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taxeditor / eu.etaxonomy.taxeditor.molecular @ master

# Date Author Comment
e0c100dd 08/19/2020 09:02 PM jenkins

Updated version in pom / project files to taxeditor version : 5.17.0 and cdmlib version : 5.17.0

ace1ec64 06/30/2020 04:41 PM jenkins

Updated version in pom / project files to taxeditor version : 5.17.0-SNAPSHOT and cdmlib version : 5.17.0-SNAPSHOT

652a9ae4 06/23/2020 02:01 PM jenkins

Updated version in pom / project files to taxeditor version : 5.16.0-SNAPSHOT and cdmlib version : 5.16.0-SNAPSHOT

dcfa31c8 04/08/2020 03:06 PM jenkins

Updated version in pom / project files to taxeditor version : 5.15.0-SNAPSHOT and cdmlib version : 5.15.0-SNAPSHOT

3b4720f8 03/23/2020 12:48 PM jenkins

Updated version in pom / project files to taxeditor version : 5.14.0-SNAPSHOT and cdmlib version : 5.14.0-SNAPSHOT

a4c74614 01/20/2020 01:03 PM jenkins

Updated version in pom / project files to taxeditor version : 5.13.0-SNAPSHOT and cdmlib version : 5.13.0-SNAPSHOT

451335ef 11/14/2019 02:25 PM jenkins

Updated version in pom / project files to taxeditor version : 5.12.0-SNAPSHOT and cdmlib version : 5.12.0-SNAPSHOT

83f6b260 09/23/2019 12:30 PM jenkins

Updated version in pom / project files to taxeditor version : 5.11.0-SNAPSHOT and cdmlib version : 5.11.0-SNAPSHOT

76b888e0 08/29/2019 04:15 PM jenkins

Updated version in pom / project files to taxeditor version : 5.10.0-SNAPSHOT and cdmlib version : 5.10.0-SNAPSHOT

909ca8e0 07/19/2019 02:03 PM jenkins

Updated version in pom / project files to taxeditor version : 5.9.0-SNAPSHOT and cdmlib version : 5.9.0-SNAPSHOT

6e7032cb 05/03/2019 05:25 PM jenkins

Updated version in pom / project files to taxeditor version : 5.8.0-SNAPSHOT and cdmlib version : 5.8.0-SNAPSHOT

4d7307cd 04/12/2019 11:45 AM jenkins

Updated version in pom / project files to taxeditor version : 5.7.0-SNAPSHOT and cdmlib version : 5.7.0-SNAPSHOT

a85eb65a 02/14/2019 02:13 PM jenkins

Updated version in pom / project files to taxeditor version : 5.6.0-SNAPSHOT and cdmlib version : 5.6.0-SNAPSHOT

f8cdd23e 01/22/2019 02:43 PM Patrick Plitzner

Refactoring

  • created "search" package for search UI classes
a6c4b9c2 01/17/2019 03:31 PM Andreas Kohlbecker

ref #4227 deleting all .classpath and .project files

44ad5ba2 10/25/2018 02:09 PM jenkins

Updated version in pom / project files to taxeditor version : 5.5.0-SNAPSHOT and cdmlib version : 5.5.0-SNAPSHOT

43803bca 09/17/2018 10:50 AM jenkins

Updated version in pom / project files to taxeditor version : 5.4.0-SNAPSHOT and cdmlib version : 5.4.0-SNAPSHOT

4f2039f3 08/17/2018 02:20 PM jenkins

Updated version in pom / project files to taxeditor version : 5.3.0-SNAPSHOT and cdmlib version : 5.3.0-SNAPSHOT

b9231fd2 06/27/2018 02:49 PM jenkins

Updated version in pom / project files to taxeditor version : 5.2.0-SNAPSHOT and cdmlib version : 5.2.0-SNAPSHOT

dcf7fd09 06/13/2018 10:05 AM Patrick Plitzner

ref #7010 Adapt molecular handlers for multiple selection

9fb97d48 05/18/2018 10:03 AM Patrick Plitzner

Fix version number for develop build

0fa485b5 05/17/2018 12:23 PM Patrick Plitzner

Updated version in pom / project files to taxeditor version : 5.1.0 and cdmlib version : 5.1.0

07c232f0 05/17/2018 10:19 AM jenkins

Updated version in pom / project files to taxeditor version : 4.16.0-SNAPSHOT and cdmlib version : 4.16.0-SNAPSHOT

d3c30945 05/16/2018 02:28 PM Patrick Plitzner

ref #6902 Open AlignmentEditor in editor area

  • fix dirty flag when closing editor
8712cea1 05/04/2018 05:31 PM Patrick Plitzner

ref #6913 Remove alignment handler

fad2c580 05/04/2018 04:32 PM Patrick Plitzner

ref #6913 Remove pherogram view

118433fc 05/04/2018 04:03 PM Patrick Plitzner

ref #6913 Remove alignment editor

80313393 03/09/2018 02:32 PM Patrick Plitzner

fix #7009 Replace part descriptor IDs in open handler with constants

c80f158b 02/15/2018 02:33 PM jenkins

Updated version in pom / project files to taxeditor version : 4.15.0-SNAPSHOT and cdmlib version : 4.15.0-SNAPSHOT

5d5569fb 01/31/2018 01:15 PM jenkins

Updated version in pom / project files to taxeditor version : 4.14.0-SNAPSHOT and cdmlib version : 4.14.0-SNAPSHOT

eeba609a 12/05/2017 03:21 PM jenkins

Updated version in pom / project files to taxeditor version : 4.13.0-SNAPSHOT and cdmlib version : 4.13.0-SNAPSHOT

692fd528 11/22/2017 11:27 AM Patrick Plitzner

ref #6925 Set conversation and cdmEntitySession to null for dispose

617bd32e 11/08/2017 11:42 AM jenkins

Updated version in pom / project files to taxeditor version : 4.12.0-SNAPSHOT and cdmlib version : 4.12.0-SNAPSHOT

a3c21976 10/30/2017 07:42 PM Patrick Plitzner

ref #6925 Refactor model fragment paths to generic "xpath:/"

5e588b6d 10/26/2017 10:28 AM Patrick Plitzner

ref #6913 Remove IEditorInput dependency from alignment editor input

71b7253e 10/13/2017 08:57 AM Patrick Plitzner

ref #6925 Rename utility getter methods

cf2f4360 10/13/2017 07:00 AM Patrick Plitzner

ref #6925 Migrate getActivePart()

b0acbdbb 10/04/2017 12:45 PM Patrick Plitzner

ref #6902 Fix visibility of menu items

960d1a20 09/29/2017 03:20 PM Patrick Plitzner

ref #6902 migrate alignment editor and pherogram view

2ad199f9 09/29/2017 11:33 AM Ben Stöver

Bug fix in reverse complementing uncut read sequences.

f771a4a2 09/29/2017 11:33 AM Ben Stöver

Translation of menu text corrected.

80f3b1be 09/25/2017 02:59 PM jenkins

Updated version in pom / project files to taxeditor version : 4.11.0-SNAPSHOT and cdmlib version : 4.11.0-SNAPSHOT

f24f22d9 09/22/2017 03:25 PM Patrick Plitzner

Change FileDialog to directoy dialog

b11b49ce 09/22/2017 03:01 PM Patrick Plitzner

ref #6597 Re-enable molecular handlers

e9533fc3 09/11/2017 10:49 AM Patrick Plitzner

Add missing fragment.e4xmi to build properties

61650dda 08/10/2017 02:12 PM Patrick Plitzner

ref #6902 migrate remaining context menu items for molecular module

dc7ba15a 08/10/2017 02:12 PM Patrick Plitzner

ref #6902 Migrate sequence editing menu item

44bfbe55 08/09/2017 12:14 PM Patrick Plitzner

fix #6897 Add missing Messages.java to build properties

89a1dea8 07/20/2017 01:41 PM jenkins

Updated version in pom / project files to taxeditor version : 4.10.0-SNAPSHOT and cdmlib version : 4.10.0-SNAPSHOT

40c512d2 07/06/2017 02:55 PM jenkins

Updated version in pom / project files to taxeditor version : 4.9.0-SNAPSHOT and cdmlib version : 4.9.0-SNAPSHOT

f13a970a 06/01/2017 08:35 AM Patrick Plitzner

ref #6596 Refactored selection handling to support e3 and e4 parts

436716f1 05/16/2017 12:54 PM jenkins

Updated version in pom / project files to taxeditor version : 4.8.0-SNAPSHOT and cdmlib version : 4.8.0-SNAPSHOT

414662b3 03/23/2017 07:45 PM Patrick Plitzner

ref #6539 Fix build problems

  • set Bundle-RequiredExecutionEnvironment back to Java 1.8
  • Remove indigo osgi dependency from target platform
4e4e473c 03/23/2017 05:52 PM Patrick Plitzner

ref #6539 remove Bundle-RequiredExecutionEnvironment

45cabe7d 03/22/2017 11:02 AM Patrick Plitzner

Increase RequiredExecutionEnvironment to JavaSE-1.8 for all plugins

63667693 03/13/2017 10:02 AM jenkins

Updated version in pom / project files to taxeditor version : 4.7.0-SNAPSHOT and cdmlib version : 4.7.0-SNAPSHOT

cd80312e 03/06/2017 04:31 PM Patrick Plitzner

ref #4611 Fix Messages.java bundle path

b6f4fe20 02/27/2017 10:24 AM Andreas Müller

update classpath to 1.8

81202bbf 02/23/2017 04:47 PM Patrick Plitzner

ref #4611 Fix l10n property path

313644ae 02/23/2017 04:42 PM Patrick Plitzner

ref #4611 Restructure string externalization for taxeditor.molecular

  • created l10n package and moved Messages.java and the messages.properties files there
3111b076 02/22/2017 12:52 PM Patrick Plitzner

ref #4611 i18n for molecular plugin (missing translation)

c4a7540a 02/22/2017 12:50 PM Patrick Plitzner

ref #4611 i18n for molecular plugin

2da9ade2 02/15/2017 10:48 AM Andreas Kohlbecker

ref #6419 renaming CdmApplicationDefaultConfiguration to CdmRepository

f15bc4f3 02/07/2017 02:20 PM Andreas Kohlbecker

Revert "removing all .classpath and .project files"

This reverts commit c02ad176b4c6452b302560e254f319b7260cd6d8.

b3b43c24 02/07/2017 02:20 PM Andreas Kohlbecker

Revert "Add .project files"

This reverts commit 7b5184094bda79a0c13e879907eaaafe3b7561b2.

7b518409 02/07/2017 12:05 PM Patrick Plitzner

Add .project files

  • revert of c02ad176b4c6452b302560e254f319b7260cd6d8
c02ad176 02/06/2017 06:01 PM Andreas Kohlbecker

removing all .classpath and .project files

de118cd2 02/02/2017 03:42 PM Patrick Plitzner

ref #6401 Update taxeditor workspace plugins to java 8

f5ed8961 01/26/2017 12:00 PM Katja Luther

manually set version numbers

eb48a4b2 01/24/2017 03:52 PM jenkins

Updated version in pom / project files to taxeditor version : 4.5.1 and cdmlib version : 4.5.1

63b6ac4b 01/19/2017 11:54 AM jenkins

Updated version in pom / project files to taxeditor version : 4.5.0 and cdmlib version : 4.5.0

645c77a1 01/13/2017 04:02 PM Patrick Plitzner

Saving files before refreshing line endings

1c69b0d0 01/13/2017 03:33 PM Patrick Plitzner

Merge branch 'develop' into LibrAlign

e3240965 12/20/2016 02:22 PM Andreas Kohlbecker

ref #6190 removing svn property place holder in first line of code - java files

a25a0a15 12/05/2016 03:50 PM jenkins

Updated version in pom / project files to taxeditor version : 4.5.0-SNAPSHOT and cdmlib version : 4.5.0-SNAPSHOT

80e535dd 11/19/2016 01:29 PM Ben Stöver

Additional strings externalized in molecular plugin.
Wizard for exporting single read alignments now warns and prompts if files are overwritten.
Bug fix: Changes in the format selection in the wizard now trigger validation again.
ExportSingleReadAlignmentWizardModel uses format list instead of map again.

ecd0d355 11/18/2016 05:01 PM Ben Stöver

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

a862b815 11/18/2016 03:45 PM Ben Stöver

Missing files from last commit added.

00d1a6ce 11/18/2016 03:43 PM Ben Stöver

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

7417db95 11/17/2016 07:17 PM Ben Stöver

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.

d0c85dbc 11/17/2016 05:22 PM Ben Stöver

Strings in ExportSingleReadAlignmentWizardPage externalized and translated.

02e8904c 11/17/2016 01:40 PM Ben Stöver

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

7ffbdbb1 11/16/2016 11:18 PM Ben Stöver

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

661914be 11/16/2016 09:25 PM Ben Stöver

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

924ba372 11/15/2016 05:09 PM Ben Stöver

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

bcb823d5 11/14/2016 07:34 PM Ben Stöver

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.)

9a9359ce 11/14/2016 05:34 PM Ben Stöver

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.

0608d733 11/13/2016 06:24 PM Ben Stöver

ExportSingleReadAlignmentWizardPage now allows to select output file and
format.

4f39e7d4 10/27/2016 07:31 PM Ben Stöver

CDMSequenceMatrixAdapter now exports sequence metadata.

95857d53 10/27/2016 03:55 PM Ben Stöver

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

c80496ea 10/26/2016 05:31 PM Ben Stöver

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

c6476daa 10/24/2016 09:27 AM Patrick Plitzner

Merge branch 'develop' into LibrAlign

Conflicts:

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

c37c8506 10/22/2016 02:36 PM Ben Stöver

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.

60b7d5b5 09/23/2016 03:15 PM jenkins

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

d85cfdf3 09/06/2016 12:29 PM Katja Luther

fix #5759 remove all switches for remoting and standalone

3c928d6e 07/06/2016 03:42 PM jenkins

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

bc036167 06/23/2016 05:33 PM Ben Stöver

Bug fix: CDMSequenceMatrixAdapter now defines valid columns for its character set.
Draft for ExportSingleReadAlignmentWizard added.

cda3a81a 06/23/2016 03:30 PM Ben Stöver

Molecular plugin adjusted to recent changes in JPhyloIO.

e7fb4208 06/04/2016 12:47 PM Ben Stöver

Debug outputs removed.
Token set added to CDMSequenceMatrixAdapter.

01787847 06/02/2016 06:04 PM Ben Stöver

Debug output added to ExportSequenceToFileHandler.
Bug fix in CDMSequenceMatrixAdapter.
Typo correction.

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