Merge pull request #242 from bioinform/v0.8.6

V0.8.6

Author: yunfeiguo

pom.xml

@@ -4,7 +4,7 @@
 
     <groupId>com.bina.varsim</groupId>
     <artifactId>varsim</artifactId>
-    <version>0.8.5</version>
+    <version>0.8.6</version>
     <packaging>jar</packaging>
 
     <name>varsim</name>

src/main/java/com/bina/varsim/tools/evaluation/VCFcompare.java

@@ -18,7 +18,8 @@
 import com.fasterxml.jackson.core.JsonGenerator;
 import com.fasterxml.jackson.databind.ObjectMapper;
 import com.google.common.collect.ImmutableList;
-import javafx.util.Pair;
+import org.apache.commons.lang3.tuple.Pair;
+import org.apache.commons.lang3.tuple.ImmutablePair;
 import org.apache.commons.io.FileUtils;
 import org.apache.commons.math3.random.EmpiricalDistribution;
 import org.apache.commons.math3.stat.StatUtils;
@@ -1122,7 +1123,7 @@ public void setNumberOfTrueCorrect(EnumStatsRatioCounter<VariantOverallType> num
                     }
                 }
 
-                matchingVariantAndMatchedWholeVariants.add(new Pair<>(variant, matchedWholeVariants));
+                matchingVariantAndMatchedWholeVariants.add(new ImmutablePair<>(variant, matchedWholeVariants));
                 numberOfNewVariants++;
             }
         }