EDIT

remove generic references from result for inReference selection

cleanup

fixing wrong boolean operator combination for Restrictions with operator AND_NOT

ref #7755: provide all data for specimen pages

ref #7932 first implementation of PreferenceResolver and some adaption to PreferenceService API.

• Correct handling of subtree subjects still open.
• Also creation of user defined subjects still open.

cleanup

ref #7887 Refactor TermDto usage

ref #7887 Remove getParent()

ref #7887 Implement term service methods based on DTOs

ref #7829, ref #7800 improve nom. ref. matcher (also changes the result type => needs adaptation in client Apps)

revert: Add series parsing with letters (test) - all unwanted commits

Add series parsing with letters (test)

ref #7831 using uuids in findTaxonNameParts() methods as name exclude filter

ref #7791 adding rank order index to TaxonGraphNodeDTO

fix #7834 findInTaxonGraph implemented for Registrations with RegistrationDTOController endpoint

ref #7831 adding name exlude filter to TaxonNamePartsFilter

ref #7648 fixing bugs related to single taxa per graph and updating rels from lower ranks, with testcase

cleanup

ref #7648 moving TaxonGraphHibernateListener and related classes into cdmlib-service

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 #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 fixing inconsistency in test data and improving logging

ref #7791 using name.titleCache as title for TaxonGraphNodeDTO

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

ref #7648 initial implementation of TaxonGraphService with tests and TaxonGraphObserver

minor issue with return type of listToTaxonRelationships() fixed

ref #7783 TaxonNamePart with uuid & assuring registrations have an identifier when saved

ref #7745 childNodesOf implemented

cleanup

ref #7745 fix bug in queries with subtree, some first test and cleanup

ref #7745 fix syntax for node.treeindex in query

ref #7745 subtree filter to taxon search (add missing parameter for queries)

ref #7745 add subtree filter to taxon search (not yet tested for subtree != null)

fix #7756 allowig direction to be null again

ref #7745 implement subtree filter for ClassificationController.rankSpecificRootNotes and .childNodes

ref #7664 adapt return type for many methods with defined typification

ref #6682 try to fix failing query in TaxonDao

ref #6682 try to fix failing query in TaxonDao

ref #6682 add types and deduplicateMisapplications parameter to web service

Merge branch 'develop' into feature/specimenPortal

ref #7590 fixing join types for restriction operations

ref #7590 documentation

ref #7590 implementing AND and OR operator for restrictions and harmonizing code

first implementation for specimen page with DTOs

adding new SpecimenOrObservationType and smaller changes

fix #7527 making page by parameter with criteria and restrictions available in the service layer

renaming variable

cleanup

ref #7530 3 families and dianthus import (WFO Access Import)

cleanup

ref #7525 ref #7523 allowing to use Restriction as exclude filter

ref #7525 restoring all previously removed Criteria methods

Revert "ref #7527 renaming CdmEntityDaoBase.ByParam methods"

This reverts commit 13ec97dbc071864563698e422a15ad725e28a55b.

ref #7527 renaming CdmEntityDaoBase.ByParam methods

fix #7525 replacing Criteria lists by cdm Restrictions in CdmEntityDaoBase.*ByTitle() methods

cleanup

cleanup

cleanup

cleanup

remove harmonization candidates in TaxonDao and NameService

cleanup

ref #7478 simplify taxon hql search code

cleanup

ref #7478 some cleanup and renaming for taxon hql search

ref #7478 fix pro parte synonym search in taxon hql search (still untested)

cleanup

cleanup

ref #3560 fix includeUnpublished for taxon relationships and correct includePublished->includeUnpublished

use long instead of int (cont.)

use long instead of int (cont.)

use long instead of int (cont.)

use long instead of int in some of the count methods, use base methods for pageSize/number and order for criteria and queries, cleanup

cleanup

ref #3560 add includeUnpublished for taxon relationships

cleanup and remove rows(xxx) method

fix #7467 taxon name parts lookup method with support for wildcard searches, TaxonNameParts and filter

fix in getUuidAndTitleCache

cleanup

ref #3560 implement publish in taxon service by name search

ref #3560 tests for unpublished listRankSpecificRootNodes

ref #3560 implement unpublished for listSiblings in service and remote (no tests yet)

ref #3560 implement unpublished for rankSpecificRootNode in service and remote (no tests yet)

ref #3560 implement unpublished for load and find in service layer

ref #3560 use global "unpublished" constant

cleanup

cleanup

ref #3560 implement publish filter for ClassificationDao.listChildrenOf and .countChildrenOf

cleanup