Merge branch 'JABAWS_Release_2_5' into develop

[jabaws.git] / conf / settings / AAConPresets.xml

diff --git a/conf/settings/AAConPresets.xml b/conf/settings/AAConPresets.xml
index f2e3cde..721315e 100644 (file)
--- a/conf/settings/AAConPresets.xml
+++ b/conf/settings/AAConPresets.xml
@@ -1,25 +1,66 @@
 <?xml version="1.0" encoding="US-ASCII" standalone="yes"?>\r
 <presets>\r
-<runnerClassName>compbio.runner.conservation.AACon</runnerClassName>\r
-       <preset>\r
-               <name>Quick conservation</name>\r
-               <description>Collection of fast conservation methods</description>\r
-               <optlist>\r
-                       <option>-m=KABAT</option><option>-m=JORES</option><option>-m=SCHNEIDER</option><option>-m=SHENKIN</option><option>-m=GERSTEIN</option><option>-m=TAYLOR_GAPS</option><option>-m=TAYLOR_NO_GAPS</option><option>-m=ZVELIBIL</option><option>-m=ARMON</option><option>-m=THOMPSON</option><option>-m=NOT_LANCET</option><option>-m=MIRNY</option><option>-m=WILLIAMSON</option>\r
-               </optlist>\r
-       </preset>\r
-       <preset>\r
-               <name>Slow conservation</name>\r
-               <description>Collection of most expensive (slow) conservation methods</description>\r
-               <optlist>\r
-                       <option>-m=LANDGRAF</option><option>-m=KARLIN</option><option>-m=SANDER</option><option>-m=VALDAR</option><option>-m=SMERFS</option>\r
-               </optlist>\r
-       </preset>\r
-       <preset>\r
-               <name>Complete conservation</name>\r
-               <description>Calculate conservation with all supported methods</description>\r
-               <optlist>\r
-                       <option>-m=KABAT</option><option>-m=JORES</option><option>-m=SCHNEIDER</option><option>-m=SHENKIN</option><option>-m=GERSTEIN</option><option>-m=TAYLOR_GAPS</option><option>-m=TAYLOR_NO_GAPS</option><option>-m=ZVELIBIL</option><option>-m=ARMON</option><option>-m=THOMPSON</option><option>-m=NOT_LANCET</option><option>-m=MIRNY</option><option>-m=WILLIAMSON</option><option>-m=LANDGRAF</option><option>-m=KARLIN</option><option>-m=SANDER</option><option>-m=VALDAR</option><option>-m=SMERFS</option>\r
-               </optlist>\r
-       </preset>\r
+    <runnerClassName>compbio.runner.conservation.AACon</runnerClassName>\r
+    <preset>\r
+        <name>Quick conservation</name>\r
+        <description>\r
+            Collection of fast conservation methods\r
+        </description>\r
+        <optlist>\r
+            <option>-m=KABAT</option>\r
+            <option>-m=JORES</option>\r
+            <option>-m=SCHNEIDER</option>\r
+            <option>-m=SHENKIN</option>\r
+            <option>-m=GERSTEIN</option>\r
+            <option>-m=TAYLOR_GAPS</option>\r
+            <option>-m=TAYLOR_NO_GAPS</option>\r
+            <option>-m=ZVELIBIL</option>\r
+            <option>-m=ARMON</option>\r
+            <option>-m=THOMPSON</option>\r
+            <option>-m=NOT_LANCET</option>\r
+            <option>-m=MIRNY</option>\r
+            <option>-m=WILLIAMSON</option>\r
+        </optlist>\r
+    </preset>\r
+\r
+    <preset>\r
+        <name>Slow conservation</name>\r
+        <description>\r
+            Collection of most expensive (slow) conservation methods\r
+        </description>\r
+        <optlist>\r
+            <option>-m=LANDGRAF</option>\r
+            <option>-m=KARLIN</option>\r
+            <option>-m=SANDER</option>\r
+            <option>-m=VALDAR</option>\r
+            <option>-m=SMERFS</option>\r
+        </optlist>\r
+    </preset>\r
+\r
+    <preset>\r
+        <name>Complete conservation</name>\r
+        <description>\r
+            Calculate conservation with all supported methods\r
+        </description>\r
+        <optlist>\r
+            <option>-m=KABAT</option>\r
+            <option>-m=JORES</option>\r
+            <option>-m=SCHNEIDER</option>\r
+            <option>-m=SHENKIN</option>\r
+            <option>-m=GERSTEIN</option>\r
+            <option>-m=TAYLOR_GAPS</option>\r
+            <option>-m=TAYLOR_NO_GAPS</option>\r
+            <option>-m=ZVELIBIL</option>\r
+            <option>-m=ARMON</option>\r
+            <option>-m=THOMPSON</option>\r
+            <option>-m=NOT_LANCET</option>\r
+            <option>-m=MIRNY</option>\r
+            <option>-m=WILLIAMSON</option>\r
+            <option>-m=LANDGRAF</option>\r
+            <option>-m=KARLIN</option>\r
+            <option>-m=SANDER</option>\r
+            <option>-m=VALDAR</option>\r
+            <option>-m=SMERFS</option>\r
+        </optlist>\r
+    </preset>\r
 </presets>\r