961f16a1be
Initial commit
2021-04-22 09:48:40 -04:00
a5f81988fc
Merge branch 'improve-bundle-builder' into issue-2534-new-tx-pointcut
2021-04-21 16:53:49 -04:00
b7166735f9
Merge remote-tracking branch 'origin/master' into issue-2534-new-tx-pointcut
2021-04-21 12:13:54 -04:00
ad8921ac4e
Add docs, enum, remove prints
2021-04-21 10:39:23 -04:00
4e266462ec
Bumped up version due to breaking changes
2021-04-20 16:17:27 -04:00
ca2088f3ad
Add framework for Bulk Import ( #2538 )
...
* Start work on bul;k import
* Work on bulk import
* Have batch working
* Working
* Working
* More work
* More work on bulk export
* Address fixmes
* License header updates
* Test fixes
* License header updates
* Test fix
* Test fix
* Version bumps
* Work on config
* Test cleanup
* One more version bump
* Version bump
* CLeanup
* A few additions
* Test fixes
* Test fix
* Test fix
* Migration fix
* Test fix
* Test fix
2021-04-14 17:41:32 -04:00
0bc61b72f7
Add new operation type for transcations
2021-04-14 14:04:00 -04:00
63c9e892b6
Fix up the hashmap provider
2021-04-13 11:12:26 -04:00
f61d52d199
Should have realized that transactiondetails is an object reference, so we can't change it effectively
2021-04-13 09:26:05 -04:00
28c917b7a2
Flesh out holder object
2021-04-09 11:28:47 -04:00
8f30f7b0f2
Vague skeleton of pointcut
2021-04-09 11:08:47 -04:00
edfe1ae8e6
Add lastupdated to capabilitystatement ( #2530 )
...
* Add lastupdated to capabilitystatement
* Test fix
* Test fix
2021-04-08 13:23:21 -04:00
f70648484a
Avoid a deadlock uploading terminology in postgres ( #2529 )
...
* Fix #2493
* Try to fix intermittent test failure
2021-04-08 12:28:42 -04:00
a6cbf7eebd
Add support for hierarchycal valueset expansion ( #2525 )
...
* Add support for hierarchycal valueset expansion
* Add changelog
* Add tests
* Cleanup
* Test fix
* Test fixes
2021-04-06 17:36:54 -04:00
b617c7690d
Search Parameter Infrastructure Cleanup ( #2522 )
...
* Search param service cleanup
* Work on collapsing search param
* Search param cleanup
* Work on build
* Test fix
* Test fixes
* Ongoing work
* Test fix
* Compile fix
* Test fixes
* Test fix
* Test fix
* License header updates
* Remove fixme
* Cleanup
* Cleanup
2021-04-05 17:40:10 -04:00
0bf746f23b
Add support for revincludes to CapabilityStatement generator ( #2521 )
...
* Add support for revincludes to CapabilotyStatement generator
* Add changelog
* Fixes
* Test fix
* Test fixes
* Test fix
* Test fix
* More fixes to CS cache
* Test fix
* Test fix
* Test fix
2021-04-05 08:29:04 -04:00
4eb9508e28
One more fix to interceptor
2021-03-30 11:47:03 -04:00
8759cdae00
Additional cleanup
2021-03-30 08:20:14 -04:00
06bdefa16c
Improve error handling
2021-03-30 07:36:08 -04:00
049097e5b4
Improve CapabilityStatement Generation ( #2511 )
...
* Start work
* Work on testing
* Version bump
* Test fix
* Compile fix
* Test Fixes
* Test fix
* Test fix
* Compile fix
* Tst fix
* Test fix
* Test fix
* Test fix
2021-03-30 05:48:03 -04:00
b720c32c1d
Version bump
2021-03-29 18:23:16 -04:00
05c3ca2512
Merge branch 'master' into 2478_add_extension_mdm_matcher
2021-03-25 12:22:23 -04:00
bac2e58b90
Added null checks for the request details param
2021-03-24 10:50:26 -04:00
8785a51857
Remove janky interceptor hook
2021-03-23 19:50:05 -04:00
a2ab3f5573
rethrow dataformatexception in case of TargetInvocationException
2021-03-23 19:49:06 -04:00
6f669f9ccd
wip
2021-03-23 19:29:22 -04:00
8ead3c5f22
Code review fixes
2021-03-23 15:01:22 -04:00
dc41d5ad61
Add terminology mapping and display population interceptors ( #2488 )
...
* Start work on code mapping interceptors
* Work on generation
* Add terminology mapping and display population interceptors
* Add changelog
* License header updates
* Test fixes
* Fix typo
* Interceptor fixes
* License header update
* Test fixes
* Mapping fixes
* Version bump
* License header updates
* Add null tests
* Add null guard
* Intermittent fix
2021-03-21 12:03:57 -04:00
04a0ecfc2b
Added tests
2021-03-15 10:31:38 -04:00
8b8bbcc91f
Refactored based on the code review
2021-03-11 17:14:01 -05:00
0013910c53
Removed commented code
2021-03-11 15:48:22 -05:00
01b1210b8a
Fixed NPEs on validation
2021-03-11 15:38:45 -05:00
7f8ac36ce0
Headers
2021-03-09 17:31:04 -05:00
9056c95865
Updated docs
2021-03-09 16:41:50 -05:00
052919eb33
Finished tests
2021-03-09 16:17:13 -05:00
02eae95c85
Merge branch 'master' into ng_validation_s13n_interceptors
2021-03-09 14:06:33 -05:00
be50a46d76
Tweaks to contained searches ( #2461 )
...
* Tweaks to contained searches
* Add changelog
* Build fix
2021-03-09 11:51:30 -05:00
6b387fa0a9
Removed fixme
2021-03-09 10:59:28 -05:00
340341b3a4
Removed fixme
2021-03-09 10:50:09 -05:00
ed511565ae
Fixing build failure
2021-03-09 09:54:57 -05:00
ccb5b1aaad
Addresses #2449
2021-03-08 17:40:16 -05:00
3eda19c65a
Version bump ( #2400 )
...
* Version bump
* Docs changes
* Docs tweaks
* Docs tweak
* Spelling fixes
* Docs tweaks
2021-02-18 11:07:49 -05:00
919c1dbddc
Version bump to 5.3.0
2021-02-17 07:10:13 -05:00
65ac0e80fb
Add CapabilityStatement customizer ( #2387 )
...
* Add CapabilityStatement customizer
* Fix javadocs
2021-02-15 14:58:34 -05:00
9c3f9f84d5
Initial implementation ( #2381 )
2021-02-12 05:47:49 -05:00
dd7a156d19
Call startOperation for paging requests ( #2370 )
2021-02-09 15:47:11 -05:00
c69d741b43
Add CapbilityStatement customizing hook ( #2364 )
...
* Add CapbilityStatement customizing hook
* Add additional method
* Interceptor service tweak
2021-02-07 09:12:09 -05:00
fc148e9e53
Change name of mimetype to mediatype
2021-02-02 11:46:39 -05:00
0f31d106e5
Allow empty request details in JPA ( #2343 )
...
* Allow empty request details in JPA
* Test fixes
2021-02-02 11:00:14 -05:00
ca28a4fe6c
Add CQL evaluate-measure operation. ( #2339 )
2021-02-01 19:55:51 -05:00
c5299df4d3
Use constant
2021-02-01 16:31:35 -05:00
5e36d71e41
fix mimetype
2021-02-01 13:43:47 -05:00
3cc9d08ebc
Merge remote-tracking branch 'origin/master' into 2325-channel-import-mimetype
2021-01-29 11:02:54 -05:00
3be480c9f0
Merge remote-tracking branch 'origin/master' into ng_20201218_survivorship_poc
2021-01-27 16:47:40 -05:00
909d9f742c
Enable Auto-reference versions in JPA ( #2323 )
...
* Automatic reference versions
* Auto reference versions
* resolve fixmes
* Add changelog
* Test fixes
* Test fixes
* Resolve fixmes
* Work on versioning
* Add support for _includes
* Update headers
* Change visibility
* One more tweak
* One more API tweak
* Fixes
* Account for review comments
* Fix errorprone reported issue
* Test fix
* Test fixes
* Test fixes
2021-01-27 14:49:10 -05:00
04db4ed229
Merge remote-tracking branch 'origin/master' into ng_20201218_survivorship_poc
2021-01-26 09:18:20 -05:00
5c0b3ea905
Add mutator for payload
2021-01-25 12:20:38 -05:00
4c9df3f7b4
Add string mimetype to resourceoperationemssage
2021-01-25 11:25:47 -05:00
86ea0d60ef
reduce _count to the maximum page size rather than throwing an error. ( #2319 )
...
* reduce _count to the maximum page size rather than throwing an error.
Also when setting the paging provider on a restful server, automatically set the default page size and max page sized of the restful server from the paging provider.
* reword log message
* fixing this paging issue has uncovered all sorts of interesting things, including this long hidden bug!
* fix tests in sub-optimal way
* fix NPE
* fix test
* fixed a couple of bugs in SearchCoordinatorSvcImpl that surfaced when i added a default page size to RestfulServer
2021-01-25 08:19:29 -05:00
cfc798cb2b
Merge remote-tracking branch 'origin/master' into ng_20201218_survivorship_poc
2021-01-22 09:45:04 -05:00
edd9769686
Add documentation fixes for MDM-match
2021-01-22 09:17:51 -05:00
b00f47ef81
Merge remote-tracking branch 'origin/master' into ng_20201218_survivorship_poc
2021-01-18 09:25:58 -05:00
a08392e6b2
Add license header
2021-01-17 19:10:34 -05:00
29cf20aac3
Add repo validation outcome to response ( #2293 )
...
* Add repository validating interceptor outcome to response
* Add a doc
* Add a test and some docs
2021-01-17 12:50:13 -05:00
759f06ce48
Added optional manual override to link update
2021-01-14 14:24:59 -05:00
57662eedb3
Merge remote-tracking branch 'origin/master' into ng_20201218_survivorship_poc
2021-01-12 09:22:38 -05:00
520400d6ea
added IPagingProvider.canSearchByOffset() ( #2281 )
...
* init rev
* added IPagingProvider.canSearchByOffset()
consolidated parameters in bundle link methods
* fix refactoring error
* add @Nonnull to BundleLinks parameter
* null check
* fix test
* cleanup
* fix refactoring
* final cleanup
* review feedback
* review feedback
* review feedback
2021-01-11 20:42:41 -05:00
9338a4e73e
Survivorship 5
2021-01-08 19:25:25 -05:00
d20b07c78e
Update license headers
2021-01-01 15:50:24 -05:00
f30999b053
License header updates
2021-01-01 15:07:23 -05:00
8f8c5c31f1
Add validation rules interceptor ( #2264 )
...
* Start work on validation rules interceptor
* Work on interceptor
* Add tests
* Work on validation interceptor
* Work on interceptor
* Test fix
* Documentation tweaks
2021-01-01 14:29:10 -05:00
e79114e2ec
Un-revert the MDM changes, now that issues have been addressed ( #2226 )
...
* Backward compatibility changes
* Revert "Revert "Remove all references to Person from EMPI.""
* Updated docs
* Removed mdm channel references
* Initial implementation
* fix coarseness bug. Fix tests. reinitialize silly bean
* Add forgotten json file
* Generic provider PoC
* Refactored provider to use BundleBuilder
* Removed version-specific MDM providers
* Addressed code review comments
* Fixed after merge
* Fixed docs
* MDM SVG for Update Use Cases
* Removed obsolete docs
Co-authored-by: Nick <nick.goupinets@smilecdr.com>
Co-authored-by: Nick Goupinets <73255752+nvg-smile@users.noreply.github.com>
2020-12-17 10:12:53 -05:00
81f6fe9106
Support IBaseBundle as parameetr type for @Transaction method ( #2237 )
...
* Support IBaseBundle as parameetr type for @Transaction method
* Add changelog
* Add bundle setter
2020-12-11 18:33:00 -05:00
0938d72b51
Revert "Remove all references to Person from EMPI."
2020-12-09 14:57:00 -05:00
52fd83c654
Merge remote-tracking branch 'origin/master' into gg_20201105-remove-person-references
2020-12-09 09:14:58 -05:00
828573b467
Improve synchronization on HashMapResourceProvider
2020-12-09 05:53:47 -05:00
fd90eb699f
Review updates
2020-12-07 18:03:56 -05:00
5c40afb0c9
Updated doc headers
2020-12-03 16:11:10 -05:00
4352e0a61f
Merge remote-tracking branch 'origin/master' into gg_20201105-remove-person-references
2020-12-03 11:28:21 -05:00
a4b2fbd906
Merge pull request #2211 from bdenton/bd-20201202-fix-split-package
...
Split package: delete 'ca.uhn.fhir.rest.server' package from hapi-fhir-server-empi
2020-12-03 09:02:46 -05:00
1eae5db374
autoCreatePlaceholderReferenceTargets true breaks multitenancy ( #2215 )
...
* Fix #2209 - autoCreatePlaceholderReferenceTargets true breaks multi-tenancy
* Add changelog
* Address fixme
2020-12-03 08:53:37 -05:00
7627a86176
Improve version logging ( #2213 )
...
* Improve version logging
* Add changelog
* Test fixes
2020-12-02 21:19:04 -05:00
01ca7f3746
move TransactionLogMessage to hapi-fhir-rest-server bundle (as per
...
feedback)
2020-12-02 17:22:31 -08:00
d63c580e82
Merge remote-tracking branch 'origin/master' into gg_20201105-remove-person-references
2020-12-01 13:18:42 -05:00
c309737166
Allow reading from multiple partitions ( #2198 )
...
* Partitioning rework
* Work on partition improvements
* Partition updates
* Work on partitiong
* Test fixes
* Add docs
* Add changelog
* Resolve FIXME
* Test fixes
* Test fixes
* Test fixes
* Compile fix
* Fix compile error
* Test fix
* Test fixes
2020-11-30 17:59:52 -05:00
8a7dc4e80b
EMPI to MDM
2020-11-27 15:12:21 -05:00
953b662827
Merge branch '2161-refactor-empi' into gg_20201105-remove-person-references
2020-11-19 14:24:51 -05:00
3209faf2fb
Rename package and module
2020-11-18 21:55:29 -05:00
0c31741eec
Version bump to 5.3.0-SNAPSHOT
2020-11-18 14:52:43 -05:00
4d441ad7f2
Version bump to 5.2.0
2020-11-18 06:30:20 -05:00
c0bef70e12
Add optional resource type to EMPI provider method
2020-11-13 16:42:09 -05:00
331acc1b55
Attempting to perform MDM on a new resource type
2020-11-11 14:15:35 -05:00
ffbe35e2cd
Partial refactor of Provider
2020-11-10 12:26:20 -05:00
a67b3a8298
Fixed possible-matcher
2020-11-10 10:46:43 -05:00
8000d2d0cf
SQL Join Rework ( #2086 )
...
* switched to adding annotations. Just did a test with Token, but the sql looks clean.
* switched to adding annotations. Just did a test with Token, but the sql looks clean.
* added the other six index links
* trying different annotations
* Start testing
* Update resources on package install
* Add changelog
* Join rework
* CLean up SQL builder
* Add docs
* SP rework
* Join work
* Work on params
* Work on refactor
* Work on chains
* Work on joins
* Rework queries
* Work on queries
* Many more tests passing
* Refs test
* Work on sorting
* Work on tests
* More joins work
* Work on tests
* Work on queries
* Tests passing
* More test fixes
* Test fixes
* Work on SQL
* Tests passing
* Add some tests
* Add some tests
* License headers
* Use entity manager to get datasourcd
* One more fix
* Model cleanup
* Ongoing work
* Fixes
* Fixes
* Work on joins
* Ongoing fixes
* Merge conflict
* Cleanup
* clean up unused fields
* Work on join
* COmpile fix
* Rework querying
* Update hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/config/HibernateDialectProvider.java
Co-authored-by: Ken Stevens <khstevens@gmail.com>
* Address review comments
* Resolve fixmes
* Test fix
* Test fixes
* Test fix
Co-authored-by: Ken Stevens <khstevens@gmail.com>
2020-10-26 05:24:26 -04:00
3b91873b7c
delete expunge ( #2131 )
...
Added delete _expunge=true
2020-10-20 17:21:50 -04:00
7903b2b577
License headers
2020-10-13 11:43:09 -04:00
1435540320
Improve synchronous searching by providing offset & limit support ( #2059 )
...
* Improve synchronous searching by providing offset & limit support
Add support for offset querying which leverages paging at the query level
Add configuration for search default page size and search maximum page size
If using offset, always use synchronous searching to avoid extra database insert/update etc.
When using offset, only calculate count if it's wanted
Validate params closer to provider and handle size if search returned "all" (or last)
* Review and test fixes
Comment _offset as nonstandard parameter
Make synchronous search always count the total value (for now)
Fix issue with FulltextSearchSvcImpl mutating param map
Dirty fix for BaseJpaTest (not sure how to fix the including resources issue)
* Remove temporary count querying fix for synchronous loads
* Fix offsetting of everything operations, do not drop zero offset
* Fix jpa test default and maximum page size, add some fixmes to tests before resolved
* Ignore one failing test, fix others
* Fix Dereferenced variable may be null
* Fix everything paging in R4 by adding DISTINCT if synchronous load is used
Also fix assertion of size when hitting fetchSizeDefaultMaximum
* Add documentation about offset annotation and paging
Co-authored-by: James Agnew <jamesagnew@gmail.com>
2020-10-12 17:42:03 -04:00
a32397d993
add CorsInterceptorTest ( #2126 )
...
* add simple CorsInterceptorTest
* add relevant exposedHeaders to custom CorsConfiguration
* use SLF4J Logger.info() instead of System.err.println(), and run the test assertions first
* Add logback-classic dependency to test scope, to enable SLF4J logging within unit tests. (SLF4J defaults to NOP binding if no binding found on classpath, see also http://www.slf4j.org/codes.html#StaticLoggerBinder )
2020-10-12 17:38:31 -04:00
844624b6dd
RDF Support in HAPI FHIR ( #2118 )
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* RDF Support in HAPI FHIR
* Ability to read/write FHIR resources as RDF (turtle serialization)
* Test suite to test roundtrip-ability of RDF parser
* Add null checks to appease LGTM
* Correct null check logic
2020-10-12 17:16:00 -04:00
d2aae361bf
Rewrite deferred interceptor callback framework ( #2121 )
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* Rewrite deferred interceptor callback framework
* Improve deferred handling
* Null guard
* Test fix
2020-10-07 20:08:18 -04:00
edbd089092
Docs update
2020-10-06 05:52:22 -04:00
66a0115340
Missed a space
2020-09-30 11:13:40 -04:00
ca52268249
Rename accessors, fix whitespace
2020-09-30 11:11:56 -04:00
09d09233ff
empi bugfixes and enhancements ( #2104 )
2020-09-29 17:27:43 -04:00
072e63be5a
Avoid a crash on double date chains ( #2097 )
...
* Avoid a crash on double date chains
* Add changelog
* Address coverage warning
2020-09-21 15:43:07 -04:00
45775c8660
Reuse constant
2020-09-16 15:29:04 -04:00
ddfac72e8d
Clean spacing
2020-09-16 15:27:03 -04:00
9d3a97a46f
Default for int
2020-09-16 15:24:09 -04:00
558f7a5ccf
Minor cleanup
2020-09-16 15:21:49 -04:00
4c5051a5d9
More refactor for custom headers and top level attributes
2020-09-16 15:05:44 -04:00
666113696b
add attributes to HapiHeaders. Turns out deserialization makes a best guess, and doesnt respect types in Map<String,Object>
2020-09-16 14:06:54 -04:00
cdc195bd0b
Change to use long type for failure timestamps
2020-09-16 13:13:43 -04:00
74bba9dbcc
Rename to ResourceOperationMessage
2020-09-15 18:57:55 -04:00
ea64bea1b0
Refactor to use concrete class instead of parent
2020-09-15 15:27:21 -04:00
a9fb849d49
Moved more into parent class, added javadocs for transactionId
2020-09-14 16:44:50 -04:00
6e0ef035e9
Rename constants. Remove dead comment
2020-09-14 15:35:58 -04:00
f20c42a8bd
Remove license claims, remove dead class
2020-09-14 13:48:44 -04:00
9a09a8abf3
Update todos
2020-09-14 13:41:11 -04:00
3e324355f2
Add javadocs
2020-09-14 13:28:36 -04:00
2e1f2a662a
Move class to top level, add tests
2020-09-14 13:20:01 -04:00
c3ddf59d6f
Add HapiMessageHeaders to BaseJsonMessage class
2020-09-14 13:02:32 -04:00
28a9a53917
Rework to keep several things in subscription
2020-09-10 16:05:56 -04:00
2229233749
Move subscription models to legacy, except the ones that are subscription specific
2020-09-09 15:58:41 -04:00
190f0ccb22
Add test for #2063
2020-09-01 14:12:57 -04:00
92718c7ef2
Version bump to 5.2.0-SNAPSHOT
2020-08-12 10:23:46 -04:00
5fb7bd5156
Version bump to 5.1.0
2020-08-11 17:43:24 -04:00
63ef2ce006
Fix #2012 - Always filter total from search results when consent interceptor in use ( #2020 )
...
* consent bug test
* Fix #2012 - Always filter total from search results when consent
interceptor in use
* Add changelog
* Address coverage issues
Co-authored-by: Jens Kristian Villadsen <46567685+jvitrifork@users.noreply.github.com>
Co-authored-by: jvi <jvi@trifork.com>
2020-08-07 09:16:02 -04:00
3b9f9e6cc3
Rename operation
2020-08-03 21:35:12 -07:00
da30772a01
Remove dead methods, constants, and add a javadoc
2020-08-01 13:19:52 -07:00
e67ee36492
Renamed and modified reset constant for better naming
2020-08-01 11:36:14 -07:00
90e96c1fb4
Fix bug caused by Persons with >1 historical version
2020-07-23 14:35:28 -07:00
9491a3e499
Add DSTU3 clear operation
2020-07-23 09:37:11 -07:00
de9621602b
Update provider and create test skeletons for empi batch run
2020-07-18 18:18:21 -07:00
62b5221c3f
Move Empi Batch work to the BaseHapiResourceProvider, allowing manual EMPI runs on a server/type/ID basis.
2020-07-18 13:36:14 -07:00
6bb92717f5
Merge branch 'master' into batch-empi-job
2020-07-16 11:00:32 -07:00
31e9f140ad
Fix operation name. Remove unnecessary beans
2020-07-16 09:48:58 -07:00
5a79304893
Implement GraphQLQueryBodyParameter and GraphQLQueryBody annotation ( #1896 )
...
* implement GraphQLQueryBodyParameter and GraphQLQueryBody annotation
* GraphQLQueryBodyParameter to recognize application/graphql
* fix 500 error on method without @GraphQLQueryBody
* refactor to processGraphQlGetRequest and processGraphQlPostRequest
* add testGraphPostContentTypeJson and testGraphPostContentTypeGraphql to GraphQLR4RawTest
* fix imports
2020-07-16 09:25:26 -04:00
c3b89b4ad5
Get basic tests running
2020-07-09 15:56:41 -07:00
f82a53e6f9
Merge branch 'master' into batch-empi-job
2020-07-06 13:12:20 -07:00
f356c7c385
Migrate to JUnit5 ( #1952 )
...
* Work on junit
* Work on junit 5
* Work on junit 5
* Bump errorprone vcersion
* Work on tests
* Junit 5 tweaks
* Fixes
* Work on tests
* Work on junit5
* Work on tests
* Test fixes
* Work on junit5
* Test work
* Get junit5 working
* Test fix
* Work on tests
* WOrk on tests
* Work on tests
* fixes
* Compile fix
* One more tweak
* Compile fix
* Add changelog
* Fix compile error
* Compile fix
2020-07-04 18:28:16 -04:00
25d8668f55
Add Basic provider method, skeleton of tests
2020-07-03 15:21:32 -07:00
fa4bbe3685
Allow search criteria as subscription delivery mechanism ( #1951 )
...
* Terser should create correct Enumeration on create
* Start work
* Work on subscriptions
* Work on seed bundles
* Bundle transmission
* Add changelog
* Test fix
* Fix LGTM warning
2020-06-30 14:29:09 -04:00
34c68e15af
Add license headers
2020-06-14 19:10:36 -04:00
d164e2d450
Empi 28 matchers ( #1918 )
...
* adding matchers
* reorganize resource matching api
* added precision sensitive date matcher
* stricter rules validation
* validate thresholds
* validate paths. with FIXMES
* validate searchparams
* fix merge compile error
* add soundex, validate no duplicate names
* add normalize substring
* add exact field to matcher
* EXACT -> STRING, exact=true
* cleanup test method
* match test passes with fixmes
* fixed vector matching
* fixed vector matching
* updating documentation and fixing tests
* updated rules documentation with latest matchers
* updated rules documentation with latest matchers
* created eid page
* eid documentation
* pre-review cleanup
* clean up beans
* disentangling beans
* checkstyle
* noop to trigger CI
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_jpa_empi/empi.md
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_jpa_empi/empi.md
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_jpa_empi/empi.md
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_jpa_empi/empi_details.md
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_jpa_empi/empi_details.md
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_jpa_empi/empi_details.md
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_jpa_empi/empi_details.md
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_jpa_empi/empi_rules.md
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
* review feedback
* review feedback
* review feedback
* review feedback
* review feedback
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
2020-06-14 17:15:56 -04:00
b8da4f0140
Add package support ( #1911 )
...
* Begin rework of package management
* Work on NPM
* Work on package management
* Work on NPM
* NPM rework
* Work on NPM
* NPM package rework
* Updates
* Updates
* Add license
* Work on package server
* Work on package importing
* Work on package management
* Package rework
* Work on packages
* Work on package manager
* Work on pkgs
* NPM work
* NPM rework
* Work on package cache
* Work on NPM
* Work on NPM
* Package fixes
* Add tests
* Tweaks
* Test fixes
* Add changelog
* Avoid snapshot dep
2020-06-10 05:30:20 -04:00
558f419955
Empi 54 not duplicate ( #1900 )
...
add operation to unduplicate persons
2020-06-05 12:21:09 -04:00
33753881e2
Empi 55 deactivate merged ( #1883 )
2020-06-03 13:12:01 -04:00
86ef0ec0e2
Correct transaction processing in multitenant server ( #1884 )
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* Correct transaction processing in multitenant server
* # d codethe npm registry for updates every day (weekdays)
2020-06-03 10:37:47 -04:00
c374383b37
Allow AuthorizationInterceptor to properly authorize GraphQL statements ( #1864 )
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* Allow AuthorizationInterceptor to properly authorize GraphQL statements
* Add changelog
2020-05-22 20:40:37 -04:00
d1b963321a
MVP EMPI implementation ( #1857 )
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EMPI Initial Implementation (still plenty of known gaps)
2020-05-22 15:03:20 -04:00
63ff0ede9c
Make diff operation work securely ( #1859 )
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* Make diff operation work securely
* Build tweak
* FIx tests
2020-05-21 19:20:48 -04:00
ce5ade53d9
Fix #1855 - StructureDefinition search not working ( #1858 )
2020-05-21 09:35:37 -04:00
5b2181a563
Implement FHIR Patch ( #1850 )
...
* Start working on FHIRPatch
* More work on fhirpatch
* Work on FHIR Patch
* Add patch
* Test fixes
* Test fixes
* Get tests fixed
* Chnage to trigger a build
* Compile fix
* Dependency version fixes
* Test fix
* COmpile fix
* Try to fix build
* Test fix attempt
* Another build attempt
* Another build tweak
* Cleanup
2020-05-20 19:43:55 -04:00
cc92bd7b07
Revert "Start working on FHIRPatch"
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This reverts commit b3f6e7d521
2020-05-17 11:56:50 -04:00
b3f6e7d521
Start working on FHIRPatch
2020-05-17 11:44:06 -04:00
52c8e3551c
Version bump to 5.1.0-SNAPSHOT
2020-05-15 14:43:32 -04:00
fe0e07a313
Bump to 5.0.1
2020-05-15 05:47:01 -04:00
1d13e29ac0
Version bump to 5.1.0-SNAPSHOT
2020-05-12 20:04:20 -04:00
d631ecff4a
Prepare for 5.0.0
2020-05-12 11:49:18 -04:00
78fa296f1f
License header updates
2020-05-07 19:37:16 -04:00
6cc07b6689
Make binary storage work for bulk export ( #1836 )
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* Make binary storage work for bulk export
* Add changelog
* Build fixes
* Test fix
* Test fix
* Test fix
2020-05-07 19:20:22 -04:00
a77aa6a28e
Multitenancy Ticket 2 - #1813 ( #1821 )
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* Work on multitenancy
* Second ticket started
* More multitenancy work
* Work on tenancy security
* Work on multitenancy
* Test fixes
* Add docs
* cs tweak
* Multitenancy fixes
* Add debug log
* Fix build
* Add headers
* Add partition selection interceptor hook
* Update hapi-fhir-base/src/main/java/ca/uhn/fhir/rest/api/Constants.java
Co-authored-by: Ken Stevens <khstevens@gmail.com>
* Account for review comments
* Resolve FIXMES
* Work on tests
* Test fixes
* A bit more cleanup
* Work on multitenancy
* Update hapi-fhir-docs/src/main/java/ca/uhn/hapi/fhir/docs/ClientExamples.java
Co-authored-by: Ken Stevens <khstevens@gmail.com>
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/client/examples.md
Co-authored-by: Ken Stevens <khstevens@gmail.com>
* Address review comments
* Allow disabling text modifier indexing
* Add changelog
* Docs fixes
* Address review comment
* Resolve merge conflicts
* Merge master
* Compile fix
* Test fix
Co-authored-by: Ken Stevens <khstevens@gmail.com>
2020-05-05 15:12:15 -04:00
9ace4889bc
enhance constructor, so an existing InterceptorService could be passed in ( #1749 )
2020-05-01 07:36:45 -04:00
e439891ea2
Add test
2020-04-29 15:21:54 -04:00
ea817de68a
Extend support for additional forwared headers x-forwarded-port and ( #1788 )
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x-forwarded-prefix
2020-04-29 09:01:39 -04:00
6226381595
Merge branch 'master' into ja_20200206_multitenancy
2020-04-21 20:54:56 -04:00
c7de85339c
Work on review comments
2020-04-21 20:18:06 -04:00
c716216b34
Adjust return type for fluent delete() operation ( #1805 )
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* Add cascading delete to client
* Add changelog
* Client delete should return MethodOutcome
* Rerturn more appropriate type for delete operations
* Refactor cascade detection to be reusable
2020-04-21 15:23:11 -04:00
4abebf2247
Docs cleanup
2020-04-21 09:28:52 -04:00
bbab016ca6
Rename config
2020-04-20 12:38:04 -04:00
7248b4e18e
Finish docs
2020-04-20 11:02:27 -04:00
e0b419354f
Bump up hamcrest version and force the use of the latest version
2020-04-17 13:59:22 -04:00
68f437177d
Add license header
2020-04-17 09:49:03 -04:00
497757501b
Improve search method binding priority ( #1802 )
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* Work on search method binding priority
* Work on method priority
* Work on binding priority
* Test fixes
* Add changelog
* Test fixes
* compile fix
* One more comple fix
* Test cleanup
* Test fix
2020-04-17 09:28:33 -04:00
8cdc3a72ce
Fix #1794 - Client ID and Server ID mode clash ( #1795 )
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* Fix #1794 - Client ID and Server ID mode clash
* Try to track down intermittent test failure
2020-04-09 09:31:13 -04:00
b78205c218
Ongoing cleanup
2020-04-06 17:00:45 -04:00
40d0c27ae3
Work on subscription cleanup
2020-04-05 18:43:27 -04:00
e1142f4043
Start work on subscription cleanup
2020-04-02 05:31:12 -04:00
0021561fb1
Raise an error on including invalid query string parameter(s) in read operations
2020-03-31 20:05:05 -04:00
fe48313100
Add response size capturing interceptor ( #1776 )
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* Work on capturing repsonse sizes
* Interceptor complete
* Add changelog
* Test fix
2020-03-30 11:24:10 -04:00
eaaddaf7ca
Fix #1763 - Include bundle type in summary=count responses ( #1773 )
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* Fix #1763 - Include bundle type in summary=count responses
* Test fix
2020-03-24 16:24:41 -04:00
14316147c5
Resolve some docs issues
2020-03-23 10:34:12 -04:00
c2ae5a8326
Add FHIRPath evaluation interceptor ( #1769 )
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* Add FHIRPath evaluation interceptor
* Add changelog
2020-03-22 12:57:24 -04:00
22413911bf
Validation api changes ( #1719 )
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* Validation enhancements
* Work on validation api reworking
* Keep working on validation API
* Keep working on new term API
* Work on validation api
* Ongoing work on validation
* Work on integrating validation
* Work on validation API
* Add to validation API
* Work on validation
* Work on API
* Work on validation
* Work on validation API
* Work on validation API
* Work on validation api
* Work on validation API
* Work on validation api
* Validation API changes
* Work on API
* More work on validationo API
* Work on validation API
* FIxes
* WOrk on validation api
* Work on validation API
* Tests passing!
* More cleanup
* More validation API changes
* Fix intermittent test failure
* Package reorg
* Validation API work
* Work on doocumentation
* Work on API
* More work on new validation API
* Fix errorprone-reported error
* Test fixes
* Documentation updates
* Documentation tweaks
* Work on API
* Bean name adjustments
* Build fixes
* Some test fixes
2020-03-17 13:28:59 -04:00
64f07e4dc0
Includes performance enhancement ( #1702 )
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* Includes performance enhancement
* Add changelog
* Test fix
* Fix typo
* A few coverage cleanups
* Test fix
* Fix changelog
2020-02-18 14:11:48 -05:00
ddc7b601ee
Version bump to 4.3.0-SNAPSHOT
2020-02-16 19:23:22 -05:00
4fd80cfca7
Bump to 4.2.0
2020-02-16 19:00:15 -05:00
c5c1e3196b
Resolve FIXMEs ( #1705 )
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* Resolve FIXMEs
* Test fixes
* Test fixes
* Clean up unused code
* Add some test coverage
* Test fix
* Test fix
* Avoid intermittent
2020-02-09 08:39:46 -05:00
785997aade
Resource methods in interfaces (default implementations) are now picked up when registering providers
2020-02-04 17:23:22 -05:00
aad5a30a3d
Support count=0 ( #1670 )
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* Support count=0
* Fix LGTM issue
2020-01-15 14:52:32 +08:00
9c7f5e1b9b
License header updates
2020-01-12 10:15:08 -05:00
e935c75025
Changed BaseResourceReturningMethodBinding to accept IBaseBundle as a bundle resource.
2020-01-02 14:39:29 -05:00
0c83c1ce44
Changed BaseresourceReturningMethodBinding to accept IBaseBundle as a bundle resource.
2020-01-02 14:15:48 -05:00
dfc14f5002
Fix compile
2019-12-18 18:35:27 -05:00
e9811c6377
One more trim
2019-12-18 17:50:30 -05:00
f2b7846973
Trim subrequest
2019-12-18 17:21:47 -05:00
d277d3fed5
Docs updates
2019-12-10 16:10:09 -05:00
976740955c
Make constructor of 'Verdict' public. Fixes gh-1621
2019-12-07 18:08:45 +05:00
f58fba6f04
Some test cleanup ( #1616 )
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* Some test cleanup
* Add test
* More test logging
* More docs cleanup
* Add test logging
2019-12-02 11:00:18 -05:00
5f803f7e68
Documentation updates
2019-11-26 02:00:22 -03:00
51b608188b
Some CI surefire improvements ( #1602 )
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* Some CI surefire improvements
* Build tweak
* More tweak
* Update azure-pipelines.yml for Azure Pipelines
* Update azure-pipelines.yml for Azure Pipelines
* One more CI attempt
* Update azure-pipelines.yml for Azure Pipelines
* Tweak command line
* Another build test fixc
* More build cleanup
2019-11-23 19:51:02 +01:00
a2f77b23d2
Fix #1583 - Index local refs in canonical types ( #1593 )
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* Fix #1583 - Index local refs in canonical types
* Add fix to pre-expansion
* Test fix
* Rework ID handling
* Test fixes
* Fix test
2019-11-23 16:32:37 +01:00
497a96ae68
Version bump for next round of development
2019-11-12 22:09:21 -05:00
f99ad981b5
Version bump to 4.1.0
2019-11-12 16:08:20 -05:00
89b25ce828
License updates
2019-11-02 17:34:05 -04:00
80bfb9af37
Issue-1077: Make CapabilityStatementProvider use the closest common superclass of provided resources when generating rest.resource.profile, instead of always using the base definition.
2019-11-01 10:20:16 -04:00
9d4df3e470
Add a test
2019-10-30 05:40:32 -04:00
ffb15682de
Update license headers
2019-10-26 14:48:08 -04:00
2b3c775b77
Some cleanup and fix a test
2019-10-26 12:45:57 -04:00
9cc945b5bd
Merge branch 'osgi-server-work' of https://github.com/bdenton/hapi-fhir into bdenton-osgi-server-work
2019-10-25 17:05:09 -04:00
74c03b5bb7
Add a test
2019-10-24 08:32:52 -04:00
91ec0a6922
Test fix
2019-10-24 08:32:52 -04:00
385a885abf
Add ability for resource source to be specified by header
2019-10-24 08:32:52 -04:00
306b02e147
Additional tracing statements.
2019-10-22 20:41:52 -04:00
9e44049847
Allow for improved overriding of RestfulServer#newRequestDetails
2019-10-22 18:09:21 -04:00
9b94e4e26d
Allow uploading term deltas using CS resource ( #1555 )
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* Work on accepting codesystem reources for delta operations
* Ongoing work on term uploader
* Restore the ability to use CodeSystem resources for the delta
* Add tests
* Fix NPE
* Test fixes
2019-10-22 17:11:39 -04:00
73961072a6
Handle invalid chains on custom search params ( #1553 )
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* Handle invalid chains on custom search params
* Add some more tests
* One more test fix
2019-10-21 21:21:33 -04:00
5dcbed0438
Fix foreign key handling when dropping tables
2019-10-17 15:52:35 -04:00
9a050461a8
Make cache timeout configurable
2019-10-15 09:34:48 -04:00
82a6221e5b
Provided unit test for cache controlled metadata
2019-10-15 07:58:20 -05:00
6a2242656f
Added evaluation of Cache-Control HTTP header
2019-10-15 07:58:20 -05:00
2725797610
Implement Terminology Delta Operations ( #1536 )
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* Start refactoring terminology delta operations
* Work on delta operations
* Work on concept saving
* Split term services into smaller services
* Work on term delta operations
* Work on term svcs
* Work on term operations
* More work on delta uploader
* Add a test
* Wrk on term service
* Fix compile error
* Some refactoring
* Test fix
* Test fix
* Test fixes
* Test fix
* Test fixes
* Test fixes
* Work on delta
* Work on tests#
* Test fixes
* Improve resequencing logic
* Build test
* More testing
* More build testing
* More work on tests
* CHange test logging
* Fix term service PID issue
* Update src/changes/changes.xml
Co-Authored-By: Diederik Muylwyk <diederik.muylwyk@gmail.com>
* Address review comment
* Some cleanup
* Test fix
* Fix some tests
* Test fixes
2019-10-14 19:14:41 -04:00
f81aaa7f00
refactor "split" packages; create osgi bundle for server framework
2019-10-12 14:08:41 -07:00
92c6b88964
Add test
2019-10-10 07:16:18 -04:00
e656863a73
Correct bugs reported by LGTM ( #1533 )
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* Correct bugs reported by LGTM
* Add some tests
* A few more updates
* YAML update
* Test fixes
* One more test fix
* Test fix
2019-10-09 19:26:57 -05:00
861ed36f00
Allow patches to be authorized for DSTU3 transactions ( #1529 )
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* Allow patches to be authorized for DSTU3 transactions
* Add changelog
2019-10-08 14:29:27 -05:00
3c4c6f7925
Don't allow Content-Location header to dictate version for updates
2019-10-04 09:55:14 -04:00
150c865f68
License header updates
2019-10-03 21:20:08 -04:00
94b8d6f84d
FIXME
2019-10-03 12:17:37 -04:00
d1deedf247
pre-review cleanup
2019-10-03 12:14:11 -04:00
566443d0fe
move BundleUtil back
2019-10-03 12:05:26 -04:00
98c76a4d49
Test passes
2019-10-03 12:03:38 -04:00
29e7cdc476
Added ability to modify URLs in BundleUtil
2019-10-03 09:46:32 -04:00
8e9b7b590c
[(servermethodbinding)] Fix method binding to handle special search names(_id:[modifier], _language:[modifier])
2019-10-02 05:51:15 -04:00
066c9a7fb7
Improvements to AutohrizationInterceptor create handling
2019-09-30 15:07:23 -04:00
5509478566
License header update
2019-09-30 10:13:09 -04:00
557a8ccc66
Add top level support for ElasticSearch ( #1514 )
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* ElasticSearch work
* Add ElasticSearch properties builder
* Clean up POM
* Remove redundant project
* Try to troubleshoot embedded elasticsearch
* Another test attempt
* Add credentials to elasticsearch config
* Work on lastn
* Address review comments
* A couple of test fixes
2019-09-30 09:30:39 -04:00
8657afb01e
Fix intermittent test failures regarding search ( #1509 )
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* Add some logging
* Add more test logging
* Work on some test logging
* Fix compile error
* Work on codecov
* Work on codecov
* Remove test debug messages
2019-09-25 20:15:21 -04:00
57377f5557
Fix #1483 - Don't let RP methods handle a request with includes if the
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method doesn't understand them
2019-09-25 10:54:37 -04:00
0b630f6851
Merge branch 'searchmethodbinding_test' of https://github.com/tuomoa/hapi-fhir into tuomoa-searchmethodbinding_test
2019-09-25 09:01:38 -04:00
a989a746b0
Fix #1494 - Upgrade to new :recurse syntax for R4 include/revinclude
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statements
2019-09-20 09:38:29 -04:00
6e98c02862
Fix #1495 - Avoid NPE in RuleBuilder
2019-09-20 08:57:01 -04:00
eddb98084d
Move PreferReturnEnum back to original location to avoid regressions
2019-09-19 15:48:58 -04:00
4a751cbfc5
Integrate Bulk Export ( #1487 )
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* 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
2c3283fd34
Add test for search method binding matching
2019-09-12 13:36:56 +03:00
0843a2b02d
Avoid leaking details when canSeeReource rejects a resource from consent
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service
2019-09-10 11:14:44 -04:00
7e41951508
Create utility method for accessing the reqyest detail
2019-09-09 15:02:12 -04:00
7d162c50db
Don't guess content type for create/put
2019-09-05 14:47:04 -04:00
9428430822
Add support for Resource.meta.source ( #1438 )
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* Work on indexing source
* Work on tests
* Refactor query count tests
* Unit test fixes
* Add some tests
* DAO fix
* Fix compile error
* Unit test fix
* Cleanup
* Test fix
* Fix compile error
* One more test fix
2019-08-21 11:17:43 -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
94c498a744
A but more tweaking to the graphql interceptor
2019-08-13 16:05:33 -04:00
01a6aa8f5b
Test fix
2019-08-13 14:54:35 -04:00
b4fece0ae9
Add interceptor hook for graphql calls
2019-08-13 14:46:50 -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
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
a4ca5374ec
Add terminology delta operations ( #1401 )
...
* 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
5bf4fa22e7
Allow patching in tranactions
2019-07-18 16:41:07 -04:00
87ab796309
Updates to validating interceptor
2019-07-18 12:57:30 -04:00
9fc10242b7
Convert validating intercwptors to use new framework
2019-07-18 08:25:35 -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
0fb8db11a2
Add new pointcut: PROCESSING_COMPLETED
2019-07-09 14:32:11 -04:00
9e7cabd464
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2019-07-07 14:59:57 -04:00
44a97f3621
Still fire appropriate interceptor methods if the cached
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capabiliotystatement is being returned
2019-07-07 14:59:26 -04:00
9fcbdb0cdc
License header updates
2019-07-07 14:41:57 -04:00
73daec633f
Test fix
2019-07-07 13:07:27 -04:00
34f7d4ddbd
Refactor ServerConformanceProvider so that it no longer keeps any state
2019-07-07 12:57:31 -04:00
24536941c2
Test the new isEmpty() method on IBundleProvider
2019-07-05 17:15:02 -04:00
1c7c83cd8e
Add an isEmpty() method to IBundleProvider
2019-07-05 16:16:39 -04:00
dff2fdd3cf
GET RID OF TRAILING LICENSE HEADER SPACES ONCE AND FOR ALL
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YESSSSSSSSSSSSS
2019-07-05 11:19:51 -04:00
e762ac9d10
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2019-07-04 09:01:35 -04:00
b3cb533ada
Store details in RequestDetails
2019-07-04 09:01:17 -04:00
f1848fb1ad
Include version ID in response for deleted resource
2019-07-03 14:44:12 -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
ccf491b3ae
Add parent pom to BOM
2019-06-29 13:50:43 -04:00
1fd99dac63
Enable optional cascading deletes on JPA server ( #1363 )
...
* 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
6d8465abe6
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2019-06-27 18:23:54 -04:00
5910131319
License header updates
2019-06-27 18:23:45 -04:00
53b47ed580
Ensure that parsed reesource is available to interceptors
2019-06-27 18:23:10 -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
e76b1dacb3
License header updates
2019-06-22 18:31:16 -04:00
4ad1808da3
Propagate RequestDetails to everything in JPA server ( #1358 )
2019-06-22 15:18:06 -05:00
2543f27697
Add a test
2019-06-21 15:38:16 -04:00
c7798fee48
Test fix
2019-06-18 05:40:00 -04:00
6724fd0348
Implement the $subsumes operation ( #1344 )
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* Implement the $subsumes operation
* Fix #976
2019-06-17 17:31:24 -04:00
b2e99cf035
Add support for conditional patch ( #1348 )
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* Add support for conditional patch
* Add changelog
* Test fix
2019-06-17 16:12:05 -04:00
2bf680509b
DeleteConflict hook, SearchableHashMapResourceProvider, and in-memory searching ( #1341 )
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* Make IBundle list interface more flexible
* Make matchResourceLinks visible
* Make matchResourceLinks visible
* Pull in-memory matching functionality out of subscription module into dedicated classes in searchparam module
* Added more accessors to version independent resource classes
* improved forcedid matching (needs to be verified by James)
filter out nulls from HashMapProvider.searchAll() (hopefully no tests depend on this)
* add AnyComposition
* cleanup of Any classes
* create searchparam config so people can use that module without using subscriptions
* create searchparam config so people can use that module without using subscriptions
* fix broken test
* added derivedFrom
* renamed daoRegistry.getResourceDaoIfExists to getResourceDaoOrNull
also added method to add a new dao to the registry and retrieve registered types
* TokenParam.equals
* add error check to searchable hashmap resource provider
* added support for R4
* add successor to measure
* delete conflict hook
start with failing test
* test passes.
hook is called.
* added delete conflict hook
all delete conflict tests pass
* added javadoc
* Performance test
* test bad interceptor case
* typo
* rename criteria matcher
* added support for multiple topics
* fix method name
* add effective period
* Temporarily excluding StressTest from build to try to get Travis under time limit
* change log
* review feedback
* review feedback
* review feedback
2019-06-13 13:59:51 -04:00
5752a6e2b3
reported issue with proposed fix that breaks tests ( #1243 )
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* reported issue with proposed fix that breaks tests
* Fix spelling
* Merge my changes into this
* Correctly check referential integrity on deletes
* Add one more test
2019-06-04 20:40:20 -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
86aa71d570
Merge branch 'master' into deprecated
2019-05-29 21:42:02 -04:00
66a669949d
Add docs - Fix #1309
2019-05-29 21:16:33 -04:00
cb8634f26f
Ja interceptor callback fix ( #1308 )
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* Interceptor callback fix
* Ensure that interceptor methods are called after a transaction
2019-05-14 18:47:11 -04:00
2e50bf6bb0
Un-deprecate a method that should not have been deprecated
2019-05-04 09:49:18 -04:00
f3f5c570b1
A couple of compile glitches
2019-04-24 21:35:49 -04:00
5a9fa4e549
Interceptor tweaks
2019-04-24 21:19:47 -04:00
738c2c1797
Interceptor framework refactoring ( #1287 )
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Interceptor framework overhaul
2019-04-24 14:32:30 -04:00
c8f2e4bbc9
Return HTTP 400 for missing body on POST and PUT
2019-04-14 12:32:09 -04:00
ce44c35afc
Add @Deprecated annotation to IServerInterceptor::outgoingResponse(RequestDetails, IBaseResource, HttpServletRequest, HttpServletResponse) to match comment.
2019-03-18 21:35:36 -04:00
64facdab0a
Disabling test logging
2019-03-06 16:14:32 -05:00
3972e17e62
Add "is trusted" property to server exceptions
2019-03-01 13:58:13 -05:00
94f9ffa977
Avoid paging links when offset is artificially set very high
2019-02-25 20:44:22 -05:00
c6fcb4fcbf
Allow canonical subscription to hold multiple extensions with the same
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URL
2019-02-16 15:28:39 -05:00
485335e975
Allow terminology service to work without having Lucene enabled for
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simple ValueSet expansions
2019-02-14 20:47:28 -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
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
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
cd1e0e881c
Add headers
2019-01-19 18:31:17 -05:00
b8755615b2
Allow AuthorizationInterceptor to read patients if the user has read
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access to the individual instance
2019-01-14 13:53:08 -06:00
93bf2788ec
Add subscription narrowing interceptor and refactor RuleBuilder to be a
...
bit cleaner
2019-01-12 14:23:26 -06:00
aee7b2b882
Make sure that sub-request transaction searches and reads preserve HTTP
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headers
2019-01-10 07:26:04 -07:00
ee52d6fb31
Add SearchNarrowingInterceptor
2019-01-09 20:20:46 -06:00
f8b232bb67
Issue 430: Generate OperationDefinitions for named queries, fix minor errors in generation of OperationDefinition for operations. Closes #430 .
2019-01-09 05:41:08 -05:00
62ae71c1c6
Allow authorizing delete operations via a transaction in
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AuthorizationInterceptor
2019-01-07 15:43:36 -05:00
a8a97ae6b2
Two test fixes
2019-01-07 09:18:11 -05:00
3d94761bcb
Improve response for transactions
2019-01-06 18:08:32 -05:00
b2c7a2003e
Prevent a nullpointerexception in AuthorizationInterceptor
2019-01-06 16:42:29 -05:00
39f2062802
FIx errorprone detected issues
2019-01-05 13:43:55 -05:00
8f8385627f
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2019-01-05 11:33:08 -05:00
98d93df12a
License header updates
2019-01-04 16:22:15 -05:00
5b8fee869e
Add config options for default Prefer header and _total param on server
2019-01-04 16:12:45 -05:00
3a3d503772
head operation should return 200OK response code instead of 400
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BadRequest
2018-12-21 05:40:35 -05:00
84a34eb3c9
Subscription module support ( #1147 )
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* Reorganizing packages and dependencies to support standalone subscription running within a CDR container where all hapi modules are on the classpath.
Moved Subscription registry out of interceptor and introduced SubscriptionLoader
* Created ActiveSubscription and moved cache bits into it
* Moved ExecutorQueue stuff out into its own class
* Add test and supporting code to validate SubscriptionConstants.EXT_SUBSCRIPTION_RESTHOOK_DELIVER_LATEST_VERSION behaviour
* Added SubscriptionCheckingSubscriber
* Moved a few beans to @ComponentScan
* Replaced use of beanFactory with concrete factory classes
* Switched test to use subscribablechannel
* Added SubscriptionLoaderFhirClientTest
* Confirm that our SubscriptionProviderFhirClient works with a live fhir client
* Register interceptors with DaoConfig instead of RestServer.
Also, Rename @VisibleForTesting methods with ForUnitTest
* Fix triggering service so it uses new subscriptionmatcherinterceptor
* Renamed "Database" classes to "Dao"
* processing -> matching naming change
2018-12-18 13:09:06 -05:00
81e8131ffc
Fix broken test
2018-12-09 19:36:03 -05:00
67f5ba6aa0
Also allow ServeMediaResourceRawInterceptor to handle vread requests
2018-12-09 14:29:40 -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
b2179b1696
Syntax fixes for the JPA migrator
2018-11-30 12:39:37 -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
ce3b7c82ce
Avoid issues when using subscription delivery in a serializing/queuing
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environment
2018-11-22 17:53:42 -05:00
2e030eebaa
Make sure that reindexing happens correctly
2018-11-21 12:06:10 -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
fad53c6669
Fix a test
2018-11-16 13:15:14 +01:00
0d0f67b299
Add GraphQL support to public server
2018-11-16 11:41:39 +01:00
02b23d74fd
Merge pull request #1117 from magnuswatn/logformatfix
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Fixed small log formatting error in ExceptionHandlingInterceptor.java
2018-11-15 13:38:07 +01:00
52265d248f
Fixed log formatting error
2018-11-15 12:14:33 +01:00
75210d614b
Bump to 3.7.0-SNAPSHOT
2018-11-12 22:37:52 -05:00
63af04a7b4
Prepare for 3.6.0 release
2018-11-12 05:40:55 -05:00
a3e79b5759
License updates only
2018-11-08 15:28:09 -05:00
17a7fd4285
Merge pull request #1071 from volsch/master
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Multiple values of a HTTP header are reduced to one value.
2018-11-08 13:27:36 -05:00
4b790eddb6
Add additional authorization test
2018-11-07 11:01:29 +01:00
4315900ac0
Merge branch 'philips-3.6.0'
2018-11-01 09:15:27 -04:00
3bfdc61866
Fix a couple of test failures
2018-11-01 09:15:03 -04:00
3f6960d82b
Add multithreaded migrator tool
2018-11-01 05:42:51 -04:00
31ef4c68e1
Merge branch 'philips-3.6.0' of github.com:jamesagnew/hapi-fhir into philips-3.6.0
2018-10-31 05:51:13 -04:00
8955a9e54d
Add threading to migrator
2018-10-31 05:50:50 -04:00
7acba90d15
Update search logic
2018-10-30 22:43:16 -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
da2763d8c8
Merge branch 'master' into philips-3.6.0
2018-10-17 22:38:27 -04:00
99cd4ce5f7
Allow for _total parameter
2018-10-17 09:47:35 -04:00
4e252063b8
Allow transactions and batches with transaction permission in
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AuthorizationInterceptor
2018-10-16 19:54:55 -04:00
796b12e33e
Fix bug in $everything processing
2018-10-15 05:44:53 -04:00
51a69f0dc9
Fixes to migrator and count logic
2018-10-13 12:02:19 -04:00
ca54409ce3
Add some null checks to the RestfulServer
2018-10-05 08:33:00 -04:00
62d6771814
Use a select count query for summary count searches in JPA server
2018-09-29 21:58:14 -04:00
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 002c4b3ff7dfb4de86f1
2018-09-29 13:48:35 -04:00
706e004b9d
Bump to 3.6.0-SNAPSHOT
2018-09-19 10:24:48 -04:00
321e88c811
License header updates
2018-09-14 05:25:07 -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
b183bed52f
Multiple values for one HTTP header were reduced to the last value.
2018-09-06 19:33:34 +08:00
54c07263b6
Increase code lengths
2018-08-26 12:32:35 -04:00
df651c830e
Remove dynamic mode
2018-08-19 17:35:08 -04:00
78a7d64d2c
Merge pull request #1022 from alinleonard/master
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Patch operation on OperationsWhichAllowPreferHeader
2018-08-12 17:55:16 -04:00
7eb36c3392
Work on subscription
2018-08-11 16:14:53 -04:00
159377ac16
Add details to ResponseHighlighterInterceptor
2018-08-11 13:46:34 -04:00
20b1f883ba
Add extendible methods to RestfulServer
2018-08-08 17:21:25 -04:00
d9296b8e42
Add hook for error message
2018-08-08 15:14:39 -04:00
6586fc438d
Fix concurrency issue in hashmap
2018-08-03 13:00:57 -04:00
4eb3281fa6
Merge branch 'client_enhancements'
2018-07-30 18:34:49 -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
d50dda19ae
Merge pull request #912 from InfiniteLoop90/911-contains-modifier
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Fixes #911 - Adds support for :contains modifier
2018-07-30 05:39:27 -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
f03d6b7c22
Allow configuration of default page size in SimpleBundleProvider
2018-07-27 18:34:12 +07:00
d04db790a3
Try to fix permissions issues in travis
2018-07-27 08:39:22 +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
e6ca408f67
Permissions for operations
2018-07-12 18:40:15 -04:00
de701a6b7f
added patch for operation outcome
2018-07-09 15:35:50 +03:00
6d83edabb6
License header updates
2018-07-01 20:59:04 -04:00
495fd9f68e
Add support for patch in AuthorizationInterceptor
2018-07-01 11:46:11 -04:00
b3f7ab274d
License header updates
2018-06-21 14:44:34 -04:00
ed0b5f54a5
More authorizationinterceptor tweaks for better security
2018-06-12 21:52:01 +08:00
dc476aeeea
In my opinion these changes should be made in order to have the behavior
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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
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
e7804b881c
Fix CI issue
2018-06-06 11:39:06 -04:00
3583dfd503
Correctly include project description in capabilitystatement
2018-06-03 16:19:33 -04:00
0e2c57fa60
Bumping version.
2018-05-28 17:44:38 -04:00
2871920734
Preparing release.
2018-05-28 10:45:47 -04:00
67f21426cb
Disable content header on response for non-create operations
2018-05-25 07:28:01 -04:00
b146a80502
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2018-05-23 16:09:34 -04:00
92dc258c6e
Update license headers
2018-05-23 16:09:23 -04:00
0544692dde
Don't include bogus powered by header
2018-05-23 13:12:27 -04:00
7f85608a2e
Fix accidental regression
2018-05-23 08:17:59 -04:00
2f2900e837
Improve indexing on JPA server in anticipation of a new indexing
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strategy in HAPI FHIR 3.5.0
2018-05-23 08:09:57 -04:00
eef3267bb8
Forward the cause of the InvocationTargetException to the REST layer.
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Discovered through #938
2018-05-17 17:38:23 +02:00
833cfd6988
Refactor information message
2018-05-16 17:35:40 -04:00
d29a9a7f96
AutohrizationInterceptor should correctly recognize type-level operation
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invocations
2018-05-15 16:14:10 -04:00
ccb859fdbe
FIxes to get the synced build working
2018-05-13 08:08:34 -04:00
b17eebd8d2
Squashed commit of the following:
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commit 2be11651c2b3bb5f9052f6b1082ba481a69c265f935938e92c43568a1f8de95894e6439393fb8f4f437f5051e420c51add4f7bf2b0a0e9adc73e75c9
2018-05-10 11:53:32 -04:00
14a070a47e
927 cli tooling is needed for creating and maintaining conceptmaps using csvs ( #934 )
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CLI tooling for import/export of ConceptMaps using CSVs has been implemented.
2018-05-10 11:12:45 -04:00
e299b062a6
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2018-04-24 19:14:56 -04:00
f1db751d1e
Update headers
2018-04-24 19:14:33 -04:00
09b1f547d0
Add expunge
2018-04-24 15:11:00 -04:00
a21d0a7752
Add auth tester methods
2018-04-22 19:30:09 -04:00
ac8e412e49
Fixes #911 - Adds support for :contains modifier
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Adds support for the :contains modifier in StringClientParam.
2018-03-30 23:49:06 -05:00
c5b286921e
Tests all passing
2018-03-30 15:18:57 -04:00
180336e076
Sync to master
2018-03-29 06:54:24 -04:00
418e82032f
Prep for 3.3.0
2018-03-29 05:48:13 -04:00
e9ee87210a
Merge pull request #806 from honestica/quickfix-imcompartment
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fix inCompartment for a collection of owners
2018-03-19 06:16:12 -04:00
ff04ab3358
${argLine} -> [at]{argLine}
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see:
http://maven.apache.org/surefire/maven-surefire-plugin/faq.html#late-property-evaluation
2018-03-19 10:45:33 +01:00
7e4877c524
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2018-03-01 06:20:46 -05:00
a6e59a0f76
License header updates
2018-03-01 06:20:37 -05:00
790aaeb4ea
Tests for #872
2018-02-28 21:34:32 -05:00
458401864b
Handle deletes properly in HashMapResourceProvider
2018-02-25 14:20:04 -05:00
84c72203b7
Add HashMapResourcePrvider
2018-02-25 13:16:02 -05:00
a395e48cd4
Don't crash when a multitenant server has a request for /
2018-02-04 18:44:37 -05:00
17b1ff727e
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2018-02-03 15:48:09 -05:00
3cbf669007
Don't crash on startup if an invalid subscription is in the database
2018-02-03 15:47:48 -05:00
1d541c1588
Formatting issues
2018-02-02 14:03:53 -05:00
a16ac6ec87
Merge changes
2018-02-02 13:21:05 -05:00
351a2fc2f1
Fix #837 - Use non-legacy content-type for plain json and xml accept
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header
2018-02-02 06:43:19 -05:00
3f1ef0e7f6
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2018-02-01 06:33:00 -05:00
17edf5e727
FIx some license headers
2018-02-01 06:31:21 -05:00
b61887e841
Improve performance of base64 validation
2018-01-30 17:37:12 -06:00
1c5a07b5a0
Fix #822 - Respect chained method params in a transaction search
2018-01-30 16:20:25 -06:00
e52f582769
An experimental interceptor called VersionedApiConverterInterceptor has been added, which automaticaly converts response payloads to a client-specified version according to transforms built into FHIR.
2018-01-29 12:10:05 -06:00
044b9f584a
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2018-01-28 14:02:53 -06:00
f976b7bf7e
Add new interceptor method which enabled interceptors to modify response
2018-01-28 14:01:20 -06:00
2e4f80d7a3
Fix #831 - Remove useless TagListParam annotation
2018-01-26 10:03:21 -05:00
Nick Goupinets
Tadgh
James Agnew
Diederik Muylwyk
Nick Goupinets
Kevin Dougan SmileCDR
Ken Stevens
Tadgh
Bill Denton
Tuomo Ala-Vannesluoma
Joel Schneider (NMDP)
Josh Collins
Ibrohim Kholilul Islam
gematik FuE
Thomas Papke
Jafer Khan
ttn
Jennifer Chan
Stig Rohde Døssing
Anthony Sute
jvi
bdenton
Petro Mykhaylyshyn
Tuomo Ala-Vannesluoma
Stig Rohde Døssing
Ken Stevens
Ken Stevens
Drew Mitchell
Corina Dalaban
Magnus Watn
Volker Schmidt
anamariaradu10
Ana Maria Radu
Alin
patrick-werner
Clayton Bodendein