Merge branch 'release/5.4.0'
updating poms for branch'release/5.4.0' with non-snapshot versions
cleanup
ref #7283 fix NPE in AlternativeIdentifier constructor if no type is given
#7859 reverted max size for Pref.value. Test failed, need to check why we have the test.
#7859 Changed length to 2000. Still need update script
#7849 set allow override to true as default in cdmlib CdmPreference
ref #7831 using uuids in findTaxonNameParts() methods as name exclude filter - NPE fix
ref #7831 using uuids in findTaxonNameParts() methods as name exclude filter
ref #7791 adding rank order index to TaxonGraphNodeDTO
ref #7834 bugfix: returning empty page when no name matches
ref #7834 avoiding NPE in case of names which are not in the graph
fix #7779 fixing missing file extension in StaticSwaggerApiDoc controller
fix #7779 adapting the creation delivery of the static swagger doc to version 2.6.1
ref #7345: rename cdmPreference for common name marker
ref #7793: add preferencePredicate for disable multiple classifications
ref #7770 fixing layout issue and menu items active state and updating diffs
#7770 documenting springfox-swagger-ui update process
ref #7779 applying Cdm specific changes to springfox-ui: - preserving the modified index.hml as index-last.html - creatng diffs with the changes applied last time - applying cdm changes to springfox.js and index.html
ref #7779 upgrading springfox-swagger-ui to 2.6.1 and preserving the modified springfox.js as springfox-last.js
fix #7834 findInTaxonGraph implemented for Registrations with RegistrationDTOController endpoint
fix problems for taxEditor preferences
ref #7345: add preferencePredicate for commonname references
restructure preference predicates and add newTaxeditorInstance to cdmPreference
ref #7831 adding name exlude filter to TaxonNamePartsFilter
Add tax editor preferences utilities
ref #7648 fixing bugs related to single taxa per graph and updating rels from lower ranks, with testcase
ref #7791 adding CORS headers to TaxonGraphService method
ref #7829 ref #7800 remove nomenclaturallyRelevant from Reference matching as it is not used at all
ref #7800 add specific subclass matching to matching strategies
code cleaning
ref #7283: add service method to search for identifier and titleCache
ref #7589 Fix transactional annotations
ref #7589 Remove auto creation of default description
ref #7589 Move long running task to corresponding service
fix #7785 CdmUserHelper can use ICdmEntityUuidCacher to avoid loading entities from the db for permission checks: - inner class CachingCdmUserHelper to be used when CdmUserHelper.withCache() is called - ICdmEntityUuidCacher and CdmTransientEntityAndUuidCacher complements the CdmTransientEntityCacher by the ability to get CDM entities from the cache by the UUID
ref #7801 unify cache initialization in deduplicationHelper
ref #7799 compute author caches in deduplicationHelper
ref #7648 avoiding NPE during equality check in TaxonGraphBeforeTransactionCompleteProcess
ref #7648 adding links to the ticket as preliminary rudimentary documentation
ref #7709 fixing missing runAsAuthenticator for RunAsAdmin, TaxonGraphHibernateListener and test
ref #7709 adding missing @CdmHibernateListener config annotation to allow activating the TaxonGraphHibernateListener bean
ref #7709 adding REGISTRATION to ClearDBDataSet.xml to solve test problems
removing useless annotation
ref #7793: add preferencePredicates for taxeditor
ref #7709 JUnit testsuite to reproduce the test failure when running RegistrationIdentifierMinterTest and TaxonGraphHibernateListenerTest sequentially
Change system.out to log.info()
ref #7648 free configurable TaxonGraphHibernateListener ready
ref #7648 moving TaxonGraphHibernateListener and related classes into cdmlib-service
ref #7648 TaxonGraphHibernateListener as Spring bean configured via the CdmHibernateListenerConfiguration
fixing usage of wrong logger in RunAsAuthenticator
sanitizing contoller method doGetIncludedTaxa
ref #7793: preferencePredicate for mediaview and checklist perspective
ref #7799 handle initials for teamOrPerson.getFullTitle
ref #7799 handle protected titlecache for teamOrPerson.getFullTitle
add new preferencePredicates
commenting createTestDataSet() @Test annotation
ref #7648 automatic management of lower ranked names in the taxon graph
Merge branch 'feature/#7648' into develop - TaxonGraphDao - TaxonGraphController - TaxonGraphService - TaxonGraphDTO - TaxonGraphHibernateListener and processor - tests
ref #7648 fixing problems in TaxonGraphTest
ref #7791 TaxonGraphDao supressing Names associated with Registrations where the status is not PUBLISHED
ref #7648 moving taxongraph methods from taxonDao to taxonGraphDao
ref #7791 TaxonGraphNodeDTO with rank labels
ref #7648 more pulling up into AbstractHibernateTaxonGraphProcessor
ref #7648 common base class AbstractHibernateTaxonGraphProcessor to deduplicate TaxonGraph methods
ref #7648 allowing to set the TaxonGraphHibernateListener inactive - only for test environments
ref #7648 solving session corruption problems in test suite for TaxonGraphHibernateListenerTest
ref #7648 fixing inconsistency in test data and improving logging
ref #7791 using name.titleCache as title for TaxonGraphNodeDTO
adapt CdmPermissionClass
ref #7791 TaxonGraphService and TaxonGraphController implemented
ref #7648 correct handling existing taxa without secReference
ref #7648 introducing CdmPreferenceLookup for cached access to the CdmProperty with predicate 'TaxonGraphSecRefUuid' and others - using this Preference in TaxonGraphDaoHibernateImpl and TaxonGraphBeforeTransactionCompleteProcess - adapting tests accordingly...
ref #7648 cleaning up and attempting to fix TaxonGraphService test setup
ref #7648 all TaxonGraph updating done in a BeforeTransactionCompletionProcess implementation - TaxonGraphHibernateListener is working now
ref #7648 TaxonGraphService as dao and TaxonGraphObserver as TaxonGraphHibernateListener
ref #7648 TaxonGraphService complete with full set of tests
ref #7345: fix dao method to get entities with special marker and pattern in titleCache
ref #7345: add dao and service methods to get UuidAndTitleCache marked with a special markerType
avoiding NPE when relationship type = null
ref #2764 ref #3817 move negative endemism states down in order
ref #4822 use specific annotation type for distribution information
ref #2764 ref #3814 add endemic non and unknown status
ref #7648 initial implementation of TaxonGraphService with tests and TaxonGraphObserver
fix #7795 untilis xml DataSets can optionally be created without "[NULL]" values
minor issue with return type of listToTaxonRelationships() fixed
check for protected caches in cdmlight export
smaller changes in cdmlightexport
