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Turn on new TraverseLociByReference is now only dependent on the -et flag. REGION_STR does not matter. 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@454 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
hanna 2009-04-16 19:45:47 +00:00
parent 12e1f192c4
commit 165e504d1c
1 changed files with 1 additions and 1 deletions
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java/src/org/broadinstitute/sting/gatk/GenomeAnalysisTK.java
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@ -262,7 +262,7 @@ public class GenomeAnalysisTK extends CommandLineProgram {
if ( WALK_ALL_LOCI ) {
// TODO: Temporary debugging code. Activate the new debugging code only when the MicroManager
// is not filtered.
if( ENABLE_THREADING && REGION_STR == null ) {
if( ENABLE_THREADING ) {
logger.warn("Preliminary threading support enabled");
microManager = new MicroManager( INPUT_FILE, REF_FILE_ARG, numThreads );
this.engine = microManager.getTraversalEngine();