cdmlib.git
9 years ago - added gathering date and elevation to ABCD import
Patric Plitzner [Fri, 16 Jan 2015 15:14:42 +0000 (15:14 +0000)]
 - added gathering date and elevation to ABCD import

9 years ago - use classification uuid to load classification if it exists in the data source
Patric Plitzner [Fri, 16 Jan 2015 10:03:50 +0000 (10:03 +0000)]
 - use classification uuid to load classification if it exists in the data source

9 years ago - cleaned up code
Patric Plitzner [Fri, 16 Jan 2015 08:17:30 +0000 (08:17 +0000)]
 - cleaned up code

9 years ago - refactored getFieldUnits()
Patric Plitzner [Thu, 15 Jan 2015 15:07:00 +0000 (15:07 +0000)]
 - refactored getFieldUnits()

9 years ago - added null check and host check to avoid exceptions (fixes #4587)
Patric Plitzner [Thu, 15 Jan 2015 13:21:21 +0000 (13:21 +0000)]
 - added null check and host check to avoid exceptions (fixes #4587)

9 years agoadd transactional to listByIdentifier service
Andreas Müller [Mon, 12 Jan 2015 15:04:34 +0000 (15:04 +0000)]
add transactional to listByIdentifier service

9 years agofixed required parameter setting
Alexander Oppermann [Mon, 12 Jan 2015 14:17:28 +0000 (14:17 +0000)]
fixed required parameter setting

9 years agoImplemented REST Controller for listByIdentifier service method
Alexander Oppermann [Mon, 12 Jan 2015 13:46:20 +0000 (13:46 +0000)]
Implemented REST Controller for listByIdentifier service method

9 years agoremove imports
Andreas Müller [Fri, 9 Jan 2015 14:23:06 +0000 (14:23 +0000)]
remove imports

9 years agominor
Andreas Müller [Fri, 9 Jan 2015 13:48:11 +0000 (13:48 +0000)]
minor

9 years agoswitch on IPNI tests
Andreas Müller [Fri, 9 Jan 2015 12:54:19 +0000 (12:54 +0000)]
switch on IPNI tests

9 years agoswitch off validation
Andreas Müller [Thu, 8 Jan 2015 21:40:04 +0000 (21:40 +0000)]
switch off validation

9 years agoadding ISelfDescriptive from validation branch
Andreas Müller [Thu, 8 Jan 2015 16:03:29 +0000 (16:03 +0000)]
adding ISelfDescriptive from validation branch

9 years agorename abstract class
Andreas Müller [Thu, 8 Jan 2015 15:43:18 +0000 (15:43 +0000)]
rename abstract class

9 years agorename abstract class
Andreas Müller [Thu, 8 Jan 2015 15:40:37 +0000 (15:40 +0000)]
rename abstract class

9 years agomerge cdmlib-persistence from validation branch to trunk
Andreas Müller [Thu, 8 Jan 2015 15:36:39 +0000 (15:36 +0000)]
merge cdmlib-persistence from validation branch to trunk

9 years agomerge cdmlib-service from validation branch to trunk
Andreas Müller [Thu, 8 Jan 2015 15:34:16 +0000 (15:34 +0000)]
merge cdmlib-service from validation branch to trunk

9 years agomerge cdmlib-remote from validation branch to trunk
Andreas Müller [Thu, 8 Jan 2015 15:30:39 +0000 (15:30 +0000)]
merge cdmlib-remote from validation branch to trunk

9 years agomerge cdmlib-print from validation branch to trunk
Andreas Müller [Thu, 8 Jan 2015 15:30:11 +0000 (15:30 +0000)]
merge cdmlib-print from validation branch to trunk

9 years agomerge cdmlib-io from validation branch to trunk
Andreas Müller [Thu, 8 Jan 2015 15:29:28 +0000 (15:29 +0000)]
merge cdmlib-io from validation branch to trunk

9 years agomerge cdmlib-ext from validation branch to trunk
Andreas Müller [Thu, 8 Jan 2015 15:28:33 +0000 (15:28 +0000)]
merge cdmlib-ext from validation branch to trunk

9 years agomerge cdmlib-commons from validatioin to branch
Andreas Müller [Thu, 8 Jan 2015 15:27:29 +0000 (15:27 +0000)]
merge cdmlib-commons from validatioin to branch

9 years agoremove imports
Andreas Müller [Thu, 8 Jan 2015 15:01:49 +0000 (15:01 +0000)]
remove imports

9 years agocorrect logger info
Andreas Müller [Thu, 8 Jan 2015 14:59:44 +0000 (14:59 +0000)]
correct logger info

9 years agoVocEnum
Andreas Müller [Thu, 8 Jan 2015 14:30:08 +0000 (14:30 +0000)]
VocEnum

9 years agominor
Andreas Müller [Thu, 8 Jan 2015 11:27:09 +0000 (11:27 +0000)]
minor

9 years agofirst tests for listByIdentifier
Andreas Müller [Thu, 8 Jan 2015 10:46:19 +0000 (10:46 +0000)]
first tests for listByIdentifier

9 years agoremove imports
Andreas Müller [Wed, 7 Jan 2015 23:21:44 +0000 (23:21 +0000)]
remove imports

9 years agofactory method for Identifier Type
Andreas Müller [Wed, 7 Jan 2015 18:45:26 +0000 (18:45 +0000)]
factory method for Identifier Type

9 years agolabels for some TermTypes
Andreas Müller [Wed, 7 Jan 2015 18:44:54 +0000 (18:44 +0000)]
labels for some TermTypes

9 years agofirst untested version for findByIdentifier #4594
Andreas Müller [Wed, 7 Jan 2015 18:36:27 +0000 (18:36 +0000)]
first untested version for findByIdentifier  #4594

9 years agoupdate javadoc and Override in IdentifiableServiceBase
Andreas Müller [Wed, 7 Jan 2015 17:57:49 +0000 (17:57 +0000)]
update javadoc and Override in IdentifiableServiceBase

9 years ago(no commit message)
Katja Luther [Tue, 6 Jan 2015 12:33:37 +0000 (12:33 +0000)]

9 years agoavoid NPE in ImageInfo loading #4587
Andreas Müller [Tue, 6 Jan 2015 12:21:10 +0000 (12:21 +0000)]
avoid NPE in ImageInfo loading #4587

9 years agominor
Andreas Müller [Wed, 17 Dec 2014 15:20:19 +0000 (15:20 +0000)]
minor

9 years agoadd getter and setter for reverse complement
Andreas Müller [Wed, 17 Dec 2014 12:46:53 +0000 (12:46 +0000)]
add getter and setter for reverse complement

9 years agominor
Andreas Müller [Wed, 17 Dec 2014 12:13:04 +0000 (12:13 +0000)]
minor

9 years agoadd xslx test in io
Andreas Müller [Tue, 16 Dec 2014 20:29:34 +0000 (20:29 +0000)]
add xslx test in io

9 years agominor
Andreas Müller [Tue, 16 Dec 2014 20:05:44 +0000 (20:05 +0000)]
minor

9 years ago - added comment
Patric Plitzner [Tue, 16 Dec 2014 14:16:58 +0000 (14:16 +0000)]
 - added comment

9 years ago - fixed deep delete recursion bug
Patric Plitzner [Tue, 16 Dec 2014 14:11:19 +0000 (14:11 +0000)]
 - fixed deep delete recursion bug
 - fixed tests

9 years ago - extracted deepDelete tests to own java class
Patric Plitzner [Tue, 16 Dec 2014 09:32:37 +0000 (09:32 +0000)]
 - extracted deepDelete tests to own java class
 - reduced exception logged in DeleteResult

9 years agodisabling dependencyLocationsEnabled option of the maven-project-info-reports-plugin...
Andreas Kohlbecker [Mon, 15 Dec 2014 21:19:23 +0000 (21:19 +0000)]
disabling dependencyLocationsEnabled option of the maven-project-info-reports-plugin to speed up site building

9 years agorefactor validation classes
Andreas Müller [Mon, 15 Dec 2014 17:25:26 +0000 (17:25 +0000)]
refactor validation classes

9 years agominor
Andreas Müller [Mon, 15 Dec 2014 16:58:22 +0000 (16:58 +0000)]
minor

9 years agosite-delpoy chmod = false
Andreas Kohlbecker [Mon, 15 Dec 2014 14:46:42 +0000 (14:46 +0000)]
site-delpoy chmod = false

9 years agoadd original label info to specimen facade #4218, #4565
Andreas Müller [Mon, 15 Dec 2014 12:52:10 +0000 (12:52 +0000)]
add original label info to specimen facade  #4218, #4565

9 years ago[maven-release-plugin] prepare for next development iteration
edit-jenkins [Mon, 15 Dec 2014 12:46:14 +0000 (12:46 +0000)]
[maven-release-plugin] prepare for next development iteration

9 years ago[maven-release-plugin] prepare release cdmlib-parent-3.4.0 root/tags/cdmlib/cdmlib-parent-3.4.0 cdmlib-parent-3.4.0
edit-jenkins [Mon, 15 Dec 2014 12:46:09 +0000 (12:46 +0000)]
[maven-release-plugin] prepare release cdmlib-parent-3.4.0

9 years ago - fully implemented deep delete (child derivates)
Patric Plitzner [Mon, 15 Dec 2014 12:00:37 +0000 (12:00 +0000)]
 - fully implemented deep delete (child derivates)
 - added tests

9 years agominor
Andreas Müller [Mon, 15 Dec 2014 11:46:09 +0000 (11:46 +0000)]
minor

9 years agoadd username, groupname and GrantedAuthority deduplication #4102
Andreas Müller [Mon, 15 Dec 2014 11:29:32 +0000 (11:29 +0000)]
add username, groupname and GrantedAuthority deduplication #4102

9 years agoturning java code level back to 1.6 to investigate existing problems
Andreas Kohlbecker [Mon, 15 Dec 2014 10:26:07 +0000 (10:26 +0000)]
turning java code level back to 1.6 to investigate existing problems

9 years agomore logging output
Andreas Kohlbecker [Mon, 15 Dec 2014 10:22:05 +0000 (10:22 +0000)]
more logging output

9 years agotypo
Andreas Kohlbecker [Mon, 15 Dec 2014 10:21:57 +0000 (10:21 +0000)]
typo

9 years agoadd poi-ooxml and upgrade to 3.10-FINAL
Andreas Müller [Fri, 12 Dec 2014 16:47:09 +0000 (16:47 +0000)]
add poi-ooxml and upgrade to 3.10-FINAL

9 years agominor
Andreas Müller [Fri, 12 Dec 2014 15:50:45 +0000 (15:50 +0000)]
minor

9 years agojavadoc for Amplification and AmplificationResult
Andreas Müller [Fri, 12 Dec 2014 15:25:16 +0000 (15:25 +0000)]
javadoc for Amplification and AmplificationResult

9 years agominor
Andreas Müller [Fri, 12 Dec 2014 14:59:26 +0000 (14:59 +0000)]
minor

9 years agoadded unit test for derived unit facade with parent but no field unit #4532
Andreas Müller [Fri, 12 Dec 2014 13:17:42 +0000 (13:17 +0000)]
added unit test for derived unit facade with parent but no field unit #4532

9 years ago - implemented isDeletable() and delete()
Patric Plitzner [Fri, 12 Dec 2014 08:41:39 +0000 (08:41 +0000)]
 - implemented isDeletable() and delete()
 - fixed test XML files and tests

9 years agofix Occurrence test
Andreas Müller [Thu, 11 Dec 2014 23:50:24 +0000 (23:50 +0000)]
fix Occurrence test

9 years ago - added isDeleteMolecularData flag to configurator
Patric Plitzner [Thu, 11 Dec 2014 20:35:55 +0000 (20:35 +0000)]
 - added isDeleteMolecularData flag to configurator

9 years ago - use labelCache instead of description for amplification labeling
Patric Plitzner [Thu, 11 Dec 2014 20:35:04 +0000 (20:35 +0000)]
 - use labelCache instead of description for amplification labeling

9 years ago - change visibility of createTestDataSet to public
Patric Plitzner [Thu, 11 Dec 2014 20:34:10 +0000 (20:34 +0000)]
 - change visibility of createTestDataSet to public

9 years ago - change visibility of createTestDataSet to public
Patric Plitzner [Thu, 11 Dec 2014 20:32:35 +0000 (20:32 +0000)]
 - change visibility of createTestDataSet to public

9 years agotest for Amplification labelCache
Andreas Müller [Thu, 11 Dec 2014 15:29:15 +0000 (15:29 +0000)]
test for Amplification labelCache

9 years ago - organized imports
Patric Plitzner [Thu, 11 Dec 2014 15:07:52 +0000 (15:07 +0000)]
 - organized imports

9 years agoimplement Amplification.labelCache generation
Andreas Müller [Thu, 11 Dec 2014 15:02:30 +0000 (15:02 +0000)]
implement Amplification.labelCache generation

9 years ago - added cascade saving for amplification result
Patric Plitzner [Thu, 11 Dec 2014 14:51:04 +0000 (14:51 +0000)]
 - added cascade saving for amplification result
 - made constructor protected to avoid JavaAssistEnhancementException

9 years agodoc
Andreas Müller [Thu, 11 Dec 2014 14:30:45 +0000 (14:30 +0000)]
doc

9 years agohandle duplicates in identifier list
Andreas Müller [Thu, 11 Dec 2014 14:29:11 +0000 (14:29 +0000)]
handle duplicates in identifier list

9 years agominor
Andreas Müller [Thu, 11 Dec 2014 12:44:01 +0000 (12:44 +0000)]
minor

9 years agoupdated webapp h2 test database
Andreas Müller [Thu, 11 Dec 2014 12:39:59 +0000 (12:39 +0000)]
updated webapp h2 test database

9 years agominor
Andreas Müller [Wed, 10 Dec 2014 23:11:31 +0000 (23:11 +0000)]
minor

9 years agosolve identifier conflict
Andreas Müller [Wed, 10 Dec 2014 23:07:30 +0000 (23:07 +0000)]
solve identifier conflict

9 years agomerge 3.4.1 into trunk
Andreas Müller [Wed, 10 Dec 2014 23:02:58 +0000 (23:02 +0000)]
merge 3.4.1 into trunk

9 years agoBidirectional identifier handling cdm-3.4.1 origin/cdm-3.4.1 root/branches/cdmlib/cdm-3.4.1
Andreas Müller [Wed, 10 Dec 2014 22:23:10 +0000 (22:23 +0000)]
Bidirectional identifier handling

9 years agolatest changes to AmplificationResult and DnaQuality
Andreas Müller [Wed, 10 Dec 2014 22:22:35 +0000 (22:22 +0000)]
latest changes to AmplificationResult and DnaQuality

9 years agoupdating DnaQuality with typedPurificationMethod to allow both #4434 , #4552
Andreas Müller [Wed, 10 Dec 2014 21:40:32 +0000 (21:40 +0000)]
updating DnaQuality with typedPurificationMethod to allow both #4434 , #4552

9 years agoconflict fiexes after merging trunk
Andreas Müller [Wed, 10 Dec 2014 20:46:19 +0000 (20:46 +0000)]
conflict fiexes after merging trunk

9 years agomerge-update from trunk
Patric Plitzner [Wed, 10 Dec 2014 15:28:01 +0000 (15:28 +0000)]
merge-update from trunk

9 years ago -fixed possible NPE (fixes #4532)
Patric Plitzner [Wed, 10 Dec 2014 15:27:32 +0000 (15:27 +0000)]
 -fixed possible NPE (fixes #4532)

9 years agomerge-update from trunk
Patric Plitzner [Wed, 10 Dec 2014 15:25:08 +0000 (15:25 +0000)]
merge-update from trunk

9 years agoupdate scripts for splitting Amplification and adding labelCache and reversecomplement
Andreas Müller [Wed, 10 Dec 2014 14:47:31 +0000 (14:47 +0000)]
update scripts for splitting Amplification and adding labelCache and reversecomplement

9 years ago - added abstract method createTestData() to CdmIntegrationalTest
Patric Plitzner [Wed, 10 Dec 2014 14:27:35 +0000 (14:27 +0000)]
 - 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.
 - added empty method implementation in sub classes

9 years ago - fixed testLoadData()
Patric Plitzner [Wed, 10 Dec 2014 10:49:58 +0000 (10:49 +0000)]
 - fixed testLoadData()
  - the field unit element in the XML needed to have the derivedFrom parameter

9 years ago - added isPublish() method to facade
Patric Plitzner [Wed, 10 Dec 2014 09:36:10 +0000 (09:36 +0000)]
 - added isPublish() method to facade

9 years agoJAXB annotations for amplification results
Andreas Müller [Tue, 9 Dec 2014 22:29:33 +0000 (22:29 +0000)]
JAXB annotations for amplification results

9 years agopreliminary set OccurrenceServie.loadData test to ignore, as data is not loading...
Andreas Müller [Tue, 9 Dec 2014 21:56:35 +0000 (21:56 +0000)]
preliminary set OccurrenceServie.loadData test to ignore, as data is not loading correctly

9 years agopreliminary set OccurrenceServie.loadData test to ignore, as data is not loading...
Andreas Müller [Tue, 9 Dec 2014 21:55:33 +0000 (21:55 +0000)]
preliminary set OccurrenceServie.loadData test to ignore, as data is not loading correctly

9 years agolatest changes for AmplificationResult
Andreas Müller [Tue, 9 Dec 2014 21:26:59 +0000 (21:26 +0000)]
latest changes for AmplificationResult

9 years agoadd labelCache to Amplification #4542
Andreas Müller [Tue, 9 Dec 2014 16:34:38 +0000 (16:34 +0000)]
add labelCache to Amplification #4542

9 years agosome bugfixes to new Amplification modelling #4541
Andreas Müller [Tue, 9 Dec 2014 16:33:35 +0000 (16:33 +0000)]
some bugfixes to new Amplification modelling #4541

9 years agosome adaptations after trunk merge to 3.4.1
Andreas Müller [Tue, 9 Dec 2014 16:09:06 +0000 (16:09 +0000)]
some adaptations after trunk merge to 3.4.1

9 years agomerge-update from trunk
Patric Plitzner [Tue, 9 Dec 2014 16:03:13 +0000 (16:03 +0000)]
merge-update from trunk

9 years agodna Quality purification method
Andreas Müller [Tue, 9 Dec 2014 15:46:00 +0000 (15:46 +0000)]
dna Quality purification method

9 years agolabel for PAT voc
Andreas Müller [Tue, 9 Dec 2014 15:45:35 +0000 (15:45 +0000)]
label for PAT voc

9 years agoseparate Amplification and AmplificationResult.java #4541
Andreas Müller [Tue, 9 Dec 2014 15:44:26 +0000 (15:44 +0000)]
separate Amplification and AmplificationResult.java #4541

9 years agobug fix
Andreas Kohlbecker [Mon, 8 Dec 2014 12:27:35 +0000 (12:27 +0000)]
bug fix