cdmlib.git
5 years agoref #8182: adapt occurrence DTOs to use them in details page of blast result
Katja Luther [Wed, 29 May 2019 10:59:54 +0000 (12:59 +0200)]
ref #8182: adapt occurrence DTOs to use them in details page of blast result

5 years agoref #8045: add toString() to the preference enums
Katja Luther [Wed, 29 May 2019 10:52:08 +0000 (12:52 +0200)]
ref #8045: add toString() to the preference enums

5 years agoref #8248 Add term vocbulary import test + code cleanup
Patrick Plitzner [Wed, 29 May 2019 09:51:00 +0000 (11:51 +0200)]
ref #8248 Add term vocbulary import test + code cleanup

5 years agoref #8248 Fix property string access
Patrick Plitzner [Wed, 29 May 2019 08:37:55 +0000 (10:37 +0200)]
ref #8248 Fix property string access

5 years agoref #6774 Init export configurator
Patrick Plitzner [Wed, 29 May 2019 07:41:35 +0000 (09:41 +0200)]
ref #6774 Init export configurator

5 years agoref #8248 Adapt test to import
Patrick Plitzner [Tue, 28 May 2019 15:51:08 +0000 (17:51 +0200)]
ref #8248 Adapt test to import

5 years agoref #8248 Set UUID during import
Patrick Plitzner [Tue, 28 May 2019 15:50:35 +0000 (17:50 +0200)]
ref #8248 Set UUID during import

5 years agoref #6774 Adapt test to export format
Patrick Plitzner [Tue, 28 May 2019 13:02:24 +0000 (15:02 +0200)]
ref #6774 Adapt test to export format

5 years agofix tests for cdmlight
Katja Luther [Mon, 27 May 2019 12:56:04 +0000 (14:56 +0200)]
fix tests for cdmlight

5 years agofix preference service
Katja Luther [Mon, 27 May 2019 12:13:39 +0000 (14:13 +0200)]
fix preference service

5 years agoref #8248, #6774 Fix bean names
Patrick Plitzner [Mon, 27 May 2019 12:00:43 +0000 (14:00 +0200)]
ref #8248, #6774 Fix bean names

5 years agoref #8045: add remove to preference service and dao
Katja Luther [Mon, 27 May 2019 10:48:41 +0000 (12:48 +0200)]
ref #8045: add remove to preference service and dao

5 years agoref #8248 Implement termvocabulary import
Patrick Plitzner [Mon, 27 May 2019 07:58:17 +0000 (09:58 +0200)]
ref #8248 Implement termvocabulary import

5 years agoref #6774 Set vocabulary for partOf and kindOf terms in export
Patrick Plitzner [Mon, 27 May 2019 07:39:17 +0000 (09:39 +0200)]
ref #6774 Set vocabulary for partOf and kindOf terms in export

5 years agoref #6774 Fix node hierarchy in export
Patrick Plitzner [Mon, 27 May 2019 07:15:33 +0000 (09:15 +0200)]
ref #6774 Fix node hierarchy in export

5 years agoref #8248 Extract CDM entity creation to util
Patrick Plitzner [Mon, 27 May 2019 07:11:06 +0000 (09:11 +0200)]
ref #8248 Extract CDM entity creation to util

5 years agoref #8248, #6774 Extract model creation form import and export to util
Patrick Plitzner [Sun, 26 May 2019 13:48:31 +0000 (15:48 +0200)]
ref #8248, #6774 Extract model creation form import and export to util

5 years agoref #8248 Move rdf model to import state
Patrick Plitzner [Sun, 26 May 2019 13:30:48 +0000 (15:30 +0200)]
ref #8248 Move rdf model to import state

5 years agoref #6774 Use UUID for feature tree export
Patrick Plitzner [Sun, 26 May 2019 13:19:09 +0000 (15:19 +0200)]
ref #6774 Use UUID for feature tree export

5 years agoref #6774 Fix class cast exception
Patrick Plitzner [Fri, 24 May 2019 12:22:23 +0000 (14:22 +0200)]
ref #6774 Fix class cast exception

5 years agoref #6774 Add service method findVocabularyDtoByTermTypes()
Patrick Plitzner [Fri, 24 May 2019 11:48:55 +0000 (13:48 +0200)]
ref #6774 Add service method findVocabularyDtoByTermTypes()

5 years agoref #8209 modularization of reference init strategies - bug fix
Andreas Kohlbecker [Fri, 24 May 2019 11:59:08 +0000 (13:59 +0200)]
ref #8209 modularization of reference init strategies - bug fix

5 years agoref #8209 modularization of reference init strategies
Andreas Kohlbecker [Fri, 24 May 2019 09:49:26 +0000 (11:49 +0200)]
ref #8209 modularization of reference init strategies

5 years agoref #8209 modularization of reference init strategies and improving EntitiyInitStrate...
Andreas Kohlbecker [Fri, 24 May 2019 09:36:20 +0000 (11:36 +0200)]
ref #8209 modularization of reference init strategies and improving EntitiyInitStrategy class

5 years agominor
Katja Luther [Thu, 23 May 2019 12:19:53 +0000 (14:19 +0200)]
minor

5 years agofix sortindex in cdmlight export
Katja Luther [Thu, 23 May 2019 12:07:37 +0000 (14:07 +0200)]
fix sortindex in cdmlight export

5 years agoref #6774 Refactor export class inheritance
Patrick Plitzner [Thu, 23 May 2019 10:03:47 +0000 (12:03 +0200)]
ref #6774 Refactor export class inheritance

5 years agoref #6774 Extract all resource creation to util class
Patrick Plitzner [Thu, 23 May 2019 08:43:18 +0000 (10:43 +0200)]
ref #6774 Extract all resource creation to util class

5 years agoadapt IdNamespace predicate a bit #8294
Andreas Müller [Thu, 23 May 2019 09:36:48 +0000 (11:36 +0200)]
adapt IdNamespace predicate a bit #8294

5 years agoref #6774 Bidirectional linking of terms and vocabularies
Patrick Plitzner [Wed, 22 May 2019 11:58:29 +0000 (13:58 +0200)]
ref #6774 Bidirectional linking of terms and vocabularies

5 years agoref #6774 Add util class for static methods
Patrick Plitzner [Wed, 22 May 2019 11:43:15 +0000 (13:43 +0200)]
ref #6774 Add util class for static methods

5 years agoSet vocabulary DTO when creating a term DTO
Patrick Plitzner [Wed, 22 May 2019 10:04:27 +0000 (12:04 +0200)]
Set vocabulary DTO when creating a term DTO

5 years agoref #6774 Refactor term tree export
Patrick Plitzner [Tue, 21 May 2019 17:34:20 +0000 (19:34 +0200)]
ref #6774 Refactor term tree export

 - unify resource creation methods

5 years agoref #6774 Implement term vocabulary OWL export (partially)
Patrick Plitzner [Tue, 21 May 2019 17:19:53 +0000 (19:19 +0200)]
ref #6774 Implement term vocabulary OWL export (partially)

5 years agoref #6774 Use term node uuid for node resource
Patrick Plitzner [Tue, 21 May 2019 17:13:19 +0000 (19:13 +0200)]
ref #6774 Use term node uuid for node resource

5 years agoref #8252 preserving section authors and better title compentation
Andreas Kohlbecker [Wed, 22 May 2019 06:47:39 +0000 (08:47 +0200)]
ref #8252 preserving section authors and better title compentation

5 years agoadd some term uuids to E+M import
Andreas Müller [Tue, 21 May 2019 20:15:57 +0000 (22:15 +0200)]
add some term uuids to E+M import

5 years agoref #8286 add centimeter to MeasurementUnit
Andreas Müller [Tue, 21 May 2019 20:10:27 +0000 (22:10 +0200)]
ref #8286 add centimeter to MeasurementUnit

5 years agoref #8189 adapt tests for ConfigFileUtilTest
Andreas Müller [Sun, 19 May 2019 07:22:26 +0000 (09:22 +0200)]
ref #8189 adapt tests for ConfigFileUtilTest

5 years agoref #6774 Refactor OWL export
Patrick Plitzner [Tue, 21 May 2019 12:59:21 +0000 (14:59 +0200)]
ref #6774 Refactor OWL export

 - move OWL model to export state

5 years agominor
Katja Luther [Tue, 21 May 2019 10:16:11 +0000 (12:16 +0200)]
minor

5 years agofix sortindex for root nodes and harmonize column names
Katja Luther [Tue, 21 May 2019 08:16:49 +0000 (10:16 +0200)]
fix sortindex for root nodes and harmonize column names

5 years agoadd check for dna data
Katja Luther [Tue, 21 May 2019 08:12:30 +0000 (10:12 +0200)]
add check for dna data

5 years agoref #7966 preparing web service contollers to search for NULL type status via UUID...
Andreas Kohlbecker [Mon, 20 May 2019 10:35:01 +0000 (12:35 +0200)]
ref #7966 preparing web service contollers to search for NULL type status via UUID parameter

5 years agofixing NPE in TypeDesignationStatusFilter processing when '- none -' is selected
Andreas Kohlbecker [Fri, 17 May 2019 14:02:57 +0000 (16:02 +0200)]
fixing NPE in TypeDesignationStatusFilter processing when '- none -' is selected

5 years agofixing wording in logging
Andreas Kohlbecker [Fri, 17 May 2019 12:45:20 +0000 (14:45 +0200)]
fixing wording in logging

5 years agofix #8279 avoiding ClassCastExceptin in CdmUserHelper
Andreas Kohlbecker [Fri, 17 May 2019 12:44:28 +0000 (14:44 +0200)]
fix #8279 avoiding ClassCastExceptin in CdmUserHelper

5 years agorevert commit e358ae186 and adapt return type
Andreas Müller [Fri, 17 May 2019 12:28:36 +0000 (14:28 +0200)]
revert commit e358ae186 and adapt return type

5 years agoadd E+M common name area voc uuid
Andreas Müller [Fri, 17 May 2019 11:02:01 +0000 (13:02 +0200)]
add E+M common name area voc uuid

5 years agoref #8189 fix user.home in AccountStore
Andreas Müller [Fri, 17 May 2019 11:01:10 +0000 (13:01 +0200)]
ref #8189 fix user.home in AccountStore

5 years agouse state in getVocabulary
Andreas Müller [Fri, 17 May 2019 10:59:56 +0000 (12:59 +0200)]
use state in getVocabulary

5 years agofix findTitleCache in service layer
Andreas Müller [Thu, 16 May 2019 07:09:59 +0000 (09:09 +0200)]
fix findTitleCache in service layer

5 years agoref #7470 preliminary set text to transient in TextualTypeDesignation
Andreas Müller [Thu, 16 May 2019 07:08:29 +0000 (09:08 +0200)]
ref #7470 preliminary set text to transient in TextualTypeDesignation

5 years agomake referenceTitleCache index consistent
Andreas Müller [Thu, 16 May 2019 04:38:02 +0000 (06:38 +0200)]
make referenceTitleCache index consistent

5 years agoref #7470 preliminary set isVerbatim to transient in TextualTypeDesignation
Andreas Müller [Thu, 16 May 2019 04:37:15 +0000 (06:37 +0200)]
ref #7470 preliminary set isVerbatim to transient in TextualTypeDesignation

5 years agoref #7470 add TextualTypeDesignation.isVerbatim to test schemas
Andreas Müller [Wed, 15 May 2019 12:57:14 +0000 (14:57 +0200)]
ref #7470 add TextualTypeDesignation.isVerbatim to test schemas

5 years agoref #7470 add TextualTypeDesignation to hibernate.cfg
Andreas Müller [Wed, 15 May 2019 12:25:31 +0000 (14:25 +0200)]
ref #7470 add TextualTypeDesignation to hibernate.cfg

5 years agoref #6774 Export term vocabulary for each term
Patrick Plitzner [Wed, 15 May 2019 06:55:08 +0000 (08:55 +0200)]
ref #6774 Export term vocabulary for each term

5 years agoref #6774 Refactor export for multiple term trees
Patrick Plitzner [Wed, 15 May 2019 06:07:33 +0000 (08:07 +0200)]
ref #6774 Refactor export for multiple term trees

5 years agominor
Andreas Müller [Mon, 13 May 2019 18:18:55 +0000 (20:18 +0200)]
minor

5 years agofix #8264: add published to synonym table
Katja Luther [Mon, 13 May 2019 07:58:01 +0000 (09:58 +0200)]
fix #8264: add published to synonym table

5 years agofix #8264: add excluded, unplaced and published to taxon table of cdm light export
Katja Luther [Fri, 10 May 2019 08:31:36 +0000 (10:31 +0200)]
fix #8264: add excluded, unplaced and published to taxon table of cdm light export

5 years agoref #7433: changes to get dnaSample for genetic accession number
Katja Luther [Wed, 8 May 2019 11:03:24 +0000 (13:03 +0200)]
ref #7433: changes to get dnaSample for genetic accession number

5 years agoref #8263 Set vocabulary DTO for all term DTOs during initialization
Patrick Plitzner [Tue, 7 May 2019 14:27:28 +0000 (16:27 +0200)]
ref #8263 Set vocabulary DTO for all term DTOs during initialization

5 years agoE+M special languages
Andreas Müller [Tue, 7 May 2019 12:52:43 +0000 (14:52 +0200)]
E+M special languages

5 years agofix #8257 Remove factory methods for term node creation
Patrick Plitzner [Tue, 7 May 2019 10:12:52 +0000 (12:12 +0200)]
fix #8257 Remove factory methods for term node creation

5 years agoref #8045: add Interface for Preference Enums
Katja Luther [Tue, 7 May 2019 07:50:51 +0000 (09:50 +0200)]
ref #8045: add Interface for Preference Enums

5 years agoUpdating develop poms back to pre merge state
jenkins [Mon, 6 May 2019 14:42:22 +0000 (16:42 +0200)]
Updating develop poms back to pre merge state

5 years agoMerge branch 'master' into develop
jenkins [Mon, 6 May 2019 14:42:21 +0000 (16:42 +0200)]
Merge branch 'master' into develop

5 years agoupdating develop poms to master versions to avoid merge conflicts
jenkins [Mon, 6 May 2019 14:42:21 +0000 (16:42 +0200)]
updating develop poms to master versions to avoid merge conflicts

5 years agoMerge branch 'release/5.7.0' 5.7.0
jenkins [Mon, 6 May 2019 14:42:17 +0000 (16:42 +0200)]
Merge branch 'release/5.7.0'

5 years agoupdating poms for branch'release/5.7.0' with non-snapshot versions
jenkins [Mon, 6 May 2019 14:26:58 +0000 (16:26 +0200)]
updating poms for branch'release/5.7.0' with non-snapshot versions

5 years agoupdating poms for 5.8.0-SNAPSHOT development
jenkins [Fri, 3 May 2019 15:21:25 +0000 (17:21 +0200)]
updating poms for 5.8.0-SNAPSHOT development

5 years agocleanup origin/release/5.7.0
Andreas Müller [Fri, 3 May 2019 13:45:06 +0000 (15:45 +0200)]
cleanup

5 years agofix preference value length check in CdmPreference constructor. Adapt to new length
Andreas Müller [Fri, 3 May 2019 13:44:46 +0000 (15:44 +0200)]
fix preference value length check in CdmPreference constructor. Adapt to new length

5 years agoref #8242 Ensure order of TermDTO query
Patrick Plitzner [Fri, 3 May 2019 09:58:34 +0000 (11:58 +0200)]
ref #8242 Ensure order of TermDTO query

5 years agoFix term creation for multiple representations
Patrick Plitzner [Thu, 2 May 2019 16:06:42 +0000 (18:06 +0200)]
Fix term creation for multiple representations

5 years agoAdd constructor for term type only
Patrick Plitzner [Thu, 2 May 2019 15:56:08 +0000 (17:56 +0200)]
Add constructor for term type only

5 years agoFix owl structure tree import test
Patrick Plitzner [Thu, 2 May 2019 14:07:52 +0000 (16:07 +0200)]
Fix owl structure tree import test

5 years agoRename Owl import/export to StructureTreeOwl import/export
Patrick Plitzner [Thu, 2 May 2019 10:41:45 +0000 (12:41 +0200)]
Rename Owl import/export to StructureTreeOwl import/export

5 years agoref #8252 improving ReferenceEllypsisFormatter for print series and proceedings
Andreas Kohlbecker [Tue, 30 Apr 2019 17:47:22 +0000 (19:47 +0200)]
ref #8252 improving ReferenceEllypsisFormatter for print series and proceedings

5 years agoref #8252 improving ReferenceEllypsisFormatter for journals and other references...
Andreas Kohlbecker [Tue, 30 Apr 2019 14:15:33 +0000 (16:15 +0200)]
ref #8252 improving ReferenceEllypsisFormatter for journals and other references where the main information is in the title

5 years agoref #8193 collection setter for TaxonName.status
Andreas Kohlbecker [Tue, 30 Apr 2019 13:05:24 +0000 (15:05 +0200)]
ref #8193 collection setter for TaxonName.status

5 years agofix #8251 fix property path for FeatureTreeListController
Andreas Müller [Tue, 30 Apr 2019 10:40:33 +0000 (12:40 +0200)]
fix #8251 fix property path for FeatureTreeListController

5 years agocleanup
Andreas Müller [Tue, 30 Apr 2019 10:40:00 +0000 (12:40 +0200)]
cleanup

5 years agominor cleanup
Andreas Müller [Mon, 29 Apr 2019 17:15:36 +0000 (19:15 +0200)]
minor cleanup

5 years agoUpdate OwlImportTest. Use ClearDBDatSet instead of ClearDataSet. Still failing.
Andreas Müller [Mon, 29 Apr 2019 12:53:24 +0000 (14:53 +0200)]
Update OwlImportTest. Use ClearDBDatSet instead of ClearDataSet. Still failing.

5 years agoremoving debuging code line
Andreas Kohlbecker [Mon, 29 Apr 2019 14:06:05 +0000 (16:06 +0200)]
removing debuging code line

5 years agoref #7965 methods to get typeDesignationStatusInUse as term an as filter object
Andreas Kohlbecker [Mon, 29 Apr 2019 14:02:34 +0000 (16:02 +0200)]
ref #7965 methods to get typeDesignationStatusInUse as term an as filter object

5 years agoFix OWL test package structure
Patrick Plitzner [Mon, 29 Apr 2019 08:45:50 +0000 (10:45 +0200)]
Fix OWL test package structure

5 years agotry to fix test
Andreas Müller [Mon, 29 Apr 2019 12:27:58 +0000 (14:27 +0200)]
try to fix test

5 years agorevert changes in PrefKey
Katja Luther [Mon, 29 Apr 2019 12:18:35 +0000 (14:18 +0200)]
revert changes in PrefKey

5 years agorename getUuidAndTitleCache for namedAreas
Katja Luther [Mon, 29 Apr 2019 11:52:25 +0000 (13:52 +0200)]
rename getUuidAndTitleCache for namedAreas

5 years agominor
Katja Luther [Mon, 29 Apr 2019 10:30:17 +0000 (12:30 +0200)]
minor

5 years agoref #7920: add predicate for area specicific status
Katja Luther [Mon, 29 Apr 2019 10:19:18 +0000 (12:19 +0200)]
ref #7920: add predicate for area specicific status

5 years agoref #8209 avoiding LIEs when using the ReferenceEllypsisFormatter
Andreas Kohlbecker [Fri, 26 Apr 2019 16:33:13 +0000 (18:33 +0200)]
ref #8209 avoiding LIEs when using the ReferenceEllypsisFormatter

5 years agoref #8248 Add term representations to OWL import and export and test
Patrick Plitzner [Fri, 26 Apr 2019 14:47:14 +0000 (16:47 +0200)]
ref #8248 Add term representations to OWL import and export and test

5 years agoref #8248 Add constructor for term with a set of representations
Patrick Plitzner [Fri, 26 Apr 2019 14:45:46 +0000 (16:45 +0200)]
ref #8248 Add constructor for term with a set of representations

5 years agoref #8248 Ready OWL import for taxeditor usage
Patrick Plitzner [Fri, 26 Apr 2019 10:02:25 +0000 (12:02 +0200)]
ref #8248 Ready OWL import for taxeditor usage

5 years agoref #8248 Enhance OWL import
Patrick Plitzner [Thu, 25 Apr 2019 12:21:44 +0000 (14:21 +0200)]
ref #8248 Enhance OWL import

 - Add term URI to import
 - add sources to imported terms
 - create term vocabulary for imported terms
 - check for already existing terms
 - save terms, feature nodes and feature trees to DB
 - update OWL import test with added properties