From 8a357a88a2cf8f8eec3c678c67be3822c6e9f94a Mon Sep 17 00:00:00 2001
From: aaron <aaron@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Tue, 7 Apr 2009 20:12:05 +0000
Subject: [PATCH] right...exponential should be exponential, so I might want to
 increment the exponent

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@315 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../dataSources/shards/ExpGrowthShardStrategy.java   | 12 +++++++-----
 1 file changed, 7 insertions(+), 5 deletions(-)

diff --git a/java/src/org/broadinstitute/sting/gatk/dataSources/shards/ExpGrowthShardStrategy.java b/java/src/org/broadinstitute/sting/gatk/dataSources/shards/ExpGrowthShardStrategy.java
index 07a11fbb8..5a7e479a5 100644
--- a/java/src/org/broadinstitute/sting/gatk/dataSources/shards/ExpGrowthShardStrategy.java
+++ b/java/src/org/broadinstitute/sting/gatk/dataSources/shards/ExpGrowthShardStrategy.java
@@ -26,13 +26,13 @@ import net.sf.samtools.SAMSequenceDictionary;
  * <p/>
  * Class LinearShard
  * <p/>
- * A linear strategy, very very similar to adaptive
+ * A exponential strategy
  */
 public class ExpGrowthShardStrategy extends ShardStrategy {
 
     // fixed size
     private long baseSize = 100000;
-    private long currentExp = 1;
+    private long currentExp = 0;
 
     /**
      * the constructor, taking a seq dictionary to parse out contigs
@@ -42,7 +42,7 @@ public class ExpGrowthShardStrategy extends ShardStrategy {
     ExpGrowthShardStrategy(SAMSequenceDictionary dic, long startSize) {
         super(dic);
         this.baseSize = startSize;
-        currentExp = 1;
+        currentExp = 0;
     }
 
     /**
@@ -53,7 +53,7 @@ public class ExpGrowthShardStrategy extends ShardStrategy {
     ExpGrowthShardStrategy(ShardStrategy strat) {
         super(strat);
         this.baseSize = strat.nextShardSize();
-        currentExp = 1;
+        currentExp = 0;
     }
 
     /**
@@ -63,7 +63,7 @@ public class ExpGrowthShardStrategy extends ShardStrategy {
      */
     public void adjustNextShardSize(long size) {
         baseSize = size;
-        currentExp = 1;
+        currentExp = 0;
     }
 
     /**
@@ -72,6 +72,8 @@ public class ExpGrowthShardStrategy extends ShardStrategy {
      * @return the next shard size
      */
     protected long nextShardSize() {
+        // we grow the exponentially, we just have to make sure we start at zero
+        ++currentExp;
         return (long) Math.floor(Math.pow((double) baseSize, (double) currentExp));
     }