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Merged bug fix from Stable into Unstable

This commit is contained in:
Ryan Poplin 2013-03-04 12:36:04 -05:00
parent b3ecbb011d 0697594778
commit ce7554e9d6
1 changed files with 1 additions and 1 deletions
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protected/java/src/org/broadinstitute/sting/gatk/walkers/haplotypecaller/DeBruijnAssembler.java
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@ -136,7 +136,7 @@ public class DeBruijnAssembler extends LocalAssemblyEngine {
graphs.clear(); graphs.clear();
final int maxKmer = ReadUtils.getMaxReadLength(reads) - KMER_OVERLAP - 1; final int maxKmer = ReadUtils.getMaxReadLength(reads) - KMER_OVERLAP - 1;
if( maxKmer < MIN_KMER ) { throw new IllegalStateException("Reads are too small for use in assembly."); } if( maxKmer < MIN_KMER ) { return; } // Reads are too small for assembly so don't try to create any assembly graphs
// create the graph for each possible kmer // create the graph for each possible kmer
for( int kmer = maxKmer; kmer >= MIN_KMER; kmer -= GRAPH_KMER_STEP ) { for( int kmer = maxKmer; kmer >= MIN_KMER; kmer -= GRAPH_KMER_STEP ) {