* 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
---------
Co-authored-by: Emre Dincturk <74370953+mrdnctrk@users.noreply.github.com>
Co-authored-by: Luke deGruchy <luke.degruchy@smilecdr.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>
* Move IncomingRequestAddressStrategy::determineServletContextPath into IServerAddressStrategy to permit overriding (#6038)
* add changelog
* add contributor as developer
---------
Co-authored-by: Alex Kopp <akopp@athenahealth.com>
Co-authored-by: juan.marchionatto <juan.marchionatto@smilecdr.com>
* - reverting commented out changes
- removing personal todo
* removing changelog since the related change was reverted.
---------
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* version bump clinical reasoning
* specifying required patch type
* bumping to 7.3.11-SNAPSHOT
* fix file name
* remove default fhirPatch until bug fixed
* Use server name as narrative text in CapabilityStatement
* Credit for #6060
* Fix spotless
---------
Co-authored-by: James Agnew <jamesagnew@gmail.com>
* wip test writing
* add test to ES suite as well
* wip
* Changelog
* spotless
* Address review comments
* Test corrections
* Fixes for tests
* Fix changelog
* Cleanup and fix compile warnings
* Cleanup and enhance batch2 jobs to support running them across multiple partitions.
* Add some documentation and fix build in the pipeline.
* Fix tests
* Add support for RequestPartitionId.allPartitions as input to the IJobPartitionProvider. Add tests and fix one test. Add missing changelog.
* Separate basic partition provider logic so it can be reused by Mongo. Update documentation.
* Revert change to apply certain validation only for creates.
* Remove added logs
* spotless fix
* Address code review comments
* Remove code to SQL query from BaseTask. Move code to DropPrimaryKeyTask and gate it for NOT dry-run.
* Update hapi-fhir-sql-migrate/src/main/java/ca/uhn/fhir/jpa/migrate/taskdef/DropPrimaryKeyTask.java
Commit code review suggestion
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
* Code review feedback.
* Code review feedback.
* Remove isTransactional().
---------
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
* Initial commit of failing test
* wip
* Hack a side-route to not use analyzed versions of the field
* spotless
* Add concept of contains for special
* Changelog, docs
* spotless
* another test
* wip
* refactor
* spotless
* First commit.
* SQLs in test class work for Postgres.
* Refine DropPrimaryKeyTask. Add migration code to do all operations except drop and add primary key. Comment out stub test code to do all non drop and add primary key operations. Add verification code to test to verify schema and record counts.
* Oracle drop primary key working.
* Oracle drop primary key working in test code. Proper drop primary and add primary key tasks working in H2.
* Migration tests work on all 4 databases.
* Spotless.
* Fix compile error.
* Add hapi error codes for new Exceptions.
* Add another hapi error code.
* Cleanup TODOs. Fix error codes. Spotless.
* Add new partition conditional create test. Fix bug from merging tasks class. Add new unit Add changelog without hapi-fhir issue.
* Add test for conditional create with partitions.
* Fix TODOs. Reverse unneeded changes. Rename changelog. Refinements. Javadoc.
* Tweak changelog.
* Rename config key internally. Spotless.
* Fix a newly introduced bug. Cleanup. Tweak changelog.
* Small fix. Spotless.
* Fix compile error.
* Spotless.
* Address code review comments.
* Address more code review comments.
* Fix test.
* Fix test.
* Changelog
* Remove uniqueness
* spotless
* Add migrations
* spotless
* make some space
* Handle fancier upgrade
* spotless
* Fix up where clause generation to be a bit more readable
* spotless
* Added fhirpath-criteria evaluation
* Added test for valid fhirpath that does not evaluate to boolean
* Added resolving the variables %current and %previous
* Added test using only FP criteria
* Added test cases for valid FhirPath expressions that return non-booleans
* Added use of central cache
* Added more elaborate tests for non-sunshine scenarios
* Added changelog
* CheckStyle'd errorcode added.
* Added spotless formatting and converted FhirPathR5 expression to be Android compatible
* Applied more spotless
* Work on versioned canonidal refs
* Merge
* Tests working
* Working without version support
* CLean refactor
* Targets
* Remove redundant parameter
* Fix up tests
* Remove fixme
* Add changelog
* Improve changelog
* Update version
* Test fixes
* Modify cluster instance name
* spotless
* Add test for scheduler name
* Changelog
* Remove atomic int for autogenerating IDs
* Remove atomic int for autogenerating IDs
* Fix test
* first cut
* first cut
* cleanup
* that took way too long
* fix test
* licenses
* merge master
* merge master
* changelog
* review feedback
* bump version
* Issue #5657
Skip an MDM candidate search if any search parameter is missing (as per documentation,
and to avoid non-performant searches), rather than only when all of them are missing.
* Address the unit test failure.
* Add credit for #5658
---------
Co-authored-by: James Agnew <jamesagnew@gmail.com>
* Bump to core 6.2.6 + fix compilation errors
* Fix signature error
* Error ordering
* WIP 1 Fixing failing tests
* Fix FhirInstanceValidatorR4Test
* Fix FhirInstanceValidatorR5Test
* Fix FhirInstanceValidatorR4BTest
* Fix FhirInstanceValidatorDstu3Test.testValidateBuiltInProfiles()
* WIP Fix FhirInstanceValidatorDstu3Test
* Fix isPrimitiveType
* Add placeholder narratives to ServerCapabilityStatement
* Fix QuestionnaireResponseValidatorR4Test
* Newline cleanup
* Fix QuestionnaireResponseValidatorDstu3Test
* Fix QuestionnaireResponseValidatorR5Test
* Increase expected error messages by two because VALIDATION_HL7_WG_NEEDED
New validation requirement as of 2023-09-16
* Add placeholder fix for Balp narrative
* Fix expected validation messages
* Fix more expected validation messages
* Don't generate a master IPS narrative
* Fix IPS generation tests expecting old composition narrative
* Update fhir core and clinical-reasoning
* Remove commented code
* Bump to core 6.2.16-SNAPSHOT
* Add missing methods
* Add missing methods 2
* Fix error codes
* Fix error code
* Fix failing tests for Unsupported method 2488
* Fix error text
* Fix another expected error message
* Apply spotless
* Fix error strings
* Add minimal implementation to fix failing test
* Fix error message
* Fix some validation tests (r4)
* Fix more R5 tests
* Update for changing API
* Fix some R4B test failures
* Fix android incompatibility
* Fix more tests
* Switch back to LF
* Fix more tests 2
* Fix R4 IPS generation use of relative references, switch to random UUID
* Fix missing codes and patient ID in IPS test
* Fix missing codes in IPS R4 Test 2
* Fix display value
* Fix display value
* Reorg wrapper issue collection; fixes errors with Balp and others
* Update for API changes
* Fix code set typo causing test failure
* Fix DiffProviderR4Test
* Fix RepositoryValidatingInterceptorHttpR4Test fails
due to stricter code validation
* More code fixes
* Don't expect an extra error.
* Use more specific logic for details tx code
* Catch expected error
* Clean up
* Account for HAPI isEnabledValidationForCodingsLogicalAnd cases
* Apply spotless
* Change outputs for en_US single code test
* Add missing system from code to pass validation
* Account for DSTU3 and R4 including different code systems for race
* Add expected loinc codes to test dao
* Add some codesystem support for test
* Bump core version
* WIP pass on a list of CodeValidationIssue from CodeValidationResults
* Re-use v2 and v3 data from r4 in r4b
* CodeSystems can be supported, but not have a resource
* Remove hack around unitsofmeasure + return false LookupCodeResult
* Clean up chatter.
* Update test cases, remove FIXME
* Stop returning before adding all issues to ValidationResults
* Update for changes in core API
* Add severity to code issues + return to unknown system support
* Use new CollectionUtils
* Fix more issue messages and orders + null in TermReadSvcImpl
* After checking valueSet, also check codeSystem
* On second thought, always check the codesystem
* Improve validation message
* Refactor
* Add error consistent with core validator results
* Decrement query counts for validation
* Improve code validation messages + don't miss invalid display on cs
* Fix expected messages (added code details)
* More expected message fixes
* Remove redundant text from diagnostics + match core exception handling
* Explicitly send tx passthrough messages no longer managed in core
* Apply spotless
* Add issue to code validation in TermReadSvcImpl
* Adjust indexes of expected errors now that TermReadSvc is reporting
* Bump to released core version
* Code cleanup: commented code
* More commented code cleanup
* Fix parameter names
* Use Set.of and List.of + fix duplicate values in set
* Revert animal sniffed breakage, make field private
* Add comments to describe disabled test
* Remove System.out chatter
* Fix javadoc generation for r5 structures module
* More comments and move disabled annotation
It was working when it left the shop.
* Move older changelog into 7.4.0 and create core update changelog
* Switch changelog type to change
* Bump HAPI version
* Add validation utils for FATAL issue severity
* Handle FATAL codeValidationIssue severity
* Fix test (validation throws more warnings)
* Bump to version 7.3.4-SNAPSHOT
* Bump to SNAPSHOT version of core + add necessary method implementations
* Add comments to explain R4 terminology resources in R4B
* Add test for Observation vital signs profile validation
* Try using default validatorPolicyAdvisor
* Return an empty set for fetchCanonicalResourceVersions
* Profile now gives more explicit error instead of valueSet
* Revert commit
* Add CodeValidationIssues and additional error info
* Do not return first successful match from codings. Check all.
+ adjust for extra errors.
* apply spotless
* Fix failing test, add comments re: invocations
* Fix test to expect more informative error
* Fix stray compilation errors from merge.
* Fix merge overwrite of validation messages and indices
* Fix merge overwrite of new validation results
* Use core release 6.3.11
* Update HAPI version to 7.3.5-SNAPSHOT
* Fix changelog
* Remove commented code
---------
Co-authored-by: James Agnew <jamesagnew@gmail.com>
Co-authored-by: volodymyr <volodymyr.korzh@smilecdr.com>
Michael Buckley
Tadgh
Alberto Acebes
Long Ma
TipzCM
jmarchionatto
Etienne Poirier
Justin McKelvy
Renaud Subiger
jdar8
volodymyr-korzh
Aditya Dave
VK-SMILECDR
Luke deGruchy
Martha Mitran
James Agnew
dotasek
Jens Kristian Villadsen
Ken Stevens
Adrienne Sox