id="eu.etaxonomy.taxeditor.editor.view.checklist.ChecklistEditor"
name="%editor.name.8">
</editor>
- <editor
- class="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor"
- default="false"
- id="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor"
- name="Alignment Editor">
- </editor>
</extension>
<extension
- id="eu.etaxonomy.taxeditor.editor.molecular.PherogramView"
point="org.eclipse.ui.views">
<view
allowMultiple="false"
id="eu.etaxonomy.taxeditor.editor.view.validation.problems"
name="%view.name.6">
</view>
- <view
- allowMultiple="true"
- class="eu.etaxonomy.taxeditor.editor.molecular.PherogramViewPart"
- id="eu.etaxonomy.taxeditor.editor.molecular.PherogramView"
- name="PherogramView"
- restorable="true">
- </view>
</extension>
- <!-- VALIDATION RELATED STUFF -->
+
+ <!-- VALIDATION RELATED STUFF -->
<extension point="org.eclipse.core.resources.markers" name="%extension.name.0" id="eu.etaxonomy.taxeditor.markers.validationerror">
<super type="org.eclipse.core.resources.problemmarker"/>
<attribute name="databaseId"/>
name="%marker.field.7">
</markerField>
</extension>
- <extension
+
+ <extension
point="org.eclipse.ui.elementFactories">
<factory
class="eu.etaxonomy.taxeditor.editor.TaxonEditorInputFactory"
commandId="eu.etaxonomy.taxeditor.editor.command.new.name"
label="%command.label.46"
style="push">
+ <visibleWhen
+ checkEnabled="true">
+ <reference
+ definitionId="isCdmStoreConnected">
+ </reference>
+ </visibleWhen>
</command>
<command
commandId="eu.etaxonomy.taxeditor.editor.command.new.reference"
label="%command.label.47"
style="push">
+ <visibleWhen
+ checkEnabled="true">
+ <reference
+ definitionId="isCdmStoreConnected">
+ </reference>
+ </visibleWhen>
</command>
<command
commandId="eu.etaxonomy.taxeditor.editor.command.new.team"
label="%command.label.1"
style="push">
+ <visibleWhen
+ checkEnabled="true">
+ <reference
+ definitionId="isCdmStoreConnected">
+ </reference>
+ </visibleWhen>
</command>
<command
commandId="eu.etaxonomy.taxeditor.editor.command.new.person"
label="%command.label.2"
style="push">
+ <visibleWhen
+ checkEnabled="true">
+ <reference
+ definitionId="isCdmStoreConnected">
+ </reference>
+ </visibleWhen>
</command>
<separator
name="eu.etaxonomy.navigation.menu.new.separator2"
commandId="eu.etaxonomy.taxeditor.editor.command.new.specimen"
label="%command.label.3"
style="push">
+ <visibleWhen
+ checkEnabled="true">
+ <reference
+ definitionId="isCdmStoreConnected">
+ </reference>
+ </visibleWhen>
</command>
<separator
name="eu.etaxonomy.navigation.menu.new.separator3"
name="org.eclipse.ui.views.showView.viewId"
value="eu.etaxonomy.taxeditor.editor.view.descriptive">
</parameter>
+ <visibleWhen
+ checkEnabled="true">
+ <reference
+ definitionId="isCdmStoreConnected">
+ </reference>
+ </visibleWhen>
</command>
<command
commandId="org.eclipse.ui.views.showView"
name="org.eclipse.ui.views.showView.viewId"
value="eu.etaxonomy.taxeditor.editor.view.media">
</parameter>
+ <visibleWhen
+ checkEnabled="true">
+ <reference
+ definitionId="isCdmStoreConnected">
+ </reference>
+ </visibleWhen>
</command>
<command
commandId="org.eclipse.ui.views.showView"
name="org.eclipse.ui.views.showView.viewId"
value="eu.etaxonomy.taxeditor.editor.view.concept">
</parameter>
+ <visibleWhen
+ checkEnabled="true">
+ <reference
+ definitionId="isCdmStoreConnected">
+ </reference>
+ </visibleWhen>
</command>
<command
commandId="org.eclipse.ui.views.showView"
value="eu.etaxonomy.taxeditor.editor.view.concept.graph">
</parameter>
<visibleWhen
- checkEnabled="false">
- <reference
- definitionId="isShowExperimentalFeatures">
- </reference>
+ checkEnabled="true">
+ <and>
+ <reference
+ definitionId="isShowExperimentalFeatures">
+ </reference>
+ <reference
+ definitionId="isCdmStoreConnected">
+ </reference>
+ </and>
</visibleWhen>
</command>
- <command
- commandId="eu.etaxonomy.taxeditor.editor.handler.OpenAlignmentEditor"
- label="Alignment Editor"
- style="push">
- </command>
</menuContribution>
<menuContribution
locationURI="menu:org.eclipse.ui.main.menu.navigate">
<visibleWhen
checkEnabled="true">
<and>
- <with
- variable="selection">
- <count
- value="+">
- </count>
- </with>
+ <with
+ variable="selection">
+ <count
+ value="+">
+ </count>
+ </with>
<reference
definitionId="isIndividualsAssociation">
</reference>
<visibleWhen
checkEnabled="true">
<or>
- <reference
- definitionId="isDescriptionElement">
- </reference>
<reference
definitionId="isFeatureNodeContainer">
</reference>
- </or>
+ <reference
+ definitionId="isDescriptionElement">
+ </reference>
+ </or>
</visibleWhen>
</command>
<separator
name="eu.etaxonomy.taxeditor.taxonDescriptionEditor.separator.afterNew"
visible="true">
</separator>
- <command
+ <command
commandId="eu.etaxonomy.taxeditor.editor.view.descriptive.command.delete"
label="%command.label.30"
style="push">
label="%command.label.54"
style="push">
</command>
- <command
- commandId="eu.etaxonomy.taxeditor.editor.editSequence"
- label="Edit Sequence"
- style="push">
- <visibleWhen
- checkEnabled="true">
- <reference
- definitionId="isSequence">
- </reference>
- </visibleWhen>
- </command>
- <command
- commandId="eu.etaxonomy.taxeditor.editor.showPherogram"
- label="Show Pherogram"
- style="push">
- <visibleWhen
- checkEnabled="true">
- <reference
- definitionId="isSingleRead">
- </reference>
- </visibleWhen>
- </command>
<dynamic
class="eu.etaxonomy.taxeditor.editor.view.derivate.contextMenu.DerivateViewContextMenu"
id="eu.etaxonomy.taxeditor.editor.view.derivate.DerivateContextMenu">
</visibleWhen>
</command>
</menuContribution>
- <menuContribution
- allPopups="false"
- locationURI="menu:org.eclipse.ui.main.menu">
- <menu
- label="View">
- <menu
- label="Pherogram">
- <command
- commandId="eu.etaxonomy.taxeditor.editor.molecular.pherogramComponent.changeQualityOutput"
- style="push">
- </command>
- <command
- commandId="eu.etaxonomy.taxeditor.editor.molecular.pherogramComponent.toggleShowProbabilities"
- style="push">
- </command>
- <command
- commandId="eu.etaxonomy.taxeditor.editor.molecular.pherogramComponent.toggleShowBaseCallLines"
- style="push">
- </command>
- <visibleWhen
- checkEnabled="true">
- <with
- variable="activePartId">
- <or>
- <equals
- value="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor">
- </equals>
- <equals
- value="eu.etaxonomy.taxeditor.editor.molecular.PherogramView">
- </equals>
- </or>
- </with>
- </visibleWhen>
- </menu>
- </menu>
- <menu
- label="Alignment Editor">
- <command
- commandId="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.loadPherogram"
- style="push">
- </command>
- <command
- commandId="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.cutPherogramLeft"
- id="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.cutPherogramLeft"
- name="Cut pherogram left">
- </command>
- <command
- commandId="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.cutPherogramRight"
- id="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.cutPherogramRight"
- style="push">
- </command>
- <command
- commandId="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.reverseComplementRows"
- mnemonic="r"
- style="push">
- </command>
- <command
- commandId="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.createConsensus"
- style="push">
- </command>
- <command
- commandId="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.updateConsensus"
- style="push">
- </command>
- <visibleWhen
- checkEnabled="true">
- <with
- variable="activePartId">
- <equals
- value="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor">
- </equals>
- </with>
- </visibleWhen>
- </menu>
- </menuContribution>
- <menuContribution
- locationURI="toolbar:org.eclipse.ui.main.toolbar?after=eu.etaxonomy.taxeditor.navigation.search.toolbar">
- <toolbar
- id="eu.etaxonomy.taxeditor.editor.alignmentToolbar">
- <command
- commandId="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.toggleInsertOverwrite"
- label="Toggle insert/overwrite"
- style="push">
- <visibleWhen
- checkEnabled="true">
- <with
- variable="activePartId">
- <equals
- value="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor">
- </equals>
- </with>
- </visibleWhen>
- </command>
- <command
- commandId="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.toggleLeftRightInsertion"
- icon="icons/pherogram-insert-left-16x16.png"
- style="push">
- <visibleWhen
- checkEnabled="false">
- <with
- variable="activePartId">
- <equals
- value="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor">
- </equals>
- </with>
- </visibleWhen>
- </command>
- </toolbar>
- </menuContribution>
-
<menuContribution
allPopups="false"
locationURI="toolbar:eu.etaxonomy.taxeditor.editor.view.descriptive">
name="org.eclipse.ui.views.showView.viewId"
value="eu.etaxonomy.taxeditor.editor.view.validation.problems">
</parameter>
+ <visibleWhen
+ checkEnabled="true">
+ <reference
+ definitionId="isCdmStoreConnected">
+ </reference>
+ </visibleWhen>
</command>
</menuContribution>
</extension>
value="eu.etaxonomy.taxeditor.editor.view.uses">
</equals>
</or>
- </with>
- </activeWhen>
+ </with>
+ </activeWhen>
</handler>
<handler
class="eu.etaxonomy.taxeditor.editor.key.polytomous.handler.DeleteNodeHandler"
class="eu.etaxonomy.taxeditor.editor.handler.OpenChecklistEditorHandler"
commandId="eu.etaxonomy.taxeditor.editor.handler.OpenChecklistEditorHandler">
</handler>
- <handler
- class="eu.etaxonomy.taxeditor.editor.handler.LoadPherogramHandler"
- commandId="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.loadPherogram">
- <activeWhen>
- <with
- variable="activePartId">
- <equals
- value="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor">
- </equals>
- </with>
- </activeWhen>
- </handler>
<handler
class="eu.etaxonomy.taxeditor.editor.view.derivate.handler.DeleteDerivateHandler"
commandId="eu.etaxonomy.taxeditor.editor.view.derivate.command.delete">
commandId="eu.etaxonomy.taxeditor.editor.handler.showOnlyIndividualAssociations">
</handler>
<handler
- class="eu.etaxonomy.taxeditor.editor.handler.alignmenteditor.ToggleInsertOverwriteHandler"
- commandId="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.toggleInsertOverwrite">
- </handler>
- <handler
- class="eu.etaxonomy.taxeditor.editor.handler.alignmenteditor.ToggleLeftRightInsertionHandler"
- commandId="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.toggleLeftRightInsertion">
- </handler>
- <handler
- class="eu.etaxonomy.taxeditor.editor.handler.alignmenteditor.CutPherogramLeftHandler"
- commandId="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.cutPherogramLeft">
- </handler>
- <handler
- class="eu.etaxonomy.taxeditor.editor.handler.alignmenteditor.CutPherogramRightHandler"
- commandId="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.cutPherogramRight">
- </handler>
- <handler
- class="eu.etaxonomy.taxeditor.editor.handler.alignmenteditor.ReverseComplementHandler"
- commandId="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.reverseComplementRows">
- </handler>
- <handler
- class="eu.etaxonomy.taxeditor.editor.handler.alignmenteditor.CreateConsensusSequenceHandler"
- commandId="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.createConsensus">
- </handler>
- <handler
- class="eu.etaxonomy.taxeditor.editor.handler.alignmenteditor.UpdateConsensusSequenceHandler"
- commandId="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.updateConsensus">
- </handler>
- <handler
- class="eu.etaxonomy.taxeditor.editor.handler.alignmenteditor.ToggleShowPherogramProbabilitiesHandler"
- commandId="eu.etaxonomy.taxeditor.editor.molecular.pherogramComponent.toggleShowProbabilities">
- </handler>
- <handler
- class="eu.etaxonomy.taxeditor.editor.handler.alignmenteditor.ToggleShowPherogramBaseCallLinesHandler"
- commandId="eu.etaxonomy.taxeditor.editor.molecular.pherogramComponent.toggleShowBaseCallLines">
+ class="eu.etaxonomy.taxeditor.editor.key.polytomous.handler.RemotingCreateChildPolytomousKeyNodeHandler"
+ commandId="eu.etaxonomy.taxeditor.key.polytomous.command.new.child">
+ <activeWhen>
+ <reference
+ definitionId="isRemoting">
+ </reference>
+ </activeWhen>
</handler>
<handler
- class="eu.etaxonomy.taxeditor.editor.handler.alignmenteditor.ChangePherogramQualityOutputType"
- commandId="eu.etaxonomy.taxeditor.editor.molecular.pherogramComponent.changeQualityOutput">
+ class="eu.etaxonomy.taxeditor.editor.key.polytomous.handler.RemotingCreateSiblingPolytomousKeyNodeHandler"
+ commandId="eu.etaxonomy.taxeditor.key.polytomous.command.new.sibling">
+ <activeWhen>
+ <reference
+ definitionId="isRemoting">
+ </reference>
+ </activeWhen>
</handler>
</extension>
<extension
id="eu.etaxonomy.taxeditor.editor.name.swapSynonymAndAccepted"
name="%command.name.6">
</command>
- <command
+ <command
categoryId="eu.etaxonomy.taxeditor.editor.taxon.name.command.category"
defaultHandler="eu.etaxonomy.taxeditor.editor.name.handler.MoveSynonymToAnotherAcceptedTaxonHandler"
id="eu.etaxonomy.taxeditor.editor.name.moveSynonymToAnotherAcceptedTaxon"
id="eu.etaxonomy.taxeditor.editor.view.descriptive.command.adddescription"
name="%command.name.11">
</command>
- <command
- categoryId="eu.etaxonomy.taxeditor.editor.view.descriptive.command.category"
+ <command
+ categoryId="eu.etaxonomy.taxeditor.editor.view.descriptive.command.category"
defaultHandler="eu.etaxonomy.taxeditor.editor.view.descriptive.handler.DeleteHandler"
id="eu.etaxonomy.taxeditor.editor.view.descriptive.command.delete"
name="%command.name.48">
id="eu.etaxonomy.taxeditor.editor.media.command.delete"
name="%command.name.49">
</command>
+
<category
id="eu.etaxonomy.taxeditor.editor.new.category"
name="%category.name.4">
defaultHandler="eu.etaxonomy.taxeditor.editor.handler.OpenChecklistEditorHandler"
id="eu.etaxonomy.taxeditor.editor.handler.OpenChecklistViewHandler"
name="%command.name.38">
- </command>
+ </command>
<command
categoryId="eu.etaxonomy.taxeditor.editor.new.category"
defaultHandler="eu.etaxonomy.taxeditor.view.datasource.handler.CreateDataSourceHandler"
id="eu.etaxonomy.taxeditor.editor.command.new.datasource"
name="%command.name.39">
</command>
- <command
- defaultHandler="eu.etaxonomy.taxeditor.editor.handler.OpenAlignmentEditorHandler"
- id="eu.etaxonomy.taxeditor.editor.handler.OpenAlignmentEditor"
- name="Open Alignment Editor">
- </command>
- <command
- id="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.loadPherogram"
- name="Load Pherogram">
- </command>
<command
id="eu.etaxonomy.taxeditor.editor.handler.showOnlyIndividualAssociations"
name="%command.name.41">
</command>
- <command
- id="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.toggleInsertOverwrite"
- name="Toggle insert/overwrite">
- </command>
- <command
- id="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.toggleLeftRightInsertion"
- name="Toggle left/right insertion in base call sequence">
- </command>
<command
defaultHandler="eu.etaxonomy.taxeditor.editor.handler.OpenTaxonEditorHandler"
id="eu.etaxonomy.taxeditor.editor.openTaxonEditor"
<command
categoryId="eu.etaxonomy.taxeditor.editor.view.descriptive.command.category"
defaultHandler="eu.etaxonomy.taxeditor.editor.view.descriptive.handler.MoveDescriptionToOtherTaxonHandler"
- id="eu.etaxonomy.taxeditor.editor.commands.description.moveDescriptionToTaxon"
+ id="eu.etaxonomy.taxeditor.editor.view.descriptive.command.moveDescriptionToTaxon"
name="%command.name.13">
</command>
+
<command
categoryId="eu.etaxonomy.taxeditor.editor.view.descriptive.command.category"
defaultHandler="eu.etaxonomy.taxeditor.editor.view.descriptive.handler.MoveDescriptionElementsHandler"
- id="eu.etaxonomy.taxeditor.description.commands.moveDescriptionElements"
+ id="eu.etaxonomy.taxeditor.editor.view.descriptive.command.moveDescriptionElements"
name="%command.name.12">
</command>
<command
- defaultHandler="eu.etaxonomy.taxeditor.editor.handler.EditSequenceHandler"
- id="eu.etaxonomy.taxeditor.editor.editSequence"
- name="Edit Sequence">
- </command>
- <command
- defaultHandler="eu.etaxonomy.taxeditor.editor.handler.ShowPherogramHandler"
- id="eu.etaxonomy.taxeditor.editor.showPherogram"
- name="Show Pherogram">
- </command>
- <command
- id="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.cutPherogramLeft"
- name="Cut pherogram left">
- </command>
- <command
- id="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.cutPherogramRight"
- name="Cut pherogram right">
- </command>
- <command
- id="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.reverseComplementRows"
- name="Reverse complement selected rows">
- </command>
- <command
- id="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.createConsensus"
- name="(Re)create consensus sequence">
- </command>
- <command
- id="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.updateConsensus"
- name="Update consensus sequence">
- </command>
- <command
- id="eu.etaxonomy.taxeditor.editor.molecular.pherogramComponent.toggleShowProbabilities"
- name="Toggle show probability values">
- </command>
- <command
- id="eu.etaxonomy.taxeditor.editor.molecular.pherogramComponent.toggleShowBaseCallLines"
- name="Toggle show base call lines">
- </command>
- <command
- id="eu.etaxonomy.taxeditor.editor.molecular.pherogramComponent.changeQualityOutput"
- name="Change quality output">
+ defaultHandler="eu.etaxonomy.taxeditor.editor.handler.OpenDerivateViewHandler"
+ id="eu.etaxonomy.taxeditor.editor.openSpecimenEditor"
+ name="Open Specimen Editor">
+ <commandParameter
+ id="eu.etaxonomy.taxeditor.specimenUuidParameter"
+ name="Specimen UUID parameter"
+ optional="true"
+ typeId="eu.etaxonomy.taxeditor.specimenUuidParameterType">
+ </commandParameter>
</command>
+
+ </extension>
+ <extension
+ point="org.eclipse.ui.commands">
+ <commandParameterType
+ converter="eu.etaxonomy.taxeditor.handler.UuidParameterConverter"
+ id="eu.etaxonomy.taxeditor.specimenUuidParameterType"
+ type="java.util.UUID">
+ </commandParameterType>
</extension>
<extension
point="org.eclipse.core.expressions.definitions">
</test>
</with>
</definition>
+ <definition
+ id="isRemoting">
+ <test
+ property="eu.etaxonomy.taxeditor.preference.CdmStorePropertyTester.isRemoting">
+ </test>
+ </definition>
<definition
id="isSequence">
<with
id="eu.etaxonomy.taxeditor.bindings.scheme.default"
name="%scheme.name">
</scheme>
- <key
- commandId="eu.etaxonomy.taxeditor.editor.molecular.AlignmentEditor.loadPherogram"
- schemeId="eu.etaxonomy.taxeditor.bindings.scheme.default"
- sequence="M1+O">
- </key>
</extension>
<extension
point="org.eclipse.ui.importWizards">
</description>
</wizard>
</extension>
- <extension
+ <extension
point="eu.etaxonomy.taxeditor.store.cdmViewer">
<cdmViewer
class="eu.etaxonomy.taxeditor.editor.EditorCdmViewer">