f3639ee1ce
Changes to terminology loader to support preserving the original resource IDs for LOINC even when multiple versions are loaded.
2020-10-16 16:30:37 -04:00
1435540320
Improve synchronous searching by providing offset & limit support ( #2059 )
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* 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
e4214a4cbe
Exposing hasIncludes PersistedJpaBundleProvider ( #2047 )
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Co-authored-by: ahn <anders.havn@systematic.com>
2020-10-12 17:37:12 -04:00
2134d40f1c
Account for timezones in lastUpdated search ( #2113 )
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* Add test
* Fix
* Add changelog
* Test fixes
* Test fix
* Test fixes
* Resolve fixme
* Test fixes
* Remove debug logs
* Try to get CI tests passing again
2020-10-09 07:52:46 -04:00
a44037daf3
Merge pull request #2122 from jamesagnew/im_20201007_conceptmap_sourcesystemversion
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Fixed loader so that it now sets source system version for ConceptMap…
2020-10-08 14:04:49 -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
476eba676e
Fixed loader so that it now sets source system version for ConceptMap resources.
2020-10-07 15:07:25 -04:00
46b2fde1db
Fixed tests to accommodate suggested changes from code review.
2020-10-07 11:07:34 -04:00
1bac646dc3
Update hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/LoadedFileDescriptors.java
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Co-authored-by: Diederik Muylwyk <diederik.muylwyk@gmail.com>
2020-10-07 11:01:54 -04:00
e24e233ec6
Update hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/LoadedFileDescriptors.java
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Co-authored-by: Diederik Muylwyk <diederik.muylwyk@gmail.com>
2020-10-07 11:01:47 -04:00
0f39eeb0e9
Bug fix and test improvements.
2020-10-06 21:22:09 -04:00
d9841e59ac
Restore ability to load LOINC PartLink data from a single file for pre-2.68 versions.
2020-10-06 14:36:23 -04:00
5ec1284b8a
Apply suggestions from code review
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Edits per code review.
Co-authored-by: Diederik Muylwyk <diederik.muylwyk@gmail.com>
2020-10-05 15:14:39 -04:00
2258d37283
Documentation for terminology.
2020-10-05 09:02:00 -04:00
f1710fd0be
Merge pull request #2081 from jamesagnew/feature_2020_09_02_term_multi_version_support
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Feature 2020 09 02 term multi version support
2020-10-01 12:24:40 -04:00
90f1981817
Updated tests for missed dstu2 code coverage.
2020-09-30 18:10:57 -04:00
dc3443665c
Changes per code review.
2020-09-29 21:12:27 -04:00
8e7b4e8437
Changes per code review.
2020-09-29 21:05:28 -04:00
09d09233ff
empi bugfixes and enhancements ( #2104 )
2020-09-29 17:27:43 -04:00
c593958d2c
Apply suggestions from code review
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Co-authored-by: Diederik Muylwyk <diederik.muylwyk@gmail.com>
2020-09-29 15:16:46 -04:00
d63c15ef09
Apply suggestions from code review
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Co-authored-by: Diederik Muylwyk <diederik.muylwyk@gmail.com>
2020-09-29 14:27:57 -04:00
43c16e1737
Update hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/dstu3/ResourceProviderDstu3ConceptMapTest.java
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Co-authored-by: Diederik Muylwyk <diederik.muylwyk@gmail.com>
2020-09-29 14:27:03 -04:00
43b6bd38ff
Update hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/dstu3/ResourceProviderDstu3ConceptMapTest.java
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Co-authored-by: Diederik Muylwyk <diederik.muylwyk@gmail.com>
2020-09-29 14:26:30 -04:00
2be47b5567
Update hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4ConceptMapTest.java
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Co-authored-by: Diederik Muylwyk <diederik.muylwyk@gmail.com>
2020-09-29 14:18:21 -04:00
b8531e599f
Update hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4ConceptMapTest.java
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Co-authored-by: Diederik Muylwyk <diederik.muylwyk@gmail.com>
2020-09-29 14:18:00 -04:00
3940e7526f
Update hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/r4/FhirResourceDaoR4ConceptMapTest.java
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Co-authored-by: Diederik Muylwyk <diederik.muylwyk@gmail.com>
2020-09-29 14:17:36 -04:00
6aa1a5ec3f
Update hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoDstu3ConceptMapTest.java
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Co-authored-by: Diederik Muylwyk <diederik.muylwyk@gmail.com>
2020-09-29 14:17:19 -04:00
ebb3fa0ca1
Update hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/dao/dstu3/FhirResourceDaoDstu3ConceptMapTest.java
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Co-authored-by: Diederik Muylwyk <diederik.muylwyk@gmail.com>
2020-09-29 14:16:56 -04:00
10620a8bb4
Update hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/provider/dstu3/BaseJpaResourceProviderCodeSystemDstu3.java
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Co-authored-by: Diederik Muylwyk <diederik.muylwyk@gmail.com>
2020-09-29 14:16:13 -04:00
9d8664ccd8
Additional tests and updates.
2020-09-27 21:09:06 -04:00
e86d9deaac
Additional tests.
2020-09-27 17:45:15 -04:00
732624bfaf
Fix broken JUnit test.
2020-09-25 22:55:01 -04:00
1dc4a533d6
Fixes to terminology loader.
2020-09-25 21:43:15 -04:00
47244c54dc
Merge remote-tracking branch 'origin/feature_2020_09_02_term_multi_version_support' into im_20200728_term_multi_version_support
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# Conflicts:
# hapi-fhir-jpaserver-api/src/main/java/ca/uhn/fhir/jpa/api/dao/IFhirResourceDaoCodeSystem.java
# hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/BaseTermReadSvcImpl.java
# hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/loinc/BaseLoincHandler.java
# hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/loinc/LoincIeeeMedicalDeviceCodeHandler.java
# hapi-fhir-jpaserver-migrate/src/main/java/ca/uhn/fhir/jpa/migrate/tasks/HapiFhirJpaMigrationTasks.java
# hapi-fhir-validation/src/main/java/org/hl7/fhir/common/hapi/validation/support/CommonCodeSystemsTerminologyService.java
2020-09-25 09:10:07 -04:00
6f9874468a
Merge remote-tracking branch 'origin/master' into feature_2020_09_02_term_multi_version_support
2020-09-25 08:54:17 -04:00
2bceacd9a6
Update loader to ensure that ConceptMap and ValueSet Ids are unique for each version loaded.
2020-09-25 08:51:53 -04:00
5fe46be41c
Validate code changes and new tests.
2020-09-24 18:51:47 -04:00
e5daea17b7
Additional cleanup and migration tasks.
2020-09-23 17:17:07 -04:00
dffc02a126
Missing fixes for DSTU3 and R5.
2020-09-23 16:51:18 -04:00
640ee94c5c
Merge remote-tracking branch 'origin/master' into im_20200728_term_multi_version_support
2020-09-23 16:43:22 -04:00
ceb5ec6384
Use canonical identifiers for code systems rather than specifying version separately.
2020-09-23 16:42:29 -04:00
3d3d013d72
Changed import of IdType to r5.
2020-09-23 09:19:06 -04:00
b6d86dc5f2
Added fail(); in the invalid test cases
2020-09-22 20:39:20 -04:00
20661c7a2b
Removed unused import
2020-09-22 20:19:43 -04:00
673274a966
Added invalid test cases for CodeSystem/$validate-code R3
2020-09-22 20:18:18 -04:00
b32c4f01a8
Fixed lookupCode implementation in InMemoryTerminologyServerValidationSupport.
2020-09-22 18:46:16 -04:00
4216cee8c6
Added and enhanced tests plus fixes arising from tests.
2020-09-22 14:44:32 -04:00
ef4f3df945
Don't install draft package contents ( #2099 )
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* Don't install draft package contents
* Add changelog
* Add changelog
2020-09-22 09:44:36 -04:00
072e63be5a
Avoid a crash on double date chains ( #2097 )
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* Avoid a crash on double date chains
* Add changelog
* Address coverage warning
2020-09-21 15:43:07 -04:00
f9f8bf6515
Merge remote-tracking branch 'origin/master' into im_20200728_term_multi_version_support
2020-09-20 22:02:08 -04:00
ianmarshall
Tuomo Ala-Vannesluoma
vedion
James Agnew
IanMMarshall
Ken Stevens
Frank Tao