* use SearchParamater validator in package installer (#6112)
* Ensure ' ' is treated as '+' in timezones with offsets. (#6115)
* Use lockless mode when adding index on Azure Sql server (#6100)
* Use lockless mode when adding index on Azure Sql server
Use try-catch for Online add-index on Sql Server.
This avoids having to map out the entire matrix of Sql Server product names and ONLINE index support.
Warnings in docs, and cleanups
* make consent service dont call willSeeResource on children if parent resource is AUTHORIZED or REJECT (#6127)
* fix hfj search migration task (#6143)
* fix migration task
* changelog
* changelog
* code review
* spotless
---------
Co-authored-by: jdar <justin.dar@smiledigitalhealth.com>
* Enhance migration for MSSQL to change the collation for HFJ_RESOURCE.FHIR_ID to case sensitive (#6135)
* MSSQL: Migrate HFJ_RESOURCE.FHIR_ID to new collation: SQL_Latin1_General_CP1_CS_AS
* Spotless.
* Enhance test. Fix case in ResourceSearchView to defend against future migration to case insensitive collation.
* Remove TODOs. Add comment to ResourceSearchView explaining why all columns are uppercase. Changelog.
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/changelog/7_4_0/6146-mssql-hfj-resource-fhir-id-colllation.yaml
Code reviewer suggestion
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
* Code review fixes: Make changes conditional on the collation including _CI_, otherwise, leave it alone.
---------
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
* Common API for FHIR Data Access (#6141)
* Add initial interface for common FHIR API
* Fix formatting
* Update javadocs
* Address code review comments
* Add path value to _id search parameter and other missing search param… (#6128)
* Add path value to _id search parameter and other missing search parameters to IAnyResource.
* Adjust tests and remove now unnecessary addition of meta parameters which are now provided by IAnyResource
* Revert unneeded change
* _security param is not token but uri
* Add tests for new defined resource-level standard parameters
* Adjust test
---------
Co-authored-by: juan.marchionatto <juan.marchionatto@smilecdr.com>
* update to online (#6157)
* SEARCH_UUID should be non-null (#6165)
Avoid using constants in migrations because it creates false history.
* Handle 400 and 404 codes returned by remote terminology operation. (#6151)
* Handle 400 and 404 codes returned by remote terminology operation.
* Some simplification
* Adjust changelog
* Add a comment to explain alternate solution which can be reused.
* fix concepts with no display element for $apply-codesystem-delta-add and $apply-codesystem-delta-remove (#6164)
* allow transaction with update conditional urls (#6155)
* Revert "Add path value to _id search parameter and other missing search param…" (#6171)
This reverts commit 2275eba1a0.
* 7 2 2 mb (#6160)
* Enhance RuleBuilder code to support multiple instances (#5852)
* Overhaul bulk export permissions.
* Overhaul bulk export permissions.
* Small tweak to rule builder.
* Cleanup validation.
* Cleanup validation.
* Code review feedback.
* Postgres terminology service hard coded column names migration (#5866)
* updating parent pids column name
* updating name of the fullTestField Search
* updating name of the fullTestField Search
* fixing typo.
* failing test.
* - Moving FullTextField annotation from getter method and adding it to the newly added VC property of the entity;
- reverting the name of the FullTextField entity to its previous name of 'myParentPids';
- reverting the name of the lucene index to search on in the terminology service.
- updating the changelog;
* making spotless happy
---------
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* 5879 back porting fix for issue 5877 (attempting to update a tokenparam with a value greater than 200 characters raises an sqlexception) to release rel_7_2 (#5881)
* initial failing test.
* solution
* adding changelog
* spotless
* moving changelog from 7_4_0 to 7_2_0 and deleting 7_4_0 folder.
---------
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* Expose BaseRequestPartitionHelperSvc validateAndNormalize methods (#5811)
* Expose BaseRequestPartitionHelperSvc validate and normalize methods
* Compilation errors
* change mock test to jpa test
* change mock test to jpa test
* validateAndNormalizePartitionIds
* validateAndNormalizePartitionNames
* validateAndNormalizePartitionIds validation + bug fix
* validateAndNormalizePartitionNames validation
* fix test
* version bump
* Ensure a non-numeric FHIR ID doesn't result in a NumberFormatException when processing survivorship rules (#5883)
* Add failing test as well as commented out potential solution.
* Fix for NumberFormatException.
* Add conditional test for survivorship rules.
* Spotless.
* Add changelog.
* Code review feedback.
* updating documentation (#5889)
* Ensure temp file ends with "." and then suffix. (#5894)
* bugfix to https://github.com/hapifhir/hapi-fhir-jpaserver-starter/issues/675 (#5892)
Co-authored-by: Jens Kristian Villadsen <jenskristianvilladsen@gmail.com>
* Enhance mdm interceptor (#5899)
* Add MDM Transaction Context for further downstream processing giving interceptors a better chance of figuring out what happened.
* Added javadoc
* Cahngelog
* spotless
---------
Co-authored-by: Jens Kristian Villadsen <jenskristianvilladsen@gmail.com>
* Fix BaseHapiFhirResourceDao $meta method to use HapiTransactionService instead of @Transaction (#5896)
* Try making ResourceTable.myTags EAGER instead of LAZY and see if it breaks anything.
* Try making ResourceTable.myTags EAGER instead of LAZY and see if it breaks anything.
* Ensure BaseHapiFhirResourceDao#metaGetOperation uses HapiTransactionService instead of @Transactional in order to resolve megascale $meta bug.
* Add changelog.
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/changelog/7_2_0/5898-ld-megascale-meta-operation-fails-hapi-0389.yaml
Commit code reviewer suggestion.
Co-authored-by: Tadgh <garygrantgraham@gmail.com>
---------
Co-authored-by: Tadgh <garygrantgraham@gmail.com>
* Fix query chained on sort bug where we over-filter results (#5903)
* Failing test.
* Ensure test cleanup doesn't fail by deleting Patients before Practitioners.
* Implement fix.
* Spotless.
* Clean up unit test and add changelog. Fix unit test.
* Fix changelog file.
* Apply suggestions from code review
Apply code review suggestions.
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
* Spotless
---------
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
* cve fix (#5906)
Co-authored-by: Long Ma <long@smilecdr.com>
* Fixing issues with postgres LOB migration. (#5895)
* Fixing issues with postgres LOB migration.
* addressing code review comments for audit/transaction logs.
* test and implementation for BinaryStorageEntity migration post code review.
* test and implementation for BinaryStorageEntity migration post code review.
* test and implementation for TermConcept
migration post code review.
* applying spotless
* test and implementation for TermConceptProperty
migration post code review.
* test and implementation for TermValueSetConcept
migration post code review.
* fixing migration version
* fixing migration task
* changelog
* fixing changelog
* Minor renames
* addressing comments and suggestions from second code review.
* passing tests
* fixing more tests
---------
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
Co-authored-by: Tadgh <garygrantgraham@gmail.com>
* 6051 bulk export security errors (#5915)
* Enhance RuleBuilder code to support multiple instances (#5852)
* Overhaul bulk export permissions.
* Overhaul bulk export permissions.
* Small tweak to rule builder.
* Cleanup validation.
* Cleanup validation.
* Code review feedback.
* Postgres terminology service hard coded column names migration (#5866)
* updating parent pids column name
* updating name of the fullTestField Search
* updating name of the fullTestField Search
* fixing typo.
* failing test.
* - Moving FullTextField annotation from getter method and adding it to the newly added VC property of the entity;
- reverting the name of the FullTextField entity to its previous name of 'myParentPids';
- reverting the name of the lucene index to search on in the terminology service.
- updating the changelog;
* making spotless happy
---------
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* 5879 back porting fix for issue 5877 (attempting to update a tokenparam with a value greater than 200 characters raises an sqlexception) to release rel_7_2 (#5881)
* initial failing test.
* solution
* adding changelog
* spotless
* moving changelog from 7_4_0 to 7_2_0 and deleting 7_4_0 folder.
---------
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* Expose BaseRequestPartitionHelperSvc validateAndNormalize methods (#5811)
* Expose BaseRequestPartitionHelperSvc validate and normalize methods
* Compilation errors
* change mock test to jpa test
* change mock test to jpa test
* validateAndNormalizePartitionIds
* validateAndNormalizePartitionNames
* validateAndNormalizePartitionIds validation + bug fix
* validateAndNormalizePartitionNames validation
* fix test
* version bump
* Ensure a non-numeric FHIR ID doesn't result in a NumberFormatException when processing survivorship rules (#5883)
* Add failing test as well as commented out potential solution.
* Fix for NumberFormatException.
* Add conditional test for survivorship rules.
* Spotless.
* Add changelog.
* Code review feedback.
* updating documentation (#5889)
* Ensure temp file ends with "." and then suffix. (#5894)
* bugfix to https://github.com/hapifhir/hapi-fhir-jpaserver-starter/issues/675 (#5892)
Co-authored-by: Jens Kristian Villadsen <jenskristianvilladsen@gmail.com>
* Enhance mdm interceptor (#5899)
* Add MDM Transaction Context for further downstream processing giving interceptors a better chance of figuring out what happened.
* Added javadoc
* Cahngelog
* spotless
---------
Co-authored-by: Jens Kristian Villadsen <jenskristianvilladsen@gmail.com>
* Fix BaseHapiFhirResourceDao $meta method to use HapiTransactionService instead of @Transaction (#5896)
* Try making ResourceTable.myTags EAGER instead of LAZY and see if it breaks anything.
* Try making ResourceTable.myTags EAGER instead of LAZY and see if it breaks anything.
* Ensure BaseHapiFhirResourceDao#metaGetOperation uses HapiTransactionService instead of @Transactional in order to resolve megascale $meta bug.
* Add changelog.
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/changelog/7_2_0/5898-ld-megascale-meta-operation-fails-hapi-0389.yaml
Commit code reviewer suggestion.
Co-authored-by: Tadgh <garygrantgraham@gmail.com>
---------
Co-authored-by: Tadgh <garygrantgraham@gmail.com>
* Fix query chained on sort bug where we over-filter results (#5903)
* Failing test.
* Ensure test cleanup doesn't fail by deleting Patients before Practitioners.
* Implement fix.
* Spotless.
* Clean up unit test and add changelog. Fix unit test.
* Fix changelog file.
* Apply suggestions from code review
Apply code review suggestions.
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
* Spotless
---------
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
* cve fix (#5906)
Co-authored-by: Long Ma <long@smilecdr.com>
* Fixing issues with postgres LOB migration. (#5895)
* Fixing issues with postgres LOB migration.
* addressing code review comments for audit/transaction logs.
* test and implementation for BinaryStorageEntity migration post code review.
* test and implementation for BinaryStorageEntity migration post code review.
* test and implementation for TermConcept
migration post code review.
* applying spotless
* test and implementation for TermConceptProperty
migration post code review.
* test and implementation for TermValueSetConcept
migration post code review.
* fixing migration version
* fixing migration task
* changelog
* fixing changelog
* Minor renames
* addressing comments and suggestions from second code review.
* passing tests
* fixing more tests
---------
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
Co-authored-by: Tadgh <garygrantgraham@gmail.com>
* refactor bulk export rule, add concept of appliestoallpatients, fix tests
* spotless
* Cahgnelog, tests
* more tests
* refactor style checks
---------
Co-authored-by: Luke deGruchy <luke.degruchy@smilecdr.com>
Co-authored-by: Etienne Poirier <33007955+epeartree@users.noreply.github.com>
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
Co-authored-by: Nathan Doef <n.doef@protonmail.com>
Co-authored-by: TipzCM <leif.stawnyczy@gmail.com>
Co-authored-by: dotasek <david.otasek@smilecdr.com>
Co-authored-by: Jens Kristian Villadsen <jenskristianvilladsen@gmail.com>
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
Co-authored-by: longma1 <32119004+longma1@users.noreply.github.com>
Co-authored-by: Long Ma <long@smilecdr.com>
* Convert a few nulls to aggressive denies
* Change chain sort syntax for MS SQL (#5917)
* Change sort type on chains
* Change sort type on chains
* Test for MS SQL
* Comments
* Version bump
* Updating version to: 7.2.1 post release.
* Fix queries with chained sort with Lucene by checking supported SortSpecs (#5958)
* First commit with very rough solution.
* Solidify solutions for both requirements. Add new tests. Enhance others.
* Spotless.
* Add new chained sort spec algorithm. Add new Msg.codes. Finalize tests. Update docs. Add changelog.
* pom remove the snapshot
* Updating version to: 7.2.2 post release.
* cherry-picked pr 6051
* changelog fix
* cherry-picked 6027
* docs and changelog
* merge fix for issue with infinite cache refresh loop
* Use lockless mode when adding index on Azure Sql server (#6100) (#6129)
* Use lockless mode when adding index on Azure Sql server
Use try-catch for Online add-index on Sql Server.
This avoids having to map out the entire matrix of Sql Server product names and ONLINE index support.
Warnings in docs, and cleanups
* added fix for 6133
* failing Test
* Add fix
* spotless
* Remove useless file
* Fix claeaner
* cleanup
* Remove dead class
* Changelog
* test description
* Add test. Fix broken logic.
* fix quantity search parameter test to pass
* reverted test testDirectPathWholeResourceNotIndexedWorks in FhirResourceDaoR4SearchWithElasticSearchIT
* spotless
* cleanup mistake during merge
* added missing imports
* fix more mergeback oopsies
* bump to 7.3.13-snapshot
---------
Co-authored-by: Luke deGruchy <luke.degruchy@smilecdr.com>
Co-authored-by: Etienne Poirier <33007955+epeartree@users.noreply.github.com>
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
Co-authored-by: Nathan Doef <n.doef@protonmail.com>
Co-authored-by: TipzCM <leif.stawnyczy@gmail.com>
Co-authored-by: dotasek <david.otasek@smilecdr.com>
Co-authored-by: Jens Kristian Villadsen <jenskristianvilladsen@gmail.com>
Co-authored-by: Tadgh <garygrantgraham@gmail.com>
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
Co-authored-by: Long Ma <long@smilecdr.com>
Co-authored-by: markiantorno <markiantorno@gmail.com>
* Patient validate operation with remote terminology service enabled returns 400 bad request (#6124)
* Patient $validate operation with Remote Terminology Service enabled returns 400 Bad Request - failing test
* Patient $validate operation with Remote Terminology Service enabled returns 400 Bad Request - implementation
* - Changing method accessibility from default to public to allow method overwriting. (#6172)
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* applying Taha Attari's fix on branch merging to rel_7_4 (#6177)
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* Automated Migration Testing (HAPI-FHIR) V7_4_0 (#6170)
* Automated Migration Testing (HAPI-FHIR) - updated test migration scripts for 7_4_0
* Automated Migration Testing (HAPI-FHIR) - updated test migration scripts for 7_2_0
* To provide the target resource partitionId and partitionDate in the resourceLinlk (#6149)
* initial POC.
* addressing comments from first code review
* Adding tests
* adding changelog and spotless
* fixing tests
* spotless
---------
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* applying patch (#6190)
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* cve for 08 release (#6197)
Co-authored-by: Long Ma <long@smilecdr.com>
* Search param path missing for _id param (#6175)
* Add path tp _id search param and definitions for _lastUpdated _tag, _profile and _security
* Add tests and changelog
* Increase snapshot version
* Irrelevant change to force new build
---------
Co-authored-by: juan.marchionatto <juan.marchionatto@smilecdr.com>
* Reverting to core fhir-test-cases 1.1.14; (#6194)
re-enabling FhirPatchCoreTest
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* initial failing test
* providing capability to tailor resthook endpoint url validation through supplied regex
* adding necessary import.
* conformance with spotless
* adding tests
* adding test for payload
* spotless
* adding changelogs
* passing all tests
* passing all tests
* no-op commit to kickstart the pipeline.
* - slight modification to the solution;
- spotless;
* pre-code review submission.
* moving validator instantiation to the submitter configuration so it is create along side the subscriptionValidatorInterceptor
* last min tweeking before submission for review.
* fixing spotless post merging in master
---------
Co-authored-by: Emre Dincturk <74370953+mrdnctrk@users.noreply.github.com>
Co-authored-by: Luke deGruchy <luke.degruchy@smilecdr.com>
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
Co-authored-by: jdar8 <69840459+jdar8@users.noreply.github.com>
Co-authored-by: jdar <justin.dar@smiledigitalhealth.com>
Co-authored-by: Luke deGruchy <luke.degruchy@smiledigitalhealth.com>
Co-authored-by: JP <jonathan.i.percival@gmail.com>
Co-authored-by: jmarchionatto <60409882+jmarchionatto@users.noreply.github.com>
Co-authored-by: juan.marchionatto <juan.marchionatto@smilecdr.com>
Co-authored-by: TipzCM <leif.stawnyczy@gmail.com>
Co-authored-by: Martha Mitran <marthamitran@gmail.com>
Co-authored-by: longma1 <32119004+longma1@users.noreply.github.com>
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
Co-authored-by: Nathan Doef <n.doef@protonmail.com>
Co-authored-by: dotasek <david.otasek@smilecdr.com>
Co-authored-by: Jens Kristian Villadsen <jenskristianvilladsen@gmail.com>
Co-authored-by: Tadgh <garygrantgraham@gmail.com>
Co-authored-by: Long Ma <long@smilecdr.com>
Co-authored-by: markiantorno <markiantorno@gmail.com>
Co-authored-by: volodymyr-korzh <132366313+volodymyr-korzh@users.noreply.github.com>
5e48e38b1d