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1790 Commits

Author SHA1 Message Date
jamesagnew 037ed27497 Merge branch 'master' of github.com:jamesagnew/hapi-fhir 2019-03-17 14:09:37 -04:00
jamesagnew 3e57fdb491 Improvements to PortUtil to avoid reusing ports 2019-03-17 14:09:21 -04:00
James Agnew 08c7afb804 Reduce logging in JPA server 2019-03-14 17:42:13 -04:00
jamesagnew 6ff92abecc License header 2019-03-14 13:32:32 -04:00
James Agnew e15afbc4f0 Merge branch 'master' of github.com:jamesagnew/hapi-fhir 2019-03-14 13:32:03 -04:00
James Agnew a8c76450e5 Re-enable contains searches on the public HAPI FHIR server and improve 
message formatting in HapiLocalizer
 2019-03-14 13:19:26 -04:00
jamesagnew a1046f7729 Merge branch 'master' of github.com:jamesagnew/hapi-fhir 2019-03-12 17:46:03 -04:00
jamesagnew 7b1950aeed License headers 2019-03-12 17:45:51 -04:00
James Agnew ed4da7c414 Add setting to disable resource type target validation in JPA 2019-03-12 17:45:19 -04:00
James Agnew 6597a928d5 Fix broken test 2019-03-12 15:45:53 -04:00
James Agnew 00a8f8c759 Fix broken build 2019-03-12 13:13:13 -04:00
James Agnew f934f76c96
Several JPA search fixes (#1231) 
* Search fixes

* Add some tests

* CHangelog

* Some cleanup of the query tracker

* FIx XML issue in changelog

* Test fixes

* SOme test fixes

* Address review comments

* Fix test breakage
 2019-03-11 15:49:34 -04:00
Ken Stevens dcfacfea49
Has param no in (#1232) 2019-03-10 20:50:24 -04:00
James Agnew 5dccf93506 Fix broken test 2019-03-06 17:15:30 -05:00
James Agnew f8b8f2d1b0 Move process-message to the correct level 2019-03-06 16:12:43 -05:00
Ken Stevens a2d4c93922 Subscription matcher transactions (#1229) 
* fix bug in ResourceIndexSearchParamQuantity
Move transaction boundary around SubscriptionMatcherInterceptor so it can be overridden in subclass
Lots of CRLF changes from a mvn -P DIST

* FIXME
 2019-03-06 16:12:04 -05:00
James Agnew fd401165a9 Fix an occassional failure in the stress test 2019-03-06 09:32:37 -05:00
James Agnew 9bc0f6784d
Search paging timeout with 1500 < n < 2000 results (#1221) 
* Avoid paging links when offset is artificially set very high

* Ongoing fixes

* Adding logging and clean up transaction processing

* Add changelog

* More work on queries

* Keep working on getting tests passing

* More test fixes

* More work on tests

* More test works

* One more test attempt

* Ongoing fixes

* One more change

* FIxes to search algorithm

* Add changelog

* Clean up for review

* Fixed NPE in token matcher when system is not null and value is null

* test opposite (null system not null value)

* added null protection to all matchers

* Address review comments

* Address broken test

* Trying to resolve DB ordering issues
 2019-03-06 05:45:05 -05:00
James Agnew 7896887f67 Updates to transaction processing 2019-02-28 12:23:48 -05:00
James Agnew 48c10bddc5
Narrative Generator refactoring (#1219) 
* Starting work on this

* Working on narrative templates

* Work on new narrative system

* Account for some failing tests due to refactoring of narrative mode

* Another test fix

* More test fixes

* One more test fix

* Work on searches

* Address review comments
 2019-02-27 14:59:57 -05:00
James Agnew 94f9ffa977 Avoid paging links when offset is artificially set very high 2019-02-25 20:44:22 -05:00
James Agnew fb06664f70 Clean up paging query 2019-02-25 19:05:19 -05:00
James Agnew 820a3d2296 Collapse conditional UPDATES as well in JPA transactions 2019-02-22 13:49:38 -05:00
James Agnew 43c07077be Automatically remove duplicate conditional creates in JPA 2019-02-22 12:57:07 -05:00
James Agnew 89b08cd627
Improve SQL IN(..) queries (#1214) 
* First attempt, probably has compile issues

* Fix qualified searches

* Another test fix

* More test fixes

* Add changelog

* Two more fixes

* Revert SQL logging
 2019-02-20 16:38:51 -05:00
James Agnew 28b4b812ac Merge branch 'master' of github.com:jamesagnew/hapi-fhir 2019-02-20 15:07:08 -05:00
James Agnew e7b7ba1a6d Add caching test 2019-02-20 11:18:02 -05:00
Ken Stevens 01568ab0b5 Fix test race condition. 2019-02-19 21:14:11 -05:00
Ken Stevens 3af0bc7206 changes needed to support different number of consumers in matching vs delivery 2019-02-17 15:23:01 -05:00
James Agnew c6fcb4fcbf Allow canonical subscription to hold multiple extensions with the same 
URL
 2019-02-16 15:28:39 -05:00
jamesagnew 1311ded7de Fix compile issue 2019-02-15 14:55:25 -05:00
James Agnew c0970ed46d Fix typo in test 2019-02-15 14:30:38 -05:00
James Agnew a35f30b18e
Merge pull request #1208 from jamesagnew/reuse-subscription-channels 
Reuse subscription channels
 2019-02-15 13:42:54 -05:00
James Agnew 485335e975 Allow terminology service to work without having Lucene enabled for 
simple ValueSet expansions
 2019-02-14 20:47:28 -05:00
Ken Stevens ffc5966aa3 Merge branch 'master' into reuse-subscription-channels 
# Conflicts:
#	src/changes/changes.xml
 2019-02-14 19:42:00 -05:00
James Agnew 10c348d44f Tweak to elements parametr support 2019-02-14 19:30:10 -05:00
Ken Stevens 508e15956e added a couple of subscription tests and un@Ignored another 2019-02-14 15:30:25 -05:00
Ken Stevens 7b3fedc642 sonar 2019-02-13 20:41:11 -05:00
Ken Stevens f34926bb18
fixed a bug matching long ids in searchparams (#1203) 
* fixed a bug matching long ids in searchparams
 2019-02-09 13:45:51 -05:00
James Agnew a5e10740c0
Merge pull request #1194 from jamesagnew/ja_more_subscription_logger 
More subscription logger work
 2019-02-09 11:45:25 -05:00
Ken Stevens f40614a1aa fixed bug in in-memory matching for reference id when searchparam has two components 2019-02-08 16:37:08 -05:00
Ken Stevens 52c62884fb Merge branch 'master' into reuse-subscription-channels 2019-02-08 10:39:00 -05:00
James Agnew ce840ecb6e Fix broken test 2019-02-07 17:48:08 -05:00
James Agnew 810f1ad969 Improvements to elements parameter as well as adding attributes to 
RequestDetails
 2019-02-07 16:45:59 -05:00
Ken Stevens b3e80f8da7 Merge branch 'master' into reuse-subscription-channels 2019-02-07 10:10:10 -05:00
Ken Stevens 4592184c34 fixed typo in logs 2019-02-07 10:06:41 -05:00
James Agnew 0f8c8d18e2 Bump version to 3.8.0-SNAPSHOT 2019-02-06 20:02:28 -05:00
jamesagnew 207015c3af Version bump to 3.7.0 2019-02-05 21:36:38 -05:00
James Agnew e3dd296db7 Fix flaky test hopefully? 2019-02-05 15:36:21 -05:00
James Agnew 87a6c24bde More subscription logger work 2019-02-04 13:49:10 -05:00
James Agnew e401ec86e4
Enhanced elements (#1192) 
Squashed merge: Add elements exclude mode

* Start working on elements enhancement

* Work on elements projection

* Work on elements filter

* Feature is now working

* Just some cleanup

* Address compile issues
 2019-02-03 16:41:33 -05:00
James Agnew 447c394cac
Ja subscription debug logger (#1190) 
Squashed commit adding subscription debug logger

* Work on subscription debug logger

* Add subscription logging interceptor

* Remove unneeded variables

* A bit of cleanup

* Tweak the output logs a bit

* Address review comments
 2019-02-03 16:33:54 -05:00
Ken Stevens 9280cde491
Subscription only registers active (#1189) 
* Fixed a bug in standalone subscription subscriber:  It was adding REQUESTED subscriptions to the active subscription registry.  (Only ACTIVE subscriptions should be added.)
 2019-02-01 10:14:46 -05:00
jamesagnew 5f29e4fbf3 Fix #1174 - Prevent serialization exception 2019-01-30 05:49:45 -05:00
jamesagnew 5d540d9208 Query optimization in JPA 2019-01-27 20:03:48 -05:00
Ken Stevens 10c59fceeb
Subscription strategy tag (#1178) 
tests pass
 2019-01-25 13:01:04 -05:00
James Agnew f55be0b6d0 Test fix 2019-01-25 10:56:17 -05:00
James Agnew 38d03ea99a
Invalid ids in subscription queue (#1175) 
* Start work on this

* Work on interceptors

* Attempt fix

* Avoid environment dependency

* Test fixes

* One more test fix

* One more build tweak

* Lots of cleanup

* A bit more cleanup

* Still more cleanup

* Some test fixes

* Add legacy methods temporarily

* Don't auto-scan interceptor beans

* One more test fix

* rsolve merge conflicts

* Address review comments
 2019-01-23 21:17:47 -05:00
Ken Stevens 67eaeb8af1 Merge remote-tracking branch 'origin/windows-fixes' into windows-fixes 2019-01-23 17:14:51 -05:00
James Agnew e819b83a94 Make busywait more clear 2019-01-23 16:21:13 -05:00
Ken Stevens cfd67d88c7 Merge remote-tracking branch 'origin/windows-fixes' into windows-fixes 2019-01-23 16:17:48 -05:00
Ken Stevens 5c7907dfea magic number 2019-01-23 16:17:41 -05:00
James Agnew 7d1d5a102c Attempt to fix a weird lucene indexing issue 2019-01-23 16:14:53 -05:00
Ken Stevens 2c7eb39b29 final batch of windows fixes (to deal with jumpy windows clock) 
also added semaphore to PointcutLatch
 2019-01-22 18:53:54 -05:00
Ken Stevens 6b22977d7c fixing more tests for Windows 2019-01-21 22:28:48 -05:00
Ken Stevens 00320da9dc Merge branch 'master' into windows-fixes 2019-01-21 20:34:01 -05:00
James Agnew 9cf64f78d0 Deprecate a bad setter on RetfulServer, fix a paging issue, and add a 
disabled unit test to the subscription matcher
 2019-01-21 14:46:17 -05:00
Ken Stevens 29f483d7b4 Merge branch 'master' into windows-fixes 2019-01-21 11:06:42 -05:00
Ken Stevens b4350bbdae Working through failed tests. Consolidating sleep calls 2019-01-21 11:05:53 -05:00
James Agnew 17f03ac843 Allow null return type for interceptors 2019-01-20 19:44:18 -05:00
James Agnew c3c7d156e9 Interceptor cleanup 2019-01-20 10:16:18 -05:00
jamesagnew b878925884 Try to avoid intermittent test failure 2019-01-19 18:44:09 -05:00
jamesagnew cd1e0e881c Add headers 2019-01-19 18:31:17 -05:00
jamesagnew b0cbd52ae9 Interceptor cleanup 2019-01-19 18:01:00 -05:00
James Agnew 29c3cee287
Merge pull request #1172 from jamesagnew/ja-subscription-interceptors 
Ja subscription interceptors
 2019-01-19 07:13:14 -06:00
James Agnew 3e84173180 Merge branch 'master' into ja-subscription-interceptors 2019-01-18 17:52:23 -05:00
Ken Stevens 3d07fc1c22
fixed null subscription id (#1170) 
* fixed null subscription id
 2019-01-18 10:39:35 -05:00
James Agnew 5ce9d444e9 Work on interceptors 2019-01-18 09:04:45 -05:00
jamesagnew 5fd084d7cf Fix a couple of merge conflicts 2019-01-18 05:47:37 -05:00
Volker Schmidt 432ad8e5bc Subscription without Payload did not contain header. 2019-01-18 05:41:47 -05:00
Ken Stevens 66dc7f82d5 organize imports 2019-01-15 20:55:00 -05:00
Ken Stevens 19afcb7e09 all tests pass 2019-01-15 18:22:08 -05:00
jamesagnew a584e15251 Add headers 2019-01-14 14:58:27 -05:00
Ken Stevens 4f5640e541
Resilient searchparamregistry (#1165) 
SearchParamRegistry and SubscriptionRegistry now both poll retrying connection to the server. This will help in particular in the scenario where the subscriptions are managed in a standalone server that depends on a FHIR Server being available to pull search parameters and subscriptions from.
 2019-01-14 11:39:28 -05:00
James Agnew 4b48eebe8b Merge branch 'master' of github.com:jamesagnew/hapi-fhir 2019-01-13 12:27:40 -06:00
James Agnew 63b8a70e8a Allow storing ConceptMap with StructureDefinition as a source or target 2019-01-13 12:24:51 -06:00
James Agnew 068117138e
Merge branch 'master' into subscription-bugfix 2019-01-11 09:05:37 -06:00
Ken Stevens 860a8fb7a6 Emergency fix. 
Normally I'd write a test for this, but this startup behaviour is changing in my next PR.
 2019-01-11 09:49:40 -05:00
James Agnew aee7b2b882 Make sure that sub-request transaction searches and reads preserve HTTP 
headers
 2019-01-10 07:26:04 -07:00
James Agnew d091665ab6 Test fix 2019-01-09 14:40:43 -05:00
James Agnew f241457bc1 Merge branch 'master' into test-openjdk-11 2019-01-09 13:42:50 -05:00
Ken Stevens 66dd6dc96c updated documentation 2019-01-09 13:39:32 -05:00
Ken Stevens cdf1cd9144 undoing inadvertent comment changes 2019-01-09 13:39:32 -05:00
Ken Stevens 3142ebb892 Fixed typo in class name 
Added channel extensions to CanonicalSubscription
 2019-01-09 13:39:32 -05:00
Ken Stevens d809569a2d Added new DaoConfig parameter to control whether subscription matching happens on this server. 2019-01-09 13:39:32 -05:00
James Agnew 8beccab9ab Merge branch 'master' into test-openjdk-11 2019-01-09 10:48:57 -05:00
James Agnew 62ae71c1c6 Allow authorizing delete operations via a transaction in 
AuthorizationInterceptor
 2019-01-07 15:43:36 -05:00
jamesagnew a8a97ae6b2 Two test fixes 2019-01-07 09:18:11 -05:00
James Agnew c104923855 Add an additional test for transaction processing 2019-01-07 09:17:19 -05:00
jamesagnew 8f8385627f Merge branch 'master' of github.com:jamesagnew/hapi-fhir 2019-01-05 11:33:08 -05:00