Andreas Müller [Thu, 28 Mar 2013 11:15:58 +0000 (11:15 +0000)]
add empty data file for ABCD Import Test
Andreas Müller [Thu, 28 Mar 2013 11:15:33 +0000 (11:15 +0000)]
add empty data file for ABCD Import Test
Andreas Müller [Thu, 28 Mar 2013 11:13:30 +0000 (11:13 +0000)]
latest fixes to
ABCD206 Import
Andreas Kohlbecker [Thu, 28 Mar 2013 11:10:58 +0000 (11:10 +0000)]
fixing uris
Andreas Müller [Thu, 28 Mar 2013 09:59:58 +0000 (09:59 +0000)]
minor
Andreas Kohlbecker [Thu, 28 Mar 2013 09:54:12 +0000 (09:54 +0000)]
comments to explain @Indexed on some abtstract classes
Andreas Kohlbecker [Thu, 28 Mar 2013 09:54:08 +0000 (09:54 +0000)]
removing static reference from LocaleContext
Andreas Kohlbecker [Thu, 28 Mar 2013 09:54:05 +0000 (09:54 +0000)]
adding missing @Override and removing absolte casts
Andreas Müller [Thu, 28 Mar 2013 09:18:52 +0000 (09:18 +0000)]
some changes in the
ABCD206 Import
Andreas Kohlbecker [Wed, 27 Mar 2013 17:26:29 +0000 (17:26 +0000)]
minor
Andreas Kohlbecker [Wed, 27 Mar 2013 17:19:53 +0000 (17:19 +0000)]
changing Annotation.linkbackUrl to type URI, also changing API method names
Andreas Kohlbecker [Wed, 27 Mar 2013 16:12:08 +0000 (16:12 +0000)]
fixing returnedClass() of URIUserType
Andreas Kohlbecker [Wed, 27 Mar 2013 15:37:48 +0000 (15:37 +0000)]
explicitely setting collumn name for embedded collections of <String>
Andreas Kohlbecker [Wed, 27 Mar 2013 14:46:07 +0000 (14:46 +0000)]
using custom hibernate mysql dialects in DataSourceConfigurer
Andreas Müller [Wed, 27 Mar 2013 14:02:23 +0000 (14:02 +0000)]
MySQL BOolean support
Andreas Müller [Wed, 27 Mar 2013 13:57:35 +0000 (13:57 +0000)]
MySQL5InnoDBUtf8Dialect MySQL BOolean support
Andreas Müller [Wed, 27 Mar 2013 11:46:23 +0000 (11:46 +0000)]
add correct javassist groupId to persistence
Andreas Müller [Wed, 27 Mar 2013 10:59:16 +0000 (10:59 +0000)]
latest version for parent pom
Andreas Kohlbecker [Tue, 26 Mar 2013 18:18:24 +0000 (18:18 +0000)]
cleaning up @Field annotations
Andreas Kohlbecker [Tue, 26 Mar 2013 16:46:15 +0000 (16:46 +0000)]
explicitely ordering taxa for test ReferenceDaoHibernateImplTest.testListCoveredTaxa()
Andreas Kohlbecker [Tue, 26 Mar 2013 15:28:00 +0000 (15:28 +0000)]
preliminar solution for handling and setting the lucene version
Andreas Kohlbecker [Tue, 26 Mar 2013 12:07:16 +0000 (12:07 +0000)]
solving lucene index locked problem for tests
Andreas Kohlbecker [Mon, 25 Mar 2013 15:25:28 +0000 (15:25 +0000)]
solving problem when seaching for uuids + restoring old TaxonServiceSearchTest.xml - all FreeTextSearch tests now SUCCESFUL
Andreas Kohlbecker [Mon, 25 Mar 2013 15:23:07 +0000 (15:23 +0000)]
removing beginTransaction() for hibernate 4 migration testing
Andreas Kohlbecker [Mon, 25 Mar 2013 15:23:04 +0000 (15:23 +0000)]
fixing all tests in TaxonServiceSearchTest except testFindByDescriptionElementFullText_CommonName()
Andreas Kohlbecker [Mon, 25 Mar 2013 15:23:01 +0000 (15:23 +0000)]
reenabling search test and fixing character encoding problems
Andreas Kohlbecker [Mon, 25 Mar 2013 15:22:58 +0000 (15:22 +0000)]
version to 3.1.4-SNAPSHOT
Andreas Kohlbecker [Fri, 22 Mar 2013 11:41:15 +0000 (11:41 +0000)]
updating version to 3.2.0-SNAPSHOT
Andreas Kohlbecker [Wed, 20 Mar 2013 14:45:34 +0000 (14:45 +0000)]
fixing depencency problem
Andreas Müller [Mon, 18 Mar 2013 17:44:15 +0000 (17:44 +0000)]
remove build.xml from cdmlib-persistence. It was never needed.
Andreas Müller [Mon, 18 Mar 2013 12:49:07 +0000 (12:49 +0000)]
integrating trunk to hibernate4 branch. Probably no real changes.
edit-jenkins [Mon, 18 Mar 2013 10:16:31 +0000 (10:16 +0000)]
[maven-release-plugin] prepare for next development iteration
edit-jenkins [Mon, 18 Mar 2013 10:16:29 +0000 (10:16 +0000)]
[maven-release-plugin] prepare release cdmlib-parent-3.1.4
Andreas Müller [Sat, 16 Mar 2013 00:30:47 +0000 (00:30 +0000)]
Hibernate 4 migration. All test running except for SDDImport (Out of memory)
Andreas Kohlbecker [Fri, 15 Mar 2013 13:26:20 +0000 (13:26 +0000)]
paging mechanism of pageByAssociatedTaxon() fixed
Andreas Kohlbecker [Wed, 13 Mar 2013 22:10:53 +0000 (22:10 +0000)]
Lists all Media found in an any TaxonDescription, NameDescription, SpecimenOrObservationBase, DnaSample Chromatograms, etc. associated with this taxon for #3305 (Collect images via taxon relations)
Andreas Kohlbecker [Wed, 13 Mar 2013 12:27:12 +0000 (12:27 +0000)]
circumventing missing sequence service to get annotations
Andreas Kohlbecker [Wed, 13 Mar 2013 09:52:33 +0000 (09:52 +0000)]
adding default case to switch statement in ReferenceType.getCacheStrategy()
Andreas Kohlbecker [Wed, 13 Mar 2013 09:46:07 +0000 (09:46 +0000)]
code with now effect commented out
l.morris [Tue, 12 Mar 2013 17:19:15 +0000 (17:19 +0000)]
Adding dependency for xom for XML serialization for the REST web services.
Andreas Kohlbecker [Fri, 8 Mar 2013 17:10:46 +0000 (17:10 +0000)]
missing fields for dna sample display for #3329 (Implement DNASample for Dataportal display)
Andreas Kohlbecker [Fri, 8 Mar 2013 14:33:20 +0000 (14:33 +0000)]
handling null value
l.morris [Fri, 8 Mar 2013 11:37:19 +0000 (11:37 +0000)]
Added a temporary test class for testing the XML creation for print publishing.
Cherian Mathew [Fri, 8 Mar 2013 09:07:31 +0000 (09:07 +0000)]
TaxonNodeServiceImpl : added clearing of relation sets
TaxonDaoHibernateImpl : added 'isOrphaned' field to hql query for building UuidAndTitleCache objects
Cherian Mathew [Fri, 8 Mar 2013 09:02:42 +0000 (09:02 +0000)]
UuidAndTitleCache : added new member isOrphaned (new constructor + getter)
TaxonBase : added getIsOrphaned declaration
Taxon : added getIsOrphaned definition
Synonym : added getIsOrphaned definition (always returns false)
Andreas Müller [Thu, 7 Mar 2013 21:43:42 +0000 (21:43 +0000)]
remove import
Andreas Müller [Thu, 7 Mar 2013 21:42:57 +0000 (21:42 +0000)]
minor
Andreas Müller [Thu, 7 Mar 2013 21:41:56 +0000 (21:41 +0000)]
add lazy load GenBankAccession test
Andreas Kohlbecker [Thu, 7 Mar 2013 16:16:24 +0000 (16:16 +0000)]
TransmissionEngineOccurrence now creates descriptions tagged with MarkerType: COMPUTED
Andreas Kohlbecker [Thu, 7 Mar 2013 16:16:22 +0000 (16:16 +0000)]
adding new MarkerType: COMPUTED
Andreas Kohlbecker [Thu, 7 Mar 2013 16:16:17 +0000 (16:16 +0000)]
adding missing records to the test TermsDataSet
Andreas Kohlbecker [Thu, 7 Mar 2013 16:16:15 +0000 (16:16 +0000)]
adding missing default case for switch
Andreas Kohlbecker [Thu, 7 Mar 2013 16:16:12 +0000 (16:16 +0000)]
removing variable assignment with no effect
Andreas Müller [Thu, 7 Mar 2013 15:36:51 +0000 (15:36 +0000)]
Allow Locus to be loaded by javassist (fixing #3340)
Andreas Müller [Thu, 7 Mar 2013 00:34:41 +0000 (00:34 +0000)]
minor
Andreas Müller [Wed, 6 Mar 2013 00:32:54 +0000 (00:32 +0000)]
some more dependency changes #3332
Andreas Müller [Wed, 6 Mar 2013 00:26:52 +0000 (00:26 +0000)]
parent pom update
Andreas Müller [Wed, 6 Mar 2013 00:17:56 +0000 (00:17 +0000)]
update some further dependencies
Andreas Müller [Tue, 5 Mar 2013 21:45:13 +0000 (21:45 +0000)]
minor typo
l.morris [Tue, 5 Mar 2013 19:13:31 +0000 (19:13 +0000)]
Added a new Controller and DTO classes to create a flattened structure for presentation of Polytomous keys.
l.morris [Tue, 5 Mar 2013 17:48:54 +0000 (17:48 +0000)]
Moved methods to superclass AbstractController and refactoring.
Andreas Müller [Tue, 5 Mar 2013 16:40:14 +0000 (16:40 +0000)]
updated jdom dependency in cdmlib-print
Andreas Müller [Tue, 5 Mar 2013 16:01:00 +0000 (16:01 +0000)]
minor
Andreas Müller [Tue, 5 Mar 2013 16:00:06 +0000 (16:00 +0000)]
adapt benchmark test (compile error before)
Andreas Müller [Tue, 5 Mar 2013 15:58:38 +0000 (15:58 +0000)]
update a set of cdmlib dependencies (not yet spring, hibernate, and other critical ones)
Andreas Müller [Tue, 5 Mar 2013 15:55:52 +0000 (15:55 +0000)]
update a set of cdmlib dependencies (not yet spring, hibernate, and other critical ones)
Andreas Müller [Tue, 5 Mar 2013 15:53:47 +0000 (15:53 +0000)]
update wrong interface type for benchmark test
Andreas Müller [Tue, 5 Mar 2013 15:32:11 +0000 (15:32 +0000)]
update all cdmlib dependencies except for those creating test problems, spring, hibernate, jdbcs, Xerces and some others
Andreas Müller [Tue, 5 Mar 2013 00:44:34 +0000 (00:44 +0000)]
minor
Andreas Müller [Tue, 5 Mar 2013 00:42:39 +0000 (00:42 +0000)]
commit merge from trunck
Andreas Müller [Mon, 4 Mar 2013 23:46:01 +0000 (23:46 +0000)]
add httpcomponents/http-core
Andreas Müller [Mon, 4 Mar 2013 21:46:26 +0000 (21:46 +0000)]
update dependencies for httpclient, ezmorph, poi, wsdl4j (1.6.2), jaxen (1.1.4), xpp3 (1.1.4c) #3332
Andreas Müller [Mon, 4 Mar 2013 17:52:39 +0000 (17:52 +0000)]
updated wsdl4j (1.6.2), jaxen (1.1.4), xpp3 (1.1.4c)
Andreas Müller [Mon, 4 Mar 2013 17:32:21 +0000 (17:32 +0000)]
update dependencies for opencsv, easymock, jtds, httpclient, ezmorph and poi #3332
Andreas Müller [Mon, 4 Mar 2013 17:20:54 +0000 (17:20 +0000)]
adapt DwcaZipToStreamConverter to opencsvReadr 2.3
Andreas Müller [Mon, 4 Mar 2013 17:02:36 +0000 (17:02 +0000)]
revert log4j version to 1.2.15 as in creates problems with javax.mail dependency in cdmlib-io
Andreas Müller [Mon, 4 Mar 2013 16:48:39 +0000 (16:48 +0000)]
remove dependency from javax.mail exceptions
Andreas Müller [Mon, 4 Mar 2013 16:15:47 +0000 (16:15 +0000)]
update dependencies for opencsv, log4j, easymock and jdts
Andreas Müller [Mon, 4 Mar 2013 16:14:25 +0000 (16:14 +0000)]
fix unicode in MobotOpenUrlServiceWrapperTest
Andreas Müller [Mon, 4 Mar 2013 14:27:42 +0000 (14:27 +0000)]
Create branch for hibernate 4 migration
Andreas Kohlbecker [Fri, 1 Mar 2013 16:54:43 +0000 (16:54 +0000)]
re-enabling TransmissionEngineOccurrenceTest
Andreas Kohlbecker [Fri, 1 Mar 2013 16:42:37 +0000 (16:42 +0000)]
solving application context problem
Andreas Kohlbecker [Fri, 1 Mar 2013 16:42:32 +0000 (16:42 +0000)]
solving wired resource not found problem
Andreas Kohlbecker [Fri, 1 Mar 2013 16:42:30 +0000 (16:42 +0000)]
ignoring test to prevent from running in eclipse
Andreas Kohlbecker [Fri, 1 Mar 2013 16:42:27 +0000 (16:42 +0000)]
increasing heap for tests to avoid garbage collection execesses
Andreas Kohlbecker [Thu, 28 Feb 2013 17:25:58 +0000 (17:25 +0000)]
TransmissionEngineOccurrence done also with test + some improvements regarding test data generation
Andreas Kohlbecker [Thu, 28 Feb 2013 17:25:52 +0000 (17:25 +0000)]
documentation
Andreas Kohlbecker [Thu, 28 Feb 2013 17:25:49 +0000 (17:25 +0000)]
deleting temp file
Andreas Kohlbecker [Thu, 28 Feb 2013 17:25:46 +0000 (17:25 +0000)]
fixing absence terms in datasets
Andreas Kohlbecker [Thu, 28 Feb 2013 17:25:43 +0000 (17:25 +0000)]
first implementation of TransmissionEngineOccurrence and basic test
Andreas Kohlbecker [Thu, 28 Feb 2013 17:25:37 +0000 (17:25 +0000)]
CdmApplicationDefaultConfiguration bean explicite in app context config
Andreas Kohlbecker [Thu, 28 Feb 2013 17:25:35 +0000 (17:25 +0000)]
documentation
Andreas Kohlbecker [Thu, 28 Feb 2013 17:25:32 +0000 (17:25 +0000)]
calls to loadRankSpecificRootNodes() in tests and other classes adapted
Andreas Kohlbecker [Thu, 28 Feb 2013 17:25:25 +0000 (17:25 +0000)]
loadRankSpecificRootNodes() documentation
Andreas Kohlbecker [Thu, 28 Feb 2013 17:25:22 +0000 (17:25 +0000)]
loadRankSpecificRootNodes() extended, according test enabled and extended
Andreas Kohlbecker [Thu, 28 Feb 2013 17:25:18 +0000 (17:25 +0000)]
typo
Andreas Müller [Thu, 28 Feb 2013 13:18:41 +0000 (13:18 +0000)]
Factory method for Derivation Event
Andreas Müller [Thu, 28 Feb 2013 10:52:50 +0000 (10:52 +0000)]
factory method for IndividualAssociation
Andreas Müller [Thu, 28 Feb 2013 10:43:44 +0000 (10:43 +0000)]
add getTaxon in BerlinModelImportBase
Andreas Müller [Thu, 28 Feb 2013 10:25:52 +0000 (10:25 +0000)]
minor