cdmlib.git
3 years agoref #6359 add session.clear()
Andreas Müller [Thu, 6 May 2021 22:47:15 +0000 (00:47 +0200)]
ref #6359 add session.clear()

3 years agofix compile error
Andreas Müller [Thu, 6 May 2021 22:34:37 +0000 (00:34 +0200)]
fix compile error

3 years agocleanup
Andreas Müller [Thu, 6 May 2021 22:27:39 +0000 (00:27 +0200)]
cleanup

3 years agoref #6359 use subprogressmonitor
Andreas Müller [Thu, 6 May 2021 21:45:26 +0000 (23:45 +0200)]
ref #6359 use subprogressmonitor

3 years agoref #6359 fix update issue
Andreas Müller [Thu, 6 May 2021 21:44:58 +0000 (23:44 +0200)]
ref #6359 fix update issue

3 years agoref #6359 improve partition handling
Andreas Müller [Thu, 6 May 2021 21:22:49 +0000 (23:22 +0200)]
ref #6359 improve partition handling

3 years agocleanup
Andreas Müller [Thu, 6 May 2021 19:00:35 +0000 (21:00 +0200)]
cleanup

3 years agoref #9598 fix generics for common deduplicate usage
Andreas Müller [Thu, 6 May 2021 19:00:21 +0000 (21:00 +0200)]
ref #9598 fix generics for common deduplicate usage

3 years agoref #6359 improve updated objects behavior
Andreas Müller [Thu, 6 May 2021 18:59:39 +0000 (20:59 +0200)]
ref #6359 improve updated objects behavior

3 years agoref #9598 some parameter renaming and improve updated objects behavior
Andreas Müller [Thu, 6 May 2021 18:32:48 +0000 (20:32 +0200)]
ref #9598 some parameter renaming and improve updated objects behavior

3 years agocleanup
Andreas Müller [Thu, 6 May 2021 17:47:37 +0000 (19:47 +0200)]
cleanup

3 years agoref #9598 remove redundant code
Andreas Müller [Thu, 6 May 2021 17:47:05 +0000 (19:47 +0200)]
ref #9598 remove redundant code

3 years agofix #9601 allow misapplied names and proparte Syns to set secundum for subtree
Andreas Müller [Thu, 6 May 2021 16:52:02 +0000 (18:52 +0200)]
fix #9601 allow misapplied names and proparte Syns to set secundum for subtree

3 years agoremove unnecessary second load
Andreas Müller [Thu, 6 May 2021 16:45:47 +0000 (18:45 +0200)]
remove unnecessary second load

3 years agocleanup
Andreas Müller [Thu, 6 May 2021 16:44:53 +0000 (18:44 +0200)]
cleanup

3 years agorevert unwanted CommonService commit
Andreas Müller [Thu, 6 May 2021 15:38:28 +0000 (17:38 +0200)]
revert unwanted CommonService commit

3 years agocleanup
Andreas Müller [Thu, 6 May 2021 10:24:09 +0000 (12:24 +0200)]
cleanup

3 years agoref #6359, ref #3740 error handling for setPublishForSubtree
Andreas Müller [Thu, 6 May 2021 09:38:05 +0000 (11:38 +0200)]
ref #6359, ref #3740 error handling for setPublishForSubtree

3 years agoref #9607 moving MediaMetadataService URI transformation to DefaultMediaTransformations
Andreas Kohlbecker [Thu, 6 May 2021 13:09:46 +0000 (15:09 +0200)]
ref #9607 moving MediaMetadataService URI transformation to DefaultMediaTransformations

3 years agoref #9607 moving and renaming test class from commons to services
Andreas Kohlbecker [Thu, 6 May 2021 12:52:27 +0000 (14:52 +0200)]
ref #9607 moving and renaming test class from commons to services

3 years agoref #9607 replacing class local factory methods and heplers in CdmImageInfo by servic...
Andreas Kohlbecker [Thu, 6 May 2021 12:25:46 +0000 (14:25 +0200)]
ref #9607 replacing class local factory methods and heplers in CdmImageInfo by service layer factory classes and metadata 'reader' class

3 years agoref #6359 error handling for setSecundumForSubtree
Andreas Müller [Thu, 6 May 2021 09:15:21 +0000 (11:15 +0200)]
ref #6359 error handling for setSecundumForSubtree

3 years agocleanup
Andreas Müller [Wed, 5 May 2021 15:56:47 +0000 (17:56 +0200)]
cleanup

3 years agohandle null values in TaxonNodeByRankAndNameComparator
Andreas Müller [Wed, 5 May 2021 15:43:07 +0000 (17:43 +0200)]
handle null values in TaxonNodeByRankAndNameComparator

3 years agofix StringUtils dependency
Andreas Müller [Wed, 5 May 2021 07:24:19 +0000 (09:24 +0200)]
fix StringUtils dependency

3 years agoremove warnings
Andreas Müller [Wed, 5 May 2021 06:53:17 +0000 (08:53 +0200)]
remove warnings

3 years agocleanup
Katja Luther [Wed, 5 May 2021 06:38:02 +0000 (08:38 +0200)]
cleanup

3 years agocleanup
Katja Luther [Wed, 5 May 2021 06:36:20 +0000 (08:36 +0200)]
cleanup

3 years agocleanup
Andreas Müller [Tue, 4 May 2021 21:49:01 +0000 (23:49 +0200)]
cleanup

3 years agoref #9590 similary fix clone for TaxonName/NomenclaturalSource
Andreas Müller [Tue, 4 May 2021 21:47:54 +0000 (23:47 +0200)]
ref #9590 similary fix clone for TaxonName/NomenclaturalSource

3 years agoref #9590 fix swap test by fixing SecundumSource clone method and remove incorrect...
Andreas Müller [Tue, 4 May 2021 21:39:17 +0000 (23:39 +0200)]
ref #9590 fix swap test by fixing SecundumSource clone method and remove incorrect Cascade.Delete handling in swap method

3 years agoref #9606 fixing also the 3rd potential NPE
Andreas Müller [Tue, 4 May 2021 20:42:32 +0000 (22:42 +0200)]
ref #9606 fixing also the 3rd potential NPE

3 years agocleanup
Andreas Müller [Tue, 4 May 2021 20:05:13 +0000 (22:05 +0200)]
cleanup

3 years agoref #9603 adapt TypeDesignationStatusComparator to new semantic of OrderedTermComparator
Andreas Müller [Tue, 4 May 2021 20:03:38 +0000 (22:03 +0200)]
ref #9603 adapt TypeDesignationStatusComparator to new semantic of OrderedTermComparator

3 years agoref #9606 fix another potential NPE
Andreas Kohlbecker [Tue, 4 May 2021 14:09:09 +0000 (16:09 +0200)]
ref #9606 fix another potential NPE

3 years agoref #9606 fix potential NPE
Andreas Müller [Tue, 4 May 2021 13:55:15 +0000 (15:55 +0200)]
ref #9606 fix potential NPE

3 years agoref #9603: fix natural sort order
Katja Luther [Tue, 4 May 2021 12:32:05 +0000 (14:32 +0200)]
ref #9603: fix natural sort order

3 years agofix #9185 catching and logging NPE and NestedSevletExecptions properly at appropriate...
Andreas Kohlbecker [Tue, 4 May 2021 10:55:54 +0000 (12:55 +0200)]
fix #9185 catching and logging NPE and NestedSevletExecptions properly at appropriate levels

3 years agoclean up
Andreas Kohlbecker [Tue, 4 May 2021 09:53:07 +0000 (11:53 +0200)]
clean up

3 years agoref #9603: add symbol and symbol2 to TermOrder enum
Katja Luther [Tue, 4 May 2021 10:38:05 +0000 (12:38 +0200)]
ref #9603: add symbol and symbol2 to TermOrder enum

3 years agofix handling of references for misapplied names
Katja Luther [Tue, 4 May 2021 10:17:28 +0000 (12:17 +0200)]
fix handling of references for misapplied names

3 years agoref #9603: add new Comparator for term.symbol und term.symbol2
Katja Luther [Tue, 4 May 2021 10:16:55 +0000 (12:16 +0200)]
ref #9603: add new Comparator for term.symbol und term.symbol2

3 years agocleanup
Andreas Müller [Mon, 3 May 2021 21:17:15 +0000 (23:17 +0200)]
cleanup

3 years agoref #9604 fix 2 minor issues in tests
Andreas Müller [Mon, 3 May 2021 21:16:47 +0000 (23:16 +0200)]
ref #9604 fix 2 minor issues in tests

3 years agofix #9604 bibliographic ReferenceDefaultCacheStrategy and NomenclaturalSourceFormatte...
Andreas Müller [Mon, 3 May 2021 20:49:24 +0000 (22:49 +0200)]
fix #9604 bibliographic ReferenceDefaultCacheStrategy and NomenclaturalSourceFormatter splittet

3 years agoremove duplicated methods in TaxonNameDefaultCacheStrategy
Andreas Müller [Mon, 3 May 2021 11:19:57 +0000 (13:19 +0200)]
remove duplicated methods in TaxonNameDefaultCacheStrategy

3 years agoref #9602 more clear execption handling in case of jndi data source problems
Andreas Kohlbecker [Mon, 3 May 2021 15:36:28 +0000 (17:36 +0200)]
ref #9602 more clear execption handling in case of jndi data source problems

3 years agoref #9590: set test to ignore
Katja Luther [Mon, 3 May 2021 14:00:19 +0000 (16:00 +0200)]
ref #9590: set test to ignore

3 years agoref #9590: add swapSynonymAndAcceptedTaxonNewUuid and test -continue
Katja Luther [Mon, 3 May 2021 13:42:38 +0000 (15:42 +0200)]
ref #9590: add swapSynonymAndAcceptedTaxonNewUuid and test -continue

3 years agoref #9590: add swapSynonymAndAcceptedTaxonNewUuid and test
Katja Luther [Mon, 3 May 2021 13:40:04 +0000 (15:40 +0200)]
ref #9590: add swapSynonymAndAcceptedTaxonNewUuid and test

3 years agoRegistrationTest test clarified
Andreas Kohlbecker [Mon, 3 May 2021 09:58:58 +0000 (11:58 +0200)]
RegistrationTest test clarified

3 years agoref #9598: adapt termvocabulary list to avoid duplicates
Katja Luther [Mon, 3 May 2021 08:24:35 +0000 (10:24 +0200)]
ref #9598: adapt termvocabulary list to avoid duplicates

3 years agorename DefaultReferenceCacheStrategy to ReferenceDefaultCacheStrategy
Andreas Müller [Mon, 3 May 2021 07:28:01 +0000 (09:28 +0200)]
rename DefaultReferenceCacheStrategy to ReferenceDefaultCacheStrategy

3 years agorename NamedAreaSearchField to TermSearchField
Andreas Müller [Mon, 3 May 2021 07:16:11 +0000 (09:16 +0200)]
rename NamedAreaSearchField to TermSearchField

3 years agocleanup
Andreas Müller [Mon, 3 May 2021 07:07:17 +0000 (09:07 +0200)]
cleanup

3 years agoadd country vocabulary uuid to NamedArea
Andreas Müller [Mon, 3 May 2021 06:45:01 +0000 (08:45 +0200)]
add country vocabulary uuid to NamedArea

3 years agofix #9598 add search by label and tests
Andreas Müller [Sun, 2 May 2021 21:27:48 +0000 (23:27 +0200)]
fix #9598 add search by label and tests

3 years agofix #9598 add deduplication to DefinedTermDaoImpl.listNamedAreaByAbbrev(...) rename...
Andreas Müller [Sun, 2 May 2021 20:46:14 +0000 (22:46 +0200)]
fix #9598 add deduplication to DefinedTermDaoImpl.listNamedAreaByAbbrev(...) rename listNamedArea to list(clazz, ....) to make the method more generic

3 years agocleanup
Andreas Müller [Sun, 2 May 2021 20:44:23 +0000 (22:44 +0200)]
cleanup

3 years agofix #9598 add deduplication to DefinedTermDaoImpl.listNamedArea(...)
Andreas Müller [Sat, 1 May 2021 19:55:04 +0000 (21:55 +0200)]
fix #9598 add deduplication to DefinedTermDaoImpl.listNamedArea(...)

3 years agocleanup
Andreas Müller [Sat, 1 May 2021 19:52:12 +0000 (21:52 +0200)]
cleanup

3 years agominor
Andreas Müller [Sat, 1 May 2021 18:34:43 +0000 (20:34 +0200)]
minor

3 years agofix potential NPE in DescriptionAggregation if TaxonNode sortindex is corrupted
Andreas Müller [Sat, 1 May 2021 18:34:04 +0000 (20:34 +0200)]
fix potential NPE in DescriptionAggregation if TaxonNode sortindex is corrupted

3 years agoref #9327 adapt aggregation tests for secundum original source
Andreas Müller [Sat, 1 May 2021 18:31:15 +0000 (20:31 +0200)]
ref #9327 adapt aggregation tests for secundum original source

3 years agoref #9539 implement base classes for available for and some first methods
Andreas Müller [Sat, 1 May 2021 18:26:55 +0000 (20:26 +0200)]
ref #9539 implement base classes for available for and some first methods

3 years agocleanup
Andreas Müller [Sat, 1 May 2021 18:13:20 +0000 (20:13 +0200)]
cleanup

3 years agocleanup
Andreas Müller [Fri, 30 Apr 2021 19:35:31 +0000 (21:35 +0200)]
cleanup

3 years agoref #9597 handle MediaSpecimen and its sources correctly in TypeDesignationSet format...
Andreas Müller [Fri, 30 Apr 2021 19:35:13 +0000 (21:35 +0200)]
ref #9597 handle MediaSpecimen and its sources correctly in TypeDesignationSet formatting (cont.)

3 years agofix #9597 handle MediaSpecimen and its sources correctly in TypeDesignationSet formatting
Andreas Müller [Fri, 30 Apr 2021 19:14:06 +0000 (21:14 +0200)]
fix #9597 handle MediaSpecimen and its sources correctly in TypeDesignationSet formatting

3 years agocleanup
Andreas Müller [Fri, 30 Apr 2021 17:52:46 +0000 (19:52 +0200)]
cleanup

3 years agoref #7612, ref #5573, ref #5575 use mostSignificantIdentifier instead of accession...
Andreas Müller [Fri, 30 Apr 2021 07:26:45 +0000 (09:26 +0200)]
ref #7612, ref #5573, ref #5575 use mostSignificantIdentifier instead of accession number only

3 years agoref #9595 shortcut to load single identifier
Andreas Müller [Fri, 30 Apr 2021 07:25:10 +0000 (09:25 +0200)]
ref #9595 shortcut to load single identifier

3 years agoref #9595 load sample designation preferred to other identifiers for DNA Sample
Andreas Müller [Fri, 30 Apr 2021 06:56:04 +0000 (08:56 +0200)]
ref #9595 load sample designation preferred to other identifiers for DNA Sample

3 years agoref #9595 load empty DnaSamples with DnaSampleDefaultCacheStrategy
Andreas Müller [Fri, 30 Apr 2021 06:55:05 +0000 (08:55 +0200)]
ref #9595 load empty DnaSamples with DnaSampleDefaultCacheStrategy

3 years agocleanup
Andreas Müller [Fri, 30 Apr 2021 05:42:43 +0000 (07:42 +0200)]
cleanup

3 years agoref #9595 add SampleDesignation uuid to DefinedTerm
Andreas Müller [Fri, 30 Apr 2021 05:42:14 +0000 (07:42 +0200)]
ref #9595 add SampleDesignation uuid to DefinedTerm

3 years agominor
Andreas Müller [Fri, 30 Apr 2021 05:17:50 +0000 (07:17 +0200)]
minor

3 years agoref #9595 move xxxPreferredDetermination from facade to SpecimenOrObservationBase
Andreas Müller [Fri, 30 Apr 2021 05:17:31 +0000 (07:17 +0200)]
ref #9595 move xxxPreferredDetermination from facade to SpecimenOrObservationBase

3 years agoref #5573, ref #7612 some doc
Andreas Müller [Fri, 30 Apr 2021 05:15:53 +0000 (07:15 +0200)]
ref #5573, ref #7612 some doc

3 years agocleanup
Andreas Müller [Thu, 29 Apr 2021 21:05:55 +0000 (23:05 +0200)]
cleanup

3 years agoremove generics from Identifier class
Andreas Müller [Thu, 29 Apr 2021 21:04:16 +0000 (23:04 +0200)]
remove generics from Identifier class

3 years agoref #9593: revert some changes in taxonDao not belonging to this ticket
Katja Luther [Thu, 29 Apr 2021 13:30:10 +0000 (15:30 +0200)]
ref #9593: revert some changes in taxonDao not belonging to this ticket

3 years agoref #9329 adapting json configuration to new sec reference structure and fields
Andreas Kohlbecker [Thu, 29 Apr 2021 09:59:04 +0000 (11:59 +0200)]
ref #9329 adapting json configuration to new sec reference structure and fields

3 years agoref #9575: test adaption
Katja Luther [Thu, 29 Apr 2021 06:43:29 +0000 (08:43 +0200)]
ref #9575: test adaption

3 years agoref #9575: revert test adaption
Katja Luther [Wed, 28 Apr 2021 15:31:14 +0000 (17:31 +0200)]
ref #9575: revert test adaption

3 years agocleanup
Andreas Müller [Wed, 28 Apr 2021 18:28:54 +0000 (20:28 +0200)]
cleanup

3 years agoref #9575 adapt tests for editor search with authors
Andreas Müller [Wed, 28 Apr 2021 18:28:32 +0000 (20:28 +0200)]
ref #9575 adapt tests for editor search with authors

3 years agoref #1602, ref #5573, ref #7612 Include artist in MediaDefaultCacheStrategy
Andreas Müller [Wed, 28 Apr 2021 17:02:54 +0000 (19:02 +0200)]
ref #1602, ref #5573, ref #7612 Include artist in MediaDefaultCacheStrategy

3 years agocleanup
Andreas Müller [Wed, 28 Apr 2021 17:01:50 +0000 (19:01 +0200)]
cleanup

3 years agoref #7612, ref #5573 adapt MediaSpecimenDefaultCacheStrategy to show file name only...
Andreas Müller [Wed, 28 Apr 2021 15:05:46 +0000 (17:05 +0200)]
ref #7612, ref #5573 adapt MediaSpecimenDefaultCacheStrategy to show file name only if no other information exists

3 years agocleanup
Andreas Müller [Wed, 28 Apr 2021 14:52:53 +0000 (16:52 +0200)]
cleanup

3 years agoref #9591 defined order of item in FieldUnitDTO.TreeLabels
Andreas Kohlbecker [Wed, 28 Apr 2021 14:06:00 +0000 (16:06 +0200)]
ref #9591 defined order of item in FieldUnitDTO.TreeLabels

3 years agoref #9575: adapt findTaxaAndNames for doAuthors, add test case
Katja Luther [Wed, 28 Apr 2021 11:50:06 +0000 (13:50 +0200)]
ref #9575: adapt findTaxaAndNames for doAuthors, add test case

3 years agoref #9593: add polytomouskey handling in PostMergeEntityListener to avoid NULL values...
Katja Luther [Wed, 28 Apr 2021 10:58:09 +0000 (12:58 +0200)]
ref #9593: add polytomouskey handling in PostMergeEntityListener to avoid NULL values - avoid NPE

3 years agoref #9593: add polytomouskey handling in PostMergeEntityListener to avoid NULL values
Katja Luther [Wed, 28 Apr 2021 10:02:19 +0000 (12:02 +0200)]
ref #9593: add polytomouskey handling in PostMergeEntityListener to avoid NULL values

3 years agoref #9590: fix test
Katja Luther [Tue, 27 Apr 2021 13:32:59 +0000 (15:32 +0200)]
ref #9590: fix test

3 years agoref #9590: fix test
Katja Luther [Tue, 27 Apr 2021 13:06:12 +0000 (15:06 +0200)]
ref #9590: fix test

3 years agoref #9590: adapt business test
Katja Luther [Tue, 27 Apr 2021 12:43:44 +0000 (14:43 +0200)]
ref #9590: adapt business test

3 years agoref #9591 reaming dto field specimenIdentifier -> shortTitle & adding media title...
Andreas Kohlbecker [Tue, 27 Apr 2021 12:33:46 +0000 (14:33 +0200)]
ref #9591 reaming dto field specimenIdentifier -> shortTitle & adding media title to media specimens

3 years agoref #9590: add synonym with secundum reference to swap test
Katja Luther [Tue, 27 Apr 2021 11:14:18 +0000 (13:14 +0200)]
ref #9590: add synonym with secundum reference to swap test