f5dfc3a5ed
New reindex spring batch operation ( #2845 )
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* first sweep to add new $reindex job
* first cut done. next up integration test.
* start roughing out reindex everything
* Failing test
* test passes
* add BundleUtil helper method
* rough in processEverything
* rough in processEverything
* fix mock test
* merge master
* Make BaseJpaTest.mySrd lenient.
* fix test
* reindex everything works with FIXMEs
* reindex everything more tests
* moar tests
* moar tests
* fix test
* fix test
* fix regression and fix test
* fix test cycle
* fixme
* fix test
* test provider layer
* reindex everything partition aware
* yay last fixme!
* run reindex in partitioned threads
* add fixmes for areas that require extra testing
* added transaction and log message
* manual integration testing
* changelog
* reindex all partitions
* bump hapi version
* fix test
* moar test
* pre-review cleanup
* fix javadoc
* review feedback
* review feedback
* review feedback
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/changelog/5_5_0/2845-reindex-operation.yaml
Co-authored-by: michaelabuckley <michaelabuckley@gmail.com>
* review feedback
* review feedback
* Update hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/delete/job/ReindexJobTest.java
Co-authored-by: michaelabuckley <michaelabuckley@gmail.com>
* Update hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/delete/job/ReindexJobTest.java
Co-authored-by: michaelabuckley <michaelabuckley@gmail.com>
* Update hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/r4/MultitenantBatchOperationR4Test.java
Co-authored-by: michaelabuckley <michaelabuckley@gmail.com>
* Update hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/r4/MultitenantBatchOperationR4Test.java
Co-authored-by: michaelabuckley <michaelabuckley@gmail.com>
* Update hapi-fhir-jpaserver-searchparam/src/main/java/ca/uhn/fhir/jpa/searchparam/ResourceSearch.java
Co-authored-by: michaelabuckley <michaelabuckley@gmail.com>
* Update hapi-fhir-server/src/main/java/ca/uhn/fhir/rest/api/server/storage/IDeleteExpungeJobSubmitter.java
Co-authored-by: michaelabuckley <michaelabuckley@gmail.com>
Co-authored-by: michaelabuckley <michaelabuckley@gmail.com>
2021-07-29 19:18:49 -04:00
f957661dda
Patient ID Partition Mode should support conditional create ( #2828 )
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* Fixes
* Test fix
* Add changelog
* Test fixes
* Test fixes
* Docs tweak
* Partitioning fixes
* Import fix
* Fix test data
2021-07-26 14:18:58 -04:00
a5e6674e84
Version bump to 5.5.0-PRE7-SNAPSHOT
2021-07-22 08:41:16 -04:00
6d37749be8
Add non unique combo search params ( #2809 )
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* Start work on nonunique combo search params
* Work on SQL
* Version bump
* A fix
* Test fixes
* Fixes
* Undo version bump
* Test fixes
* Resolve fixme
2021-07-21 19:14:14 -04:00
1e9163c636
Add changelog. Address MR comments.
2021-07-08 14:52:19 -04:00
ee1f1fb5b8
Merge pull request #2778 from hapifhir/2777-hapi-fhir-cli-Add-option-to-pass-request-headers-to-target-server
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Add header-passthrough option to hapi-fhir-cli commands which generate http requests(#2777 )
2021-07-07 16:47:28 -04:00
95306c3d64
Add NPM validation support module ( #2782 )
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* Add NPM validation support module
* Add changelog
2021-07-07 16:28:41 -04:00
3e7bc2a81e
Forward port 5 4 2 ( #2781 )
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* Add new version to enum
* Add backport tags, new VersionEnum, and new release folder for 5.4.2
2021-07-07 10:10:07 -04:00
5c5bd1ec6c
Organize imports
2021-07-06 09:31:53 -04:00
5f36fe56b0
Add header-passthrough option to hapi-fhir-cli commands which generate http requests.
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Add class to parent request-generating commands.
Allow ValidationResult to be set number of detected errors to inform.
2021-07-05 16:08:03 -04:00
d762a07817
Partition patient interceptor ( #2766 )
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* Start work on interceptor
* Implemented
* Add interceptor and docs
* Add docs
* Compile fix
* Test fixes
* Test cleanup
* Test fixes
* Test fixes
* Improve error message
* Add broken tests
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/changelog/5_5_0/2766-add-patient-id-compartment-interceptor.yaml
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
* Update hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/interceptor/PatientIdPartitionInterceptor.java
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
* Address review comments
Co-authored-by: Tadgh <garygrantgraham@gmail.com>
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
2021-07-05 09:15:20 -04:00
6bb5cbf764
Cleanup logging
2021-07-04 15:31:10 -04:00
f66f9b992e
Bump pre-version as this will break downstream implementations
2021-06-30 15:37:19 -04:00
8f3cbb0a7f
Refactor docs
2021-06-30 14:48:13 -04:00
8379392e16
Add inline tag mode ( #2748 )
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* Start work on tag mode 3
* Add changelog
* Test fix
2021-06-22 23:08:09 -04:00
f0cfb5ad1b
License headers
2021-06-21 05:29:02 -04:00
6ea1438f1d
Add transaction write semaphore interceptor ( #2743 )
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* Add transaction write semaphore interceptor
* Add changelog
* Test fix
2021-06-20 12:55:49 -04:00
8b205b23d0
Fix history paging ( #2741 )
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* Fix history paging
* Add changelog
* Add license header
2021-06-18 17:47:51 -04:00
134631fdee
Convert delete expunge to use Spring Batch ( #2697 )
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* prepare to add $delete-expunge operation that will create a spring batch job
* Add operation
* Wire up jpa provider. Begin with failing test.
* Copy/paste bulk import job as a starting point.
FIXME with proposed design
* delete expunge job parameter validation with test
* implemented reader
stubbed processor, writer
* wip for master merge
* started implementing reader
* started implementing reader
* working with stubs
* happy path batch delete expunge is done
* Provider done but test not passing. Guessing batch infrastructure not running in that test.
* IT test works now
* add reader test
* Converted delete _expunge=true to use new batch job
* DeleteExpungeDaoTest passes
* Fix test
* Change batch size to integer
* rename search count to batch size
* Make delete expunge partition aware
* updated docs
* pre-review cleanup
* change log
* add partition id to SystemRequestDetails
* Make RequestPartitionId serializable
* Change delete expunge provider to use partition id instead of tenant name
* fix tests
* test pointcut gets called
* assert on pointcut calls
* Add resource type to STORAGE_PARTITION_SELECTED pointcut
* bump hapi-fhir version
move expunge provider parameters from JpaConstants to ProviderConstants
* bump hapi-fhir version
* copyrights
* restore deleteexpungeservice for mdm
* restore deleteexpungeservice for mdm
* fix test
* public constants
* convert instant to date
* Moved expunge constants to ProviderConstants
* final review
* disabling InMemoryResourceMatcherR5Test.testNowNextMinute() to see if I can get a clean test run
* fix tests
* fix tests
* fix tests
* fix tests
* review feedback
* review feedback
* review feedback
* review feedback
* review feedback
* review feedback
* improve logging
* bump version
* version bump
* recovering from failed merge
* unzip RequestListJson per Gary's suggestion. I didn't want to do it at first, but as usual Gary was right.
* fix serialization
2021-06-15 10:36:05 -04:00
376a84d213
Version bump
2021-06-14 13:12:34 -04:00
48eea5a7cc
Prepare changelog for 5.4.1 release
2021-06-14 09:13:41 -04:00
3863e82a59
Fixed bug with choice children ( #2714 )
2021-06-08 08:24:13 -04:00
dc627dc019
Add bulk export authorization layer ( #2712 )
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* Add bulk export authorization layer
* Add docs
* Version bump
* Authorize any
* Add bulk export - all
* Address lgtm issue
2021-06-06 20:47:43 -04:00
62be623cf5
Add support for ICD-10-CM ( #2702 )
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* Add support for ICD-10-CM
* Have this working
* Fix LGTM issues
* Test fix
2021-06-03 19:55:16 -04:00
1d2b47c9fb
Update endpoint validation interceptors ( #2698 )
2021-06-02 05:39:01 -04:00
fe763dd2d6
Upgrade deps ( #2695 )
...
* Upgrade deps
* Fix build error
* Branch tweak
* Build fix
* Build fix
* Undo bump
* Test fixes
2021-06-01 12:03:29 -04:00
05ac88bc21
Add initiate bulk export pointcut ( #2692 )
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* Add initiate bulk export pointcut
* Add changelog
* Test fixes
2021-05-31 16:05:09 -04:00
a2950324ef
Avoid SQL based transaction dupe check ( #2688 )
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* Avoid SQL based transaction dupe check
* Add changelog
* Test fixes
* Test fixes
2021-05-30 20:26:36 -04:00
8636e4f155
Test fix
2021-05-27 07:30:09 -04:00
7a83c76e65
Add validation suppression mode ( #2675 )
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* Add validation suppression mode
* Add changelog
* Compile fix
2021-05-26 17:41:48 -04:00
80be95dd07
Accounted for uninitialized fields - part 3
2021-05-21 13:32:23 -04:00
d0d0ff9890
Accounted for uninitialized fields
2021-05-21 12:00:01 -04:00
e243674f5d
Accounted for uninitialized fields
2021-05-21 11:54:04 -04:00
995ac96f73
Can't think today
2021-05-20 17:21:04 -04:00
8a7fc58e91
Fixed primitive field merging
2021-05-20 15:48:00 -04:00
ff2698d4d1
Merge branch 'rel_5_4'
2021-05-19 09:22:11 -04:00
de56f440cb
Version bump
2021-05-18 17:14:14 -04:00
40ecafcd31
Don't unescape plus in match URLs ( #2658 )
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* Don't unescape plus in match URLs
* Perf improvements
* Add changelog
* Test fix
* Work on tests
* Fixes
* Test fix
2021-05-16 21:51:23 -04:00
2068372998
Version bump
2021-05-07 17:43:54 -04:00
63c4b22cd3
Undo bump
2021-05-07 17:42:50 -04:00
17e41520a4
Version bump
2021-05-07 17:41:39 -04:00
970a9884f0
Avoid tag definition constraint ( #2620 )
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* Avoid tag definition constraint failure
* Version bumps
* Add changelog
* Avoid guava issue
* Test fix
* Test fix
* Bump pom
2021-05-01 17:16:15 -04:00
d67537231c
Merge branch 'master' into 2566_update_s13n_and_validation_handling
2021-04-29 13:55:48 -04:00
95d7ba6fa8
Streamline Search SQLs ( #2576 )
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* Streamline SQL queries
* SQL query tidying
* Add changelog
* Test fixes
* Tests passing
* Ongoing work
* Test fixes
* Test fixes
* Build fix
* Cleanup
* Fixes
2021-04-28 10:29:09 -04:00
21d8cdfefc
Merge branch 'master' into 2566_update_s13n_and_validation_handling
2021-04-28 10:16:27 -04:00
ac1d4e3e4f
Merge pull request #2542 from hapifhir/issue-2534-new-tx-pointcut
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Add new pointcut for transaction processing completed.
2021-04-27 18:42:19 -04:00
024f553fc9
Merge branch 'master' into 2566_update_s13n_and_validation_handling
2021-04-27 09:31:42 -04:00
82bf8cdc9d
Code review updates
2021-04-27 09:29:08 -04:00
1d054054c7
Test fixes
2021-04-27 07:03:24 -04:00
a5e734fec8
Handle sorting entries which contain no resources
2021-04-26 22:24:47 -04:00
Ken Stevens
James Agnew
juan.marchionatto
jmarchionatto
Tadgh
Tadgh
Nick Goupinets
Nick Goupinets