--- a/EDeN_train.xml	Wed Sep 04 07:59:08 2013 -0400
+++ b/EDeN_train.xml	Thu Sep 05 11:40:29 2013 -0400
@@ -16,7 +16,7 @@
 
         --lambda $lambda ##??? notation?
         --epochs $epoch
-        
+
         --sparsification_num_iterations $sparsification_num_iterations
         --topological_regularization_num_neighbors $topological_regularization_num_neighbors
         --topological_regularization_decay_rate $topological_regularization_decay_rate
@@ -31,28 +31,35 @@
     </command>
     <inputs>
         <param format="eden_sparse_vector" name="infile" type="data" label="Input Graph" help=""/>
-        <param format="txt" name="target_infile" type="data" label="Target file" help=""/>
-
-        <param name="kernel_type" type="select" display="radio" label="Type of the Kernel">
-            <option value="NSPDK">NSPDK</option>
-            <option value="WDK">WDK</option>
-            <option value="PBK">PBK</option>
-            <option value="USPK">USPK</option>
-            <option value="DDK">DDK</option>
-            <option value="NSDDK">ANSDDK</option>
-            <option value="SK">SK [NSPDK]</option>
-        </param>
-
-        <param name="graph_type" type="select" display="radio" label="Type of Graph">
-            <option value="DIRECTED">directed</option>
-            <option value="UNDIRECTED">undirected</option>
-        </param>
+        <param format="txt" name="target_infile" type="data" label="Target file" help="indicates with -1 and 1 the class"/>
 
         <param name="epoch" type="integer" value="10" label="Epoch, Stochastic gradient descend algorithm." help="">
             <validator type="in_range" min="1" />
         </param>
         <param name="lambda" type="text" value="1e-4" label="lambda, Stochastic gradient descend algorithm." help="" />
 
+        <!-- Semi-supervised-settings -->
+        <param name="threshold" type="float" value="1.0" label="Top and low quantile" 
+            help="Only the top and low quantile will be used as positives and negative instances. A threshold of 1 means that all unsupervised instaces are used in the next phase. ">
+            <validator type="in_range" min="0.0" />
+        </param>
+        <param name="num_iterations" type="integer" value="3" label="Number of iterations">
+        <param name="only_negative" type="boolean" label="Induce only negative class instances." truevalue="--only_negative" falsevalue="" checked="false" />
+        <param name="only_positive" type="boolean" label="Induce only positive class instances." truevalue="--only_positive" falsevalue="" checked="false" />
+
+
+        <param name="topological_regularization_decay_rate" type="float" value="0.01" label="Topological regularization decay rate" />
+            <validator type="in_range" min="0.0" />
+        </param>
+        <param name="topological_regularization_num_neighbors" type="integer" value="0" label="Topological regularization number of neighbors">
+            <validator type="in_range" min="0" />
+        </param>
+        <param name="sparsification_num_iterations" type="integer" value="0" label="Sparsification number of iterations">
+            <validator type="in_range" min="0" />
+        </param>
+
+        <param name="random_seed" type="integer" value="1" label="Randam Seed" help="" />
+
     </inputs>
     <outputs>
         <data format="txt" name="model_outfile" label="Train Model from ${on_string}"/>