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219 Commits

Author SHA1 Message Date
jamesagnew aaed0c5876 Add some logging 2017-11-13 21:02:39 -05:00
James Agnew 49f4ac4fc5
Merge branch 'master' into analyzer-def-using-search-mapping 2017-11-13 13:32:40 -05:00
James Agnew 7c1ab11b02 Clean up places where CORS headers are declared - Related to #718 2017-10-30 16:37:47 -04:00
James d461567433 Allow cache-control to be used with CORS 2017-10-26 09:08:10 -04:00
James 0959156a4a Faster processing for mandatory count searches 2017-10-17 14:11:05 -04:00
James Agnew 290894557d Optionally require JPA server to collect count information even for 
large searches
 2017-10-13 06:31:37 -04:00
Jiajing LIANG 86fb1de3ae rename file 2017-10-09 18:34:49 +02:00
Jiajing LIANG 65c3a316f2 move out the analysers definitions from entity classes 2017-10-09 18:34:03 +02:00
James be07ebc4ef Subscription refactoring 2017-09-21 08:33:20 -04:00
James Agnew e94d639d29 Refactor websockets to use queuing mechanism 2017-09-14 21:29:57 -05:00
James be5c5ebecd Merge in HAPI 3.0.0 working branch! 
Squashed commit of the following:

commit 12f89a423a
Author: James <jamesagnew@gmail.com>
Date:   Sun Aug 13 14:38:51 2017 -0400

    Minimize validation resources

commit f6868cce5c
Merge: 3b80779fd3 1e158311d8
Author: James <jamesagnew@gmail.com>
Date:   Sun Aug 13 14:05:34 2017 -0400

    Forward port fix for #710

    Merge branch 'master' into hapi3_refactor

commit 3b80779fd3
Merge: 1f534985e8 356d9acaf7
Author: James <jamesagnew@gmail.com>
Date:   Sun Aug 13 12:31:09 2017 -0400

    Forward port #705, #708, and #710

    Merge branch 'master' into hapi3_refactor

commit 1f534985e8
Merge: 7c39a47852 dedd3d635b
Author: James <jamesagnew@gmail.com>
Date:   Sun Aug 13 10:52:59 2017 -0400

    Forward port #695

    Merge branch 'master' into hapi3_refactor

commit 7c39a47852
Merge: e0ffb84d21 6efafe62f1
Author: James <jamesagnew@gmail.com>
Date:   Sun Aug 13 09:53:17 2017 -0400

    Forward port #688

    Merge branch 'master' into hapi3_refactor

commit e0ffb84d21
Merge: 52388c11c1 d19b00ff09
Author: James <jamesagnew@gmail.com>
Date:   Sat Aug 12 14:59:46 2017 -0400

    Merge branch 'master' into hapi3_refactor

commit 52388c11c1
Author: James <jamesagnew@gmail.com>
Date:   Sat Aug 12 06:21:46 2017 -0400

    Cleanup

commit 209752cd63
Author: James <jamesagnew@gmail.com>
Date:   Thu Aug 10 11:18:19 2017 -0400

    Fix tests

commit 4543408dc8
Author: James <jamesagnew@gmail.com>
Date:   Sat Aug 5 06:55:50 2017 -0400

    Fix a potential deadlock

commit ee360f5376
Author: James <jamesagnew@gmail.com>
Date:   Sat Aug 5 06:22:06 2017 -0400

    Add R4 code to CLI

commit 1a95ba3b65
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu Aug 3 06:14:01 2017 -0400

    More cleanup

commit f0d8802681
Author: James <jamesagnew@gmail.com>
Date:   Wed Aug 2 11:27:43 2017 -0400

    Tests are working!

commit a4cbda357e
Author: James Agnew <jamesagnew@gmail.com>
Date:   Wed Aug 2 10:42:04 2017 -0400

    Connection handling cleanup for new tests

commit 0e2cecfbd0
Author: James Agnew <jamesagnew@gmail.com>
Date:   Wed Aug 2 10:16:28 2017 -0400

    Clean up R4 JPA tests

commit 40317a650d
Author: James <jamesagnew@gmail.com>
Date:   Wed Aug 2 09:12:38 2017 -0400

    Work on R4 for JPA server

commit e7f8f8c30d
Author: James <jamesagnew@gmail.com>
Date:   Tue Aug 1 20:43:47 2017 -0400

    More work on porting tests

commit 43c9003258
Author: James <jamesagnew@gmail.com>
Date:   Tue Aug 1 07:09:29 2017 -0400

    Work on porting DSTU1 tests

commit 602857f1e2
Author: James Agnew <jamesagnew@gmail.com>
Date:   Mon Jul 31 22:34:08 2017 -0400

    More work on bring unit tests up to date

commit e326a7b0cd
Author: James Agnew <jamesagnew@gmail.com>
Date:   Mon Jul 31 17:36:38 2017 -0400

    Credit for #686 and forward port the fix to R4 validator

commit 96543c3992
Merge: 3fb75aa61a 9901b802c4
Author: James Agnew <jamesagnew@gmail.com>
Date:   Mon Jul 31 17:12:33 2017 -0400

    Merge branch 'master' into hapi3_refactor

commit 3fb75aa61a
Author: James <jamesagnew@gmail.com>
Date:   Mon Jul 31 15:21:30 2017 -0400

    More work on cleanup

commit b02fbb6804
Author: James Agnew <jamesagnew@gmail.com>
Date:   Sun Jul 30 22:11:07 2017 -0400

    Work on porting STU1 tests

commit 1ae37b0db3
Author: James Agnew <jamesagnew@gmail.com>
Date:   Sun Jul 30 20:56:10 2017 -0400

    Try to get coverage report working

commit 72b88849b3
Author: James Agnew <jamesagnew@gmail.com>
Date:   Sun Jul 30 20:27:02 2017 -0400

    Fix android tests

commit e5f6c35aea
Author: James <jamesagnew@gmail.com>
Date:   Sun Jul 30 19:31:18 2017 -0400

    More work on getting legacy code cleaned up

commit 0b513b0845
Author: James <jamesagnew@gmail.com>
Date:   Sun Jul 30 18:41:13 2017 -0400

    Continue work on removing deprecated API

commit defea69aa3
Author: James Agnew <jamesagnew@gmail.com>
Date:   Sun Jul 30 17:10:01 2017 -0400

    More cleanup of legacy code

commit 9ae7295705
Author: James <jamesagnew@gmail.com>
Date:   Sun Jul 30 07:11:45 2017 -0400

    More cleanup of legacy code

commit ebd3eeb5ee
Author: James Agnew <jamesagnew@gmail.com>
Date:   Sun Jul 30 06:43:25 2017 -0400

    More work on removing legacy code

commit 92224c2532
Author: James <jamesagnew@gmail.com>
Date:   Sat Jul 29 18:44:06 2017 -0400

    Remove DSTU1 Bundle

commit c52cacf71b
Author: James <jamesagnew@gmail.com>
Date:   Sat Jul 29 14:27:42 2017 -0400

    Now compiling

commit b405e51773
Merge: c3ddf04e25 cb2cea54d7
Author: James Agnew <jamesagnew@gmail.com>
Date:   Fri Jul 28 06:21:02 2017 -0400

    Merge branch 'master' into hapi3_refactor

commit c3ddf04e25
Author: James <jamesagnew@gmail.com>
Date:   Thu Jul 27 11:06:06 2017 -0400

    Sync R4 releases in

commit b13333c3c0
Author: James <jamesagnew@gmail.com>
Date:   Fri Jul 14 05:52:33 2017 -0400

    JPA server is now able to handle placeholder IDs (e.g. urn:uuid:00....000) being used in Bundle.entry.request.url as a part of the conditional URL within transactions.

commit 2e60ff7521
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu Jul 13 20:02:46 2017 -0400

    Fix imports

commit a92ace2e0d
Merge: 3196db96d1 1a6b3ea867
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu Jul 13 12:02:27 2017 -0400

    Merge branch 'master' into hapi3_refactor

commit 3196db96d1
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu Jul 13 11:48:10 2017 -0400

    Don't add false paging link to request

commit bd4e1d3388
Author: James <jamesagnew@gmail.com>
Date:   Sun Jul 9 21:32:16 2017 -0400

    Finally building correctly!

commit 6464ce9304
Author: James <jamesagnew@gmail.com>
Date:   Sun Jul 9 16:38:28 2017 -0400

    Work on refactor

commit 0059f2e48e
Author: James <jamesagnew@gmail.com>
Date:   Sat Jul 8 07:16:20 2017 -0400

    Keep working on refactor

commit 6c2e87e8cc
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu Jul 6 22:35:13 2017 -0400

    Lots of work on refactor

commit 11cab97504
Merge: 34ec6b8807 6c47bd4c51
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu Jul 6 21:43:57 2017 -0400

    Merge branch 'master' into hapi3_refactor

commit 34ec6b8807
Merge: f8e647511b c520e60ac1
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu Jul 6 21:43:49 2017 -0400

    Merge branch 'hapi3_refactor' of github.com:jamesagnew/hapi-fhir into hapi3_refactor

commit f8e647511b
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu Jul 6 18:46:55 2017 -0400

    Work on hapi3 changes

commit c520e60ac1
Author: James <jamesagnew@gmail.com>
Date:   Wed Jul 5 08:08:40 2017 -0400

    Keep working on refactor

commit f1d2ee9092
Author: James Agnew <jamesagnew@gmail.com>
Date:   Mon Jul 3 22:10:59 2017 -0400

    Continue refactor for HAPI 3

commit 9281ccafc3
Merge: ea1264cd8e 294d080bd3
Author: James Agnew <jamesagnew@gmail.com>
Date:   Mon Jul 3 20:34:16 2017 -0400

    Merge branch 'master' into hapi3_refactor

commit ea1264cd8e
Author: James <jamesagnew@gmail.com>
Date:   Wed Jun 28 10:26:01 2017 -0400

    Continue work on refactor

commit fbe2f98a02
Merge: b2bef47100 0a4dcc32ec
Author: James <jamesagnew@gmail.com>
Date:   Wed Jun 28 06:21:22 2017 -0400

    Merge branch 'master' into hapi3_refactor

commit b2bef47100
Author: James <jamesagnew@gmail.com>
Date:   Tue Jun 27 21:13:23 2017 -0400

    Work on refactor

commit 8f76e4e463
Author: James Agnew <jamesagnew@gmail.com>
Date:   Sun Jun 25 21:55:35 2017 -0400

    Lots of work on refactoring
 2017-08-13 14:39:47 -04:00
James Agnew 905d1239a0 Allow CORS on the public server 2017-07-12 13:47:30 -04:00
James Agnew 45b05326c5 Improve display of syntaxt highlighting 2017-07-12 09:47:10 -04:00
James Agnew 38b7212e52 Add line selection and header display to ResponseHighlighterInterceptor 2017-07-12 09:04:05 -04:00
James Agnew b96932a5c5 Fix dependency on new version of commons-codec 2017-05-25 15:24:47 -04:00
James Agnew fcc04a8998 Update tester to use DSTU3 server by default 2017-05-24 14:28:37 -04:00
Diederik Muylwyk 4748c8ba74 New DSTU2 FhirInstanceValidator bean exposed. (#611) 
Merging with master, issue #609 will be closed.
 2017-03-28 23:19:20 -04:00
James 12598b4e3b Correctly handle declared extensions with multiple possible types 
Squashed commit of the following:

commit d6ea0552b7
Author: James <jamesagnew@gmail.com>
Date:   Thu Jan 26 09:04:58 2017 -0500

    FIx test

commit e5876f7d86
Author: James <jamesagnew@gmail.com>
Date:   Thu Jan 26 08:35:38 2017 -0500

    Work on extensison

commit 7e573c2299
Author: James <jamesagnew@gmail.com>
Date:   Thu Jan 26 07:27:25 2017 -0500

    Work on extensions

commit 234b4a0c1c
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu Jan 26 06:25:47 2017 -0500

    More work on these extensison

commit 2eb780a690
Author: James Agnew <jamesagnew@gmail.com>
Date:   Wed Jan 25 22:35:57 2017 -0500

    Work on multitype extensions
 2017-01-26 11:07:52 -05:00
James Agnew d1542e98c5 JPA server was not correctly validating and expanding SCT codes 2017-01-19 17:37:43 -05:00
James af32c4b7e9 Websockets working once more on the public server 2017-01-12 08:59:51 -05:00
James Agnew a8eb4a1967 More websocket work 2017-01-11 22:12:41 -05:00
James Agnew d7c4016896 Websocket work 2017-01-11 21:10:10 -05:00
James Agnew 5b7abf15dc Properly purge subscriptions 2017-01-11 18:19:46 -05:00
James 65f597aeb1 Migrate to new fhirtest.uhn.ca server 2016-12-28 17:02:08 -05:00
James Agnew 750d6d4655 Switch public server to use CapabilityStatement for metadata return type 2016-12-20 15:35:54 -05:00
James 901a85880c Update STU3 definitions and being in STU2.1 defs too 2016-12-10 19:51:25 -05:00
James Agnew 888f42a032 Introduce new CORS interceptor and switch examples to use it 2016-11-21 18:30:51 +01:00
James Agnew 285b8aa1dd Document switch in CORS filter 2016-11-21 14:12:04 +01:00
James Agnew b37a1edaae Fix offset error when returning multiple pages in JPA search 2016-10-07 17:42:02 -04:00
James Agnew 2c4139dc82 Allow fluent client to handle return types other than Parameters when 
invoking operations
 2016-10-07 11:29:53 -04:00
James Agnew f5eda76388 Use new STU3 mimetypes by default 2016-10-06 12:17:59 -04:00
James Agnew 202a1ea885 Fix web testing UI regression 2016-09-06 17:59:04 -04:00
James Agnew da8abca1ff Add custom extension example 2016-08-21 10:24:42 -07:00
jamesagnew 7dbd5a21ca Fix tests 2016-07-24 09:20:54 -04:00
James Agnew 7bea8431f7 Add interceptor for rejecting TRACE and other invalid verbs 2016-07-19 19:16:09 -04:00
James Agnew 344b1256ce Add tests 2016-07-04 18:32:57 -04:00
James Agnew b587e3695b Add client integration test 2016-06-27 13:43:12 -04:00
jamesagnew c2dbcc7ff0 Merge branch 'master' of github.com:jamesagnew/hapi-fhir 2016-06-26 23:12:26 -04:00
jamesagnew 556058a7b7 Tests passing 2016-06-25 10:55:31 -04:00
James Agnew db0a208927 Work on terminology importing 2016-06-24 18:40:44 -04:00
James Agnew 0a2b4290ed Fix #370 - Validation failure when validating certain STU3 resources 2016-06-08 14:21:18 -07:00
James Agnew a5debc07a3 DateTime parser incorrectly parsed times where more than 3 digits of 
precision were provided on the seconds
after the decimal point
 2016-05-25 19:20:51 -04:00
jamesagnew 831729b558 Add test data library endpoints to public server 2016-05-22 14:28:17 -04:00
jamesagnew 3d8776f6ed Fix #363 - Allow remote references in JPA resources 2016-05-21 12:58:04 -04:00
jamesagnew 207ba872fa Add analytics to fhirtest.uhn.ca 2016-05-15 11:00:52 -04:00
James Agnew abd8bc2f14 Work on term svc 2016-05-13 17:40:56 -04:00
James Agnew e1ab2856e0 Fix build 2016-05-08 10:29:08 -04:00
James Agnew 82c1e687fd Fix NPE in LoggingInterceptor 2016-05-04 11:48:50 -04:00
jamesagnew b4d3a7bb74 Don't highlight AJAX requests 2016-05-04 06:59:28 -04:00
jamesagnew 244cad6224 Allow validator exceptions to be ignored via confoguration 2016-05-03 21:58:09 -04:00
jamesagnew c48a5224b4 Fix build 2016-04-25 06:40:16 -04:00
jamesagnew 3f64340ec1 Unload Derby on shutdown for #332 2016-04-12 08:08:34 -04:00
jamesagnew d7c683f6b9 Merge branch 'master' of github.com:jamesagnew/hapi-fhir 2016-04-11 09:08:34 -04:00
James Agnew 88157fe1a6 Test data uploader fixes 2016-04-08 16:31:42 -04:00
jamesagnew 364f11ad8f Just tester tweaks 2016-04-08 07:05:05 -04:00
James Agnew c8173810f4 Attempt to correct build issues 2016-03-16 18:00:57 -04:00
James Agnew 1ba0ae3960 Support inline match URL references, per Simone's requast for the next 
connectathon
 2016-02-23 13:12:30 -08:00
jamesagnew 32daeb6f58 Switch DSTU2.1 to DSTU3 per FMB's decision 2016-02-01 08:55:58 -05:00
James Agnew 7ed14d538a Remove warning 2016-01-24 14:53:40 -05:00
James Agnew 552842e547 Validator enhancements 2016-01-08 16:23:27 -05:00
jamesagnew cabdde8914 Still trying to get travis working! 2016-01-07 21:13:17 -05:00
James Agnew 50a9995c55 Validator fixes 2016-01-07 18:37:15 -05:00
James Agnew c1afb4f54d Get overlay working for DSTU2.1 2016-01-07 15:04:56 -05:00
James Agnew a54cb06c03 More travis cleanup 2016-01-06 14:02:20 -05:00
James Agnew 7005cd52d9 Performance tweaks to the validator and get the DSTU2.1 endpoint working 
with validation
 2016-01-04 17:57:00 -05:00
jamesagnew 685bd9345b Add request/response validator interceptors 2016-01-03 21:52:11 -05:00
jamesagnew d47e0e5e77 Add DSTU2.1 resources 2015-11-29 11:43:09 -05:00
jamesagnew 4545b4fb7f Don't create a new version when reindexing resources 2015-11-04 08:26:33 -05:00
James Agnew ae416dcd62 Improve nexted search/read handing in transactions in JPA server 2015-10-20 10:35:18 -04:00
jamesagnew 938a251ae9 Cleanup tests for java config in JPA 2015-10-19 20:19:40 -04:00
James Agnew 39fce055e1 Fix build 2015-10-16 15:59:01 -04:00
James Agnew 6c321b83c8 Get examples working with Java config 2015-10-16 15:41:28 -04:00
jamesagnew 7e2d486d17 Working on java config 2015-10-15 08:27:58 -04:00
jamesagnew 6d93cbcaae Get content search working correctly 2015-10-13 09:18:34 -04:00
jamesagnew 0ab8ee386f Add documentation for CLI 2015-10-12 18:47:49 -04:00
jamesagnew b4c86d033e More work on fulltext search and add a failing test for subscriptions 2015-10-09 09:12:41 -04:00
James Agnew b62eb1168c Allow server operations to work at the type level 2015-10-06 11:45:49 -04:00
James Agnew 80575b5380 Generic client now allows search by URL 2015-10-05 15:30:30 -04:00
James Agnew 48d56b4722 Fix connectathon discovered issues 2015-10-03 23:52:30 -04:00
James Agnew e7e8f8dd81 Use correct status codes for failed deletes, and support multi delete in 
JPA
 2015-10-02 18:18:54 -04:00
James Agnew 119a4f36d9 Add error checking and better handling for match URLs in JPA server 2015-10-01 16:54:34 -04:00
jamesagnew 900c93949a Work on subscriptions, and correct indexing of codes in JPA 2015-10-01 08:56:17 -04:00
jamesagnew c385384269 More work on subscriptions 2015-09-30 08:31:38 -04:00
James Agnew 1cc6a05273 FIx validation for resources using v2 tables 2015-09-29 10:51:36 -04:00
jamesagnew 9492744018 Work on subsciprions 2015-09-28 09:06:57 -04:00
James Agnew 1361e69177 Respect server default encoding if an Accept header is received which 
indicates equal weight for both encodings
 2015-09-24 17:52:52 -04:00
jamesagnew a15ed8e944 Work on subscriptions, and correct an issue with DateRangeParam where comparators get ignored 2015-09-23 08:36:11 -04:00
jamesagnew ec8b3b68f6 Work on subscription 2015-09-22 08:06:23 -04:00
jamesagnew 04c2cce13f Start working on JPA subscriptions 2015-09-21 09:08:19 -04:00
jamesagnew 8fee057de3 Bump Spring and Hibernate versions 2015-09-20 10:18:33 -04:00
James Agnew 97e6073665 Support URI (and prepare for lat/lon search params) in JPA server, and 
don't store duplicate tags
 2015-09-01 17:02:35 -04:00
jamesagnew a9f978a8a2 Udate to latest DSTU2 definitions 2015-08-31 08:20:24 -04:00
jamesagnew 61cb60b293 Operations which are not resource type specific were not showing up in REST server's conformance 2015-07-18 18:44:46 -04:00
James Agnew d20b7e2c94 A few cleanups to allow example resources to commit cleanly 2015-07-07 17:27:10 -04:00
jamesagnew 564746a9a8 Split databases for test server into one for each FHIR version 2015-07-07 09:10:26 -04:00
jamesagnew 8a86ad5e76 Wide sweeping changes to get RI structures working in server mode 2015-07-05 17:14:15 -04:00
jamesagnew da2d4d0497 Stlye issues only 2015-06-24 08:22:05 -04:00
jamesagnew fed9f4d61e Add unit tests and update healthconnex server 2015-06-23 08:29:13 -04:00
jamesagnew 71fbfe5214 Add consolidated test package and clean up tests for cobertura 2015-06-20 14:23:34 -04:00
James Agnew 9b97fb0e97 Enable validation ($validate) operation in DSTU2 style 2015-06-04 10:56:13 -04:00