EDIT

first version of abbreviated title cache generation for references : #1551

implement tree index update

minor

Update script for termtype and some other, remove InstitutionType and COntinent, update idInVocabulary, ...

merge trunk to cdm-3.3 branch

VocabularyServiceImpl.java, TermVocabularyDaoImpl.java, IVocabularyService.java, ITermVocabularyDao.java : added method (findByTermType) to find all vocabularies related to a particular term type.
TermType.java : Added method (getEmptyDefinedTermBase) to return DefinedTermBase object corresponding to the (this) TermType....

Rename RightsTerm -> RightsType #1306

implement sortIndex for TaxonNode and remove usedSynonym from addChildNode methods (#3508)

rename FieldObservation -> FieldUnit #3351

adding recordBasis to SpecimenOrObservationBase and removing some DerivedUnit classes (all #3378) and adding kindOfUnit to SpecimenOrObservationBase (except for according termType and vocabulary) #3568.

implementing missing countDescriptionElementForTaxon method and fixing pager

enhanced filter capabilities for DescriptionElements & a TermBaseListPropertyEditor

exchange modifier classes by DefinedTerm, add termtype to csv files, make term loader required constructor private

fix handling of iso639_2 (add vocabulary check)

remove TdwgArea and add termType and idInVocabulary (#2998, #3478, #3479, #3539) in persistence

Merge trunk into CDM 3.3

workaround for the fact that hql is not able to parse boolean literals in the select list clause.

Improvements to TransmissionEngineDistribution, basic monitoring added and new service and dao methods for pageRankSpecificRootNodes()

adding missing @Override

upgrade some spring.hibernate3 dependencies to spring.hibernate4 and deprecate AlternativeSpellingSuggesionParser

bugfix für list type

merge trunk and bugfix linkbackuri jaxb

adding missing @Override and removing absolte casts

explicitely ordering taxa for test ReferenceDaoHibernateImplTest.testListCoveredTaxa()

preliminar solution for handling and setting the lucene version

solving lazy loading exception

Hibernate 4 migration. All test running except for SDDImport (Out of memory)

TaxonNodeServiceImpl : added clearing of relation sets
TaxonDaoHibernateImpl : added 'isOrphaned' field to hql query for building UuidAndTitleCache objects

calls to loadRankSpecificRootNodes() in tests and other classes adapted

loadRankSpecificRootNodes() extended, according test enabled and extended

avoiding sql exception

fixing MediaAutoInitializer & fixing bug in AbstractBeanInitializer

implementing full stack from IEventBaseDao to EventBaseController

fixing #3224 (specimens: Collect Specimens and Observations (+ Facts) via taxon relations.)

fixing bug in getTaxonRelationships() for case directions = null

controller method for listByAssociatedTaxon(); default OrderHints; method harmonization in DAO classes

renaming listByAllAssociations() to listByAssociatedTaxon()

service for #3234 (implement cdm service method to collect SpecimensAndObservations via taxon)

i put a distinct in the hibernate query of the getAllNomenclaturalReferences(). because the return list held doubles.

just added the files of my statistics1 branche manually because reintegration failed

bugfix for countTaxonDescriptionMedia

add methods for list/countTaxonDescriptionMedia

new load(int id, List propertyPaths); method

adding method to find taxa by a list of given uuids

AT: committing CDMLIB to Branch post Merge

AT: committing latest changes to the CDMLib to try and fix issues with the function findByTitle

AT: change to fix a lazy initialization problem

Implementations of functions which,

• find taxon names by title/uuid
• find taxons by uuid

AT: committing latest changes to the CDMLib during first round of Code review

AT: committing Palm extension changes to the CDM Libraries

merging revisions 14601:14603, 14653:14683 from branches/cdmlib/vibrant-index into trunk (contains: IdentifyableListController, jsonp support for REST service)

discussion

harmonizing method names

bugfix for taxonDao.getAllRelationships

re-integrating branch cdmlib/3.x-unitils-upgrade

ready to be reintegrated into trunk

getAllRelationships reimplemented to match only relevant relationship classes,
Export generics include Transformer type

change logging levels for find zoologicalName

move inferred synonyms to service layer

Merging r13268 through r14040 from trunk/cdmlib into branches/cdmlib-unitils3

h2 as test alternative database & potentially fixing #2100 (Fix tests not running in suite)

fixing again the search for misapplied names. adapting the tests

Ticket #2648

fix for #2648

fixing bug in bugfix for #2648, also fixing tests

fixing bug in #2648: search for misapplied names implemented

bugfix (#2648)

test to reproduce bug in misapplied name search

fixing bug associated with getTaxaByCommonName(); benchmarking taxa by common name hql vs lucene

hibernate fulltext search & refactoring getTaxaByName*() method headers

countTaxaByName harmonized with find method (replace Class <? extends TaxonBase> parameter with boolean parameters for synonyms, taxa and misapplied names)

changes for bugs and problems in search for misapplied names (#2648)

turning System.err into logger.debug

add includeEmpty vocs (#2704)

implement getTermVocabulariesByTermClasses also for subclasses (#2704)

harmonising whitespace tab->space

adapt the search to be able to find misapplied names: to include misapplied names use the new configurator attribute doIncludeMisappliedNames

related to #2664 (Specimen maps are not shown in cyprus dev portal) - now the occurrence map is colored

inverse relations now are showing up, fixing #2609 (Implement Concept Relationships for Dataportal)

implemented tests for marker scope on descriptions

add MarkerTypes to descriptionService scopes

minor

bugfix for getAllRelationships()

change return type for merge (#2654)

add override and javadoc to OccrrenceDaoHibernateImpl

minor

update taxon service (add some synonym delete functionality - still preliminary)

use real URI in getTermByUri

fixed jboss maven repository location

Remove eu.etaxonomy.cdm.persistence.dao.hibernate.name.TaxonNameDaoHibernateImpl.findByNameForEditor()

adding permission handling and writing a test for usermanagement

getTermByRepresentationAbbrev

minor

wrong import for EnumType

countByTitle() method for IIdentifiableService

added EnumType to the noDoTypes

fixing #2329 (Synonym types not shown in specimen tab)

removing parameters for WorkingSetService method

bugfix for DescriptionDaoImpl.getDescriptionElementForTaxon (missing implementation for features)

new implementation for Xper data fetching from persistence and some further changes to Xper