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JAL-2795 Added get and set values to the converted matrix
[jalview.git]
/
src
/
jalview
/
ext
/
archaeopteryx
/
ArchaeopteryxInit.java
diff --git
a/src/jalview/ext/archaeopteryx/ArchaeopteryxInit.java
b/src/jalview/ext/archaeopteryx/ArchaeopteryxInit.java
index
8302140
..
3bd9d19
100644
(file)
--- a/
src/jalview/ext/archaeopteryx/ArchaeopteryxInit.java
+++ b/
src/jalview/ext/archaeopteryx/ArchaeopteryxInit.java
@@
-13,7
+13,7
@@
public final class ArchaeopteryxInit
{
public static MainFrame createInstance(Phylogeny[] aptxTrees)
{
{
public static MainFrame createInstance(Phylogeny[] aptxTrees)
{
- return createAptxFrame(aptxTrees);
+ return createBoundAptxFrame(aptxTrees);
}
}
@@
-21,24
+21,25
@@
public final class ArchaeopteryxInit
{
Phylogeny[] aptxTrees = { aptxTree }; // future possibility to load in
// several trees simultaneously
{
Phylogeny[] aptxTrees = { aptxTree }; // future possibility to load in
// several trees simultaneously
- return createAptxFrame(aptxTrees);
+ return createBoundAptxFrame(aptxTrees);
}
public static MainFrame createInstance(
TreeBuilder calculatedTree)
{
}
public static MainFrame createInstance(
TreeBuilder calculatedTree)
{
- ArchaeopteryxTreeBuilder aptxTreeBuilder = new ArchaeopteryxTreeBuilder();
- Phylogeny aptxTree = aptxTreeBuilder.buildAptxTree(calculatedTree);
+ ArchaeopteryxTreeConverter aptxTreeBuilder = new ArchaeopteryxTreeConverter(
+ calculatedTree);
+ Phylogeny aptxTree = aptxTreeBuilder.buildAptxTree();
Phylogeny[] aptxTrees = { aptxTree }; // future possibility to load in
// several trees simultaneously
Phylogeny[] aptxTrees = { aptxTree }; // future possibility to load in
// several trees simultaneously
- return createAptxFrame(aptxTrees);
+ return createBoundAptxFrame(aptxTrees);
}
}
- private static MainFrame createAptxFrame(Phylogeny[] aptxTrees)
+ private static MainFrame createBoundAptxFrame(Phylogeny[] aptxTrees)
{
MainFrame aptxApp = Archaeopteryx.createApplication(aptxTrees,
"_aptx_jalview_configuration_file", null);
{
MainFrame aptxApp = Archaeopteryx.createApplication(aptxTrees,
"_aptx_jalview_configuration_file", null);