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# Date Author Comment
8883008e 12/21/2015 11:29 AM Andreas Müller

Latest changes for Markup Transformer

28fa9f2c 12/18/2015 05:30 PM Andreas Müller

Add PostGreSQL to Source class and clean up PostgreSQL DatabaseType

b2c5e60c 12/18/2015 04:07 PM Andreas Müller

Add features for FM vol8

db28183a 12/17/2015 12:28 PM Andreas Müller

Some minor markup routine updates

3e01d1be 11/30/2015 02:48 PM Patrick Plitzner

Show complete stacktrace in import report

b00a67e8 11/30/2015 02:25 PM Patrick Plitzner

Fix counting of specimens created in ABCD import report

44ffca34 11/30/2015 10:23 AM Patrick Plitzner

Parse spatial data for gathering event in ABCD import #5169

bd70ceb2 11/25/2015 11:18 AM Patrick Plitzner

Set Unit/Notes and Gathering/Notes in ABCD import #5168

f16eafb5 11/25/2015 07:44 AM Patrick Plitzner

Import missing parameters for ggbn ABCD import

  • some refactoring
e8081706 11/24/2015 04:03 PM Patrick Plitzner

Fix import for max elevation

eee9b39a 11/16/2015 03:05 PM Patrick Plitzner

Refactored import return type from boolean to ImportResult

1ae59e40 11/16/2015 03:05 PM Patrick Plitzner

Move import report to import state super class

ef3f69eb 11/09/2015 12:22 PM Katja Luther

clean up csvNameExport

ac7c4c35 10/30/2015 04:30 PM Cherian Mathew

#5297 Move monitor thread api to super interface, Implement monitor feedback timeout

#5297 Add monitor feedback timeout, Cleanup code

eeedb131 10/29/2015 04:55 PM Cherian Mathew

#5297 Make result, feedback objects in remoting monitor serializable, Update test service with monitor feedback

1c7b9181 10/28/2015 03:21 PM Cherian Mathew

#5297 Add cancel and waitForFeedback functionality

Correct work units

3087df1b 10/27/2015 04:24 PM Cherian Mathew

#5297 Refactor ProgressMonitorController, Add Remoting Progress monitor

#5297 Add progress monitor service, Add test services

#5297 Add monit import method

#5297 Update no. of work units

#5297 Add new thread class for remoting monitors

#5297 Add owner field to monitor thread and user checks in service...

f9656765 10/26/2015 03:12 PM Andreas Müller

Minor cleanup

eb142a9d 10/26/2015 02:24 PM Patrick Plitzner

Fix NPE in ABCD import collection matching

  • also added for-loop break
216aa231 10/26/2015 02:24 PM Patrick Plitzner

Add stack trace to import report

96fb8d8e 10/22/2015 03:56 PM Andreas Müller

Fix property path in CsvNameExport #5344

5ab3e456 10/22/2015 12:33 PM Katja Luther

Revert "minor"

This reverts commit 64367d007ba404e037ccc2b6794b46c4f1f321bc.

64367d00 10/22/2015 12:21 PM Katja Luther


bd047286 10/22/2015 11:54 AM Katja Luther

fix csv export

1f4ff0d0 09/28/2015 03:26 PM Andreas Kohlbecker

resolving conficts in project versions after hotfixrelease

ef39b9bb 09/23/2015 11:29 AM Katja Luther

adapt CacheUpdater to changes in ImportConfiguratorBase
minor changes in TcsXmlNameImport

49d85c28 09/23/2015 11:26 AM Katja Luther


df1f5db8 09/18/2015 03:56 PM Andreas Müller


1e3d56bb 09/10/2015 03:43 PM U-BGBM\k.luther

fixing move Accepted taxon to synonym

73bc3754 09/02/2015 11:08 AM Patrick Plitzner

Enhance ABCD import report

6ae5ca99 09/02/2015 10:48 AM Katja Luther

changes for tcs import, fixing taxonnodecomparator, polytomouskey deletion and converting from person to team and team to person

94fe584f 09/01/2015 08:24 AM Patrick Plitzner

Refine rank parsing

  • if rank cannot be parsed the taxon will be created as is with a single taxon node without any parent taxon node but the classification itself
  • some code refactoring
  • avoid NPEs
e7c60aae 08/21/2015 10:48 AM Andreas Müller


15a394a5 08/20/2015 08:54 PM Andreas Müller

Adapt rank split for CoL to higher>species

11adbf4d 08/20/2015 05:08 PM Andreas Müller

Fix CoL import (taxon relationship split)

93276717 08/19/2015 08:44 AM Patrick Plitzner

Enhance ignored import due to already existing specimens

cf1a7b62 08/07/2015 05:34 PM Andreas Müller


3857f9cb 08/07/2015 05:25 PM Andreas Müller

Adding filter functionality to stream converter (not yet ready)

8f443c62 08/06/2015 03:57 PM Cherian Mathew

#5130 Extend cdmlib import architecture to allow for remoting and Add import methods to IOService

37380884 08/04/2015 06:29 PM Cherian Mathew

#5129 Extend export classes to allow for remote exports

1eb23529 07/24/2015 03:15 PM Andreas Müller

Remove filter from stream partitioner

5aba9cda 07/21/2015 11:26 AM Patrick Plitzner

Add support for ABCD 2.0.6 in UnitAssociationParser

822ae6e6 07/20/2015 05:14 PM Patrick Plitzner

WARNING: head commit changed in the meantime

Log ignored specimens in import report

39be9303 07/20/2015 01:28 AM Andreas Müller

Allow DwC-A import to filter streams and fix database mapping

a06d7089 07/17/2015 01:41 PM Cherian Mathew

Fix for export

cc83c990 07/15/2015 09:06 AM Patrick Plitzner

Add two new test files

02668d2d 07/15/2015 09:02 AM Patrick Plitzner

Enhance name parsing

  • more logging
  • fixed rank assignment
7352c7ff 07/15/2015 07:52 AM Patrick Plitzner

Error logging for name parsing

  • advanced readability
92fac617 07/15/2015 07:49 AM Patrick Plitzner

Enhance name parsing

  • added more error logging
  • avoid creating duplicate taxon names due to parsing problems
ffed529c 07/15/2015 07:48 AM Patrick Plitzner

Remove parseNameAutomatically flag

39880c49 07/14/2015 01:15 PM Katja Luther
64b06209 07/14/2015 01:03 PM Patrick Plitzner

Refactor ABCD import

  • use association wrapper to store prefix
  • correctly push and pop import state
  • only delete field unit if it has no other links to objects
3e62e4f0 07/14/2015 09:28 AM Patrick Plitzner

Refactor ABCD import

  • removed "determination on field unit level" flag
  • parse unit associations recursively
  • removed field unit from import state
  • enhanced unit association handling concerning field units and ereivation events
e128b27b 07/13/2015 02:46 PM Patrick Plitzner

Fix taxon existance check

ab3b8d60 07/13/2015 07:03 AM Patrick Plitzner

Add import report logging to utility methods

9f054d7a 07/08/2015 02:44 PM Patrick Plitzner

Catch exception instead of throwing them

Lets the methods return

a74084cb 07/08/2015 02:24 PM Patrick Plitzner

Error loggind during import

9f8447a6 07/08/2015 12:38 PM Katja Luther


19b24dc9 07/08/2015 09:40 AM Patrick Plitzner

Add exception during import to report

33262f8c 07/08/2015 07:34 AM Patrick Plitzner

Fix classification handling for new and exisiting taxa

50103603 07/07/2015 05:19 PM Patrick Plitzner

Exception handling

  • moved report printing to finally clause to always have a report.
  • fixed possible NPE
bb9a8adf 07/07/2015 04:02 PM Patrick Plitzner

Merge branch 'master' into abcd

1d413cc8 07/07/2015 03:37 PM Patrick Plitzner

Handle default classification in state object

07692ea3 07/07/2015 09:18 AM Patrick Plitzner

Fix classification handling in ABCD import

c239e0b3 07/06/2015 05:48 PM Katja Luther

cacheUpdater for caryophyllales

d823746c 07/06/2015 03:49 PM Patrick Plitzner

Log exceptions during import in the report file

9236bfec 07/06/2015 03:45 PM Andreas Müller

Improve DwC-A import for large datasets

26868685 07/04/2015 02:06 AM Katja Luther


6ebbd650 07/03/2015 10:29 PM Katja Luther

Caryophyllales stuff

53eff720 07/03/2015 12:52 PM Andreas Müller

Allow to split DwCA imports in parts (first steps)

578ebc1e 07/02/2015 09:50 AM Patrick Plitzner

Reset prefix after importing associated units

32512895 07/02/2015 09:50 AM Patrick Plitzner

Do not close system.out

eeb06b41 07/01/2015 10:55 AM Patrick Plitzner

Soften association type matching.

8d1e4195 07/01/2015 10:55 AM Patrick Plitzner

Map preparation material to derivation event description

2d73d2e2 07/01/2015 10:55 AM Patrick Plitzner

Fix potential NPE

bdc49784 06/30/2015 03:17 PM Patrick Plitzner

Fix potential NPE

18c0b932 06/30/2015 01:21 PM Patrick Plitzner

Evaluate unit association type in ABCD import

  • added test
  • correctly set derivative hierarchy
e0084606 06/30/2015 09:49 AM Patrick Plitzner

Check if primer or amplification already exist

adab4473 06/30/2015 09:49 AM Patrick Plitzner

Evaluate UnitAssociationType during import

Current rule for the relation between the imported unit and its
associated units:

  • "same population" => sibling relation
  • "same individual" => parent-child
cc19179c 06/30/2015 09:49 AM Patrick Plitzner

Fix potential NPE

e8255db1 06/30/2015 09:49 AM Patrick Plitzner

Parse sample designation in ABCD GGBN import

7920002e 06/30/2015 09:49 AM Patrick Plitzner

Move up name parsing

ed743b53 06/30/2015 09:49 AM Patrick Plitzner

Import associated units

  • Set derivation event correctly
  • adapted test
7b3adf28 06/30/2015 09:49 AM Patrick Plitzner

Import associated units via BioCase query

87460b5e 06/30/2015 09:49 AM Patrick Plitzner

Move prefix parsing to utility method and import state

c95e3daf 06/30/2015 09:49 AM Patrick Plitzner

Move unit parsing to utility class

2574e41b 06/30/2015 09:49 AM Patrick Plitzner

Import associated units in ABCD import

Worked on the order of importing units especially when associated units
are present.
Adapted test.

891ced88 06/30/2015 09:49 AM Patrick Plitzner


47f461b2 06/30/2015 09:49 AM Patrick Plitzner

Adapt to method parameter change

631a9c22 06/30/2015 09:49 AM Patrick Plitzner

Import associated units in ABCD import

First changes

64260466 06/30/2015 09:49 AM Patrick Plitzner

Refactor ABCD import

Moved class variables to import state

3f1d496b 06/30/2015 09:49 AM Patrick Plitzner
  • fixed date parsing
    • fixed primer saving
    • added new parameters to test
0fff86a8 06/30/2015 09:49 AM Patrick Plitzner
  • added preservation/preparation parameters
    • fixed parsing of unitID
25cbf231 06/30/2015 09:49 AM Patrick Plitzner
  • correctly connected primer, amplification, single reads and sequences
    • parsed UnitAssociation to correctly set specimen data
    • added UnitAssociationParser
2bc696d1 06/30/2015 09:49 AM Patrick Plitzner
  • refactored dna parsing
    • added utility classes and person parser
    • adapted test
    • added parsing of more molecular parameters
1eece533 06/28/2015 02:32 PM Andreas Müller

Fix label order marker types in imports

9b7145e0 06/25/2015 03:12 PM Andreas Müller

Clean up transmission engine and BerlinModelTransformer

b4027377 06/25/2015 01:10 AM Andreas Müller

Improve E+M post import methods #3979

e6e385c2 06/25/2015 01:08 AM Andreas Müller

Improve distribution transmission engine for E+M import #3979

31e6213c 06/24/2015 05:11 PM Andreas Müller

Add hidden area related UUIDs to BerlinModelImport #3979 .5