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taxeditor / eu.etaxonomy.taxeditor.molecular @ f13a970a

# Date Author Comment
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.

1c956e61 05/31/2016 07:13 PM Ben Stöver

Solved TODO removed.

a5bb5492 05/31/2016 05:50 PM Patrick Plitzner

Merge branch 'develop' into LibrAlign

2939ccbf 05/31/2016 02:29 PM jenkins

Updated version in pom / project files to taxeditor version : 4.2.0-SNAPSHOT and cdmlib version : 4.2.0-SNAPSHOT

465a998e 05/04/2016 06:00 PM Patrick Plitzner

Merge branch 'develop' into LibrAlign

62611fe9 05/02/2016 03:14 PM jenkins

Updated version in pom / project files to taxeditor version : 4.1.0-SNAPSHOT and cdmlib version : 4.1.0-SNAPSHOT

3b957453 04/29/2016 08:40 PM Ben Stöver

Test case for SequenceIDIterator added.

b4979250 04/29/2016 08:23 PM Ben Stöver

Context menu entry for exporting alignment files added.
ExportSingleReadAlignmentHandler renamed to ExportSequenceToFileHandler.

76e5c721 04/29/2016 08:09 PM Ben Stöver

Exported packages of molecular plugin updated.
Basic export functionality for direct export of consensus sequence alignments implemented (untested).

43d3e0c8 04/28/2016 10:37 AM Patrick Plitzner

Fix dependencies and model update

0d472556 04/27/2016 11:38 AM Patrick Plitzner

Fix dependencies and model update

cdcb5ddf 04/18/2016 12:51 PM Ben Stöver

Initial version of ExportSingleReadAlignmentWizardPage added.

83e80374 04/12/2016 10:03 AM Patrick Plitzner

Merge branch 'develop' into LibrAlign

5ac8a8c8 03/21/2016 10:45 AM Patrick Plitzner

I18n

bdbc7359 03/02/2016 02:12 PM Andreas Kohlbecker

Updated version in pom / project files to taxeditor version : 4.0.0-SNAPSHOT and cdmlib version : 4.0.0-SNAPSHOT

06e0e0e8 02/24/2016 09:53 AM Patrick Plitzner

Remove unused dependencies from MANIFEST.MF #5530

32746e43 01/20/2016 09:40 AM Patrick Plitzner

Refactor SingleReadContextMenu #5406
- split into separate commands, property testers and menu items
- adjusted molecular context menu entries to be grouped together with
singler read entries

5d5c3c75 01/20/2016 09:34 AM Patrick Plitzner

Structure derivative editor context menu (#5406)
- fixed context menu bug where some items would only show up every
second time (menuManager.setRemoveAllWhenShown(true); //<- was the
trick)

0e9fc7a2 12/18/2015 01:29 PM jenkins

Updated version in pom / project files to taxeditor version : 3.13.0-SNAPSHOT and cdmlib version : 3.13.0-SNAPSHOT

f04ebb2b 11/16/2015 02:35 PM Cherian Mathew

Update eclipse compile / runtime to JavaSE-1.7

Conflicts:
eu.etaxonomy.taxeditor.application/.classpath

45741193 10/09/2015 02:29 PM Cherian Mathew

Revert "Updated version in pom / project files to taxeditor version : 3.13.0-SNAPSHOT and cdmlib version : 3.13.0-SNAPSHOT"

This reverts commit 9524fa3910c8335a6cbcb656f9aacaca01a3f5ca.

9524fa39 10/09/2015 02:07 PM Cherian Mathew

Updated version in pom / project files to taxeditor version : 3.13.0-SNAPSHOT and cdmlib version : 3.13.0-SNAPSHOT

a1a8b581 10/01/2015 05:27 PM Cherian Mathew

#5300 Implement remoting in Alignment Editor

c106c48b 09/16/2015 07:51 PM Cherian Mathew

Fix versions

944a3fc3 09/16/2015 06:28 PM jenkins

Revert project versions to 3.11.0-SNAPSHOT

a22860ff 09/16/2015 06:27 PM jenkins

Updated version in pom / project files to taxeditor version : 3.12.0-SNAPSHOT and cdmlib version : 3.12.0-SNAPSHOT

d78805f8 09/15/2015 06:23 PM jenkins

updating poms for 3.11.0-SNAPSHOT development

6fc9689e 09/15/2015 06:22 PM jenkins

Revert project versions to 3.10.0-SNAPSHOT

995aa2c5 09/15/2015 06:21 PM jenkins

Updated version in pom / project files to taxeditor version : 3.11.0-SNAPSHOT and cdmlib version : 3.11.0-SNAPSHOT

1b8d0e4d 09/14/2015 06:02 PM jenkins

updating poms for 3.10.0-SNAPSHOT development

8c9356dc 09/14/2015 06:01 PM jenkins

Revert project versions to 3.9.0-SNAPSHOT

129e2ea3 09/14/2015 06:00 PM jenkins

Updated version in pom / project files to taxeditor version : 3.10.0-SNAPSHOT and cdmlib version : 3.10.0-SNAPSHOT

f27dd202 09/10/2015 05:00 PM jenkins

updating poms for 3.9.0-SNAPSHOT development

d14cdfb8 09/10/2015 04:59 PM jenkins

Revert project versions to 3.8.0-SNAPSHOT

4991d5fa 09/10/2015 04:57 PM jenkins

Updated version in pom / project files to taxeditor version : 3.9.0-SNAPSHOT and cdmlib version : 3.9.0-SNAPSHOT

627fcabe 09/10/2015 04:22 PM Andreas Kohlbecker

Revert "Updated version in pom / project files to taxeditor version : 3.9.0-SNAPSHOT and cdmlib version : 3.9.0-SNAPSHOT"

This reverts commit 7ed2ce1e9eca6a9dd72c740e72efdcd6ef1135c9.

69040a4b 09/10/2015 04:22 PM Andreas Kohlbecker

Revert "Revert project versions to 3.8.0-SNAPSHOT"

This reverts commit e8268306693f047beef36ce53524adc00946cf74.

e8268306 09/10/2015 03:54 PM jenkins

Revert project versions to 3.8.0-SNAPSHOT

7ed2ce1e 09/10/2015 03:53 PM jenkins

Updated version in pom / project files to taxeditor version : 3.9.0-SNAPSHOT and cdmlib version : 3.9.0-SNAPSHOT

0ed26a71 09/08/2015 04:00 PM Patrick Plitzner

Merge branch 'develop' into LibrAlign

fbd92259 09/02/2015 11:38 AM Ben Stöver

Implementation of AlignmentEditorPasteHandler changed.

ab9f98b3 09/02/2015 11:29 AM Ben Stöver

Paste action for AlignmentEditor added.

14bbe452 08/26/2015 06:39 PM Ben Stöver

Shared functionality moved from AlignmentEditorCopyHandler to AlignmentModelUtils in LibrAlign.

1afe3ed2 08/26/2015 04:14 PM Ben Stöver

JavaDoc extended.
Different LibrAlign model action used in AlignmentEditorCutHandler.

65fe133d 08/26/2015 04:07 PM Ben Stöver

Cut action for AlignmentEditor implemented.

1878ece9 08/26/2015 01:13 PM Ben Stöver

Shared clipboard added to AlignmentEditor. (Should be moved to a global EDITor class in the future.)

4e400041 08/26/2015 11:52 AM Ben Stöver

AbstractFocusedAlignmentAreaHandler added.

4ec9f3b6 08/25/2015 08:32 PM Ben Stöver

Some general methods moved from AlignmentEditor to SWTUtils in bioinfweb.commons.

479060ec 08/25/2015 08:13 PM Ben Stöver

AlignmentEditorCopyHandler now sets current action status.

94d3e32a 08/25/2015 05:42 PM Patrick Plitzner

Move property tester to editor plugin

a0f46df5 08/25/2015 05:38 PM Ben Stöver

AlignmentEditorCopyHandler now offers copying functionality as a static method.
Copying not performed, if no nucleotides are selected.

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