cdmlib.git
2 years agoref #9510 adapt specimens holding description label (cont. II)
Andreas Müller [Wed, 6 Oct 2021 10:06:55 +0000 (12:06 +0200)]
ref #9510 adapt specimens holding description label (cont. II)

2 years agoref #9510 adapt specimens holding description label (cont.)
Andreas Müller [Wed, 6 Oct 2021 09:29:39 +0000 (11:29 +0200)]
ref #9510 adapt specimens holding description label (cont.)

2 years agocleanup
Andreas Müller [Wed, 6 Oct 2021 09:28:47 +0000 (11:28 +0200)]
cleanup

2 years agocleanup and explicit title for IndividualsAssociation taxon descriptions
Andreas Müller [Wed, 6 Oct 2021 09:06:58 +0000 (11:06 +0200)]
cleanup and explicit title for IndividualsAssociation taxon descriptions

2 years agominor
Andreas Müller [Wed, 6 Oct 2021 08:30:28 +0000 (10:30 +0200)]
minor

2 years agofix compile error and cleanup (cont.)
Andreas Müller [Tue, 5 Oct 2021 21:54:00 +0000 (23:54 +0200)]
fix compile error and cleanup (cont.)

2 years agofix compile error and cleanup
Andreas Müller [Tue, 5 Oct 2021 21:50:50 +0000 (23:50 +0200)]
fix compile error and cleanup

2 years agocleanup
Andreas Müller [Tue, 5 Oct 2021 21:36:25 +0000 (23:36 +0200)]
cleanup

2 years agoref #7980, ref #8871, ref #9795 fix source handling in StructuredDescriptionAggregation
Andreas Müller [Tue, 5 Oct 2021 21:29:47 +0000 (23:29 +0200)]
ref #7980, ref #8871, ref #9795 fix source handling in StructuredDescriptionAggregation

2 years agorevert add supresswarning annotation
Katja Luther [Tue, 5 Oct 2021 12:38:39 +0000 (14:38 +0200)]
revert add supresswarning annotation

2 years agocleanup
Andreas Müller [Tue, 5 Oct 2021 12:39:41 +0000 (14:39 +0200)]
cleanup

2 years agofix compile error
Andreas Müller [Tue, 5 Oct 2021 12:39:13 +0000 (14:39 +0200)]
fix compile error

2 years agoremove cloneNotSupportedException from DescriptionElementBase and some cleanup
Andreas Müller [Mon, 4 Oct 2021 21:18:55 +0000 (23:18 +0200)]
remove cloneNotSupportedException from DescriptionElementBase and some cleanup

2 years agocode cleaning - continue
Katja Luther [Tue, 5 Oct 2021 11:46:55 +0000 (13:46 +0200)]
code cleaning - continue

2 years agocode cleaning - continue
Katja Luther [Tue, 5 Oct 2021 11:28:03 +0000 (13:28 +0200)]
code cleaning - continue

2 years agocode cleaning
Katja Luther [Tue, 5 Oct 2021 11:17:16 +0000 (13:17 +0200)]
code cleaning

2 years agocode cleaning
Katja Luther [Tue, 5 Oct 2021 11:15:28 +0000 (13:15 +0200)]
code cleaning

2 years agoref #9772: code cleaning - move hql code to persistence
Katja Luther [Tue, 5 Oct 2021 08:53:45 +0000 (10:53 +0200)]
ref #9772: code cleaning - move hql code to persistence

2 years agocode cleaning, move hql queries to dao
Katja Luther [Tue, 5 Oct 2021 07:57:15 +0000 (09:57 +0200)]
code cleaning, move hql queries to dao

2 years agocleanup
Andreas Müller [Mon, 4 Oct 2021 14:25:12 +0000 (16:25 +0200)]
cleanup

2 years agoref #9772 cleanup SpecimenOrObservationBaseDTO (cont.)
Andreas Müller [Mon, 4 Oct 2021 12:44:52 +0000 (14:44 +0200)]
ref #9772 cleanup SpecimenOrObservationBaseDTO (cont.)

2 years agocleanup SpecimenOrObservationBaseDTO
Andreas Müller [Mon, 4 Oct 2021 12:39:50 +0000 (14:39 +0200)]
cleanup SpecimenOrObservationBaseDTO

2 years agoref #7980, ref #8871 reuse description items for DDS aggregation
Andreas Müller [Mon, 4 Oct 2021 12:12:04 +0000 (14:12 +0200)]
ref #7980, ref #8871 reuse description items for DDS aggregation

2 years agocleanup
Andreas Müller [Mon, 4 Oct 2021 12:09:16 +0000 (14:09 +0200)]
cleanup

2 years agoref #7980 remove multiple description items for same feature from reused description
Andreas Müller [Sat, 2 Oct 2021 00:45:36 +0000 (02:45 +0200)]
ref #7980 remove multiple description items for same feature from reused description

2 years agoref #9797 introducing TaxonAutoInitializer to init taxonNodes and adapting init strat...
Andreas Kohlbecker [Mon, 4 Oct 2021 11:50:48 +0000 (13:50 +0200)]
ref #9797 introducing TaxonAutoInitializer to init taxonNodes and adapting init strategies

2 years agoref #9797 comment on UNUSED TaxonNodeAutoInitializer
Andreas Kohlbecker [Mon, 4 Oct 2021 11:47:46 +0000 (13:47 +0200)]
ref #9797 comment on UNUSED TaxonNodeAutoInitializer

2 years agoref #9797 disabling and deprecating TaxonRelationshipBeanProcessor
Andreas Kohlbecker [Mon, 4 Oct 2021 11:46:44 +0000 (13:46 +0200)]
ref #9797 disabling and deprecating TaxonRelationshipBeanProcessor

2 years agoref #9797 better trace logging for bean initialization
Andreas Kohlbecker [Mon, 4 Oct 2021 11:34:58 +0000 (13:34 +0200)]
ref #9797 better trace logging for bean initialization

2 years agoref #9797 Taxon.isMisapplicationOnly() as transient method
Andreas Kohlbecker [Mon, 4 Oct 2021 11:33:28 +0000 (13:33 +0200)]
ref #9797 Taxon.isMisapplicationOnly() as transient method

2 years agoref #9772: add collectors string with collector and collectorsnumber
Katja Luther [Mon, 4 Oct 2021 10:54:37 +0000 (12:54 +0200)]
ref #9772: add collectors string with collector and collectorsnumber

2 years agoref #9772: add collectors string with collector and collectorsnumber
Katja Luther [Mon, 4 Oct 2021 10:23:21 +0000 (12:23 +0200)]
ref #9772: add collectors string with collector and collectorsnumber

2 years agoref #7981: fix taxonnodeDto taxon titlecache
Katja Luther [Fri, 1 Oct 2021 19:14:53 +0000 (21:14 +0200)]
ref #7981: fix taxonnodeDto taxon titlecache

2 years agoadd CDMLINK to ClearDB_with_Terms_DataSet.xml
Andreas Müller [Sat, 2 Oct 2021 00:13:37 +0000 (02:13 +0200)]
add CDMLINK to ClearDB_with_Terms_DataSet.xml

2 years agominor and cleanup
Andreas Müller [Fri, 1 Oct 2021 22:18:47 +0000 (00:18 +0200)]
minor and cleanup

2 years agoinclude taxon name in taxon node referencing objects formatter
Andreas Müller [Fri, 1 Oct 2021 19:46:08 +0000 (21:46 +0200)]
include taxon name in taxon node referencing objects formatter

2 years agofix compile error
Andreas Müller [Fri, 1 Oct 2021 17:26:04 +0000 (19:26 +0200)]
fix compile error

2 years agocleanup
Andreas Müller [Fri, 1 Oct 2021 17:15:43 +0000 (19:15 +0200)]
cleanup

2 years agoref #7981: fix taxonnodeDto taxon titlecache
Katja Luther [Fri, 1 Oct 2021 16:10:17 +0000 (18:10 +0200)]
ref #7981: fix taxonnodeDto taxon titlecache

2 years agofix wrong parameters in taxonnodeDto in DDS Dto
Katja Luther [Fri, 1 Oct 2021 11:22:14 +0000 (13:22 +0200)]
fix wrong parameters in taxonnodeDto in DDS Dto

2 years agoSimplify stateData comparator
Andreas Müller [Fri, 1 Oct 2021 08:56:09 +0000 (10:56 +0200)]
Simplify stateData comparator

2 years agofulfill compare contract for stateData comparator
Katja Luther [Fri, 1 Oct 2021 08:42:37 +0000 (10:42 +0200)]
fulfill compare contract for stateData comparator

2 years agominor
Andreas Müller [Fri, 1 Oct 2021 08:16:43 +0000 (10:16 +0200)]
minor

2 years agoref #9798 add Spanish country labels to term csv files
Andreas Müller [Fri, 1 Oct 2021 08:16:33 +0000 (10:16 +0200)]
ref #9798 add Spanish country labels to term csv files

2 years agoavoid NPE in state comparat
Katja Luther [Fri, 1 Oct 2021 07:47:22 +0000 (09:47 +0200)]
avoid NPE in state comparat

2 years agocleanup
Andreas Müller [Fri, 1 Oct 2021 07:34:04 +0000 (09:34 +0200)]
cleanup

2 years agoref #9798 make Spanish uuid public
Andreas Müller [Fri, 1 Oct 2021 07:33:47 +0000 (09:33 +0200)]
ref #9798 make Spanish uuid public

2 years agosort states in aggregated descriptions on count - continue
Katja Luther [Fri, 1 Oct 2021 07:11:20 +0000 (09:11 +0200)]
sort states in aggregated descriptions on count - continue

2 years agosort states in aggregated descriptions on count
Katja Luther [Fri, 1 Oct 2021 06:48:57 +0000 (08:48 +0200)]
sort states in aggregated descriptions on count

2 years agoMerge branch 'develop' of ssh://dev.e-taxonomy.eu/var/git/cdmlib into develop
Katja Luther [Thu, 30 Sep 2021 16:35:06 +0000 (18:35 +0200)]
Merge branch 'develop' of ssh://dev.e-taxonomy.eu/var/git/cdmlib into develop

2 years agoref #9772: do not create empty elements in taxon descriptions
Katja Luther [Thu, 30 Sep 2021 16:32:32 +0000 (18:32 +0200)]
ref #9772: do not create empty elements in taxon descriptions

2 years agoref #9795 include literature aggregation by default
Andreas Müller [Thu, 30 Sep 2021 15:46:17 +0000 (17:46 +0200)]
ref #9795 include literature aggregation by default

2 years agocleanup
Andreas Müller [Thu, 30 Sep 2021 15:45:21 +0000 (17:45 +0200)]
cleanup

2 years agoref #7980 fix NPE for StateData having no state
Andreas Müller [Thu, 30 Sep 2021 15:44:49 +0000 (17:44 +0200)]
ref #7980 fix NPE for StateData having no state

2 years agoref #8871 remove isAggregateToHigherRanks from StructuredDescriptionAggregationConfig...
Andreas Müller [Thu, 30 Sep 2021 13:01:30 +0000 (15:01 +0200)]
ref #8871 remove isAggregateToHigherRanks from StructuredDescriptionAggregationConfiguration

2 years agoref #9772: continue solving problems with rowWrapper
Katja Luther [Thu, 30 Sep 2021 08:40:10 +0000 (10:40 +0200)]
ref #9772: continue solving problems with rowWrapper

2 years agoref #9772: fix problems with doubled states in literature descriptions
Katja Luther [Thu, 30 Sep 2021 08:05:43 +0000 (10:05 +0200)]
ref #9772: fix problems with doubled states in literature descriptions

2 years agoMerge branch 'develop' of ssh://dev.e-taxonomy.eu/var/git/cdmlib into develop
Katja Luther [Thu, 30 Sep 2021 05:54:51 +0000 (07:54 +0200)]
Merge branch 'develop' of ssh://dev.e-taxonomy.eu/var/git/cdmlib into develop

2 years agoref #9772: fix problems with rowWrapper
Katja Luther [Thu, 30 Sep 2021 05:53:57 +0000 (07:53 +0200)]
ref #9772: fix problems with rowWrapper

2 years agoref #9796, ref #9433 extending init strategy for related taxa
Andreas Kohlbecker [Wed, 29 Sep 2021 14:03:25 +0000 (16:03 +0200)]
ref #9796, ref #9433 extending init strategy for related taxa

2 years agoref #9795 evaluate includeLiterature
Andreas Müller [Wed, 29 Sep 2021 13:37:39 +0000 (15:37 +0200)]
ref #9795 evaluate includeLiterature

2 years agorename static AggregationMode methods
Andreas Müller [Wed, 29 Sep 2021 13:08:16 +0000 (15:08 +0200)]
rename static AggregationMode methods

2 years agominor
Andreas Müller [Wed, 29 Sep 2021 12:51:50 +0000 (14:51 +0200)]
minor

2 years agominor
Andreas Müller [Wed, 29 Sep 2021 12:32:05 +0000 (14:32 +0200)]
minor

2 years agoref #9123 improve precision handling for average computing in DDS aggregation
Andreas Müller [Wed, 29 Sep 2021 12:31:55 +0000 (14:31 +0200)]
ref #9123 improve precision handling for average computing in DDS aggregation

2 years agoref #9123 add rounding to average computing in DDS aggregation (not yet complete)
Andreas Müller [Wed, 29 Sep 2021 09:52:46 +0000 (11:52 +0200)]
ref #9123 add rounding to average computing in DDS aggregation (not yet complete)

2 years agoref #7980 add exception message to unhandled exception handling
Andreas Müller [Wed, 29 Sep 2021 08:02:47 +0000 (10:02 +0200)]
ref #7980 add exception message to unhandled exception handling

2 years agoput failing test preliminary to ignore
Andreas Müller [Wed, 29 Sep 2021 08:00:45 +0000 (10:00 +0200)]
put failing test preliminary to ignore

2 years agocleanup
Andreas Müller [Wed, 29 Sep 2021 08:00:24 +0000 (10:00 +0200)]
cleanup

2 years agoadd stacktrace handling for StructuredDescriptionAggregationTest (cont.)
Andreas Müller [Wed, 29 Sep 2021 07:04:06 +0000 (09:04 +0200)]
add stacktrace handling for StructuredDescriptionAggregationTest (cont.)

2 years agocleanup UpdateResult
Andreas Müller [Wed, 29 Sep 2021 07:03:48 +0000 (09:03 +0200)]
cleanup UpdateResult

2 years agoadd stacktrace handling for StructuredDescriptionAggregationTest
Andreas Müller [Wed, 29 Sep 2021 06:44:13 +0000 (08:44 +0200)]
add stacktrace handling for StructuredDescriptionAggregationTest

2 years agoref #9795 add literature descriptions to matrix aggregation
Andreas Müller [Tue, 28 Sep 2021 21:21:01 +0000 (23:21 +0200)]
ref #9795 add literature descriptions to matrix aggregation

2 years agominor issues for StructuredDescriptionAggregationTest
Andreas Müller [Tue, 28 Sep 2021 11:48:21 +0000 (13:48 +0200)]
minor issues for StructuredDescriptionAggregationTest

2 years agofix #9790 remove highest status only for DDS source aggregation
Andreas Müller [Mon, 27 Sep 2021 13:37:41 +0000 (15:37 +0200)]
fix #9790  remove highest status only for DDS source aggregation

2 years agocode cleaning
Katja Luther [Fri, 24 Sep 2021 12:49:21 +0000 (14:49 +0200)]
code cleaning

2 years agoref #9772: fix problems with more than one description for one taxon
Katja Luther [Fri, 24 Sep 2021 07:55:28 +0000 (09:55 +0200)]
ref #9772: fix problems with more than one description for one taxon

2 years agofix #9786 implement CY and fix PY for RIS import (and fix Source handling for in...
Andreas Müller [Thu, 23 Sep 2021 15:25:57 +0000 (17:25 +0200)]
fix #9786 implement CY and fix PY for RIS import (and fix Source handling for in-references)

2 years agoref #9772: avoid another NPE
Katja Luther [Thu, 23 Sep 2021 14:21:34 +0000 (16:21 +0200)]
ref #9772: avoid another NPE

2 years agoCleanup RIS and Endnote tests
Andreas Müller [Thu, 23 Sep 2021 12:56:13 +0000 (14:56 +0200)]
Cleanup RIS and Endnote tests

2 years agoref #9772: avoid NPE
Katja Luther [Thu, 23 Sep 2021 11:49:46 +0000 (13:49 +0200)]
ref #9772: avoid NPE

2 years agoref #6387 add code validation for cultivar group epi
Andreas Müller [Thu, 23 Sep 2021 11:06:08 +0000 (13:06 +0200)]
ref #6387 add code validation for cultivar group epi

2 years agoref #9772: fix getting taxonRowWrapper - continue
Katja Luther [Thu, 23 Sep 2021 09:03:29 +0000 (11:03 +0200)]
ref #9772: fix getting taxonRowWrapper - continue

2 years agoref #9772: fix getting taxonRowWrapper
Katja Luther [Thu, 23 Sep 2021 08:30:38 +0000 (10:30 +0200)]
ref #9772: fix getting taxonRowWrapper

2 years agoref #9477 fix term loading for ordered new terms
Andreas Müller [Thu, 23 Sep 2021 08:22:31 +0000 (10:22 +0200)]
ref #9477 fix term loading for ordered new terms

2 years agofix incorrect previousUpdater info in 5.27.0_5.27.1
Andreas Müller [Thu, 23 Sep 2021 07:45:14 +0000 (09:45 +0200)]
fix incorrect previousUpdater info in 5.27.0_5.27.1

2 years agoref #9762, ref #9755 Add nameCache annotation to cultivar fields
Andreas Müller [Thu, 23 Sep 2021 07:02:36 +0000 (09:02 +0200)]
ref #9762, ref #9755 Add nameCache annotation to cultivar fields

2 years agoref #9778, ref #9782 fix parsing for (sub)proles
Andreas Müller [Wed, 22 Sep 2021 17:03:26 +0000 (19:03 +0200)]
ref #9778, ref #9782 fix parsing for (sub)proles

2 years agoref #9757 add test for parsing into existing name
Andreas Müller [Wed, 22 Sep 2021 15:57:04 +0000 (17:57 +0200)]
ref #9757 add test for parsing into existing name

2 years agoref #9754 fix tests
Andreas Müller [Wed, 22 Sep 2021 15:56:43 +0000 (17:56 +0200)]
ref #9754 fix tests

2 years agoref #9754 fix appended phrase handling in cultivar formatter (cont.)
Andreas Müller [Wed, 22 Sep 2021 15:32:48 +0000 (17:32 +0200)]
ref #9754 fix appended phrase handling in cultivar formatter (cont.)

2 years agoref #9754 fix appended phrase handling in cultivar formatter
Andreas Müller [Wed, 22 Sep 2021 15:26:04 +0000 (17:26 +0200)]
ref #9754 fix appended phrase handling in cultivar formatter

2 years agoref #9755 add DENOMINATIONCLASS to isCultivar()
Andreas Müller [Wed, 22 Sep 2021 14:48:19 +0000 (16:48 +0200)]
ref #9755 add DENOMINATIONCLASS to isCultivar()

2 years agoref #9782 adapt abbreviation for proles - adapt tests
Andreas Müller [Wed, 22 Sep 2021 12:58:21 +0000 (14:58 +0200)]
ref #9782 adapt abbreviation for proles - adapt tests

2 years agoref #9782 adapt abbreviation for proles
Andreas Müller [Wed, 22 Sep 2021 12:44:04 +0000 (14:44 +0200)]
ref #9782 adapt abbreviation for proles

2 years agofix CdmUpdater to correct version
Andreas Müller [Wed, 22 Sep 2021 12:29:01 +0000 (14:29 +0200)]
fix CdmUpdater to correct version

2 years agoref #9755 update script for grex infraspec. representation
Andreas Müller [Wed, 22 Sep 2021 12:14:12 +0000 (14:14 +0200)]
ref #9755 update script for grex infraspec. representation

2 years agoref #6387 test that convar is not a cultivar
Andreas Müller [Wed, 22 Sep 2021 12:05:17 +0000 (14:05 +0200)]
ref #6387  test that convar is not a cultivar

2 years agoref #9771Additional ignore on seupClass, just in case
Andreas Müller [Wed, 22 Sep 2021 12:04:29 +0000 (14:04 +0200)]
ref #9771Additional ignore on seupClass, just in case

2 years agoref #9771 first incomplete version of Cdm2CdmVocabularyImport (cont.)
Andreas Müller [Wed, 22 Sep 2021 10:45:13 +0000 (12:45 +0200)]
ref #9771 first incomplete version of Cdm2CdmVocabularyImport (cont.)