From: cmzmasek@gmail.com <cmzmasek@gmail.com@ca865154-3058-d1c3-3e42-d8f55a55bdbd>
Date: Wed, 2 Apr 2014 02:01:24 +0000 (+0000)
Subject: inprogress
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=5b432bfb5121d5ba8fadb9eebff854fde381c8a5;p=jalview.git

inprogress
---

diff --git a/forester/aptx/aptx_example_files/vis.xml b/forester/aptx/aptx_example_files/vis.xml
new file mode 100644
index 0000000..13c86d1
--- /dev/null
+++ b/forester/aptx/aptx_example_files/vis.xml
@@ -0,0 +1,133 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<phyloxml xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.phyloxml.org http://www.phyloxml.org/1.10/phyloxml.xsd" xmlns="http://www.phyloxml.org">
+<phylogeny rooted="true" rerootable="false">
+  <clade>
+    <clade>
+      <clade>
+        <clade>
+          <clade>
+            <clade>
+              <clade>
+                <clade>
+                  <clade>
+                    <clade>
+                      <clade>
+                        <clade>
+                          <clade>
+                            <name>NP_001025424.1</name>
+                            <property ref="aptx_visualization:node_font" datatype="xsd:token" applies_to="node">Serif</property>
+                            <property ref="aptx_visualization:node_font_size" datatype="xsd:unsignedByte" applies_to="node">18</property>
+                            <property ref="aptx_visualization:node_font_style" datatype="xsd:token" applies_to="node">bold</property>
+                          </clade>
+                          <clade>
+                            <name>NM_001030253</name>
+                            <property ref="aptx_visualization:node_font" datatype="xsd:token" applies_to="node">Luxi Mono</property>
+                            <property ref="aptx_visualization:node_font_size" datatype="xsd:unsignedByte" applies_to="node">18</property>
+                            <property ref="aptx_visualization:node_font_style" datatype="xsd:token" applies_to="node">bold_italic</property>
+                          </clade>
+                        </clade>
+                        <clade>
+                          <clade>
+                            <name>BCL2_HUMAN</name>
+                            <property ref="aptx_visualization:node_font" datatype="xsd:token" applies_to="node">Courier</property>
+                            <property ref="aptx_visualization:node_font_size" datatype="xsd:unsignedByte" applies_to="node">16</property>
+                            <property ref="aptx_visualization:node_font_style" datatype="xsd:token" applies_to="node">bold_italic</property>
+                          </clade>
+                          <clade>
+                            <name>P10415</name>
+                            <property ref="aptx_visualization:node_font" datatype="xsd:token" applies_to="node">Hershey</property>
+                            <property ref="aptx_visualization:node_font_size" datatype="xsd:unsignedByte" applies_to="node">24</property>
+                            <property ref="aptx_visualization:node_font_style" datatype="xsd:token" applies_to="node">bold</property>
+                          </clade>
+                        </clade>
+                      </clade>
+                      <clade>
+                        <name>AY695820</name>
+                        <property ref="aptx_visualization:node_font" datatype="xsd:token" applies_to="node">Bitstream Vera Serif</property>
+                        <property ref="aptx_visualization:node_font_size" datatype="xsd:unsignedByte" applies_to="node">16</property>
+                        <property ref="aptx_visualization:node_font_style" datatype="xsd:token" applies_to="node">italic</property>
+                      </clade>
+                    </clade>
+                    <clade>
+                      <clade>
+                        <name>K00650</name>
+                      </clade>
+                      <clade>
+                        <name>K00650.1</name>
+                      </clade>
+                    </clade>
+                  </clade>
+                  <clade>
+                    <clade>
+                      <name>AAA59452</name>
+                    </clade>
+                    <clade>
+                      <name>AAA59452.1</name>
+                    </clade>
+                  </clade>
+                </clade>
+                <clade>
+                  <taxonomy>
+                    <code>BRAFL</code>
+                  </taxonomy>
+                </clade>
+              </clade>
+              <clade>
+                <taxonomy>
+                  <code>STRPU</code>
+                </taxonomy>
+              </clade>
+            </clade>
+            <clade>
+              <clade>
+                <clade>
+                  <taxonomy>
+                    <code>DROME</code>
+                  </taxonomy>
+                </clade>
+                <clade>
+                  <taxonomy>
+                    <code>CAEEL</code>
+                  </taxonomy>
+                </clade>
+              </clade>
+              <clade>
+                <taxonomy>
+                  <code>LOTGI</code>
+                </taxonomy>
+              </clade>
+            </clade>
+          </clade>
+          <clade>
+            <clade>
+              <taxonomy>
+                <code>NEMVE</code>
+              </taxonomy>
+            </clade>
+            <clade>
+              <taxonomy>
+                <code>BEROV</code>
+              </taxonomy>
+            </clade>
+          </clade>
+        </clade>
+        <clade>
+          <taxonomy>
+            <code>TRIAD</code>
+          </taxonomy>
+        </clade>
+      </clade>
+      <clade>
+        <taxonomy>
+          <code>MONBE</code>
+        </taxonomy>
+      </clade>
+    </clade>
+    <clade>
+      <taxonomy>
+        <code>YEAST</code>
+      </taxonomy>
+    </clade>
+  </clade>
+</phylogeny>
+</phyloxml>
\ No newline at end of file