5e74a6f3e8
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2019-09-17 16:01:53 -04:00
4a751cbfc5
Integrate Bulk Export ( #1487 )
...
* Start working on subscription processor
* Work on new scheduler
* Test fixes
* Scheduler refactoring
* Fix test failure
* One more test fix
* Updates to scheduler
* More scheduler work
* Tests now all passing
* Ongoing work on export
* Ongoing scheduler work
* Ongoing testing
* Work on export task
* Sync master
* Ongoing work
* Bump xml patch version
* Work on provider
* Work on bulk
* Work on export scheduler
* More test fies
* More test fixes
* Compile fix
* Reduce logging
* Improve logging
* Reuse bulk export jobs
* Export provider
* Improve logging in bulk export
* Work on bulk export service
* One more bugfix
* Ongoing work on Bulk Data
* Add changelog
2019-09-17 16:01:35 -04:00
d3c8962ae6
Add some tests
2019-09-17 14:04:35 -04:00
08835c1615
FIx a failure in FhirTerser when visiting custom types
2019-09-13 09:11:47 -04:00
722c7a8211
Work on GraphQL updates
2019-09-06 14:56:17 -04:00
7d162c50db
Don't guess content type for create/put
2019-09-05 14:47:04 -04:00
ce879b3863
Fix versioned API incompatibility with GraphQL
2019-08-20 08:35:27 -04:00
74c83f6148
Test fixes
2019-08-17 12:01:04 -04:00
afb682dfe9
Handle AuthorizationInterceptor rejection of by-type reads on the wrong type earlier in the process
2019-08-15 09:16:45 -04:00
e1b43d811f
Version bump to 4.1.0-SNAPSHOT
2019-08-14 14:06:06 -04:00
3f22456b0f
Bump version to 4.0.0
2019-08-14 11:06:26 -04:00
b127867ef7
Fix responsehighlighterinterceptor to work with graphql
2019-08-13 18:00:30 -04:00
33767b5399
Test fix
2019-08-13 16:12:28 -04:00
94c498a744
A but more tweaking to the graphql interceptor
2019-08-13 16:05:33 -04:00
bb20c2134b
Issue-1387: Read version from resource meta when deciding whether to return 304 on read
2019-08-13 05:28:03 -04:00
c04f1d15d8
Fix #1399 - Issue with DiagnosticReport R4 narrative generation template
2019-08-12 17:17:45 -04:00
0c9e5ec1ea
Support GraphQL for R3/4/5 ( #1424 )
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* Work on grpahql enhanbcements
* Add some more chars to the sanitizer function
* Add changelog
2019-08-12 08:24:32 -04:00
dd0cb10dbb
validate operation ignores parameter profile ( #1417 )
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* This should be working now - need to check tests
* Add a changelog and some docs
* One more test fix
* Tests should be passing
* Fix compile
* Test fixes
* Ignore outdated DSTU2 validation test
2019-08-07 15:31:59 -04:00
60eab3ad70
Add support for R5 resources ( #1416 )
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* Work so far on R5 support
* Add support for R5
* Docs changes
2019-08-06 17:30:31 -04:00
46c8c61932
Restore build - May need to roll back the RDF changes
2019-08-01 10:14:56 -04:00
a4ca5374ec
Add terminology delta operations ( #1401 )
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* Start work on delta operations
* Add changelog
* Some build fixes
* Move upload terminology command to CodeSystem resource
* Updates
* Some test fixes
* Add changelog
* Some test fixes
* More test fixes
* Test fix
* Add additional tests
* Transaction boundary fixes
2019-07-29 17:46:42 -04:00
8158292665
Allow operations to better work across multiple versions of FHIR
2019-07-26 05:46:37 -04:00
7e3d062d15
Switch default client to JSON ( #1392 )
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* Start work on changing over
* Update tests
* More test fixes
* Work on generalizing binary access provider a bit
* Add expunge capability to binary storage, and also support actual binary
resources
* Work on binary provider
* Get the DB bound binary storage service working
* Test fixes
* Compile fix
* Fix compile error
* Test fix
* Test tweak
* Trying to figure out an intermittent failure
* Work on tests
* More work on tests
* Another test fix
2019-07-22 21:27:10 -04:00
55c0d5b604
Add binary storage for Attachments ( #1386 )
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* Have this working now
* Add utility method
* Build fixes
* Add changelog
2019-07-17 18:31:17 -04:00
7831e8a0ed
Add support for $snapshot generation and validation based on snapshots
2019-07-14 16:15:56 -04:00
120b93f204
Use HL7 FHIR Core Structures ( #1382 )
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* Ongoing work on core structures suport
* Ongoing work on this merge
* Ongoing work to clean up structures
* Credit for #1179
* Address compile issues
* Latest changes
* Work on parallel execution
* Work on getting tests passing
* Add H2 to migrator
* Test fix
2019-07-14 10:16:40 -04:00
75f0dc993c
Try to prevent an intermittent test fix
2019-07-11 21:39:41 -04:00
a352137938
Test fixes
2019-07-11 21:10:30 -04:00
34f7d4ddbd
Refactor ServerConformanceProvider so that it no longer keeps any state
2019-07-07 12:57:31 -04:00
56aaef641c
Add request ID
2019-07-02 21:32:28 -04:00
742389642d
Add tests for delete conflicts and authorizationinterceptor
2019-07-01 10:49:38 -04:00
5c0e54fb86
Improve processing of deletes in AuthorizationInterceptor
2019-06-29 14:40:51 -04:00
1fd99dac63
Enable optional cascading deletes on JPA server ( #1363 )
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* Start working on cascading deleets
* WOrk on cascading deletes
* Work on cascading deletes
* Enable cascading deletes
* Cascade deletes almost working
* FIx test
* Test fix
2019-06-28 17:32:39 -04:00
10d969c514
Add Consent Service ( #1359 )
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* Initial consent svc
* Ongoing consent svc work
* Add docs
* Ongoing consent service work
* Work on consent service
* More work on consent svc
* License header updates
* Ongoing consent svc work
* Some test fixes
* Some test fixes
* More work on consent svc
* Tests working
* Test fix
* Propagate RequestDetails to everything in JPA server
* More interceptor tweaks
* Fix compile error
* One more tweak to captured SQL
* Ongoing interceptor tweaks
* Ongoing interceptor tweaks
* More interceptor tweaks
* Interceptor tweaks
* Tweaks to tests
* Fix tests
* Test fix
* Raise warnings when encoding extensions with missing values
* Consent service work
* More interceptor tweaks
* Consent interceptor tweaks
* Add logging to test
2019-06-27 16:35:29 -04:00
3274693576
FIx a test
2019-06-22 16:31:55 -04:00
95876ec3cb
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2019-06-22 16:24:07 -04:00
638cb976fd
Fix #1250 - Don't include Bundle.entry.response on search results
2019-06-22 16:23:32 -04:00
4ad1808da3
Propagate RequestDetails to everything in JPA server ( #1358 )
2019-06-22 15:18:06 -05:00
6724fd0348
Implement the $subsumes operation ( #1344 )
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* Implement the $subsumes operation
* Fix #976
2019-06-17 17:31:24 -04:00
b56f59542a
Move JettyUtil to new module
2019-06-14 18:34:45 -04:00
aab7bb6b64
Issue-1325: Let OS assign random ports to servers during testing, and let tests get the port of the running server once the OS has assigned a port. Delete PortUtil and similar utilities.
2019-06-14 18:34:45 -04:00
50a8c66bf5
Version bump to 4.0.0-SNAPSHOT
2019-05-30 17:13:03 -04:00
73aa53be8f
Release 3.8.0
2019-05-30 16:50:04 -04:00
cd8b2feb2f
Allow to set additional Http headers directly on the IClientExecutable
2019-05-29 21:17:52 -04:00
24c9c27abb
overwritten section text in composition #402
2019-05-29 23:18:18 +02:00
6b37525f2d
Clean up redundant dependencies ( #1306 )
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* Remove a bunch of unneedd deps
* Test fix
* Disable useless test
2019-05-09 12:51:13 -04:00
37b9e1a42c
Improve validation of enableWhen questionnaires
2019-04-29 14:43:42 -04:00
7f45660a15
changed toListOfResources to send IBaseResource as Type instead of null
2019-04-26 12:55:18 +02:00
f3f5c570b1
A couple of compile glitches
2019-04-24 21:35:49 -04:00
738c2c1797
Interceptor framework refactoring ( #1287 )
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Interceptor framework overhaul
2019-04-24 14:32:30 -04:00
210d99d121
Correct validation of questionnaire enableWhen
2019-04-17 16:50:37 -04:00
15fda25771
added fetchValueSet to IValidationSupport and made it public to enable overwriting it in subclasses
2019-03-27 17:35:01 +01:00
e85bec2858
Ja inline references ( #1252 )
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* Use a single IN clause for OR reference searches
* Add changelog
* One more attempt at getting the free port util to actually work... sigh
* One more tweak to free ports
* Bundle fix
2019-03-26 10:42:42 +01:00
3433ecfd14
Test fixes
2019-03-11 16:14:34 -04:00
dcfacfea49
Has param no in ( #1232 )
2019-03-10 20:50:24 -04:00
48c10bddc5
Narrative Generator refactoring ( #1219 )
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* 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
87ed00a002
Add ability to generate named parametrrs in a version independent way
2019-02-15 16:27:16 -05:00
10c348d44f
Tweak to elements parametr support
2019-02-14 19:30:10 -05:00
810f1ad969
Improvements to elements parameter as well as adding attributes to
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RequestDetails
2019-02-07 16:45:59 -05:00
0f8c8d18e2
Bump version to 3.8.0-SNAPSHOT
2019-02-06 20:02:28 -05:00
207015c3af
Version bump to 3.7.0
2019-02-05 21:36:38 -05:00
9a8e3245b8
Build fixes
2019-02-05 15:00:36 -05:00
4498335ae5
Elements query cleanup
2019-02-05 14:16:47 -05:00
d4af1ee2a3
Add tests and license headers
2019-02-04 16:34:39 -05:00
e401ec86e4
Enhanced elements ( #1192 )
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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
b7ba529353
Merge pull request #1114 from zilin375/hapiFhir001
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Fix NPE
2019-02-02 11:31:43 -05:00
737ee9e97c
add JSON-like tests for DSTU3 and R4
2019-01-30 17:32:06 -08:00
68fae08f20
Fix casing in base64Binary type
2019-01-23 08:34:09 -05:00
9cf64f78d0
Deprecate a bad setter on RetfulServer, fix a paging issue, and add a
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disabled unit test to the subscription matcher
2019-01-21 14:46:17 -05:00
93bf2788ec
Add subscription narrowing interceptor and refactor RuleBuilder to be a
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bit cleaner
2019-01-12 14:23:26 -06:00
fc09ed6966
Fix #1163 - Correctly handle invalid CapabilityStatement
2019-01-11 08:01:48 -07:00
ee52d6fb31
Add SearchNarrowingInterceptor
2019-01-09 20:20:46 -06:00
b3c9b32db4
Credit for #1065 and forward-port fix to R4 provider
2019-01-09 07:19:55 -05:00
39f2062802
FIx errorprone detected issues
2019-01-05 13:43:55 -05:00
5b8fee869e
Add config options for default Prefer header and _total param on server
2019-01-04 16:12:45 -05:00
8c87c7c089
Correct an issue detected by ErrorProne
2019-01-04 14:28:38 -05:00
14a132a937
Squashed commit of the following:
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commit 965965583070da25b76f
2018-12-27 17:58:47 -05:00
6eb4c28e7c
More merging
2018-12-27 17:58:08 -05:00
a0cb7edd08
Version bump a few dependencies
2018-12-22 20:13:03 -05:00
6e0a9525a1
Remove dependency on public test server in unit test
2018-12-20 06:28:01 -05:00
19954fa252
Resolve failing test
2018-12-09 14:09:12 -05:00
b442982310
Add media interceptor
2018-12-08 18:49:58 -05:00
b41c222880
Require explicit declaration of authorizationinterceptor operation rules
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on whether the response is authorized or not
2018-11-23 14:25:46 -05:00
719339fc14
One more test fix
2018-11-19 10:27:16 -05:00
2e1d5e4124
Fix an occasional NPE in the tests
2018-11-19 09:56:40 -05:00
58388bb614
Allow client to return methodoutcome instead of resdource for operation
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call
2018-11-19 11:11:49 +01:00
67dbc802be
Better detection of binary content in ResponseHighlighterInterceptor
2018-11-18 14:32:54 +01:00
0d0f67b299
Add GraphQL support to public server
2018-11-16 11:41:39 +01:00
952dc7dd01
Fix NPE
2018-11-14 09:24:27 +01:00
cc57bacab8
Version bump to 3.7.0-SNAPSHOT
2018-11-12 10:07:28 -05:00
63af04a7b4
Prepare for 3.6.0 release
2018-11-12 05:40:55 -05:00
b32e232eb2
A bit of client tweaking
2018-11-08 17:10:39 -05:00
01c7618867
Failing test cleanup
2018-11-08 15:46:49 -05:00
82ec721c99
Allow client defined parameter style for _format param
2018-11-08 15:27:35 -05:00
bbce2c69cf
Fix typo
2018-11-01 05:51:26 -04:00
6b1ea5b989
Add tests for operation method binding
2018-10-30 15:22:39 -04:00
b66e01ce65
Allow plain server @Operation methods to declare a wildcard so that any
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opeeration invocations will be direected to them
2018-10-29 10:36:32 -04:00
aa177c1421
Authorize batch operation in AuthorizationInterceptor
2018-10-19 09:45:56 -04:00
c8db7fe035
Add a test
2018-10-18 15:12:22 -04:00
4e252063b8
Allow transactions and batches with transaction permission in
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AuthorizationInterceptor
2018-10-16 19:54:55 -04:00
b44e96a5cd
Merge branch 'philips-3.6.0'
2018-10-15 08:37:00 -04:00
51a69f0dc9
Fixes to migrator and count logic
2018-10-13 12:02:19 -04:00
90a3ead24f
Merge pull request #1089 from srdo/issue-545
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Issue-545: Base resource profile links should point to http://hl7.org …
2018-10-09 12:05:47 +02:00
c64567be68
More redundant test cleanup
2018-10-04 09:15:12 -04:00
597c8dbafe
Remove redundant tests
2018-10-04 08:57:37 -04:00
95f00e1c94
Fix NPE in tests
2018-10-04 08:33:40 -04:00
2050355e1e
Issue-545: Base resource profile links should point to http://hl7.org/fhir/StructureDefinition (invariant sdf-7 in spec)
2018-10-03 13:36:34 +02:00
12b23fbf23
Make JPA searches more efficient by prefetching a much smaller number of
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resources
2018-10-01 21:36:10 -04:00
3e445faf47
Squashed commit of the following:
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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 002c4b3ff7dfb4de86f1
2018-09-29 13:48:35 -04:00
002c4b3ff7
Add retrigger subscription operation
2018-09-27 20:03:01 -04:00
706e004b9d
Bump to 3.6.0-SNAPSHOT
2018-09-19 10:24:48 -04:00
ce6a9dbc36
Fix regression from new jetty version
2018-09-11 08:27:34 -04:00
daef975734
Version bump to 3.5.0
2018-09-08 07:22:21 +08:00
77305eb570
Work on migrator
2018-09-04 10:32:08 +08:00
f4a21eadda
Fix this issue
2018-09-01 14:38:52 +08:00
fee0166800
Work on removing validstion cache
2018-08-28 05:26:06 -04:00
54c07263b6
Increase code lengths
2018-08-26 12:32:35 -04:00
df651c830e
Remove dynamic mode
2018-08-19 17:35:08 -04:00
bc1ee1f9dc
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2018-08-13 11:54:36 -04:00
78a7d64d2c
Merge pull request #1022 from alinleonard/master
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Patch operation on OperationsWhichAllowPreferHeader
2018-08-12 17:55:16 -04:00
4eb3281fa6
Merge branch 'client_enhancements'
2018-07-30 18:34:49 -04:00
4fcaf37729
Test cleanup
2018-07-30 18:34:28 -04:00
d6293cf9b3
Merge branch 'client_enhancements'
2018-07-30 09:42:38 -04:00
db0f082222
Merge pull request #996 from anamariaradu10/master
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Changes regarding behavior for Prefer header
2018-07-30 09:16:20 -04:00
0f1724ac0a
Credit and a unit test for #912
2018-07-30 05:48:38 -04:00
fc9f2ec0fb
FIx test issue
2018-07-29 18:20:09 -04:00
518092cbd4
More updates
2018-07-29 17:10:26 -04:00
3a5556006b
Merge branch 'master' into master
2018-07-27 16:59:52 +03:00
9c39733aff
Fixed issues
2018-07-27 16:48:44 +03:00
75a68a0332
Unit test fix
2018-07-26 18:58:23 +07:00
a4e4111376
Fix a unit test
2018-07-26 18:08:59 +07:00
3c80238f0e
Ongoing work on interceptors
2018-07-24 17:22:21 +07:00
23083a9283
Improvements to client and SP indexing in JPA server
2018-07-23 17:37:49 +09:00
b4aa4c0e89
Add protection against HTML injection attacks
2018-07-19 08:56:22 -04:00
a9291b4e4b
Add security test
2018-07-19 08:09:07 -04:00
e6ca408f67
Permissions for operations
2018-07-12 18:40:15 -04:00
03e7b018a6
Add skeleton for the $process-message operation in JPA erver
2018-07-12 17:52:24 -04:00
62c7c0fa55
fixed the AuthorizationInterceptorR4Test return code based on fhir doc
2018-07-09 16:43:31 +03:00
b929864873
Merge branch 'improve_jpa_indexes'
2018-07-01 12:08:03 -04:00
495fd9f68e
Add support for patch in AuthorizationInterceptor
2018-07-01 11:46:11 -04:00
e5cb609f4d
Performance improvements
2018-06-24 20:02:27 -04:00
e9fffd3cdc
Allow indexing in custom search params to descend into contained
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resources
2018-06-22 11:22:07 -04:00
ed0b5f54a5
More authorizationinterceptor tweaks for better security
2018-06-12 21:52:01 +08:00
cc0e836680
Auth interceptor early checks ( #995 )
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* 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
6feb23896f
Hopefully fix #983
2018-06-06 15:51:23 -04:00
987679483a
Version bumps
2018-06-03 15:29:10 -04:00
9db3be8536
Include implementation URL in generated capabilitystatement
2018-06-03 14:22:15 -04:00
d127a89047
Some test fixes
2018-05-30 11:01:43 -04:00
a52805e504
Work on JDK9 support
2018-05-30 05:45:08 -04:00
7951d883d0
Merge branch 'master' into java9
2018-05-29 08:43:21 -04:00
James Agnew
Stig Rohde Døssing
Stig Rohde Døssing
Christian Ohr
Oliver Egger
patrick-werner
Ken Stevens
bdenton
axdad
Stig Rohde Døssing
anamariaradu10
Ana Maria Radu
Alin