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* 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 <[email protected]> * 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 <[email protected]> * 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 <[email protected]> * simple fix (#5630) Co-authored-by: Long Ma <[email protected]> * 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 <[email protected]> * Code review feedback. --------- Co-authored-by: Michael Buckley <[email protected]> * 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 <[email protected]> * 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 <[email protected]> * 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) * Bump json-path * Pin parrson * Bump elastic * Bump spring version * Exclude JDBC * 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 * Revert change to other safe version to stop problem with deprecated field * 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 46c672b. * 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 <[email protected]> Co-authored-by: James Agnew <[email protected]> * pom bump, doc add, version enum add (#5616) Co-authored-by: Long Ma <[email protected]> * fix default partition setting on resource (#5618) * fix default partition setting on resource * Handle DEFAULT partition in rule checker. Co-authored-by: Ken Stevens <[email protected]> * 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 <[email protected]> * 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 <[email protected]> Co-authored-by: Ken Stevens <[email protected]> Co-authored-by: Michael Buckley <[email protected]> Co-authored-by: James Agnew <[email protected]> Co-authored-by: longma1 <[email protected]> Co-authored-by: Long Ma <[email protected]> Co-authored-by: jmarchionatto <[email protected]> Co-authored-by: juan.marchionatto <[email protected]> * $poll-export-status operation with PatientIdPartitionInterceptor fails with NullPointerException (#5681) * Fix NullPointerException when performing a system bulk export in the presence of PatientIdPartitionInterceptor. * Fix NPE on -export-status operation with PatientIdPartitionInterceptor * 5654 measurescorer bug for denominator exception (#5677) * update measure bundles and tests for enforced populationId specification on Measure group resources * bump CR version to PRE17 * fix bug in versionEnumTest * Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/changelog/7_0_0/5654-measurescorer-bug.yaml Co-authored-by: Tadgh <[email protected]> --------- Co-authored-by: Tadgh <[email protected]> * Revert Remote Terminology lookup operation to support all types of CodeSystem property and convert to them to string type. (#5698) * Revert Remote Terminology lookup operation to support all types of CodeSystem property and convert to them to string type. * Spotless fix * Address code review comments * version bump to 7.0.0 * pipeline fix * Update java home * Updating version to: 7.0.1 post release. * post mergeback cleanup * bump clinical-reasoning.version to pre17 * test fix * version bump to 7.1.5-snapshot --------- Co-authored-by: Long Ma <[email protected]> Co-authored-by: Tadgh <[email protected]> Co-authored-by: Etienne Poirier <[email protected]> Co-authored-by: peartree <[email protected]> Co-authored-by: Nathan Doef <[email protected]> Co-authored-by: volodymyr-korzh <[email protected]> Co-authored-by: Luke deGruchy <[email protected]> Co-authored-by: Michael Buckley <[email protected]> Co-authored-by: Martha Mitran <[email protected]> Co-authored-by: JP <[email protected]> Co-authored-by: Justin McKelvy <[email protected]> Co-authored-by: jmarchionatto <[email protected]> Co-authored-by: juan.marchionatto <[email protected]> Co-authored-by: Ole Hedegaard <[email protected]> Co-authored-by: Ken Stevens <[email protected]> Co-authored-by: James Agnew <[email protected]> Co-authored-by: markiantorno <[email protected]>
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