Cherian Mathew [Thu, 13 Mar 2014 20:23:45 +0000 (20:23 +0000)]
setting application configuration and boolean remoting flag (bean) in hibernate proxy classes to differentiate local and remoting
Andreas Kohlbecker [Thu, 13 Mar 2014 15:51:44 +0000 (15:51 +0000)]
after review final modification for #4115 ('editor' users cannot create new references via the reference select list)
Andreas Kohlbecker [Thu, 13 Mar 2014 15:09:15 +0000 (15:09 +0000)]
implementing #4123 (add idInVocabulary to term labels in editor)
Andreas Kohlbecker [Thu, 13 Mar 2014 15:09:11 +0000 (15:09 +0000)]
removing unavailable extension eu.etaxonomy.cdm.remote.controller.csv
Cherian Mathew [Thu, 13 Mar 2014 15:00:56 +0000 (15:00 +0000)]
added remote collection method checks in addition to local for lists and sets
Katja Luther [Thu, 13 Mar 2014 13:24:08 +0000 (13:24 +0000)]
#4114 sort order in taxon navigator
Andreas Kohlbecker [Thu, 13 Mar 2014 12:39:49 +0000 (12:39 +0000)]
catching PermissionDeniedExceptions when only doing a check, so these exceptions no longer pollute the log
Andreas Kohlbecker [Thu, 13 Mar 2014 12:39:45 +0000 (12:39 +0000)]
avoiding NPE
Cherian Mathew [Thu, 13 Mar 2014 09:00:53 +0000 (09:00 +0000)]
added test class for persistent collections and also a base class for configuringsetting up remote configuration.
Cherian Mathew [Wed, 12 Mar 2014 14:24:37 +0000 (14:24 +0000)]
added call to remoting with correct check
Andreas Kohlbecker [Tue, 11 Mar 2014 17:47:18 +0000 (17:47 +0000)]
fixing #4115 ('editor' users cannot create new references via the reference select list)
Andreas Kohlbecker [Tue, 11 Mar 2014 17:10:09 +0000 (17:10 +0000)]
fixing #4116 (ClassCastException when selecting Euro+Med top level area in DistributionElement details view)
Andreas Kohlbecker [Tue, 11 Mar 2014 16:38:15 +0000 (16:38 +0000)]
fixing problem of publish checkbox disabled state being overwritten
Patric Plitzner [Tue, 11 Mar 2014 07:38:55 +0000 (07:38 +0000)]
- refactored selection of DerivateView to be TreeNode
- adapted selection handling
- restructured derivate hierarchy
- Amplifications are now a direct child of Sequences
- the can only be created when having a SingleRead
- this representation does not affect the cdm structure
Patric Plitzner [Tue, 11 Mar 2014 07:34:50 +0000 (07:34 +0000)]
- fixed refresh problem
Patric Plitzner [Mon, 10 Mar 2014 15:01:56 +0000 (15:01 +0000)]
- clean code
Andreas Kohlbecker [Mon, 10 Mar 2014 11:43:47 +0000 (11:43 +0000)]
fixing: #4110 (imlement nicer warning dialogue in Taxon Editor for permission denied exception)
Andreas Kohlbecker [Thu, 6 Mar 2014 17:09:03 +0000 (17:09 +0000)]
more details in exception message of StoreUtil.getCdmEntity()
Andreas Kohlbecker [Thu, 6 Mar 2014 16:59:40 +0000 (16:59 +0000)]
dnd support in taxon navigator for Taxonnodes protected regarding user permissions - #4055 (action enablement adapts to the users granted authorities)
Andreas Kohlbecker [Wed, 5 Mar 2014 17:18:31 +0000 (17:18 +0000)]
avoiding NPE and other exceptions
Andreas Kohlbecker [Wed, 5 Mar 2014 17:18:26 +0000 (17:18 +0000)]
updating project url in pom.xml
Andreas Kohlbecker [Wed, 5 Mar 2014 17:18:25 +0000 (17:18 +0000)]
no longer using a conversation for the login dialog and thus fixing problems after putting wrong credentials
Andreas Kohlbecker [Wed, 5 Mar 2014 17:15:22 +0000 (17:15 +0000)]
fixing setEnabled method
Patric Plitzner [Wed, 5 Mar 2014 14:33:12 +0000 (14:33 +0000)]
- removed dummy data from SpecimenImport
Patric Plitzner [Wed, 5 Mar 2014 14:28:32 +0000 (14:28 +0000)]
- fixed event handling by creating and linking the missing elements
Patric Plitzner [Wed, 5 Mar 2014 12:24:41 +0000 (12:24 +0000)]
- added missing DNA Quality section
Patric Plitzner [Wed, 5 Mar 2014 12:18:55 +0000 (12:18 +0000)]
- adpated DNA DetailsViews according to current development
Patric Plitzner [Wed, 5 Mar 2014 12:16:51 +0000 (12:16 +0000)]
- renamed getBaseUnit() to baseUnit()
Patric Plitzner [Wed, 5 Mar 2014 12:16:11 +0000 (12:16 +0000)]
- added transparency to icons
Patric Plitzner [Wed, 5 Mar 2014 07:43:08 +0000 (07:43 +0000)]
- added util method to get for getting a CDM entity (used in authenication/permission framework)
- made use of this method where the type of the parameter was too general (like object)
- made getBaseUnit() of DerivedUnitFacade public
Patric Plitzner [Tue, 4 Mar 2014 16:18:28 +0000 (16:18 +0000)]
- added icons for Amplification, Sequence and SingleRead
Patric Plitzner [Tue, 4 Mar 2014 08:25:39 +0000 (08:25 +0000)]
- added code to show icon for Amplification, Sequence and SingleRead (image files still missing)
- removed text fields for media file in dna DetailsViews
- added contig file in Sequence DetailsView
Patric Plitzner [Mon, 3 Mar 2014 08:48:20 +0000 (08:48 +0000)]
- added cascading save to pherogram (Media) of SingleRead
- added media section to DetailsViews for Amplification (gel photo) and SingelRead (pherogram)
Andreas Kohlbecker [Fri, 28 Feb 2014 11:17:31 +0000 (11:17 +0000)]
fixing missing text of Group members (User) in details section
Katja Luther [Thu, 27 Feb 2014 08:42:33 +0000 (08:42 +0000)]
fix problem with changeSynonymToAcceptedTaxon of a synonym being part of an homotypical group
Andreas Kohlbecker [Wed, 26 Feb 2014 16:25:40 +0000 (16:25 +0000)]
protecting editing capabilities of names references and authors - #4055 (action enablement adapts to the users granted authorities)
Patric Plitzner [Wed, 26 Feb 2014 14:42:42 +0000 (14:42 +0000)]
- added multi-select(multi-save) to SpecimenImportEditor
Andreas Kohlbecker [Wed, 26 Feb 2014 14:36:46 +0000 (14:36 +0000)]
fix: adding missing case statements
Andreas Kohlbecker [Wed, 26 Feb 2014 11:02:39 +0000 (11:02 +0000)]
disabling edit button if user is allowed to UPDATE & making text elements selectable
Andreas Kohlbecker [Wed, 26 Feb 2014 11:02:33 +0000 (11:02 +0000)]
implementing the CommandHandlerButton and using it as button to open the OpenFeatureTreeEditorWizard - #4055 (action enablement adapts to the users granted authorities)
Patric Plitzner [Wed, 26 Feb 2014 08:39:05 +0000 (08:39 +0000)]
- moved transient interfaces to taxeditor.editor
- changed GUI control of DataImportEditor to be a TableViewer
- made DataImportEditor generic
Andreas Müller [Tue, 25 Feb 2014 21:36:43 +0000 (21:36 +0000)]
minor
Cherian Mathew [Tue, 25 Feb 2014 08:03:44 +0000 (08:03 +0000)]
disabling remoting calls untill further investigation
Andreas Müller [Mon, 24 Feb 2014 14:48:22 +0000 (14:48 +0000)]
minor
Patric Plitzner [Mon, 24 Feb 2014 07:51:18 +0000 (07:51 +0000)]
- added missing imports
Patric Plitzner [Mon, 24 Feb 2014 07:47:38 +0000 (07:47 +0000)]
- start conversation before ABCD conversion
- pass conversation to editor
Andreas Kohlbecker [Fri, 21 Feb 2014 18:16:25 +0000 (18:16 +0000)]
adding warning dialog on unavailabel DefinedTermEditor
Andreas Kohlbecker [Fri, 21 Feb 2014 18:15:48 +0000 (18:15 +0000)]
removing unused parameter definition
Andreas Kohlbecker [Fri, 21 Feb 2014 18:15:44 +0000 (18:15 +0000)]
fixing broken parameter for eu.etaxonomy.taxeditor.store.openDefinedTermEditor command
Cherian Mathew [Thu, 20 Feb 2014 16:37:36 +0000 (16:37 +0000)]
RemoteLazyLoadingTest : Creating application configuration programmatically
AbstractPersistentCollection, AbstractLazyInitializer : Copied aspect code here
CdmApplicationRemoteConfiguration : overriding datasource since it is not required in remoting
remotingApplicationContext : added autowiring config
Katja Luther [Thu, 20 Feb 2014 09:11:21 +0000 (09:11 +0000)]
additional delete functionality to bulkeditor
Andreas Kohlbecker [Wed, 19 Feb 2014 15:23:33 +0000 (15:23 +0000)]
minor fixing
Patric Plitzner [Wed, 19 Feb 2014 14:56:58 +0000 (14:56 +0000)]
- implemented "Save Specimen" command
- added @Override annotations
Andreas Kohlbecker [Wed, 19 Feb 2014 14:52:32 +0000 (14:52 +0000)]
RolesSourceProvider to enable activities by cdm roles and protecting bulkeditors and term editors - #4055 (action enablement adapts to the users granted authorities)
Andreas Kohlbecker [Wed, 19 Feb 2014 14:52:23 +0000 (14:52 +0000)]
base implementation and configuration for securing the editor - #4055 (action enablement adapts to the users granted authorities)
Andreas Kohlbecker [Wed, 19 Feb 2014 14:52:09 +0000 (14:52 +0000)]
.gitignore
Patric Plitzner [Wed, 19 Feb 2014 14:34:27 +0000 (14:34 +0000)]
- added "Save Specimen" command to DataImportEditor
Patric Plitzner [Wed, 19 Feb 2014 14:32:22 +0000 (14:32 +0000)]
- changed type of BioCaseQuery results from List to Set to filter out duplicates
- as saveOrUpdate() for the transient services just adds the derived units to the lists this was necessary
Patric Plitzner [Tue, 18 Feb 2014 15:00:09 +0000 (15:00 +0000)]
- BioCase querying as a separate thread
Cherian Mathew [Tue, 18 Feb 2014 12:33:28 +0000 (12:33 +0000)]
updaed build properties to include source / resource files when packaging with maven
Cherian Mathew [Tue, 18 Feb 2014 11:03:15 +0000 (11:03 +0000)]
reverting back config file to make local invocation work
Patric Plitzner [Tue, 18 Feb 2014 07:42:22 +0000 (07:42 +0000)]
- updated SpecimenImportWizard
- refactored BioCase querying to be a separate job
Patric Plitzner [Tue, 18 Feb 2014 07:40:33 +0000 (07:40 +0000)]
- added preference which shows determination section only for FieldUnits in the DetailsView
Patric Plitzner [Mon, 17 Feb 2014 14:48:20 +0000 (14:48 +0000)]
- added preference which shows determination section only for FieldUnits in the DetailsView
- added missing parameters for SingleRead DetailsView
Andreas Müller [Fri, 14 Feb 2014 17:19:20 +0000 (17:19 +0000)]
fix for invisible description.setTaxon method in Editor
Cherian Mathew [Fri, 14 Feb 2014 16:53:58 +0000 (16:53 +0000)]
CdmApplicationRemoteConfiguration : added GeoService and @Component bean name
remotingApplicationContext : exclude CdmApplicationDefaultConfiguration from comp scan
remoting_services_security : cosmetic
httpInvokerServiceClients : added editGeoService
config.properties : corrected context path
localApplicationContext.xml : new config file to ease remoting switch
editorApplicationContext : simplified switch to remoting and back
Patric Plitzner [Thu, 13 Feb 2014 12:16:14 +0000 (12:16 +0000)]
- added missing parameters for SingleRead DetailsView
Patric Plitzner [Thu, 13 Feb 2014 12:15:42 +0000 (12:15 +0000)]
- added option to set text limit for TextWithLabelElement
Cherian Mathew [Thu, 13 Feb 2014 12:08:30 +0000 (12:08 +0000)]
reverting cdm application / controller refactoring and simply extending the CdmApplicationRemoteConfiguration class
by throwing UnsupportedOperationException for methods that are not supported by remoting
Cherian Mathew [Wed, 12 Feb 2014 16:59:16 +0000 (16:59 +0000)]
correcting import
Cherian Mathew [Wed, 12 Feb 2014 16:58:37 +0000 (16:58 +0000)]
removing aspetcj capability and reverting to default
Cherian Mathew [Wed, 12 Feb 2014 16:54:11 +0000 (16:54 +0000)]
changed package name to be consistent with cdmlib
remotingApplicationContext.xml : cleaning up component scan
Cherian Mathew [Wed, 12 Feb 2014 14:25:59 +0000 (14:25 +0000)]
removing Transient annotation - not required
Cherian Mathew [Wed, 12 Feb 2014 14:19:52 +0000 (14:19 +0000)]
refactoring ICdmApplicationDefaultConfiguration
Cherian Mathew [Wed, 12 Feb 2014 13:02:25 +0000 (13:02 +0000)]
refactoring CdmApplicationConfiguration/Controller to allow for remoting
CdmStoreConnector : added application configuration call for remoting (currently commented)
Cherian Mathew [Wed, 12 Feb 2014 12:52:34 +0000 (12:52 +0000)]
config.properties : config for target cdmserver in remoting
editorApplicationContext.xml : added (currently commented) config for remoting
Cherian Mathew [Wed, 12 Feb 2014 12:48:35 +0000 (12:48 +0000)]
erging from remoting-1.0 branch
- adding new confugration / controller classes for remoting
- adding aspect and related aop.xml config file
- added aspect and spring remoting jars
- updated manifest , pom and classpath for the new dependencies
Katja Luther [Wed, 12 Feb 2014 12:27:53 +0000 (12:27 +0000)]
move ChangeConceptToSynonym business logic from editor operation to service layer
Patric Plitzner [Wed, 12 Feb 2014 12:13:23 +0000 (12:13 +0000)]
- added "Search"-Button to DerivateSearchView
Patric Plitzner [Wed, 12 Feb 2014 11:40:57 +0000 (11:40 +0000)]
- enabled DerivateType filter in DerivateSearchView
Cherian Mathew [Wed, 12 Feb 2014 11:04:35 +0000 (11:04 +0000)]
remotingApplicationContext : removed load time weaving config
AbstractPersistentCollection : reverting to original code
CdmApplicationRemoteController : adding missing method call
Katja Luther [Wed, 12 Feb 2014 10:39:54 +0000 (10:39 +0000)]
delete User in bulkeditor
Katja Luther [Wed, 12 Feb 2014 10:15:56 +0000 (10:15 +0000)]
delete of group in bulkeditor #4054
Cherian Mathew [Wed, 12 Feb 2014 09:10:08 +0000 (09:10 +0000)]
merge from trunk
Cherian Mathew [Wed, 12 Feb 2014 09:09:16 +0000 (09:09 +0000)]
RemoteLazyLoadingTest : cosmetic changes
CdmApplicationRemoteController, CdmApplicationRemoteConfiguration : refactoring
Patric Plitzner [Wed, 12 Feb 2014 08:36:42 +0000 (08:36 +0000)]
- added combo controller to combo field in DerivateSearchView
Andreas Kohlbecker [Tue, 11 Feb 2014 16:20:34 +0000 (16:20 +0000)]
solving #4056 (taxeditor responds with nicer dialogue in case a user executes a prohibited operation)
Cherian Mathew [Tue, 11 Feb 2014 15:30:51 +0000 (15:30 +0000)]
merge from trunk
Cherian Mathew [Tue, 11 Feb 2014 15:30:10 +0000 (15:30 +0000)]
added possibility to switch to remoting
Cherian Mathew [Tue, 11 Feb 2014 15:28:41 +0000 (15:28 +0000)]
remotingApplicationContext : removing configuration bean declaration
CdmApplicationRemoteController : removed call to init configuration bean via application context
CdmApplicationRemoteDefaultConfiguration : refactoring code to cplit configuration into default / remote
Patric Plitzner [Tue, 11 Feb 2014 12:15:16 +0000 (12:15 +0000)]
- additional fix for #3589 and #3588
Cherian Mathew [Tue, 11 Feb 2014 11:23:37 +0000 (11:23 +0000)]
config file to set target cdmserver
Cherian Mathew [Tue, 11 Feb 2014 11:21:45 +0000 (11:21 +0000)]
Adding new and modifying existing classes / resources for remoting.
- Added aspectj library dependencies : eu.etaxonomy.taxeditor.cdmlib/META-INF/MANIFEST.MF, eu.etaxonomy.taxeditor.cdmlib/META-INF/aop.xml, eu.etaxonomy.taxeditor.cdmlib/pom.xml, eu.etaxonomy.taxeditor.cdmlib/lib/aspectjrt-1.7.1-sources.jar, eu.etaxonomy.taxeditor.cdmlib/lib/aspectjweaver-1.7.1-sources.jar
- Added aspects to initialize cdm entites / collections remotely : eu.etaxonomy.taxeditor.cdmlib/META-INF/aop.xml, eu.etaxonomy.taxeditor.cdmlib/src/main/java/eu/etaxonomy/cdm/api/lazyloading/CdmLazyLoader.java
- Hibernate classes to be aspect woven (need these explicitly on client-side to set serial uuid) : eu.etaxonomy.taxeditor.cdmlib/src/main/java/org/hibernate/proxy/AbstractLazyInitializer.java, eu.etaxonomy.taxeditor.cdmlib/src/main/java/org/hibernate/collection/internal/AbstractPersistentCollection.java
- remote spring application context config files : eu.etaxonomy.taxeditor.cdmlib/src/main/resources/eu/etaxonomy/cdm/remotingApplicationContext.xml, remoting_persistence_security.xml, httpInvokerServiceClients.xml, remoting_services_security.xml
- Remote application controller which uses the remote spring application context : eu.etaxonomy.taxeditor.cdmlib/src/main/java/eu/etaxonomy/cdm/remote/api/application/ICdmApplicationRemoteConfiguration.java,CdmApplicationRemoteController.java, CdmApplicationRemoteDefaultConfiguration.java
- Initial tests for remoting : eu.etaxonomy.taxeditor.cdmlib/src/test/java/eu/etaxonomy/taxeditor/remoting/RemoteLazyLoadingTest.java, CdmApplicationRemoteControllerTest.java
Patric Plitzner [Tue, 11 Feb 2014 08:44:56 +0000 (08:44 +0000)]
- separated GUI from control elements for term combo widget (part of #3627)
Andreas Kohlbecker [Mon, 10 Feb 2014 18:22:57 +0000 (18:22 +0000)]
part 2 of preliminary solution to #4053 (Transient field User.authorities not refreshed on reloading entity)
Andreas Kohlbecker [Mon, 10 Feb 2014 13:59:16 +0000 (13:59 +0000)]
solving #4013 (GrantedAuthority: Humane label of TaxonNode authorities)
Andreas Müller [Fri, 7 Feb 2014 11:55:09 +0000 (11:55 +0000)]
move elevation back to first page #4037
Andreas Kohlbecker [Thu, 6 Feb 2014 14:18:20 +0000 (14:18 +0000)]
part 2 of fixing #2414 (Group updating doesn't work) by committing and restarting the transaction in the conversation
Andreas Kohlbecker [Thu, 6 Feb 2014 14:16:37 +0000 (14:16 +0000)]
more log.debug statements
Katja Luther [Thu, 6 Feb 2014 12:47:28 +0000 (12:47 +0000)]