cdmlib.git
4 years agominor
Andreas Müller [Thu, 28 Nov 2019 11:30:06 +0000 (12:30 +0100)]
minor

4 years agoref #8679 PropertyPath and code cleanup
Patrick Plitzner [Thu, 28 Nov 2019 11:17:44 +0000 (12:17 +0100)]
ref #8679 PropertyPath and code cleanup

4 years agoref #8679 Convert to base class aggregation architecture
Patrick Plitzner [Thu, 28 Nov 2019 09:12:20 +0000 (10:12 +0100)]
ref #8679 Convert to base class aggregation architecture

 - convert aggregation of quantitative data to parent
 - convert aggregation of categorical data to parent

4 years agoEnhance toString()
Patrick Plitzner [Thu, 28 Nov 2019 06:54:20 +0000 (07:54 +0100)]
Enhance toString()

4 years agoref #8679 Convert to base class aggregation architecture
Patrick Plitzner [Thu, 28 Nov 2019 06:20:14 +0000 (07:20 +0100)]
ref #8679 Convert to base class aggregation architecture

 - init dataset in preAccumulate
 - filter SpecimenDescriptions by data set

4 years agoref #8679 Convert to base class aggregation architecture
Patrick Plitzner [Thu, 28 Nov 2019 06:10:33 +0000 (07:10 +0100)]
ref #8679 Convert to base class aggregation architecture

 - convert aggregation of quantitative data within taxon

4 years agoref #8679 Add apache commons math to pom
Patrick Plitzner [Thu, 28 Nov 2019 06:07:50 +0000 (07:07 +0100)]
ref #8679 Add apache commons math to pom

4 years agoadd toString()
Patrick Plitzner [Thu, 28 Nov 2019 06:07:03 +0000 (07:07 +0100)]
add toString()

4 years agoref #8679 Convert to base class aggregation architecture
Patrick Plitzner [Wed, 27 Nov 2019 16:40:57 +0000 (17:40 +0100)]
ref #8679 Convert to base class aggregation architecture

 - convert aggregation of categorical data within taxon

4 years agoAdd count to toString()
Patrick Plitzner [Wed, 27 Nov 2019 16:34:55 +0000 (17:34 +0100)]
Add count to toString()

4 years agoref #8724 fix JAXB for CdmLink
Andreas Müller [Thu, 28 Nov 2019 10:03:15 +0000 (11:03 +0100)]
ref #8724 fix JAXB for CdmLink

4 years agoref #7623: fix NPE
Katja Luther [Thu, 28 Nov 2019 09:03:41 +0000 (10:03 +0100)]
ref #7623: fix NPE

4 years agoFix potential NPE
Patrick Plitzner [Wed, 27 Nov 2019 13:55:29 +0000 (14:55 +0100)]
Fix potential NPE

4 years agoref #8724 handle taxon in CdmLinkSource
Andreas Müller [Wed, 27 Nov 2019 13:58:04 +0000 (14:58 +0100)]
ref #8724 handle taxon in CdmLinkSource

4 years agoref #8724 add Taxon to ICdmTarget
Andreas Müller [Wed, 27 Nov 2019 13:26:31 +0000 (14:26 +0100)]
ref #8724 add Taxon to ICdmTarget

4 years agominor
Andreas Müller [Wed, 27 Nov 2019 13:08:39 +0000 (14:08 +0100)]
minor

4 years agoref #7623: improve gathering agent parsing and query generation
Katja Luther [Wed, 27 Nov 2019 13:28:57 +0000 (14:28 +0100)]
ref #7623: improve gathering agent parsing and query generation

4 years agoref #8679 Test leaf color
Patrick Plitzner [Wed, 27 Nov 2019 08:18:39 +0000 (09:18 +0100)]
ref #8679 Test leaf color

4 years agofix NPE in media rights part of biocase import
Katja Luther [Tue, 26 Nov 2019 16:18:33 +0000 (17:18 +0100)]
fix NPE in media rights part of biocase import

4 years agoref #8679 Add leaf color
pplitzner [Wed, 27 Nov 2019 06:31:28 +0000 (07:31 +0100)]
ref #8679 Add leaf color

4 years agoref #8679 Refactoring
pplitzner [Tue, 26 Nov 2019 17:41:16 +0000 (18:41 +0100)]
ref #8679 Refactoring

4 years agoref #8679 Add specimen to sibling taxon
pplitzner [Tue, 26 Nov 2019 17:16:43 +0000 (18:16 +0100)]
ref #8679 Add specimen to sibling taxon

4 years agoAvoid empty description elements
Patrick Plitzner [Tue, 26 Nov 2019 15:39:52 +0000 (16:39 +0100)]
Avoid empty description elements

4 years agoadapt TestAggregations to areaUuidList (2)
Andreas Müller [Tue, 26 Nov 2019 16:01:23 +0000 (17:01 +0100)]
adapt TestAggregations to areaUuidList (2)

4 years agoadapt TestAggregations to areaUuidList
Andreas Müller [Tue, 26 Nov 2019 15:45:38 +0000 (16:45 +0100)]
adapt TestAggregations to areaUuidList

4 years agoupdate TestAggregations
Andreas Müller [Tue, 26 Nov 2019 15:42:35 +0000 (16:42 +0100)]
update TestAggregations

4 years agocleanup
Andreas Müller [Tue, 26 Nov 2019 15:32:13 +0000 (16:32 +0100)]
cleanup

4 years agoref #8679 add tests to StructuredDescriptionAggregation and fix toGrandParent issue...
Andreas Müller [Tue, 26 Nov 2019 15:30:52 +0000 (16:30 +0100)]
ref #8679 add tests to StructuredDescriptionAggregation and fix toGrandParent issue and allow Feature

4 years agoimplement another possibility of gathering agent text in abcd (agentText)
Katja Luther [Tue, 26 Nov 2019 14:01:52 +0000 (15:01 +0100)]
implement another possibility of gathering agent text in abcd (agentText)

4 years agoref #8677: revert a change of last commit
Katja Luther [Tue, 26 Nov 2019 12:39:36 +0000 (13:39 +0100)]
ref #8677: revert a change of last commit

4 years agoref #8677: use changes DistributionAggregationConfig in controller
Katja Luther [Tue, 26 Nov 2019 11:58:50 +0000 (12:58 +0100)]
ref #8677: use changes DistributionAggregationConfig in controller

4 years agoref #8677: use uuid list instead of namedArea list in DistributionAggregationConfig
Katja Luther [Tue, 26 Nov 2019 11:08:30 +0000 (12:08 +0100)]
ref #8677: use uuid list instead of namedArea list in DistributionAggregationConfig

4 years agoref #8469 avoid merge to singular branches
Andreas Müller [Mon, 25 Nov 2019 23:01:11 +0000 (00:01 +0100)]
ref #8469 avoid merge to singular branches

4 years agocleanup
Andreas Müller [Mon, 25 Nov 2019 21:54:26 +0000 (22:54 +0100)]
cleanup

4 years agoref #8469 fix min max issue
Andreas Müller [Mon, 25 Nov 2019 21:53:28 +0000 (22:53 +0100)]
ref #8469 fix min max issue

4 years agoref #8469 handle all sub-branch taxa on the level they belong to
Andreas Müller [Mon, 25 Nov 2019 18:32:57 +0000 (19:32 +0100)]
ref #8469 handle all sub-branch taxa on the level they belong to

4 years agoref #8469 first handling of taxa covering all subbranches, but probably wrong approach
Andreas Müller [Mon, 25 Nov 2019 11:14:05 +0000 (12:14 +0100)]
ref #8469 first handling of taxa covering all subbranches, but probably wrong approach

4 years agoref #8469 fix no feature left, prepare taxon covering all subbranches, cleanup
Andreas Müller [Sun, 24 Nov 2019 03:20:35 +0000 (04:20 +0100)]
ref #8469 fix no feature left, prepare taxon covering all subbranches, cleanup

4 years agocleanup
Andreas Müller [Sat, 23 Nov 2019 21:38:13 +0000 (22:38 +0100)]
cleanup

4 years agoref #8713 Only add aggregated cat. data if states are present
pplitzner [Mon, 25 Nov 2019 08:00:51 +0000 (09:00 +0100)]
ref #8713 Only add aggregated cat. data if states are present

4 years agoref #8450 Only add aggregated quant. data if data present
pplitzner [Mon, 25 Nov 2019 07:52:41 +0000 (08:52 +0100)]
ref #8450 Only add aggregated quant. data if data present

4 years agoref #8469 fix reuse of reature states filter
Andreas Müller [Sat, 23 Nov 2019 20:45:25 +0000 (21:45 +0100)]
ref #8469 fix reuse of reature states filter

4 years agocleanup
Andreas Müller [Fri, 22 Nov 2019 21:06:46 +0000 (22:06 +0100)]
cleanup

4 years agoref #8679 preliminary fix failing test for rank aggregation with absent status
Andreas Müller [Fri, 22 Nov 2019 21:06:09 +0000 (22:06 +0100)]
ref #8679 preliminary fix failing test for rank aggregation with absent status

4 years agoref #8679 remove old COMPUTE marker and move ignore lists to configurator and some...
Andreas Müller [Fri, 22 Nov 2019 20:18:00 +0000 (21:18 +0100)]
ref #8679 remove old COMPUTE marker and move ignore lists to configurator and some cleanup

4 years agoref #8469 introduce KeyTaxon to allow multiple data and multiple descriptions per...
Andreas Müller [Thu, 21 Nov 2019 22:45:18 +0000 (23:45 +0100)]
ref #8469 introduce KeyTaxon to allow multiple data and multiple descriptions per taxon

4 years agoref #8469 fix multiple dependencies for 1 parent feature issue
Andreas Müller [Thu, 21 Nov 2019 13:59:03 +0000 (14:59 +0100)]
ref #8469 fix multiple dependencies for 1 parent feature issue

4 years agocleanup
Andreas Müller [Thu, 21 Nov 2019 13:57:49 +0000 (14:57 +0100)]
cleanup

4 years agoref #8469 use FeatureState in PolytomousKeyGenerator
Andreas Müller [Thu, 21 Nov 2019 13:07:30 +0000 (14:07 +0100)]
ref #8469 use FeatureState in PolytomousKeyGenerator

4 years agoref #8469 filter non-character data
Andreas Müller [Thu, 21 Nov 2019 10:49:18 +0000 (11:49 +0100)]
ref #8469 filter non-character data

4 years agocleanup PolytomousKeyGenerator
Andreas Müller [Thu, 21 Nov 2019 10:36:13 +0000 (11:36 +0100)]
cleanup PolytomousKeyGenerator

4 years agologging of canceled import
Andreas Kohlbecker [Thu, 21 Nov 2019 09:46:28 +0000 (10:46 +0100)]
logging of canceled import

4 years agoref #8673 extend initstrategy by cdmSource for ref #8686
Andreas Kohlbecker [Thu, 21 Nov 2019 09:45:08 +0000 (10:45 +0100)]
ref #8673 extend initstrategy by cdmSource for ref #8686

4 years agominor
Andreas Müller [Thu, 21 Nov 2019 09:32:08 +0000 (10:32 +0100)]
minor

4 years agoref #8713 add test class for StructuredDescriptionAggregation
Andreas Müller [Thu, 21 Nov 2019 09:11:33 +0000 (10:11 +0100)]
ref #8713 add test class for StructuredDescriptionAggregation

4 years agoref #8713 add test class for StructuredDescriptionAggregation
Andreas Müller [Thu, 21 Nov 2019 07:58:05 +0000 (08:58 +0100)]
ref #8713 add test class for StructuredDescriptionAggregation

4 years agoref #8469 better handling of empty or null CategoricalData
Andreas Müller [Thu, 21 Nov 2019 01:26:25 +0000 (02:26 +0100)]
ref #8469 better handling of empty or null CategoricalData

4 years agocleanup
Andreas Müller [Wed, 20 Nov 2019 22:54:49 +0000 (23:54 +0100)]
cleanup

4 years agoSome more monitoring during StructuredDescriptionAggregation
Andreas Müller [Wed, 20 Nov 2019 22:54:24 +0000 (23:54 +0100)]
Some more monitoring during StructuredDescriptionAggregation

4 years agoremove possibility to define aggreaged distributions on description element level
Andreas Müller [Wed, 20 Nov 2019 13:04:16 +0000 (14:04 +0100)]
remove possibility to define aggreaged distributions on description element level

4 years agocleanup
Andreas Müller [Wed, 20 Nov 2019 13:03:26 +0000 (14:03 +0100)]
cleanup

4 years agocleanup
Andreas Müller [Tue, 19 Nov 2019 22:39:48 +0000 (23:39 +0100)]
cleanup

4 years agoabcd import: avoid potential NPE and emtpy authors
Katja Luther [Wed, 20 Nov 2019 12:52:54 +0000 (13:52 +0100)]
abcd import: avoid potential NPE and emtpy authors

4 years agoref #8657 Extend property path for description init strategy
Patrick Plitzner [Wed, 20 Nov 2019 11:47:42 +0000 (12:47 +0100)]
ref #8657 Extend property path for description init strategy

4 years agoRevert "ref #8657 Add (remote) service for ordered description elements by tree"
Patrick Plitzner [Wed, 20 Nov 2019 11:41:58 +0000 (12:41 +0100)]
Revert "ref #8657 Add (remote) service for ordered description elements by tree"

This reverts commit 7af2c90016dd6215526a732c2d5d8b281c779d0f.

4 years agoref #8517 handle protected fieldunit titlecache in DerivedUnitFacadeFieldUnitCacheStr...
Andreas Müller [Tue, 19 Nov 2019 16:19:46 +0000 (17:19 +0100)]
ref #8517 handle protected fieldunit titlecache in DerivedUnitFacadeFieldUnitCacheStrategy and not in DerivedUnitFacadeCacheStrategy - fix compile error

4 years agoref #8517 handle protected fieldunit titlecache in DerivedUnitFacadeFieldUnitCacheStr...
Andreas Müller [Tue, 19 Nov 2019 15:42:25 +0000 (16:42 +0100)]
ref #8517 handle protected fieldunit titlecache in DerivedUnitFacadeFieldUnitCacheStrategy and not in DerivedUnitFacadeCacheStrategy

4 years agocleanup
Andreas Müller [Tue, 19 Nov 2019 15:40:42 +0000 (16:40 +0100)]
cleanup

4 years agoadd ORCID iD as IdentifierType
Katja Luther [Tue, 19 Nov 2019 10:01:43 +0000 (11:01 +0100)]
add ORCID iD as IdentifierType

4 years agoref #8689 fix issus in Cdm2Cdm import and add "removeImportSource" configuration
Andreas Müller [Mon, 18 Nov 2019 23:19:59 +0000 (00:19 +0100)]
ref #8689 fix issus in Cdm2Cdm import and add "removeImportSource" configuration

4 years agotypo
Patrick Plitzner [Mon, 18 Nov 2019 14:53:40 +0000 (15:53 +0100)]
typo

4 years agoadd orcid and doi to identifier table
Katja Luther [Mon, 18 Nov 2019 11:41:45 +0000 (12:41 +0100)]
add orcid and doi to identifier table

4 years agorevert some of the last changes
Katja Luther [Mon, 18 Nov 2019 08:38:52 +0000 (09:38 +0100)]
revert some of the last changes

4 years agoref #8689 revert unwanted commited files
Andreas Müller [Mon, 18 Nov 2019 08:19:43 +0000 (09:19 +0100)]
ref #8689 revert unwanted commited files

4 years agoref #8689 Cdm2Cdm import from app-import to cdmlib-io
Andreas Müller [Mon, 18 Nov 2019 08:18:55 +0000 (09:18 +0100)]
ref #8689 Cdm2Cdm import from app-import to cdmlib-io

4 years agoref #8679 move DistributionAggregation functionality to base class
Andreas Müller [Mon, 18 Nov 2019 08:16:29 +0000 (09:16 +0100)]
ref #8679 move DistributionAggregation functionality to base class

4 years agocleanup
Andreas Müller [Fri, 15 Nov 2019 23:44:02 +0000 (00:44 +0100)]
cleanup

4 years agoref #8679 improve monitoring
Andreas Müller [Fri, 15 Nov 2019 23:32:12 +0000 (00:32 +0100)]
ref #8679 improve monitoring

4 years agoref #8679 improve tests
Andreas Müller [Fri, 15 Nov 2019 22:42:26 +0000 (23:42 +0100)]
ref #8679 improve tests

4 years agoref #8679 generic source handling with SourceModes
Andreas Müller [Fri, 15 Nov 2019 18:00:55 +0000 (19:00 +0100)]
ref #8679 generic source handling with SourceModes

4 years agocleanup
Andreas Müller [Fri, 15 Nov 2019 17:56:32 +0000 (18:56 +0100)]
cleanup

4 years agoref #8679 move AggregationMode to ConfiguratorBase
Andreas Müller [Fri, 15 Nov 2019 14:49:58 +0000 (15:49 +0100)]
ref #8679 move AggregationMode to ConfiguratorBase

4 years agoref #8657 Add (remote) service for ordered description elements by tree
Patrick Plitzner [Fri, 15 Nov 2019 17:07:16 +0000 (18:07 +0100)]
ref #8657 Add (remote) service for ordered description elements by tree

4 years agoAllow wild cards in term facet search
Patrick Plitzner [Fri, 15 Nov 2019 13:59:19 +0000 (14:59 +0100)]
Allow wild cards in term facet search

4 years agoref #8679 fix rerun DistributionAggregation with changed sources and deleted distribu...
Andreas Müller [Fri, 15 Nov 2019 12:04:45 +0000 (13:04 +0100)]
ref #8679 fix rerun DistributionAggregation with changed sources and deleted distributions

4 years agocleanup and minor
Andreas Müller [Fri, 15 Nov 2019 09:49:14 +0000 (10:49 +0100)]
cleanup and minor

4 years agoref #8684 fixing compile errors in cdmlib-persistence
Andreas Müller [Fri, 15 Nov 2019 09:45:33 +0000 (10:45 +0100)]
ref #8684 fixing compile errors in cdmlib-persistence

4 years agofix potential NPEs in ABCD import
Katja Luther [Fri, 15 Nov 2019 09:48:56 +0000 (10:48 +0100)]
fix potential NPEs in ABCD import

4 years agofix #8684 adding initStratery to ITaxonService.findTaxaByName
Andreas Kohlbecker [Fri, 15 Nov 2019 09:21:20 +0000 (10:21 +0100)]
fix #8684 adding initStratery to  ITaxonService.findTaxaByName

4 years agofix #8683 TaxonDaoHibernateImpl.countTaxaByName rename parameter authorship authorshi...
Andreas Kohlbecker [Fri, 15 Nov 2019 08:57:29 +0000 (09:57 +0100)]
fix #8683 TaxonDaoHibernateImpl.countTaxaByName rename parameter authorship authorshipCache

4 years agofixing scary string compare bug
Andreas Kohlbecker [Fri, 15 Nov 2019 08:49:55 +0000 (09:49 +0100)]
fixing scary string compare bug

4 years agoUpdating develop poms back to pre merge state
jenkins [Thu, 14 Nov 2019 14:40:53 +0000 (15:40 +0100)]
Updating develop poms back to pre merge state

4 years agoMerge branch 'master' into develop
jenkins [Thu, 14 Nov 2019 14:40:52 +0000 (15:40 +0100)]
Merge branch 'master' into develop

4 years agoupdating develop poms to master versions to avoid merge conflicts
jenkins [Thu, 14 Nov 2019 14:40:52 +0000 (15:40 +0100)]
updating develop poms to master versions to avoid merge conflicts

4 years agoMerge branch 'release/5.11.0' 5.11.0
jenkins [Thu, 14 Nov 2019 14:40:47 +0000 (15:40 +0100)]
Merge branch 'release/5.11.0'

4 years agoupdating poms for branch'release/5.11.0' with non-snapshot versions
jenkins [Thu, 14 Nov 2019 14:23:41 +0000 (15:23 +0100)]
updating poms for branch'release/5.11.0' with non-snapshot versions

4 years agoupdating poms for 5.12.0-SNAPSHOT development
jenkins [Thu, 14 Nov 2019 13:21:03 +0000 (14:21 +0100)]
updating poms for 5.12.0-SNAPSHOT development

4 years agocleanup origin/release/5.11.0
Andreas Müller [Thu, 14 Nov 2019 11:54:21 +0000 (12:54 +0100)]
cleanup

4 years agocleanup
Andreas Müller [Thu, 14 Nov 2019 11:16:13 +0000 (12:16 +0100)]
cleanup

4 years agoref #8651 useClearExistingDistribution = false as default
Andreas Müller [Thu, 14 Nov 2019 11:15:56 +0000 (12:15 +0100)]
ref #8651 useClearExistingDistribution = false as default