EDIT

attempt to reduce the overhead imposed by database access

#5852 dao, service and controler for taxonNode sibling retrieval

Simplify taxonDao

add limit and pattern to getTaxonNodeUuidAndTitleCacheOfAcceptedTaxaByClassification

organizing imports

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

#4313 relationship type as additinal filter option for TaxonNodeAgentRelation services

#4313 implementing full stack of methods to expose TaxonNodeAgentRelations throught the AgentController with filter options

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

fixing getUUIDAndTitleCache for Classification and excluding taxa

fixing broken pager mechanism for listRankSpecificRootNodes() and improving test coverage

moving UuidAndTitleCache from model to persistence. #4799

latest changes for findByIdentifier service

merge PresenceTerm and AbsenceTerm #4521

changes in service layer for fixes in bulg editor and search for misapplied names and common names in editor

fix #4450

adapted tcs rdf and xml import, using apache jena for rdf import
tcs import for caryophylales
minor

fixing #4273 (java.lang.ClassCastException in TaxonDaoHibernateImpl.countTaxaByCommonName() breaks taxon search) and most probably also other CommonName search related tickets

first development for the export filter

adapt the service method loadChildNodesOfTaxonNode
with param recursive choose whether you get only the children of the node or the children of the children ...

Changed limits to INTEGER, so it is possible to nullify these parameters if needed

*added service layer method: countAllNodesForClassification
*improved performance CSVDemoExport

*Update of the CSVExport WS.
*fixed memory leak
*new service method to pull list of TaxonNode according to a given classification

add service to get all nodes of a classification

performance improvement for listChildNodes of a taxon

fixing #4112 (portal/taxon/{uuid}/accepted/{uuid} takes exceedingly much time in specific cases) and #2595 (portal/taxon/{uuid}/accepted/{uuid} producing too big data objects) this also solves the according issue mentioned in #3336 (Improve overall dataportal page loading performance)

implementing dao method listAcceptedTaxaFor, for #4112

fixing #3797 (StaleStateException caused during taxonNodeService.makeTaxonNodeASynonymOfAnotherTaxonNode())

fixed problem with deletion of nodes.

moving all beaninitializer classes to new package 'eu.etaxonomy.cdm.persistence.dao.initializer'

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

calls to loadRankSpecificRootNodes() in tests and other classes adapted

fixing MediaAutoInitializer & fixing bug in AbstractBeanInitializer

adding method to find taxa by a list of given uuids

Implementations of functions which,

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

move inferred synonyms to service layer

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)

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

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

#1787, the UuidAndTitleCache.type is set

replace deprecated methods with new ones #2176

Improved uuidAndTitleCache methods of ITaxonService

merge 3.0.2 to trunk

sdd import matches descriptions to existing taxa

merging /branches/cdmlib/SPRINT-Chichorieae1/ to trunk

merging PESI brach into trunk

improving loadRankSpecificRootNodes

Refactored free text search to re-use the same code for all identifiable entities. Switched to StandardAnalyzer to include indexing of numbers. Removed redundant code from taxonDao.delete() method (as included entities deleted using hibernate's cascade method)

Refactored methods in VersionableDaoBase etc + added Query-By-Example for CdmEntityDaoBase

test for getTaxaByCommonName added

merged from branches/cdmlib/2.2 7238-7345 into trunk

moved taxonNode specific code to TaxonTreeService. Cleaned up the datasource classes

refactored UuidAndTitleCache methods

finetuning match mechanism

implemented a method that returns a map containing uuid and titleCache of all accepted taxa

dataportal release v2.0

new dao methods and cleaning up ITaxonDao

minor

Added methods concerning taxonomic tree to taxon service.

minimum base web services for CDM Portal v2.0

TaxonomicTree implementation (persistence)

Merged search changes from 2.0

Updated a couple of methods to be more in line with generic dao method pattern

Refactored ISearchableDao to make it more generic, then added it and implementations to daos for Agents, References and Media

Lots of changes, including,
adding List orderHints, List propertyPaths to dao methods
New MarkerDao & impl
Expanded test coverage of beanintialization and cache strategy generator configuration

additional DAO methods for new REST service & bug fixes e.g. in AbstractBeanInitializer

configurable bean initialization methods

Merged branches/cdmlib/2.0 changes r5130:5370 into the trunk

Minor problems discovered whilst refactoring CATE:
Corrections to User / Group / Authority impl
Changes due to upgrade of hibernate-search

Name search functionality for taxonomic editor

Major changes to the cdmlib default term loading and initialization, plus free-text search of Taxa (by name) and DescriptionElementBase elements as part of #476

Implemented generic user & group dao's and ported additional methods for querying TaxonName related information as part of #466

Implemented new methods required for CATE in ITaxonDao and implementation, including tests

debug getRootTaxon

rootTaxon withMisapliedName persistence

Tested modifying disjunct objects and shared objects within two transactions of one application context.

Methods to get all taxa and all taxon bases added to persistence and service layers

filter search results by secundum to exclude misappliednames

Retrieve taxa, synonyms, and relationships from services rather than traversing the taxonomic tree.

Tested some options to retrieve taxa flat

search by title with paging capabilities and substring options

~

first version, not yet working