* 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
* version bump to 7.3.1-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>
* 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
---------
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>
* Preliminary fix.
* Refine fix. Refine existing tests. Rename existing test to R4. Disable tests that don't work due to newly discovered bug with R5 POST poll. Reverse logging changes and TODOs.
* Reverse more logging changes.
* Check for whitelist of FHIR versions that support device in patient compartment.
* Refine solution. Add a new test.
* Add changelog.
* Code review fix.
* Throw exception when resourceType of parameter value is invalid when performing FHIR search with non-chained reference
* Fix changelog issue id and spotless warning
* Cleanup unnecessary test
* Validate resourceType only when using relative reference
* Fix test for search using _type parameter
* Refactor and fix functionality dealing with ReadPartitionIdRequestDetails
* Spotless fixes
* Revert some of the refactoring changes to BaseRequestPartitionHelperSvc and fix tests
* Small cleanup
* Missing change
* Small changes
* Fix tests and add a few more
* Spotless fix
* Address code review comments
* Some polishing on the interface annotations and documentation
* Spotless fix
* Fix test
* Fix tests and test method rename
* Ensure SearchParameterMap is not null
---------
Co-authored-by: Martha Mitran <martha.mitran@smilecdr.com>
* pom bump to 7.0.0 (#5615)
* pom bump to 7.0.0
* add version enum
* fixed feb release name
---------
Co-authored-by: Long Ma <long@smilecdr.com>
* Check index existence on raw SQL creation (#5624)
* Add conditional check on index existence before we try again
* Add conditional check on index existence before we try again
* Changelog
* remit
* remit
* debug statements
* 5621 deadlock on caffeine cache when creating a resource with conditional create (#5622)
* Modifying the CacheProvider to avoid doing db I/O within the cache miss value supplier callback.
* Setting the initial capacity of instantiated caches to the cache max size to avoid resizing during operations.
* adding changelog and spotless.
* Fixing typo.
* Addressing comments from code review.
---------
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* Searching with more than one chained Bundle SearchParameter returns incorrect results (#5614)
* Failing test
* fix
* changelog
* Avoiding Exception being thrown on @EventListener invocation (#5628)
* replaced EventListener annotation with @PreDestroy
* adding changelog
---------
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* simple fix (#5630)
Co-authored-by: Long Ma <long@smilecdr.com>
* Incorrect version of auto versioned reference for conditional update with urn id placeholder (#5625)
* Incorrect version from versioned_references.auto_at_paths for conditional update - implementation
* Oracle: Ensure migrated database still takes large resource text updates (#5629)
* First pass at fix to Oracle HFJ_RES_VER.RES_TEXT_VC migration.
* First stab at agreed upon solution.
* Fix error with 4001 by removing unnecessary annotation.
* Spotless and TODO.
* Remove annotation for good and set length to LONG32.
* Fix copyright year.
* Finalize changelog.
* Remove migration changes. Fix unit test.
* Fix compile error.
* Log output.
* Refactor resource history code into new ResourceHistoryCalculator.
* Spotless.
* Convert record to POJO.
* Restore pre-17 switch statement.
* Finalize new resource history calculator code and tests.
* Spotless.
* Remove logging.
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/changelog/7_0_0/5633-oracle-hfj-res-ver-clob-migration.yaml
Apply code reviewer suggestion
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
* Code review feedback.
---------
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
* Fix expansion for `ValueSet` with no concepts based on CodeSystem `urn:ietf:bcp:13` (#5638)
* When fetching the mimetype code system, return empty CodeSystem with NOTSUPPORTED content. Update expansion logic to handle this case. Add some test cases.
* Minor change to fix test
* Rename changelog file
* Remove TODOs as they're replaced by reported issue
* Revert accidental change added with TODO removal
* $expunge operation ignoring ExpungeThreadCount setting in certain cases (#5637)
* $expunge operation ignoring ExpungeThreadCount setting in certain cases - implementation
* Fix Measure group id null pointer exception (#5620)
* Update to new version of clinical reasoning, includes a fix for null pointers on Measure group id
* add changelog
---------
Co-authored-by: Justin McKelvy <60718638+Capt-Mac@users.noreply.github.com>
* Rule evaluation: Allow Bundles with PATCH Parameters (#5641)
* Remove parameters clause.
* Finalize changelog. Add tests. Finalize implementation.
* Undo changes to this test.
* Revert all changes to FhirQueryRuleImplTest. Add new RuleImplOpTest. Ensure that proper nested Bundle is created for test and other fixes.
* Tweak test.
* Use real rule applier in test and remove all mocks.
* Prevent batch2 job execution to stop for empty chunk when last job st… (#5635)
* Prevent batch2 job execution to stop for empty chunk when last job step is a reduction.
Add output to bulk export result even when empty.
* Fix test
* Unimportant change to force fresh build
* Implement review suggestions
---------
Co-authored-by: juan.marchionatto <juan.marchionatto@smilecdr.com>
* Index review fixes (#5649)
* Don't hold locks while adding indices during upgrade.
* concurrent indexing is non-transactional in PG.
* Fix conditional creates without leading '?' (#5646)
* First commit with failing test.
* More tests and logs.
* More logs
* Try new solution for BaseTransactionProcessor.performIdSubstitutionsInMatchUrl().
* Simplify solution. Add more tests.
* Changelog.
* javadoc
* Searching for Bundles with read all Bundles permission returns 403 (#5644)
* failing test
* another failing test case
* fix
* changelog
* fix bug
* spotless
* cr
* Fix NullPointerException when performing a system bulk export in the presence of PatientIdPartitionInterceptor. (#5660)
* Serializing changes for sensitive data (#5655)
* Add new senstiive data serializer
* Add new senstiive data serializer
* Add new senstiive data serializer
* Remove dead comments
* Change up the test
* review comments
* wip
* Tighten tests and push annotation down
* Tighten tests and push annotation down
* Changelog
* Add test
* 7.0.1-SNAPSHOT bump
* Error code
* Add method used by CDR
* add version enum
* Fix test
* Rel 7 0 CVE (#5663)
* Bump json-path
* Pin parrson
* Bump elastic
* Bump spring version
* Exclude JDBC
* Descendent fix (#5669)
* Fix "is-a" ValueSet expansion, add "descendent-of" support
* Fixed tests in DSTU3 and R5
* Trigger new build
* Revert "Trigger new build"
This reverts commit 46c672b338.
* fix default partition setting on resource (#5617)
* fix default partition setting on resource
* changelog
* Handle DEFAULT partition in rule checker.
* Fix spotless
---------
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
Co-authored-by: James Agnew <jamesagnew@gmail.com>
* pom bump, doc add, version enum add (#5616)
Co-authored-by: Long Ma <long@smilecdr.com>
* fix default partition setting on resource (#5618)
* fix default partition setting on resource
* Handle DEFAULT partition in rule checker.
Co-authored-by: Ken Stevens <khstevens@gmail.com>
* Add setting to make broker not use JacksonMessageConverter (#5611)
* Add setting to make broker not use JacksonMessageConverter
* Add changelog
* Implement suggestions
---------
Co-authored-by: juan.marchionatto <juan.marchionatto@smilecdr.com>
* Fix version
* add changelog, add attribution, remove accidental bring-overs
* add changelog, add attribution, remove accidental bring-overs
* Finish jira section
---------
Co-authored-by: Ole Hedegaard <ohe@trifork.com>
Co-authored-by: Ken Stevens <khstevens@gmail.com>
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
Co-authored-by: James Agnew <jamesagnew@gmail.com>
Co-authored-by: longma1 <32119004+longma1@users.noreply.github.com>
Co-authored-by: Long Ma <long@smilecdr.com>
Co-authored-by: jmarchionatto <60409882+jmarchionatto@users.noreply.github.com>
Co-authored-by: juan.marchionatto <juan.marchionatto@smilecdr.com>
* fix conflict mistake
* removed test assert that is no longer true:
* version bumpb to 7.1.1
* fix version Enum test
---------
Co-authored-by: Long Ma <long@smilecdr.com>
Co-authored-by: Tadgh <garygrantgraham@gmail.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: volodymyr-korzh <132366313+volodymyr-korzh@users.noreply.github.com>
Co-authored-by: Luke deGruchy <luke.degruchy@smilecdr.com>
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
Co-authored-by: Martha Mitran <martha.mitran@smilecdr.com>
Co-authored-by: JP <jonathan.i.percival@gmail.com>
Co-authored-by: Justin McKelvy <60718638+Capt-Mac@users.noreply.github.com>
Co-authored-by: jmarchionatto <60409882+jmarchionatto@users.noreply.github.com>
Co-authored-by: juan.marchionatto <juan.marchionatto@smilecdr.com>
Co-authored-by: Ole Hedegaard <ohe@trifork.com>
Co-authored-by: Ken Stevens <khstevens@gmail.com>
Co-authored-by: James Agnew <jamesagnew@gmail.com>
* default _type to all resource types in the patient compartment for patient type&instance level bulk export
* parametrized test so that it calls both type and instance level
* added change log and spotless check
* resolved code review comments
* HAPI FHIR Dependency Bumps
* Hibernate search 6
* Dep bumps
* Bump mockito
* Fix memory leak
* Test cleanup
* Test fix
* Test fixes
* Test fix
* Test fix
* Test fix
* Test fix
* Prepare to try and rework max clauses
* Refactor large VS expansion
* Spotless
* Test fix
* Version bump
* Test fixes
* Bump maven container
* Build fix
* Add license headers
* Version bump
* License headers
* Servlet migrsation changes
* Apply spotless
* Work on migration
* Start working on JPA migration
* Test fixes
* Test fixes
* Test fixes
* Work
* Work on servlet migration
* Work on migration
* Work on fixes
* Imports fix
* Work on tests
* Test fix
* All tests passing
* Work on migration
* Schema generator
* Refactor ID strategy
* Some test fixes
* Test fixes
* API additions
* Work on websockets
* Test fixe
* Version bump
* Work on migration
* All tests have passed!
* Work on test fixes
* Fixes
* Work on fixes
* CDR fix
* Work on migration
* Fixes
* Spotless
* Disable onetoone ban
* Adjust migratyions
* Transaction service fix
* Add tinyint to migrator
* Work
* Migration
* Compile fix
* Add license
* Test fix
* Test fix
* Cleanup
* Cleanup attempt
* Test fix
* Reslve fixmes
* Remove legacy lastn implementation
* Test cleanup
* Cleanup
* Remove dead import
* Bad import setups
* Review comments
* Review fixes
* Build fix
* Test fix
* Spotless
* Account for CR changes
* Compile fixes
* Rollback one change
* Test tweak
* License header
* Test fix
* Test fix part 2:
* Clean up tx isolation
* Spotless
* Spotless apply
* Drop min SQL Server level
* Attempted test fix
* Test fix
* Test fix
* Test fix
* Bump hibernate
* Test fix
* Test fixes
* Test fixes
* Test fixes
* Test cleanup
* One more test fix
* Test fix
* Try to fix test
* Clean up expunge
* Test fix
* Remove unneeded task
* Spotless
* Bump compiler plugin
* Spotless
* Compile fix
* Add license headers
* License header
* Test fixes
* Bump animal sniffer
* Spotless
* Bump Jetty version
* Test fix and version bump
* Cleanup
---------
Co-authored-by: Tadgh <garygrantgraham@gmail.com>
* added failing test
* added the new step, replace existing steps
* added changelog
* fixed check style
* changed the error code
* added back the bean definition for ExpandResourcesStep, to keep test from erroring
* code review fix
* fixed placement
* mirrored the implementation in the test
* added null check
* code review change
* style fix
* missed reverts
---------
Co-authored-by: Steven Li <steven@smilecdr.com>
* added failing test
* added support for warning messages to batch2
* added change log
* fixed errors from merge, made warning work with new batch2
* fixed message parse, changed interface method to default, formatting changes
* added changelog
* code review changes
* code review change
* added new implementation for warning message processing, fixed migration
* changed column to lob, as text is not well supported
* code review changes
---------
Co-authored-by: Steven Li <steven@smilecdr.com>
* Delete expunge with cascade
* Work
* Workgin
* Version bump hibernate
* Start working on delete cascade
* Work on delete expunge
* Test fixes
* Test fixes
* Add changelog
* Work on cascade
* Fixes
* Test work
* Test fixes
* Force Verify tests
* fix ITs (#4809)
* fix RestHookTestR5IT
* fix intermittent
---------
Co-authored-by: Ken Stevens <ken@smilecdr.com>
* Fix migrator error on Oracle (#4814)
* Fix Oracle SQL error
* Add changelog
* Update clinical reasoning version (#4816)
* Update clinical reasoning version
* Update version
* Update version
* Clean-up and more wireup of evaluationSettings
* Add changelog
---------
Co-authored-by: Jonathan Percival <jonathan.i.percival@gmail.com>
* Opening the care-gaps endpoint for GET. (#4823)
Co-authored-by: Chalma Maadaadi <chalma@alphora.com>
* added version to mdm golden resource tag (#4820)
Co-authored-by: Long Ma <long@smilecdr.com>
* Update the changelog for 4697 to be more descriptive (#4827)
* Update the changelog for 4697 to be more descriptive
* Futher tweaks of the changelog
* Fixes a bug with tags. (#4813)
* Test, fix
* Drop constraint, add migration
* Add changelog
* Fix userSelected null vs false
* Fix merge
* Fix up checkstyle whining
* One more failure
* Fix test
* wip
* changelog clarity
Co-authored-by: James Agnew <jamesagnew@gmail.com>
* change index
---------
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
Co-authored-by: James Agnew <jamesagnew@gmail.com>
* fix migration issue (#4830)
Co-authored-by: Ken Stevens <ken@smilecdr.com>
* Create correct version enum
* Remove superfluous migration
* fixing test (#4835)
Co-authored-by: leif stawnyczy <leifstawnyczy@leifs-MacBook-Pro.local>
* email subscription, throw NullPointerException (#4790)
* fix bug
* Favoring constructor initialization to autowiring.
* enhancing test.
* Making class LoggingEmailSender available outside of the hapi-fhir-japserver-uhnfhirtest module.
* Passing all tests.
* adding changelog.
* Bumping version to 6.5.20-SNAPSHOT
* addressing code review comment.
---------
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* Add docs for CR operations (#4855)
* Add docs for CR operations
* Correct changelog and javadoc for $package
* Add documentation for $apply parameters
* Add additional documentation for $package
* Cleanup
* Cleanup
* Cleanup
* Address review comments
* Add documentation for $care-gaps operation. (#4862)
* Add documentation for -gaps.
* addressing the comments.
---------
Co-authored-by: Chalma Maadaadi <chalma@alphora.com>
* 4853 validation does not error when display is not the same as the display defined in the codesystem 2 (#4854)
* added failing test
* implemented the solution
* changed test name
* added change log
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/changelog/6_6_0/4853-validation-does-not-error-when-display-is-not-the-same-as-the-display-defined-in-the-codesystem-2.yaml
Co-authored-by: James Agnew <jamesagnew@gmail.com>
---------
Co-authored-by: Steven Li <steven@smilecdr.com>
Co-authored-by: James Agnew <jamesagnew@gmail.com>
* fixing patient everything operator (#4845)
* fixing patient everything operator
* review fix
---------
Co-authored-by: leif stawnyczy <leifstawnyczy@leifs-MacBook-Pro.local>
* fix link
* Move image file
* Bundle resources containing over 100 references to the same Organization will fail with HAPI-2207 (#4871)
* Add failing unit test.
* Fix JpaId Long equality comparison to use ! equals() instead of !=, which fails for different instances of the same Long value.
* Add changelog.
* added warn message and test (#4848)
* added warn message and test
* code review fixes
---------
Co-authored-by: Long Ma <long@smilecdr.com>
* Issue 4804 full table scan on mpi link during mdm clear (#4805)
* version bump for next release (#4793)
* version bump
* Bump to correctnumber
* Version Enum and folder
* Remove interim from list
* wip
* Fix operation on nested type-choices in FhirPatch implementation (#4783)
* Fix operation on nested type-choices in FhirPatch implementation
* Add credit for #4783
---------
Co-authored-by: James Agnew <jamesagnew@gmail.com>
* #4468 fix previous link offset no cache pagination (#4489)
* #4468 Add test reproducing the issue
* #4468 Fix previous link for no cache offset pagination
* #4468 Use unchecked URI parsing
* Credit for #4489
---------
Co-authored-by: James Agnew <jamesagnew@gmail.com>
* Changelog and data generating test
* Add MdmLink index
* Avoid double link deletion
* Use ThreadLocal safely
---------
Co-authored-by: Tadgh <garygrantgraham@gmail.com>
Co-authored-by: Zach Smith <85943952+zachdoctolib@users.noreply.github.com>
Co-authored-by: James Agnew <jamesagnew@gmail.com>
Co-authored-by: Aleksej Parovysnik <100864000+alparodev@users.noreply.github.com>
Co-authored-by: juan.marchionatto <juan.marchionatto@smilecdr.com>
* Fix erroneous batch 2 $export 75% complete count when the job is COMPLETE (#4859)
* Add failing unit test.
* Add conditional logic to the InstanceProgress progress percentage to disregard the incomplete count if this is called from the reduction step. This is to get around a race condition in which a work chunk is QUEUED and not yet complete when the reduction step calculates the progress.
* Add final.
* Add changelog.
* disable wars (#4877)
Co-authored-by: Ken Stevens <ken@smilecdr.com>
* 4868 fix paging hapi (#4870)
* fixing some offset and adding a test
* fixing the offset paging
* Removing duplicate
---------
Co-authored-by: leif stawnyczy <leifstawnyczy@leifs-MacBook-Pro.local>
Co-authored-by: Aleksej Parovysnik <100864000+alparodev@users.noreply.github.com>
* 4875-binary-access-write-doest-trigger-STORAGE-BINARY-ASSIGN-BLOB-ID-PREFIX-pointcut (#4876)
* Add failing test
* Add failing test
* Fix and changelog
* Pass content type parameter
* Back to auto wiring the context
* Invoke interceptor only when getting blobId, not also when storing it
* Avoid breaking implementers
* Address review comment
* Add new exception Msg code
* Fix broken test
---------
Co-authored-by: juan.marchionatto <juan.marchionatto@smilecdr.com>
* Fix batch job (bulk export) processed record count (#4879)
* Remove racy stats recalc.
* Throw 404 when requesting $export of non-existent Group or Patient (#4890)
* Remove default implementation intended only for interim backwards compatibility (#4894)
Co-authored-by: juan.marchionatto <juan.marchionatto@smilecdr.com>
* Rule apply patient export (#4893)
* Test, fix, and changelog
* Better partition resolution
* Add checks based on rule applier
* Fix ordering failure due to hash set
* Allow empty auth interceptor
* Fix up operation type on invocation
* Add more tests, make hack implementation for patient instance level operation
* Tighten test name
* Changelog
* Default method
* remove dead method
* Remove dead autowire
---------
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
* cve pom changes (#4898)
Co-authored-by: Long Ma <long@smilecdr.com>
* backport subscription topic bean cleanup (#4904)
* 4891 bulk export do not recurse unasked for resources (#4895)
* updating tests
* fixing bulk export to not fetch resources not requested
* cleanup
* cleanup
* more warning suppressing
* adding error code
* blah
* fix test
* review fixes
---------
Co-authored-by: leif stawnyczy <leifstawnyczy@leifs-MacBook-Pro.local>
* lowers log level to remove bootup noise (#4908)
* CVE rel 6 6 (#4907)
* cve pom changes
* bump javax.el to jakarta.el
---------
Co-authored-by: Long Ma <long@smilecdr.com>
* Issue 4905 post binary failure invoking interceptor for pointcuts storage preshow resources (#4906)
* Initial failing test
* Avoid applying binary blob id prefix multiple times
* Remove recently introduced method not needed anymore
---------
Co-authored-by: juan.marchionatto <juan.marchionatto@smilecdr.com>
* Enhance LogbackCaptureTestExtension (#4869)
* repro bug with test, fix bug
* ken informed me he resolved this bug on master, so i'm switching to use his solution
* disable wars
* review feedback
* review feedback
* review feedback again
---------
Co-authored-by: josie <josie.vandewetering@smilecdr.com>
Co-authored-by: Ken Stevens <ken@smilecdr.com>
* Resolve 4863 from release branch searchparametercanonicalizer does not account for search parameters for custom resources types when converting dstu23 into runtimesearchparam (#4887)
* Modified canonicalizeSearchParameterDstu2 and 3, now correctly detect search parameters for custom resources
* Canonicalizers now correctly handle search parameters for custom resources
* created changelog
* Modification based on comments:
- remove Resource from target field when there are custom resource types
- fixed changelog typo
- removed unnecessary variable providesMembershipInCompartments
* Added tests for the SearchParameterCanonicalizer to test if base and target of RuntimeSearchParam is set as expected for DSTU2, DSTU3, R4, R4B, and R5 resources
* Fixed typo and removed commented code
* re-ordered init methods
* Update changelog
Co-authored-by: Tadgh <garygrantgraham@gmail.com>
* modifications following first code review.
---------
Co-authored-by: Tadgh <garygrantgraham@gmail.com>
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* License
* Remove _lastUpdated filtering of _revincludes. (#4899)
Remove _lastUpdated filtering of _revincludes.
* 4910-dm-migration-error-for-oracle-19c (#4916)
* Remove all_constraints references which break in oracle 19c
* Add changelog
---------
Co-authored-by: juan.marchionatto <juan.marchionatto@smilecdr.com>
* 4873 empty fhirid causes missing resource (#4874)
* add check for empty fhirid string and add test
* add test for populateid
* changelog
* version bump
* version bump
* reverse version bump
* Back to 6.5.21-SNAPSHOT.
---------
Co-authored-by: justindar <justin.dar@smilecdr.com>
Co-authored-by: Luke deGruchy <luke.degruchy@smilecdr.com>
* Fix include canonical url performance (#4919)
Use hash_identity for canonical join
* License
* Version bump
* Fix failure in test
* Licenses
* Review comments for pipeline
* Dead entry
* other typo
---------
Co-authored-by: Ken Stevens <khstevens@gmail.com>
Co-authored-by: Ken Stevens <ken@smilecdr.com>
Co-authored-by: James Agnew <jamesagnew@gmail.com>
Co-authored-by: Brenin Rhodes <brenin@alphora.com>
Co-authored-by: Jonathan Percival <jonathan.i.percival@gmail.com>
Co-authored-by: chalmarm <44471040+chalmarm@users.noreply.github.com>
Co-authored-by: Chalma Maadaadi <chalma@alphora.com>
Co-authored-by: longma1 <32119004+longma1@users.noreply.github.com>
Co-authored-by: Long Ma <long@smilecdr.com>
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
Co-authored-by: TipzCM <leif.stawnyczy@gmail.com>
Co-authored-by: leif stawnyczy <leifstawnyczy@leifs-MacBook-Pro.local>
Co-authored-by: Sam Gunter <123124187+samguntersmilecdr@users.noreply.github.com>
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
Co-authored-by: StevenXLi <stevenli_8118@hotmail.com>
Co-authored-by: Steven Li <steven@smilecdr.com>
Co-authored-by: Luke deGruchy <luke.degruchy@smilecdr.com>
Co-authored-by: jmarchionatto <60409882+jmarchionatto@users.noreply.github.com>
Co-authored-by: Zach Smith <85943952+zachdoctolib@users.noreply.github.com>
Co-authored-by: Aleksej Parovysnik <100864000+alparodev@users.noreply.github.com>
Co-authored-by: juan.marchionatto <juan.marchionatto@smilecdr.com>
Co-authored-by: Josie <80289977+pepsiofficial@users.noreply.github.com>
Co-authored-by: josie <josie.vandewetering@smilecdr.com>
Co-authored-by: TynerGjs <132295567+TynerGjs@users.noreply.github.com>
Co-authored-by: jdar8 <69840459+jdar8@users.noreply.github.com>
Co-authored-by: justindar <justin.dar@smilecdr.com>
* enforce no exceptions on the invoking thread in PointCutLatch
* comment
* Msg.code
* Catch exceptions outside of await block
* fix migration issue
* Refactor PointcutLatch and add tests
* fix tests
* fix tests
* fix tests
* fix test
* fix test
* fix test
* fix test
* fix test
* fix test
* fix test
* fix test
* fix test
* fix test
* fix test!
* fix test!
* fix test
* fix test
* clean up latch error formatting
* fix test
* fix test
* fix test
* fix test
* fix test
* fix tests
* fix test
* fix test
* Remove hapi-fhir-jpaserver-uhnfhirtest from build as it is crashing CI
* fix test
* fix intermittent
* A SNAPSHOT dependency on an upstream module was added to HAPI FHIR, which changed and caused some downstream tests to break.
* fix intermittent
* Add Maven enforcer plugin for CR dependencies
* Make maven enforcer conditional on CI builds
* Remove hapi-fhir-jpaserver-uhnfhirtest from build as it is crashing CI
* improve test logging
* pre-review cleanup
* review feedback
* remove hapi-fhir-base-test-jaxrsserver-kotlin from the build
---------
Co-authored-by: Ken Stevens <ken@smilecdr.com>
Co-authored-by: Jonathan Percival <jonathan.i.percival@gmail.com>
* Force Verify tests
* fix ITs (#4809)
* fix RestHookTestR5IT
* fix intermittent
---------
Co-authored-by: Ken Stevens <ken@smilecdr.com>
* Fix migrator error on Oracle (#4814)
* Fix Oracle SQL error
* Add changelog
* Update clinical reasoning version (#4816)
* Update clinical reasoning version
* Update version
* Update version
* Clean-up and more wireup of evaluationSettings
* Add changelog
---------
Co-authored-by: Jonathan Percival <jonathan.i.percival@gmail.com>
* Opening the care-gaps endpoint for GET. (#4823)
Co-authored-by: Chalma Maadaadi <chalma@alphora.com>
* added version to mdm golden resource tag (#4820)
Co-authored-by: Long Ma <long@smilecdr.com>
* Update the changelog for 4697 to be more descriptive (#4827)
* Update the changelog for 4697 to be more descriptive
* Futher tweaks of the changelog
* Fixes a bug with tags. (#4813)
* Test, fix
* Drop constraint, add migration
* Add changelog
* Fix userSelected null vs false
* Fix merge
* Fix up checkstyle whining
* One more failure
* Fix test
* wip
* changelog clarity
Co-authored-by: James Agnew <jamesagnew@gmail.com>
* change index
---------
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
Co-authored-by: James Agnew <jamesagnew@gmail.com>
* fix migration issue (#4830)
Co-authored-by: Ken Stevens <ken@smilecdr.com>
* Create correct version enum
* Remove superfluous migration
* fixing test (#4835)
Co-authored-by: leif stawnyczy <leifstawnyczy@leifs-MacBook-Pro.local>
---------
Co-authored-by: Ken Stevens <khstevens@gmail.com>
Co-authored-by: Ken Stevens <ken@smilecdr.com>
Co-authored-by: James Agnew <jamesagnew@gmail.com>
Co-authored-by: Brenin Rhodes <brenin@alphora.com>
Co-authored-by: Jonathan Percival <jonathan.i.percival@gmail.com>
Co-authored-by: chalmarm <44471040+chalmarm@users.noreply.github.com>
Co-authored-by: Chalma Maadaadi <chalma@alphora.com>
Co-authored-by: longma1 <32119004+longma1@users.noreply.github.com>
Co-authored-by: Long Ma <long@smilecdr.com>
Co-authored-by: Michael Buckley <michaelabuckley@gmail.com>
Co-authored-by: TipzCM <leif.stawnyczy@gmail.com>
Co-authored-by: leif stawnyczy <leifstawnyczy@leifs-MacBook-Pro.local>
Post review batch2 cleanup.
Review fixes and cleanup from #4647
Deleted methods in IJobPersistence unused in prod paths, and replaced their usage in tests.
Lots of docs.
Replace copy-on-write pattern in JobDefinitionRegistry with simple ConcurrentHashMap
Fixed bad mappings from job ERRORED state to external APIs. People think ERRORED is a failed state. ¯\_(ツ)_/¯
Added some spec tests for chunk purging
Deprecated ERRORED. For deleting in 6.8
Lots of plans for 6.8. Too risky for 6.6
* enabled test
* added explanations to disabled tests
* added explanations to disabled tests
* yay enabled another one
* yay enabled another one
* testEverythingWithLargeSet2 failing intermittently
* fix intermittent regression introduced by splitting test class
* test passes
* need to document
* updated documentation
* prereview cleanup
* change log
* cleanup
* cleanup
* added breaking changes
* update changelog and breaking changes upgrade document to reverse the change to always return 200 per the spec.
* back out documentation change
* update documentation
* fix tests
* dstu2
* dstu3
* fix r4 validation warning test
* changelog
* hapi-fhir version bump to 6.5.10-SNAPSHOT
* fix cdr test
* fix tests
* remove accidental commit
---------
Co-authored-by: Ken Stevens <ken@smilecdr.com>
* Initial commit adding support for partition awareness to Bulk Export.
* Additional cleanup and remove references in tests to "all partitions".
* Additional cleanup and remove references in tests to "all partitions".
* More cleanup, test fixes and additional checking to validate partition accesses.
* Additional changes to ensure checking of partition during polling operations.
* Add change log.
* More cleanup.
* Change recommended in code review.
---------
Co-authored-by: ianmarshall <ian@simpatico.ai>
* changes for GL-4023
* changes for GL-4023
* changes for GL-4023
* changes for GL-4023
* changes for GL-4023
* changes for GL-4023
---------
Co-authored-by: isaacwen <isaac.wen@smilecdr.com>
* One more fix for #4467
* Enabling massIngestionMode causes incomplete resource deletion (#4476)
* Adding initial test.
* Adding fix and subsequent test.
* Adding changelog.
---------
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* Provide the capability to request that the name of the subscription matching channel be unqualified (#4464)
* Adding initial test.
* Adding initial solution implementation.
* Adding change log and code clean up.
* addressing comments from 1st code review.
---------
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* Change visibility of migration method (#4471)
* change migration visibility
* add empty migration method for 640
---------
Co-authored-by: nathaniel.doef <nathaniel.doef@smilecdr.com>
* Fix subscription validation not to validate partition ID when invoked from an update pointcut (#4484)
* First commit: Make SubscriptionValidatingInterceptor aware of which Pointcut is being called. In validatePermissions(), skip determinePartition() if the Pointcut is STORAGE_PRESTORAGE_RESOURCE_UPDATED. Fix resulting compile errors in various unit tests.
* Fix/enhance unit tests. Mark methods as deprecated instead of deleting them. Add proper error code. Complete changelog.
* Remove erroneous TODOs and tweak the validation logic.
* Enhance unit tests and fix changelog.
* Reindex batch job fails when processing deleted resources. (#4482)
* adding changelog.
* Providing solution and adding changelog.
* Adding new test.
---------
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* cleaning up checkstyle files (#4470)
* cleaning up checkstyle files
* One more fix for #4467 (#4469)
* added exlusions for files at base project level so checkstyle doesn't error out
* duplicate error code from merge
* changing lifecycle goal for all module checkstyle check
* moving checkstyle to base pom file, changing exectution phase on base check, cleaning dependency, resolving duplicate error code
* wip
* trying to figure out why pipeline cannot copy files
* removing modules that don't actually need to be built.
* I messed up the version
---------
Co-authored-by: James Agnew <jamesagnew@gmail.com>
* Bump core to 5.6.881 (#4496)
* Bump core to 5.6.881-SNAPSHOT
* Work on fixing tests
* Work on fixing tests 2
* Bump to core release
---------
Co-authored-by: dotasek <david.otasek@smilecdr.com>
* Issue 4486 mdm inconsistent possible match score values (#4487)
* Extract method for readability
* Save always normalized score values in POSSIBLE_MATCH links.
* Avoid setting properties to null values. Adjust test.
* Simplify fix
* Fix test. Add RangeTestHelper.
---------
Co-authored-by: juan.marchionatto <juan.marchionatto@smilecdr.com>
* Revert "cleaning up checkstyle files (#4470)"
This reverts commit efae3b5d5f.
* core version fix
* Loosen rules for id helper
* License
* fix batch2 reduction step (#4499)
* fix bug where FINALIZE jobs are not cancellable
* moved reduction step to message hander
* moving reduction step to queue
* addingchangelog
* cleaning up
* review fixes
* review fix'
---------
Co-authored-by: leif stawnyczy <leifstawnyczy@leifs-mbp.home>
* Scheduled batch 2 bulk export job and binary delete (#4492)
* First commit: Scheduled batch 2 bulk export job delete and binary, incomplete mock-based unit test, and a mess of TODOs and code that needs to be deleted.
* Refine solution and add a concrete unit test but still work to do.
* Comment out code in cancelAndPurgeAllJobs() and see if it breaks the pipeline.
* Unit tests complete. New Msg code for new IJobPersistence.fetchInstances() method. Cleanup TODOs and add others.
* Finish final touches on implementation.
* Add changelog.
* Various cleanup.
* Code review feedback.
* Small tweak to changelog.
* Last code review tweak.
* Address more code review comments.
* Reverse changes to consider work chunks. Add a constant for write-to-binary.
* Change bulk import test for valueUri type (#4503)
* change tests
* suggested test change
* CVE resolutions (#4513)
* Bump Postgres for CVE
* Bump jetty
* Verison bump
* Remove comments
* Revrt bump
* Add check in scanner (#4518)
* 4516 create hapi fhir cli command to clear stale lock entries (#4517)
* Initial implementation
* better tests
* Add changelog and docs
* Forgotten files
* Code review comments
* Fix checkstyle
* Unable to Expunge CodeSystem (#4507)
* changes for GL-3943
* changes for GL-3943
---------
Co-authored-by: isaacwen <isaac.wen@smilecdr.com>
* New line::
* Update to documentation regarding narrative generation; (#4521)
Providing changelog;
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* changed what score is set for mdmlinks that created new golden resource (#4514)
* changed what score is set for mdmlinks that created new golden resource
* fix test
---------
Co-authored-by: Long Ma <long@smilecdr.com>
* REVERT: change to operationoutcome.html
* trying to fix BulkDataExportTest testGroupBulkExportNotInGroup_DoesNo… (#4527)
* trying to fix BulkDataExportTest testGroupBulkExportNotInGroup_DoesNotShowUp
* added change log
---------
Co-authored-by: leif stawnyczy <leifstawnyczy@leifs-mbp.home>
* fix build (#4530)
* Making narrative_generation.md reference an html snippet (#4531)
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* fixed the issue of meta.source field inconsistently populated in subscription messages for different requests (#4524)
* fix + test
* minor fix
* Addressing suggestion
* Minor changes
* 4441 rel 6 4 bad references creation bug (#4519)
* adding a test
* fail in the case of ref enforce on type and on write and autocreate are all true
* update to code
* removing a line
* cleanup
* removing check on urn
* changing just to trigger a build
* adding a comment to the pom
* updating test for better information
---------
Co-authored-by: leif stawnyczy <leifstawnyczy@leifs-mbp.home>
* fixed channel import null pointer exception from null header (#4534)
* retryCount 0 on null header + test + changelog
* suggested changes
* Revert "fixed the issue of meta.source field inconsistently populated in subscription messages for different requests (#4524)" (#4535)
This reverts commit 53252b8d15.
* Better error handling for when channel type is not supported (#4538)
Co-authored-by: kylejule <kyle.jule@smilecdr.com>
* Avoid logging message payloads that contain sensitive data (#4537)
Don't log payloads - they may contain sensitive data.
* Bulk Export Bug With Many Resources and Low Max File Size (#4506)
* failing test
* fix + changelog
* tweak
* add method to IJobPersistence to use a Stream
* tweak
* tweak
* decrease test time
* clean up
* code review comments
* version bump
* Increase timeout limit to match BulkExportUseCaseTest
* shorten test
* maintenance pass
* add logging
* Revert "add logging"
This reverts commit b0453fd953.
* Revert "maintenance pass"
This reverts commit bbc7418d51.
* test
* trying to fix BulkDataExportTest testGroupBulkExportNotInGroup_DoesNotShowUp
* shorten tests
* logging
* move test location
* fixes a regression caused my change in hapi-fhir
* timeout
* Revert "fixes a regression caused my change in hapi-fhir"
This reverts commit 4b58013149.
* testing
* Revert "testing"
This reverts commit aafc95c2f3.
---------
Co-authored-by: leif stawnyczy <leifstawnyczy@leifs-mbp.home>
* bump ver
* License updates'
* Downgrade dep'
* Updating version to: 6.4.1 post release.
* Add javadocs and sources to our serviceloaders
* Reset version
* Change parent
* Remove bumped version
* License fixes, new parent
* Updating version to: 6.4.1 post release.
* Fix bad creation of versionenum
* Improve performance on bulk export
* Add changelog
* Start working on cleaned up reducer
* Clean up batch calls
* Work on issues
* Build fixes
* typedbundleprovider getallresources override (#4552)
* typedbundleprovider getallresources override
* added test to immunization tests that validates pagination does not result in null pointer if over default queryCount
* moved HapiFhirDal test to its own test class
* removed unused imports
* Update to use JpaStorageSettings
* adding changelog for issue 4551
* fix changelog spacing
* changelog type to fix
---------
Co-authored-by: justin.mckelvy <justin.mckelvy@smilecdr.com>
Co-authored-by: Jonathan Percival <jonathan.i.percival@gmail.com>
* Add backport info
* Upgrade core to 5.6.97, make adjustments in hapi-fhir, and ensure that all tests pass (#4579)
* First commit: Create new branch from the release branch with changes from James' branch. This probably won't compile as the work is incomplete.
* Second round of changes from integrating James' branch.
* Mark most test failures with TODOs.
* Add whitespace
* Add changes to FhirPathR4 to set FHIRPathEngine to non-strict FP evaluation.
* Fix CreatePackageCommandTest to assert null instead of empty string. Comments on tests that fail due to the double-quote encoding problem.
* Downgrade to core 5.6.97.
* Fix another test and remove TODOs.
* Fix changelog.
* Clean up some erroneous changes and TODOs.
---------
Co-authored-by: Tadgh <garygrantgraham@gmail.com>
* Fix up dal test
* Address leftover code review feedback from the upgrade to core 5.6.97. (#4585)
* Exclude pinned core deps
* Force pin structs
* Add model changes to IBaseCoding and related changes (#4587)
* Add IbaseCoding changes, and tinder changes
* Fix up tag definition
* converter addition
* Fix unit test and add changelog.
* Add jira to changelog.
---------
Co-authored-by: Tadgh <garygrantgraham@gmail.com>
* Fix changelog
* Tidy metadata
* Test fixing
* Test fixes
* Work on progress
* Add changelog
* Build tweak
* Fixes
* Disable intermittently failing tests. (#4593)
* rename tests to IT
* Disable more intermittently failing tests (#4595)
* Disable more intermittently failing tests.
* Disable another intermittently failing tests.
* ITify
* Disable yet another intermittently failing tests. (#4596)
* disable
* disables
* Fixes
* disables
* Fix compile
* Test fixes
* Updating version to: 6.4.2 post release.
* Bump to 6.4.2-SNAPSHOT
* Fix compile
* fix version
* Address review comments
* Review comments
* Version bump
* Compile fix
* Test fixes
* Compile fixes
* One more compile fix
* Test fixes
* Version bump
* Resolve fixme
---------
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: nathaniel.doef <nathaniel.doef@smilecdr.com>
Co-authored-by: Luke deGruchy <luke.degruchy@smilecdr.com>
Co-authored-by: Mark Iantorno <markiantorno@gmail.com>
Co-authored-by: dotasek <dotasek.dev@gmail.com>
Co-authored-by: dotasek <david.otasek@smilecdr.com>
Co-authored-by: jmarchionatto <60409882+jmarchionatto@users.noreply.github.com>
Co-authored-by: juan.marchionatto <juan.marchionatto@smilecdr.com>
Co-authored-by: Tadgh <garygrantgraham@gmail.com>
Co-authored-by: TipzCM <leif.stawnyczy@gmail.com>
Co-authored-by: leif stawnyczy <leifstawnyczy@leifs-mbp.home>
Co-authored-by: samguntersmilecdr <123124187+samguntersmilecdr@users.noreply.github.com>
Co-authored-by: Isaac Wen <76772867+isaacwen@users.noreply.github.com>
Co-authored-by: isaacwen <isaac.wen@smilecdr.com>
Co-authored-by: longma1 <32119004+longma1@users.noreply.github.com>
Co-authored-by: Long Ma <long@smilecdr.com>
Co-authored-by: Qingyixia <106992634+Qingyixia@users.noreply.github.com>
Co-authored-by: KGJ-software <39975592+KGJ-software@users.noreply.github.com>
Co-authored-by: kylejule <kyle.jule@smilecdr.com>
Co-authored-by: michaelabuckley <michaelabuckley@gmail.com>
Co-authored-by: Justin McKelvy <60718638+Capt-Mac@users.noreply.github.com>
Co-authored-by: justin.mckelvy <justin.mckelvy@smilecdr.com>
Co-authored-by: Jonathan Percival <jonathan.i.percival@gmail.com>
* One more fix for #4467
* Enabling massIngestionMode causes incomplete resource deletion (#4476)
* Adding initial test.
* Adding fix and subsequent test.
* Adding changelog.
---------
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* Provide the capability to request that the name of the subscription matching channel be unqualified (#4464)
* Adding initial test.
* Adding initial solution implementation.
* Adding change log and code clean up.
* addressing comments from 1st code review.
---------
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* Change visibility of migration method (#4471)
* change migration visibility
* add empty migration method for 640
---------
Co-authored-by: nathaniel.doef <nathaniel.doef@smilecdr.com>
* Fix subscription validation not to validate partition ID when invoked from an update pointcut (#4484)
* First commit: Make SubscriptionValidatingInterceptor aware of which Pointcut is being called. In validatePermissions(), skip determinePartition() if the Pointcut is STORAGE_PRESTORAGE_RESOURCE_UPDATED. Fix resulting compile errors in various unit tests.
* Fix/enhance unit tests. Mark methods as deprecated instead of deleting them. Add proper error code. Complete changelog.
* Remove erroneous TODOs and tweak the validation logic.
* Enhance unit tests and fix changelog.
* Reindex batch job fails when processing deleted resources. (#4482)
* adding changelog.
* Providing solution and adding changelog.
* Adding new test.
---------
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* cleaning up checkstyle files (#4470)
* cleaning up checkstyle files
* One more fix for #4467 (#4469)
* added exlusions for files at base project level so checkstyle doesn't error out
* duplicate error code from merge
* changing lifecycle goal for all module checkstyle check
* moving checkstyle to base pom file, changing exectution phase on base check, cleaning dependency, resolving duplicate error code
* wip
* trying to figure out why pipeline cannot copy files
* removing modules that don't actually need to be built.
* I messed up the version
---------
Co-authored-by: James Agnew <jamesagnew@gmail.com>
* Bump core to 5.6.881 (#4496)
* Bump core to 5.6.881-SNAPSHOT
* Work on fixing tests
* Work on fixing tests 2
* Bump to core release
---------
Co-authored-by: dotasek <david.otasek@smilecdr.com>
* Issue 4486 mdm inconsistent possible match score values (#4487)
* Extract method for readability
* Save always normalized score values in POSSIBLE_MATCH links.
* Avoid setting properties to null values. Adjust test.
* Simplify fix
* Fix test. Add RangeTestHelper.
---------
Co-authored-by: juan.marchionatto <juan.marchionatto@smilecdr.com>
* Revert "cleaning up checkstyle files (#4470)"
This reverts commit efae3b5d5f.
* core version fix
* Loosen rules for id helper
* License
* fix batch2 reduction step (#4499)
* fix bug where FINALIZE jobs are not cancellable
* moved reduction step to message hander
* moving reduction step to queue
* addingchangelog
* cleaning up
* review fixes
* review fix'
---------
Co-authored-by: leif stawnyczy <leifstawnyczy@leifs-mbp.home>
* Scheduled batch 2 bulk export job and binary delete (#4492)
* First commit: Scheduled batch 2 bulk export job delete and binary, incomplete mock-based unit test, and a mess of TODOs and code that needs to be deleted.
* Refine solution and add a concrete unit test but still work to do.
* Comment out code in cancelAndPurgeAllJobs() and see if it breaks the pipeline.
* Unit tests complete. New Msg code for new IJobPersistence.fetchInstances() method. Cleanup TODOs and add others.
* Finish final touches on implementation.
* Add changelog.
* Various cleanup.
* Code review feedback.
* Small tweak to changelog.
* Last code review tweak.
* Address more code review comments.
* Reverse changes to consider work chunks. Add a constant for write-to-binary.
* Change bulk import test for valueUri type (#4503)
* change tests
* suggested test change
* CVE resolutions (#4513)
* Bump Postgres for CVE
* Bump jetty
* Verison bump
* Remove comments
* Revrt bump
* Add check in scanner (#4518)
* 4516 create hapi fhir cli command to clear stale lock entries (#4517)
* Initial implementation
* better tests
* Add changelog and docs
* Forgotten files
* Code review comments
* Fix checkstyle
* Unable to Expunge CodeSystem (#4507)
* changes for GL-3943
* changes for GL-3943
---------
Co-authored-by: isaacwen <isaac.wen@smilecdr.com>
* New line::
* Update to documentation regarding narrative generation; (#4521)
Providing changelog;
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* changed what score is set for mdmlinks that created new golden resource (#4514)
* changed what score is set for mdmlinks that created new golden resource
* fix test
---------
Co-authored-by: Long Ma <long@smilecdr.com>
* REVERT: change to operationoutcome.html
* trying to fix BulkDataExportTest testGroupBulkExportNotInGroup_DoesNo… (#4527)
* trying to fix BulkDataExportTest testGroupBulkExportNotInGroup_DoesNotShowUp
* added change log
---------
Co-authored-by: leif stawnyczy <leifstawnyczy@leifs-mbp.home>
* fix build (#4530)
* Making narrative_generation.md reference an html snippet (#4531)
Co-authored-by: peartree <etienne.poirier@smilecdr.com>
* fixed the issue of meta.source field inconsistently populated in subscription messages for different requests (#4524)
* fix + test
* minor fix
* Addressing suggestion
* Minor changes
* 4441 rel 6 4 bad references creation bug (#4519)
* adding a test
* fail in the case of ref enforce on type and on write and autocreate are all true
* update to code
* removing a line
* cleanup
* removing check on urn
* changing just to trigger a build
* adding a comment to the pom
* updating test for better information
---------
Co-authored-by: leif stawnyczy <leifstawnyczy@leifs-mbp.home>
* fixed channel import null pointer exception from null header (#4534)
* retryCount 0 on null header + test + changelog
* suggested changes
* Revert "fixed the issue of meta.source field inconsistently populated in subscription messages for different requests (#4524)" (#4535)
This reverts commit 53252b8d15.
* Better error handling for when channel type is not supported (#4538)
Co-authored-by: kylejule <kyle.jule@smilecdr.com>
* Avoid logging message payloads that contain sensitive data (#4537)
Don't log payloads - they may contain sensitive data.
* Bulk Export Bug With Many Resources and Low Max File Size (#4506)
* failing test
* fix + changelog
* tweak
* add method to IJobPersistence to use a Stream
* tweak
* tweak
* decrease test time
* clean up
* code review comments
* version bump
* Increase timeout limit to match BulkExportUseCaseTest
* shorten test
* maintenance pass
* add logging
* Revert "add logging"
This reverts commit b0453fd953.
* Revert "maintenance pass"
This reverts commit bbc7418d51.
* test
* trying to fix BulkDataExportTest testGroupBulkExportNotInGroup_DoesNotShowUp
* shorten tests
* logging
* move test location
* fixes a regression caused my change in hapi-fhir
* timeout
* Revert "fixes a regression caused my change in hapi-fhir"
This reverts commit 4b58013149.
* testing
* Revert "testing"
This reverts commit aafc95c2f3.
---------
Co-authored-by: leif stawnyczy <leifstawnyczy@leifs-mbp.home>
* bump ver
* License updates'
* Remove checkstyle
* Verison bump
* Move migrations
* semicolon
---------
Co-authored-by: James Agnew <jamesagnew@gmail.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: nathaniel.doef <nathaniel.doef@smilecdr.com>
Co-authored-by: Luke deGruchy <luke.degruchy@smilecdr.com>
Co-authored-by: Mark Iantorno <markiantorno@gmail.com>
Co-authored-by: dotasek <dotasek.dev@gmail.com>
Co-authored-by: dotasek <david.otasek@smilecdr.com>
Co-authored-by: jmarchionatto <60409882+jmarchionatto@users.noreply.github.com>
Co-authored-by: juan.marchionatto <juan.marchionatto@smilecdr.com>
Co-authored-by: Tadgh <garygrantgraham@gmail.com>
Co-authored-by: TipzCM <leif.stawnyczy@gmail.com>
Co-authored-by: leif stawnyczy <leifstawnyczy@leifs-mbp.home>
Co-authored-by: samguntersmilecdr <123124187+samguntersmilecdr@users.noreply.github.com>
Co-authored-by: Isaac Wen <76772867+isaacwen@users.noreply.github.com>
Co-authored-by: isaacwen <isaac.wen@smilecdr.com>
Co-authored-by: longma1 <32119004+longma1@users.noreply.github.com>
Co-authored-by: Long Ma <long@smilecdr.com>
Co-authored-by: Qingyixia <106992634+Qingyixia@users.noreply.github.com>
Co-authored-by: KGJ-software <39975592+KGJ-software@users.noreply.github.com>
Co-authored-by: kylejule <kyle.jule@smilecdr.com>
Co-authored-by: michaelabuckley <michaelabuckley@gmail.com>
Co-authored-by: Ken Stevens <ken@smilecdr.com>
* cleaning up checkstyle files
* added exlusions for files at base project level so checkstyle doesn't error out
* duplicate error code from merge
* One more fix for #4467
* changing lifecycle goal for all module checkstyle check
* moving checkstyle to base pom file, changing exectution phase on base check, cleaning dependency, resolving duplicate error code
* wip
* trying to figure out why pipeline cannot copy files
* removing modules that don't actually need to be built.
* I messed up the version
* missing model
---------
Co-authored-by: James Agnew <jamesagnew@gmail.com>
Tadgh
Ken Stevens
TipzCM
longma1
Luke deGruchy
Etienne Poirier
James Agnew
Martha Mitran
TynerGjs
StevenXLi
michaelabuckley
IanMMarshall
Isaac Wen
Mark Iantorno