -04:00
jamesagnew 401a4cd738 Clean up concept reindexing 2018-07-15 17:18:07 -04:00
jamesagnew 43ac912033 Clean up terminology uploading 2018-07-15 15:22:52 -04:00
jamesagnew 6d83edabb6 License header updates 2018-07-01 20:59:04 -04:00
patrick-werner a2d6435597 adding contentType matching independent of Charset to non-strict method 2018-06-25 10:51:05 +02:00
Patrick Werner b1e09fcdf7
Merge pull request #1007 from jamesagnew/1006-Writing-structured-Binary 
1006 writing structured binary
 2018-06-21 18:03:14 +02:00
Patrick Werner 8bd1313492
removed unused import 2018-06-21 14:56:38 +02:00
patrick-werner f470653ba4 fixing tests 2018-06-21 11:50:58 +02:00
patrick-werner ef9f97a576 fixes #1006 2018-06-20 17:26:23 +02:00
James Agnew ed0b5f54a5 More authorizationinterceptor tweaks for better security 2018-06-12 21:52:01 +08:00
Ana Maria Radu dc476aeeea In my opinion these changes should be made in order to have the behavior 
for the Prefer header values as the one explained in the official
documentation from https://www.hl7.org/fhir/http.html
 2018-06-12 14:04:05 +03:00
patrick-werner 9498247082 Allows the Cache-Control Header in CORS header for jpa-example-server & CLI 2018-06-04 16:12:31 +02:00
James Agnew d819d685ee Test fix 2018-05-30 09:57:41 -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
Jeff Balbien d417bf1225 fix bundle util bug 2018-05-25 09:19:59 -07:00
James Agnew a3687e446e Correctly handle missing search params with new indexing infrastructure 2018-05-23 11:42:38 -04:00
James Agnew 2e74ad72cb Improve timeouts on test ports 2018-05-23 08:52:24 -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
James Agnew cadb51d36c
Merge pull request #875 from RuthAlk/fix_codeableconcept_narrative 
Fix error in narrative for CodeableConcept
 2018-05-23 06:38:08 -04:00
James Agnew 851ce85ac6
Merge branch 'master' into wip-DateRangeParam 2018-05-23 06:03:26 -04:00
James Agnew 4d93b78c24 Credit for #836 2018-05-22 08:44:17 -04:00
James Agnew 3a68bc19e7
Merge pull request #836 from RuthAlk/include_patch 
Fix problem with _include=MedicationRequest:medication
 2018-05-22 08:40:08 -04:00
James Agnew 4fd868afae Credit for #946 and add extensions to the CLI uploader 2018-05-16 19:32:12 -04:00
James Agnew a3ff08d9ec
Replace phloc with ph for #775 (#930) 
* Replace phloc with ph

* Enable schematron tests

* Make HAPI-FHIR ph-schematron on OSGI

* Work on getting tests passing

* Another test fix

* Fix up transaction handling for DSTU2

* Add changelog

* Avoid double transaction

* Dont use readonly

* One more test fix

* Update to snapshow build

* Resolve a circular dependency

* Try to fix tests

* Solve recurring NPE in DSTU2 tests

* Fix one more test

* Test fix

* More test threading fixes

* One more attempt to get tests passing

* Refactoring for tests

* Refactoring for tests
 2018-05-14 17:38:40 -04:00
jamesagnew ccb859fdbe FIxes to get the synced build working 2018-05-13 08:08:34 -04:00
jamesagnew 150f27a9ca Merge branch 'master' of github.com:jamesagnew/hapi-fhir 2018-05-12 19:40:31 -04:00
jamesagnew 3d762b984b Sync to R4 definitions 2018-05-12 19:35:42 -04:00
James Agnew f1ba0016b2 Improve the error message thrown by JPA server 2018-05-11 17:03:48 -04:00
James Agnew b17eebd8d2 Squashed commit of the following: 
commit 2be11651c2
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu May 10 11:50:53 2018 -0400

    Update changelog

commit b3bb5f9052
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu May 10 11:19:28 2018 -0400

    Parameter updates

commit f6b1082ba4
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu May 10 07:24:30 2018 -0400

    More test fixes

commit 81a69c265f
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu May 10 06:26:48 2018 -0400

    Fix compile error

commit 935938e92c
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu May 10 06:25:18 2018 -0400

    Another test fix

commit 43568a1f8d
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu May 10 06:18:06 2018 -0400

    Fix compile error

commit e95894e643
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu May 10 06:13:50 2018 -0400

    More work on tests

commit 9393fb8f4f
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu May 10 05:36:27 2018 -0400

    One more fix

commit 437f5051e4
Author: James Agnew <jamesagnew@gmail.com>
Date:   Wed May 9 21:32:10 2018 -0400

    Work on validator

commit 20c51add4f
Author: James Agnew <jamesagnew@gmail.com>
Date:   Wed May 9 19:34:10 2018 -0400

    Validator fix

commit 7bf2b0a0e9
Author: James Agnew <jamesagnew@gmail.com>
Date:   Wed May 9 18:44:04 2018 -0400

    Fix test

commit adc73e75c9
Author: James Agnew <jamesagnew@gmail.com>
Date:   Wed May 9 17:22:34 2018 -0400

    Merge validator
 2018-05-10 11:53:32 -04:00
Diederik Muylwyk d97fb8f5cf
709 the conceptmap operation called translate needs to be implemented (#923) 
The ConceptMap operation $translate has been implemented.
 2018-05-10 10:52:56 -04:00
jamesagnew 5bd191d192 FIx some failing tests 2018-04-28 13:21:48 -04:00
James Agnew 593a705365 Performance enhancements on the CapabilityStatement generator for JPA 
server
 2018-04-28 11:06:42 -04:00
jamesagnew e299b062a6 Merge branch 'master' of github.com:jamesagnew/hapi-fhir 2018-04-24 19:14:56 -04:00
jamesagnew f1db751d1e Update headers 2018-04-24 19:14:33 -04:00
James Agnew 09b1f547d0 Add expunge 2018-04-24 15:11:00 -04:00
James Agnew 07e7af746f Work on expunge operation 2018-04-22 22:03:23 -04:00
James Agnew 591539cf13 Add expunge method 2018-04-22 18:34:56 -04:00
jamesagnew 8c889267e5 One more parser fix 2018-04-18 06:20:11 -04:00
James Agnew 162069776a Correctly handle encoding contained resources where some have user 
assigned IDs and some do not
 2018-04-17 18:26:06 -04:00
jamesagnew 9013e44ba0 Fix a couple of broken compile issues 2018-03-31 06:08:49 -04:00
Clayton Bodendein ac8e412e49 Fixes #911 - Adds support for :contains modifier 
Adds support for the :contains modifier in StringClientParam.
 2018-03-30 23:49:06 -05:00
jamesagnew 180336e076 Sync to master 2018-03-29 06:54:24 -04:00
jamesagnew 53c2d8a38d Merge branch 'master' into loinc_loader_update 2018-03-29 06:21:55 -04:00
jamesagnew 418e82032f Prep for 3.3.0 2018-03-29 05:48:13 -04:00
jamesagnew 94b880fd4d Remove accidentally committed useless file 2018-03-28 10:13:51 -04:00
James Agnew b56d65ef5b
Merge pull request #871 from johnpoth/hapi-fhir-osgi 
Implement #826 - add OSGI support and Apache Karaf features with inte…
 2018-03-27 06:06:34 -04:00
James Agnew d9fcf1ef54
Merge pull request #864 from splatch/master 
Avoid unecessary reference to javassist.
 2018-03-23 06:49:59 -04:00
Łukasz Dywicki 9125a78f33 Avoid unecessary reference to javassist. 2018-03-20 15:39:33 +01:00
James Agnew 308ac63a77 Merge branch 'master' into loinc_loader_update 2018-03-20 07:53:41 -04:00
James Agnew 9c5e32d7eb Fix up some logging 2018-03-20 07:53:21 -04:00
James Agnew 6359f7f8a1 More work on loinc 2018-03-19 08:51:02 -04:00
James Agnew 6e2acd0689
Merge pull request #890 from jamesagnew/arglineFix 
changed in *.pom: ${argLine} -> @{argLine}
 2018-03-19 05:55:54 -04:00
jamesagnew 4578b3889f Allow for locale differences in StopwatchTest 2018-03-19 05:54:12 -04:00
patrick-werner ff04ab3358 ${argLine} -> [at]{argLine} 
see:
http://maven.apache.org/surefire/maven-surefire-plugin/faq.html#late-property-evaluation
 2018-03-19 10:45:33 +01:00
James Agnew 142c4c6caa
Merge pull request #800 from InfiniteLoop90/issue-799-jaxrsrequest-fhir-version-support 
Fixes issue #799 by adding logic to handle the R4 and DSTU2_1 contexts in ca.uhn.fhir.jaxrs.server.util.JaxRsRequest.
 2018-03-19 05:41:20 -04:00
James Agnew 60354a4cc8
Merge branch 'master' into master 2018-03-12 07:41:22 -03:00
James Agnew cb2f5a0bba
Merge pull request #786 from CarthageKing/bugfix-chaining-urlvalue 
ensure to use resourceType properly when it is explicitly provided in a chained reference param
 2018-03-12 07:32:27 -03:00
jamesagnew 30cd63b929 More loinc work 2018-03-11 19:11:31 -04:00
James Agnew 5a653aeb20 Work on loinc mapping 2018-03-10 20:31:27 -03:00
James Agnew 611ee457cb Lots of addition of loinc 2018-03-07 13:33:49 -03:00
James Agnew e31aa760dd Fix stopwatch ETA calculations 2018-03-05 19:06:05 -05:00
Ruth Alkema fee70b1a7a Fix error in narrative for CodeableConcept 2018-03-05 16:27:07 +01:00
jamesagnew e201091e3a Update licenses for changed files 2018-03-04 13:53:04 -05:00
James Agnew 2f7751a079 Move stopwatch into hapi-fhir-base and add timing into to client 
LoggingInterceptor
 2018-03-04 12:13:18 -05:00
James Agnew 928cf23b4c Logging enhancements 2018-03-04 10:21:39 -05:00