Messages edited.
Support for parameters to export only single reads or only consensus implemented.
JavaDoc extended.

Missing files from last commit added.

Export single read alignment wizard separated into two pages.
Option to elongate sequences added.
Application information parameters of JPhyloIO set.

Exported single read sequences are now filled up with gaps. (Will be dependent on a parameter in the future.)
Texts in ExportSequenceToFileHandler extzernalized and translated.

Strings in ExportSingleReadAlignmentWizardPage externalized and translated.

Fixes in ExportSingleReadAlignmentWizardPage layout.
Default values added to ExportSingleReadAlignmentWizardModel.
Updating values after model binding in ExportSingleReadAlignmentWizardPage implemented.

Export single read alignment wizard validation refactored and extended.
Some German translations in molecular plug-in added.

Intermediate commit in implementing wizard validation (before moving to MultiValidator).
Plug-in dependencies added to molecular.

ExportSingleReadAlignmentWizard now exposes whole format info object.
FileDialog added to ExportSingleReadAlignmentWizardPage.

Missing dependency Apache commons.lang added to molecular.lib.
Single read alignment export feature now makes use of wizard. (Selecting which sequences to export is not yet supported.)

New JPhyloIO package now exported by molecular.lib.
SingleReadAlignmentPredicates renamed to SingleReadAlignmentRDFXMLConstants.
Pherogram alignment shifts are now written to single read export unsing a custom ObjectTranslator implementation.

ExportSingleReadAlignmentWizardPage now allows to select output file and
format.

CDMSequenceMatrixAdapter now exports sequence metadata.

Bug fix: CDMSequenceMatrixAdapter now does not create CharacterSetIntervalEvents if the alignment has no columns.

Merge branch 'LibrAlign' of ssh://dev.e-taxonomy.eu/var/git/taxeditor into LibrAlign

Merge branch 'LibrAlign' of https://dev.e-taxonomy.eu/git/taxeditor into LibrAlign

Conflicts:¶

eu.etaxonomy.taxeditor.molecular.lib/.classpath¶

eu.etaxonomy.taxeditor/rcp.target¶

Merge branch 'develop' into LibrAlign

Add spring oauth2 dependency

ref #6163: in occurence bulk editor it is possible to add media

ref #5972: the wizard warns the user if the reference is used ssomewhere else

fix #3573 Add non-generic configurator page to ABCD import wizard

#ref #5496 Do not show any terms for preservation method and stage
preferences

ref #6159: minor

ref #6159: fix that some column show no data

Fix potential NPE

Merge branch 'develop' into LibrAlign

Conflicts:¶

eu.etaxonomy.taxeditor.molecular.lib/.classpath¶

Plugin molecular.lib refactored to use direct project dependencies. This should not be merged into trunk, since this is only for development state. (Currently the trunk is anyway already using different Maven dependencies.)
Adjustments to recent changes in JPhyloIO.

ref #6058 store named area filters more individually

Removed p6spy from classpath

minor changes for name details view configuration

add the nameDetails configuration

minor

fix #6050: add the possibility to configure which fields should be displayed in name details view

fix test

ref #6050: test git/redmine and add the pref keys for configurable details view

fix #6129: remove additional authorstring in selection dialog search field

fix #5891: save null instead of empty string for text fields

smaller changes for specimen import and others

minor changes in excel import wizard

minor

delete transient services

minor

remove experimental code

minor

fix #5692: adapt delete algorithm to annotatedLineEditor mechanisms

removing p6spy dependencies

minor

removing generated file

Revert "ref #6118 catching exception during checkConnection"

This reverts commit bb7b4f601b49f1ba29f149405246f120b4c46a9a.

ref #6124 fixing Bundle-Version

OOPS!

fixing project version in pom.xml which was not updated after the relase

ref #6118 catching exception during checkConnection

fix #5888: add the element as argument to postExecute method s

fix transient services

fix #6120 Cleanup uuidAndTitleCache methods

minor

ref #6047: add the adapted files

fix #6047: add the possibility to the termComboElement that the idInVoc is used as label

ref #5969: add remark that the nomenclatural code preference is stored in db

ref #5969: check for db connection before ty to read the preferred nomenclatural code

ref #3573 Add streamlined ABCD import configurator page

Fix label for term vocabularies in term editor

Trim code

Merge branch 'release/4.3.0' into develop

Updated version in pom / project files to taxeditor version : 4.4.0-SNAPSHOT and cdmlib version : 4.4.0-SNAPSHOT

Updated version in pom / project files to taxeditor version : 4.3.0 and cdmlib version : 4.3.0

fix transient services

fix transient service

also add null check in comparator of nomenclaturalReferenceSelectionDialog

fix #6061: add a null check for abbrevTitleCache and titleCache in comparator

ref #5616 Generalize evaluation of available CdmViewers

Compare taxon editor input based on taxon instead of taxon node (Revert
93c6e0a894d2e4b0c9df6c7c3feff2f20e0b9e38)

fix #6101: add a check for multilanguage preference

ref #5616 Fix class check for bulk editor porperty tester

• handle UuidAndTitleClache

ref #6082 try to fix dependency issues in managed TaxEditor

fix #6082 fixing incomplete entries in the eu.etaxonomy.taxeditor.webapp/build.properties

i18n for view titles

Generalize title creation for cdm view parts

Compare taxon editor input based on taxon node instead of taxon

fix #5607: add sec reference to property path solves the problem of not reload the right sec reference

remove System.out.println...

fix #6056: when creating checklisteditorInput don't init session at the beginning, but at the end of constructor

fix transientServices (2)

fix transientService

ref #6089 Fix not compiling operation

ref #6089 Fix failing test and transient service after taxonomicChildrenCount and taxonomicParentCache removal

Rename Checklist-Editor -> Distribution-Editor

fix #5702: filter for current name in name details view if select new name

ref #5837: if nomenclatural titleCache and titleCache are equal only one is shown in selection dialog

ref 6061: using * at the beginning of search pattern triggers a search on abbrevTitleCache and titleCache

ref #5969: check if there is a NC preference in db if not use the local NC preference

fix #5874: display of infrageneric epithet are different for zoological and botanical names

ref #6061: remove the current selection as filter in nomenclatural author selection dialog

ref #6041: revert the changes and wait for the decision of the user meeting

Minor language correction

fix #6084: check if areas are selected in preferences before open the distribution editor

fix #6062 Add property tester for "Open in..." bulk editor menu items

• moved isGroupEditor property test to bulk editor plugin

Trim code

Organize imports