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taxeditor / eu.etaxonomy.taxeditor.molecular / src / main / java / 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

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

ref #4611 Fix Messages.java bundle path

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

ref #4611 i18n for molecular plugin

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

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.

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

fix #5759 remove all switches for remoting and standalone

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.

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

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

#5300 Implement remoting in Alignment Editor

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.

c0e388f7 08/25/2015 05:28 PM Ben Stöver

Moved functionality to be shared from AlignmentEditorCopyHandler to AlignmentEditor.
AlignmentEditorCopyHandler refactored.

afa09948 08/25/2015 05:17 PM Ben Stöver

Initial implementation of AlignmentCopyHandler finished.
Minor changes.

7929348c 08/25/2015 03:04 PM Patrick Plitzner

Add Copy functionality to AlignmentEditor

09152959 08/24/2015 06:57 PM Ben Stöver

Test implementation of Copy action added to AlignmentEditor.

3141e8b0 08/17/2015 12:59 PM Ben Stöver

Minor changes.

f2218c81 08/17/2015 12:56 PM Ben Stöver

Fixed NPE when loading single reads without attached pherogram.

399fd1a8 07/21/2015 01:46 PM Patrick Plitzner

Merge branch 'LibrAlign' into develop

9ca25430 07/21/2015 12:25 PM Ben Stöver

Fixed NPE when saving an alignment with a read without attached pherogram.

6fa5e6c3 07/15/2015 01:00 PM Patrick Plitzner

Dependency refactoring

Arranged classes and classpath in accordance to other taxeditor projects.

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