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# Date Author Comment
aefcbf9a 03/04/2015 01:14 PM Cherian Mathew

added class to override Hibernate EntityType class to fix problem with merge replace

b53a83bc 02/23/2015 10:11 AM Cherian Mathew

merge from trunk

933e5ac3 02/23/2015 10:07 AM Cherian Mathew

ICdmCacher, ICdmUuidCacher, CdmCacher, CdmTermCacher : refactored and added load method
Language, NameRelationshipType, Rank : now uses cacher only if termap is null or empty and only when class matches the specific term type
MockCdmCacher: not required anymore...

a4eb973c 02/12/2015 11:07 AM Andreas Müller

minor

90e863de 02/06/2015 11:29 PM Andreas Müller

add amplification cache test

de5c2087 02/05/2015 11:11 AM Cherian Mathew

ITaxonNodeService, TaxonNodeServiceImpl : added methods using uuids
CdmDataChangeEvent : added new instance method for cdm entity session
CdmPostDataChangeObservableListener : added cdm entity session commit

80ab91c0 01/24/2015 07:19 AM Andreas Müller

for testing

9d8532ab 01/24/2015 06:32 AM Andreas Müller

add taxonNode to session in countByIdentifier

58ba0a9d 01/23/2015 11:03 PM Andreas Müller

improve byIdentifer service

49f7c6b1 01/22/2015 04:47 PM Andreas Müller

missing persistence changes for findByIdentifier

e580c4ca 01/22/2015 11:40 AM Andreas Müller

latest changes for findByIdentifier service

0b9c5cf2 01/21/2015 05:31 PM Andreas Müller

improve and rename findByIdentifier service

e4afb5d7 01/21/2015 04:50 PM Andreas Müller

fix MatchMode.prepend bug

bff1beb0 01/08/2015 10:40 PM Andreas Müller

switch off validation

36fbea3e 01/08/2015 04:43 PM Andreas Müller

rename abstract class

1dff1ca8 01/08/2015 04:40 PM Andreas Müller

rename abstract class

e02ff7c5 01/08/2015 04:36 PM Andreas Müller

merge cdmlib-persistence from validation branch to trunk

97ac524a 01/08/2015 11:46 AM Andreas Müller

first tests for listByIdentifier

6a47f57b 01/07/2015 07:36 PM Andreas Müller

first untested version for findByIdentifier #4594

dcd123e3 12/15/2014 01:46 PM edit-jenkins

[maven-release-plugin] prepare for next development iteration

6ff62c66 12/15/2014 01:46 PM edit-jenkins

[maven-release-plugin] prepare release cdmlib-parent-3.4.0

1bdbfb0f 12/15/2014 12:46 PM Andreas Müller

minor

340b3b05 12/15/2014 12:29 PM Andreas Müller

add username, groupname and GrantedAuthority deduplication #4102

46dba369 12/15/2014 11:22 AM Andreas Kohlbecker

more logging output

b9db5d67 12/11/2014 09:35 PM Patrick Plitzner
  • use labelCache instead of description for amplification labeling
3d611097 12/11/2014 09:34 PM Patrick Plitzner
  • change visibility of createTestDataSet to public
68ee041d 12/11/2014 09:32 PM Patrick Plitzner
  • change visibility of createTestDataSet to public
73518da2 12/11/2014 04:02 PM Andreas Müller

implement Amplification.labelCache generation

af44092f 12/10/2014 10:40 PM Andreas Müller

updating DnaQuality with typedPurificationMethod to allow both #4434 , #4552

c9d7b4eb 12/10/2014 04:25 PM Patrick Plitzner

merge-update from trunk

efacf7a5 12/10/2014 03:47 PM Andreas Müller

update scripts for splitting Amplification and adding labelCache and reversecomplement

d06ba760 12/10/2014 03:27 PM Patrick Plitzner
  • added abstract method createTestData() to CdmIntegrationalTest
    • method should be used for generatin test XML data sets
    • making it abstract and enforcing implementation in sub classes ensures that the same structure is used thus making it easier for the developer to find similar examples....
a491689c 12/09/2014 05:33 PM Andreas Müller

some bugfixes to new Amplification modelling #4541

af283637 12/09/2014 05:03 PM Patrick Plitzner

merge-update from trunk

395ccc97 12/09/2014 04:44 PM Andreas Müller

separate Amplification and AmplificationResult.java #4541

8c84bc10 12/08/2014 01:27 PM Andreas Kohlbecker

bug fix

9de237d7 12/08/2014 01:27 PM Andreas Kohlbecker

CdmUpdater can run on multiple databases supplied as comma separated list

404c0036 12/04/2014 04:00 PM Patrick Plitzner
  • added service method to get descriptions which have a specimen set as describedSpecimen
    • added test which fails because the XML is loaded incorrectly
96274f18 12/04/2014 09:44 AM Patrick Plitzner
  • changed service method to retrieve the directly related objects
    • adapted tests
9f976540 12/03/2014 11:55 PM Andreas Müller

fixing test for SingleReadAlignment and removal of SpecAndObs_Sequence

6571e4e5 12/03/2014 10:13 PM Andreas Müller

implement SingleReadAlignment.java #4529
not yet ready

e850e1c8 12/03/2014 10:12 PM Andreas Müller

minor changes

ee8303fa 12/03/2014 10:09 PM Andreas Müller

remove Specimen_Sequence table from ddl

7d84de65 12/03/2014 10:08 PM Andreas Müller

add nextUpdater to 331_34 updater

01a5514b 12/03/2014 01:29 PM Andreas Müller

some fixes after trunk integration to 341branch

ec352541 12/03/2014 01:22 PM Patrick Plitzner

merge-update from trunk

ccf1f2f1 12/03/2014 10:03 AM Andreas Müller

merge PresenceTerm and AbsenceTerm #4521

b82a6bfc 12/02/2014 09:55 AM Patrick Plitzner
  • added DISTINCT to HQL query for associated taxa
    • created and used XML data source in occurrence service test
06d8cd12 12/01/2014 10:24 AM Patrick Plitzner
  • added occurrence service methods to retrieve all taxa that are associated with a specimen:
    • via IndividualsAssociation
    • via TypeDesignation
    • added test
fbf1cec6 11/27/2014 01:50 PM Andreas Müller

minor

fdb9cd4c 11/26/2014 03:31 PM Patrick Plitzner
  • added TODO comment
7e9949c5 11/26/2014 12:06 PM Patrick Plitzner
  • removed unused code
a6e9cd03 11/26/2014 12:06 PM Patrick Plitzner
  • implemented service method (and test for it) to get all taxa associated with a single specimen
aebfd8da 11/26/2014 09:53 AM Patrick Plitzner
  • added listAssociatedTaxa() method to occurrence service (non functional)
fa927d2c 11/21/2014 03:36 PM Andreas Kohlbecker

whitespace

502ea305 11/21/2014 02:21 PM Andreas Müller

Add institution to DerivationEvent and Amplification

0e660e76 11/21/2014 01:55 PM Andreas Müller

add DnaMarker to Primer #4470

bbe6519f 11/21/2014 10:38 AM Andreas Müller

fix bug, add OrederedTerm to hibernate cfg

710c18d5 11/21/2014 10:16 AM Andreas Müller

add DNA Quality Type vocabulary

0f8d094a 11/10/2014 09:49 AM Katja Luther

changes in service layer for fixes in bulg editor and search for misapplied names and common names in editor

5b62196b 10/28/2014 02:09 PM Katja Luther

fix #4450

8e681fe5 10/23/2014 01:44 PM Andreas Müller

remove NOT NULL on OriginalSourceType_AUD.sourceType on existing data #4445

2ca78fa6 10/22/2014 06:54 PM Andreas Müller

last update to schema updater 34.

3e9470c3 10/22/2014 04:51 PM Andreas Müller

fix uuid as UniqueKey problem

9f86c47d 10/22/2014 01:28 AM Andreas Müller

update fullCoverageDataGenerator

a50d65cd 10/21/2014 10:17 PM Andreas Müller

H2 update script fixes in trunk

c41dd1a0 10/21/2014 03:57 PM Andreas Müller

integrate latest changes to branche 3.4

4917123f 10/21/2014 03:42 PM Andreas Müller

latest fullCoverDaGet

4da4c805 10/21/2014 03:33 PM Andreas Müller

remove view from fullCoveragedatagen

2c6ae9a6 10/21/2014 02:50 PM Patrick Plitzner

merge-update from trunk

cbc4c965 10/21/2014 02:16 PM Andreas Müller

final version of FullCoverageDataGenerator for v3.3

7f455261 10/21/2014 01:47 PM Andreas Müller

minor

856d993b 10/21/2014 01:12 PM Andreas Müller

latest updates to FullCoverageDataGenerator

aec87377 10/21/2014 12:48 PM Patrick Plitzner
  • adapted to cdm3.4 changes
cc1af289 10/21/2014 12:42 PM Patrick Plitzner

merge-update from trunk

676c29f4 10/21/2014 01:32 AM Andreas Müller

preliminary remove data generator

8e7f173a 10/21/2014 01:23 AM Andreas Müller

preliminary remove data generator

0773df9a 10/21/2014 01:21 AM Andreas Müller

improve FullCoverageDataGenerator

3615c348 10/20/2014 09:14 PM Andreas Müller

allow saving FullDataGenerator data through API (preliminary)

e1030562 10/20/2014 08:21 PM Andreas Müller

add validation framework classes #4439

b03413be 10/20/2014 08:14 PM Andreas Müller

add purificationMethod to update script

323da513 10/20/2014 08:02 PM Andreas Müller

further changes to DnaQuality #4434 and update script for ValidationFramework alpha version

a37014ed 10/20/2014 06:04 PM Andreas Müller

fix methods for new TableCreator constructor

3b38a94c 10/20/2014 06:04 PM Andreas Müller

minor

b998a5a0 10/20/2014 03:35 PM Andreas Müller

make primer.sequence a SequenceString #4139

f6d5e560 10/18/2014 04:27 AM Andreas Müller

add i18n description for Classification. #4428

f539d24c 10/18/2014 03:51 AM Andreas Müller

Geo and time scope for Classifications #3699

0a345e59 10/18/2014 03:14 AM Andreas Müller

first implementation for DnaQuality #4434

9af6d56b 10/18/2014 12:30 AM Andreas Müller

Make Contact URL an url #3920

49e8fcf3 10/17/2014 11:45 PM Andreas Müller

Make Contact URL an url #3920

45732b87 10/17/2014 11:04 PM Andreas Müller

remove View class #4316 and update script for authorTeam rename #4432

6dc32b87 10/17/2014 10:31 PM Andreas Müller

rename Reference.authorTeam -> authorship #4432

ec1059aa 10/17/2014 09:31 PM Andreas Müller

adapt tests to missing Reference.series #4293 and not null constraint for test database ddl #4382

f89911d1 10/17/2014 08:53 PM Andreas Müller

rename Reference.authorTeam -> authorship #4432

7e045089 10/17/2014 08:06 PM Andreas Müller

remove series from Reference #4293

20ff76b1 10/17/2014 07:33 PM Andreas Müller

add IdentifierType Vocabulary

54e8de3a 10/17/2014 06:49 PM Andreas Müller

fix update script to run with MySQL, add TermType IdentifierType, add List index on identifiers

91f7a0de 10/17/2014 04:13 PM Andreas Müller

adapt tests to 3.4

6e279e47 10/17/2014 12:40 PM Andreas Müller

latest update script update

c200d18b 10/09/2014 01:44 PM Patrick Plitzner

merge-update from trunk