From: b.stoever <b.stoever@localhost>
Date: Thu, 20 Nov 2014 16:53:26 +0000 (+0000)
Subject: First version of PherogramView added.
X-Git-Tag: 3.8.0^2~59^2~101
X-Git-Url: https://dev.e-taxonomy.eu/gitweb/taxeditor.git/commitdiff_plain/a8591c9c73096115fb5f78c40a93be10cac17873

First version of PherogramView added.
---

diff --git a/.gitattributes b/.gitattributes
index 0a2103d0e..142730b3c 100644
--- a/.gitattributes
+++ b/.gitattributes
@@ -425,6 +425,7 @@ eu.etaxonomy.taxeditor.editor/src/main/java/eu/etaxonomy/taxeditor/editor/molecu
 eu.etaxonomy.taxeditor.editor/src/main/java/eu/etaxonomy/taxeditor/editor/molecular/AlignmentEditorInput.java -text
 eu.etaxonomy.taxeditor.editor/src/main/java/eu/etaxonomy/taxeditor/editor/molecular/CMDAlignmentObjectPlaceholder.java -text
 eu.etaxonomy.taxeditor.editor/src/main/java/eu/etaxonomy/taxeditor/editor/molecular/ContigSequenceDataProvider.java -text
+eu.etaxonomy.taxeditor.editor/src/main/java/eu/etaxonomy/taxeditor/editor/molecular/PherogramView.java -text
 eu.etaxonomy.taxeditor.editor/src/main/java/eu/etaxonomy/taxeditor/editor/molecular/ToggleInsertOverwriteButton.java -text
 eu.etaxonomy.taxeditor.editor/src/main/java/eu/etaxonomy/taxeditor/editor/molecular/ToggleLeftRightInsertionButton.java -text
 eu.etaxonomy.taxeditor.editor/src/main/java/eu/etaxonomy/taxeditor/editor/name/TaxonNameEditor.java -text
diff --git a/eu.etaxonomy.taxeditor.editor/plugin.xml b/eu.etaxonomy.taxeditor.editor/plugin.xml
index 27ca72cdb..c139ebbe5 100644
--- a/eu.etaxonomy.taxeditor.editor/plugin.xml
+++ b/eu.etaxonomy.taxeditor.editor/plugin.xml
@@ -91,6 +91,7 @@
       </editor>
    </extension>
       <extension
+            id="eu.etaxonomy.taxeditor.editor.molecular.PherogramView"
             point="org.eclipse.ui.views">
          <view
                allowMultiple="false"
@@ -150,6 +151,13 @@
                id="eu.etaxonomy.taxeditor.editor.view.dataimport.GbifResponseImportView"
                name="%view.name.5">
          </view>
+         <view
+               allowMultiple="true"
+               class="eu.etaxonomy.taxeditor.editor.molecular.PherogramView"
+               id="eu.etaxonomy.taxeditor.editor.molecular.PherogramView"
+               name="PherogramView"
+               restorable="true">
+         </view>
       </extension>
    <extension
          point="org.eclipse.ui.elementFactories">
diff --git a/eu.etaxonomy.taxeditor.editor/src/main/java/eu/etaxonomy/taxeditor/editor/molecular/AlignmentEditor.java b/eu.etaxonomy.taxeditor.editor/src/main/java/eu/etaxonomy/taxeditor/editor/molecular/AlignmentEditor.java
index b2233be84..9b669defb 100644
--- a/eu.etaxonomy.taxeditor.editor/src/main/java/eu/etaxonomy/taxeditor/editor/molecular/AlignmentEditor.java
+++ b/eu.etaxonomy.taxeditor.editor/src/main/java/eu/etaxonomy/taxeditor/editor/molecular/AlignmentEditor.java
@@ -153,6 +153,8 @@ public class AlignmentEditor extends EditorPart {
         		(getReadsArea().getContentArea().getEditSettings().isInsert() ? "Insert" : "Overwrite") + "  " +
         		"Insertion in pherogram: " +
 	       		(getReadsArea().getContentArea().getEditSettings().isInsertLeftInDataArea() ? "Left" : "Right"));
+        
+        //TODO Refresh button status and caption (e.g. "OVR" and "INS")
 //        IContributionItem[] items = bars.getMenuManager().getItems(); //bars.getToolBarManager().getItems();
 //        System.out.println(items.length);
 //        for (int i = 0; i < items.length; i++) {
diff --git a/eu.etaxonomy.taxeditor.editor/src/main/java/eu/etaxonomy/taxeditor/editor/molecular/PherogramView.java b/eu.etaxonomy.taxeditor.editor/src/main/java/eu/etaxonomy/taxeditor/editor/molecular/PherogramView.java
new file mode 100644
index 000000000..9225c9969
--- /dev/null
+++ b/eu.etaxonomy.taxeditor.editor/src/main/java/eu/etaxonomy/taxeditor/editor/molecular/PherogramView.java
@@ -0,0 +1,45 @@
+package eu.etaxonomy.taxeditor.editor.molecular;
+
+
+import info.bioinfweb.libralign.pherogram.PherogramTraceCurveView;
+
+import org.eclipse.swt.SWT;
+import org.eclipse.swt.widgets.Composite;
+import org.eclipse.ui.part.ViewPart;
+
+
+
+/**
+ * Component that allows to view a pherogram without the distortion due to aligning it to a sequence as in 
+ * {@link AlignmentEditor}. 
+ * 
+ * @author Ben Stöver
+ * @date Nov 20, 2014
+ */
+public class PherogramView extends ViewPart {
+    public static final String ID = "eu.etaxonomy.taxeditor.editor.molecular.PherogramView";
+
+    private PherogramTraceCurveView pherogramView = null;
+	
+	
+	public PherogramTraceCurveView getPherogramView() {
+		if (pherogramView == null) {
+			pherogramView = new PherogramTraceCurveView();
+		}
+		return pherogramView;
+	}
+
+
+	@Override
+	public void createPartControl(Composite parent) {
+		//TODO Load pherogram that shall be displayed
+		getPherogramView().createSWTWidget(parent, SWT.NONE);
+	}
+	
+	
+	@Override
+	public void setFocus() {
+		// TODO Auto-generated method stub
+		
+	}
+}