Andreas Müller [Mon, 8 Apr 2013 21:35:36 +0000 (21:35 +0000)]
some NOT NULLs and reverting taxonName.authorshipCache = empty
Andreas Müller [Mon, 8 Apr 2013 17:10:50 +0000 (17:10 +0000)]
fix some more delete orphan
Andreas Müller [Mon, 8 Apr 2013 16:15:00 +0000 (16:15 +0000)]
remove unopened comment end
Andreas Müller [Mon, 8 Apr 2013 16:07:41 +0000 (16:07 +0000)]
remove model changing validations fix Delete_Orphan #3379
Andreas Müller [Mon, 8 Apr 2013 08:40:18 +0000 (08:40 +0000)]
merge trunk to hibernate4
Andreas Müller [Mon, 8 Apr 2013 08:35:58 +0000 (08:35 +0000)]
spring 3.2.2
Andreas Müller [Fri, 5 Apr 2013 12:56:57 +0000 (12:56 +0000)]
add authenticate to configuration
Andreas Kohlbecker [Fri, 5 Apr 2013 12:52:33 +0000 (12:52 +0000)]
updating to spring-scurity 3.0.8
Andreas Müller [Fri, 5 Apr 2013 12:29:32 +0000 (12:29 +0000)]
add authentication to ICdmAppController
Andreas Müller [Fri, 5 Apr 2013 12:24:28 +0000 (12:24 +0000)]
removed unused authorisationId
Andreas Müller [Fri, 5 Apr 2013 12:21:15 +0000 (12:21 +0000)]
minor
Andreas Kohlbecker [Fri, 5 Apr 2013 11:54:01 +0000 (11:54 +0000)]
upgrading to hibernate 4.1.10-Final
Andreas Müller [Fri, 5 Apr 2013 11:38:30 +0000 (11:38 +0000)]
login for IO base class
Andreas Kohlbecker [Fri, 5 Apr 2013 11:29:39 +0000 (11:29 +0000)]
central configuration of admin login and default password in eu.etaxonomy.cdm.config.Configuration - (missing bit)
Andreas Kohlbecker [Fri, 5 Apr 2013 11:27:37 +0000 (11:27 +0000)]
central configuration of admin login and default password in eu.etaxonomy.cdm.config.Configuration
Andreas Müller [Fri, 5 Apr 2013 10:49:32 +0000 (10:49 +0000)]
minor
Andreas Müller [Fri, 5 Apr 2013 10:32:47 +0000 (10:32 +0000)]
fixing DatabaseMappingTest
Andreas Kohlbecker [Fri, 5 Apr 2013 10:06:19 +0000 (10:06 +0000)]
switching transaction propagation strategy from Propagation.SUPPORTS to Propagation.REQUIRED, see dev.e-taxonomy.eu/trac/wiki/CdmTransactions
s.buers [Wed, 3 Apr 2013 14:07:04 +0000 (14:07 +0000)]
italic and bold in textnodes is now translated to mediawiki templates
s.buers [Wed, 3 Apr 2013 12:28:47 +0000 (12:28 +0000)]
the taxon tree is now a mediawiki template, so we could delete the xsl template
l.morris [Wed, 3 Apr 2013 12:18:31 +0000 (12:18 +0000)]
Tidied up.
l.morris [Wed, 3 Apr 2013 11:56:02 +0000 (11:56 +0000)]
Fixed bold and italic tag processing.
l.morris [Wed, 3 Apr 2013 09:38:36 +0000 (09:38 +0000)]
Added template to convert html tags within text nodes to xsl:fo italic and bold.
s.buers [Tue, 2 Apr 2013 14:42:28 +0000 (14:42 +0000)]
the taxon tree is now in the taxon page
Andreas Müller [Mon, 1 Apr 2013 21:24:30 +0000 (21:24 +0000)]
exclude old persistence-api from model
Andreas Müller [Mon, 1 Apr 2013 21:23:46 +0000 (21:23 +0000)]
minor
Andreas Müller [Sun, 31 Mar 2013 01:45:40 +0000 (01:45 +0000)]
removing events from hibernate.cfg.xml
Andreas Müller [Sun, 31 Mar 2013 01:19:16 +0000 (01:19 +0000)]
fix all Specimen test including new implementation for hibernate listeners
Andreas Müller [Thu, 28 Mar 2013 18:53:42 +0000 (18:53 +0000)]
bugfixes for Specimen imports
Andreas Kohlbecker [Thu, 28 Mar 2013 16:46:00 +0000 (16:46 +0000)]
excluding org.springframework:spring-tx from dependencies
Andreas Müller [Thu, 28 Mar 2013 15:35:19 +0000 (15:35 +0000)]
fix missing marker types leading to TcsRdfImport test failing
Andreas Müller [Thu, 28 Mar 2013 14:47:29 +0000 (14:47 +0000)]
merge trunk and bugfix linkbackuri jaxb
l.morris [Thu, 28 Mar 2013 13:34:14 +0000 (13:34 +0000)]
Added the titleCache of the Polytomous key to the output.
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>
l.morris [Wed, 27 Mar 2013 14:58:23 +0000 (14:58 +0000)]
Added template to display polytomous key and added page numbers to xsl:fo for PDF output.
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
s.buers [Mon, 25 Mar 2013 13:59:42 +0000 (13:59 +0000)]
each taxonomic category is now attached to it's higher taxon category.
so we can navigate through the taxon relations now
l.morris [Mon, 25 Mar 2013 13:01:47 +0000 (13:01 +0000)]
Added @Ignore to PublisherTest
l.morris [Mon, 25 Mar 2013 12:45:26 +0000 (12:45 +0000)]
Updated test class PublisherTest.java for running the print publishing using RemoteXMLEntityFactory.java
l.morris [Mon, 25 Mar 2013 12:42:58 +0000 (12:42 +0000)]
Fixes #3285
Andreas Müller [Fri, 22 Mar 2013 15:30:03 +0000 (15:30 +0000)]
fix mapping for taxrel excludes in BM import
Andreas Kohlbecker [Fri, 22 Mar 2013 11:41:15 +0000 (11:41 +0000)]
updating version to 3.2.0-SNAPSHOT
Andreas Kohlbecker [Fri, 22 Mar 2013 10:36:41 +0000 (10:36 +0000)]
solving lazy loading exception
Andreas Kohlbecker [Thu, 21 Mar 2013 14:22:09 +0000 (14:22 +0000)]
fixing json-lib dependency
s.buers [Thu, 21 Mar 2013 13:30:12 +0000 (13:30 +0000)]
created a simple categories tree, and figured, that we have to parse the tree
while creating the pages and categories to create the category linkeage
s.buers [Thu, 21 Mar 2013 10:33:52 +0000 (10:33 +0000)]
the layout has been moved to the mediawiki templates
s.buers [Wed, 20 Mar 2013 15:07:54 +0000 (15:07 +0000)]
categories work now
Andreas Kohlbecker [Wed, 20 Mar 2013 14:45:34 +0000 (14:45 +0000)]
fixing depencency problem
s.buers [Wed, 20 Mar 2013 13:56:02 +0000 (13:56 +0000)]
stylesheet to translate CDM exports (xml) to mediawiki pages
edit-jenkins [Tue, 19 Mar 2013 13:15:21 +0000 (13:15 +0000)]
setting correct snapshot version manually: 3.2.0-SNAPSHOT
edit-jenkins [Tue, 19 Mar 2013 12:50:40 +0000 (12:50 +0000)]
[maven-release-plugin] prepare for next development iteration
edit-jenkins [Tue, 19 Mar 2013 12:50:38 +0000 (12:50 +0000)]
[maven-release-plugin] prepare release cdmlib-parent-3.2
Andreas Kohlbecker [Tue, 19 Mar 2013 09:04:57 +0000 (09:04 +0000)]
portal controller: marker.makerType
Andreas Müller [Mon, 18 Mar 2013 17:44:15 +0000 (17:44 +0000)]
remove build.xml from cdmlib-persistence. It was never needed.
Cherian Mathew [Mon, 18 Mar 2013 16:29:40 +0000 (16:29 +0000)]
check if type of synonym relation is not null
Cherian Mathew [Mon, 18 Mar 2013 15:30:09 +0000 (15:30 +0000)]
added possibility to move accepted taxon (with homotypic synonyms) to a synonym
p.kelbert [Mon, 18 Mar 2013 13:46:23 +0000 (13:46 +0000)]
replace pom.xml
p.kelbert [Mon, 18 Mar 2013 13:46:02 +0000 (13:46 +0000)]
merge branche specimen import abcd and synthesys
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