ngsutilsj bump

compgen-io · Mar 3, 2016 · eb6ea4e · eb6ea4e
1 parent 5985f19
commit eb6ea4e
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Showing 2 changed files with 2 additions and 2 deletions.
diff --git a/lib/ngsutilsj-0.3.jar b/lib/ngsutilsj-0.3.jar
diff --git a/src/java/io/compgen/cgsplice/cli/JunctionCount.java b/src/java/io/compgen/cgsplice/cli/JunctionCount.java
@@ -78,7 +78,7 @@ public void setRetainedIntrons(boolean val) {
         this.retainedIntrons = val;
     }
 
-    @Option(desc="Reads must overlap the junction by at least {val} bases (default: 10)", name="min-overlap", defaultValue="10")
+    @Option(desc="Reads must overlap the junction by at least {val} bases", name="min-overlap", defaultValue="10")
     public void setMinOverlap(int val) {
         this.minOverlap = val;
     }
@@ -127,7 +127,7 @@ public void exec() throws IOException {
         }
         writer.eol();
 
-        int readLength = ReadUtils.getReadLength(reader);
+        int readLength = ReadUtils.getSamReadLength(reader);
         if (verbose) {
         	System.err.println("Read length: "+readLength);
         }