EDIT

typo

#5909 revert unwanted commit

#5909 fix failing test

#5852 dao, service and controler for taxonNode sibling retrieval

#5536

refactoring taxonNode controllers - return dtos from the service layer, support for #5887

Simplify taxonDao

refactoring NodeSortMode

minor

add limit and pattern to the uuid and titlecache methods

add limit and pattern to getTaxonNodeUuidAndTitleCacheOfAcceptedTaxaByClassification

Further develop the CDM preferences #3958

Add generic find(clazz, uuid) method #5853

Cleanup

Show stable identifier in specimen page (if present) #5515

Remove generics from Reference in cdmlib (except for cdmlib-model) #5830

new method to get UuidAndTitleCache objects with nomenclatural
titleCache for teamOrPersonBase

fix polytomouskey delete, if root node is null

Add preferred stable URI to Derived Unit Facade #5765

fix delete of polytomous keys

Remove method agentsUsedAsUsers related to #5743

Clean up AnnotationDao and AnnotationService

small changes for moving taxonnodes

#5482 web services now support different orderBy modes

revert a small change in taxonservice

improve delete configurator for taxa and synonyms

Merge branch 'develop' of ssh://dev.e-taxonomy.eu/var/git/cdmlib into develop

smaller changes for fauna europaea import and csvNameExport

Fix order for areas #5677

Fix potential NPE

Reload type designation before deleting it to avoid caching conflicts.

Fix compilation error for Distribution comparator #5677

Implement natural ordering for distributions in data portal #5677

fix move taxonnode and remove null values from childrenlists in several places

Add IEventBaseService to application controller #5403

Add uuid based method for deleting type designations #5490

minor

minor

TaxonNodeByNameComparator is not a component anymore and add configurable delete method for media

fix move synonym to another accepted taxon

Refactor associated taxa assembly to include uuid #5611

workaround for delete of polytomous keynodes, because of null values in children list

removing all (almost all) spy6 references and dependencies

cosmetics

Fix et al. for collectors #5568

Adjust specimen delete configurator

• when isDeleteChildren is true then also molecular data will be deleted
• specimen descriptions will always be deleted

Add missing Transactional annotation to delete method

Fix CCE in DefinedTermDaoImpl.getPartOf (#5556) and make deproxy more
generic

Fix javassist error for specimen cache strategy loading #5545

Merge branch 'hotfix/3.12.3' into develop

Conflicts:
cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/TaxonNodeServiceImpl.java
cdmlib-services/src/test/java/eu/etaxonomy/cdm/api/service/TaxonServiceSearchTest.java

Implement preliminary Specimen cache strategy using facade cache
strategy

Revert last commit (taxon node handling is done in taxeditor)

Fix potential NPE when creating a new taxon for a classfication

minor

minor

cherry pick from develeop

new createNewTaxonNode service method

Fix specimen retrieval by assignment status

new createNewTaxonNode service method

Cleanup CdmTermCacher and CdmCacher

Use correct StringUtils class

Fix NPE in DistributionNodeByAreaLabelComparator

Add assignmentStatus as parameter to occurrence retrieval in service
method

Update dependencies to the latest versions (except for lucene) #4716

fixing problems regarding lucene search after merge - one test still failing

resolving conflicts after merge of ticket_4716 into develop

avoiding NPEs in pager

Cleanup description generics (related to #5357)

minor

add null check for delete and minor

organizing imports

#4716 reduicing clutter in the lucene index and solving performance problems which probably fixes #4277 and #3663

Generalize term service method listByTermType()

#4761 performance improvent of massindexer by using new hibernate 5 massindexer, speedup by 3x

#4761 performance improvent of massindexer by using new hibernate 5 massindexer, speedup by 3x

#4761 avoiding deprecations in highlighter api

#4761 updating means to obtain the IndexManager to new hibernate search api and extending according test

#4761 TopDocs adapting to removed IndexSearcher.setDefaultFieldSortScoring(boolean, boolean) method

#4761 TopDocs now supports maxScore, so TopGroupsWithMaxScore has become obsolete

#4761 correcting usage of new paramaters joinQuery parameters ScoreMode and multipleValuesPerDocument

#4761 fixing broken area filter join query, by circumventing a bug in lucene LUCENE-4824 (numeric fields not supported in join queries)

#4716 using BooelanQuery added with Occur.FILTER instead of deprecated search method

#4716 removing deprecated usage of new BooleanQuery, using BooleanQuery.Builder instead

index creation without errors, most lucene search test working again

• using TextField instead of StringField to enable tokenization for some fields
• @IndexedEmbedded(includeEmbeddedObjectId=true) added where necessary

Add uuid based method for getAllChildDerivatives()

Specified method signature as type designations are only available for
DerivedUnits

changes for #4960 and #4959

Add convenience service methods to occurrence service

#4716 IndexDocValue relates issues solved, indexing now without exceptions, most tests in TaxonServiceSearchTest successful

Add load method for uuid lists

Fix issues after rebase #4716

Fix compile issues after rebase #4716

Update to hibernate 5 for cdmlib-io #4716

migrate to hibernate 5 for cdmlib-services and cdmlib-ext #4716

• (except for hibernate search tests)
• including new spring-config structure

Upgrade to hibernate 5 with persistence tests running #4716

Fix all compile errors from services to remote (some only preliminary)
#4716

Remove MultCollector class #4716

The original is now available through lucene 4.10

Further adapt to new jackson and new lucene version #4716

Upgrade to spring 4.2.2, spring-security 4.0.2 and latest hibernate
validator #4716 and #4702

#4313 implementing full stack of methods to expose TaxonNodeAgentRelations via remote controllers

fix #5341 and fixing deletion of specimen