diff --git a/public/gatk-framework/src/main/java/org/broadinstitute/sting/commandline/ArgumentTypeDescriptor.java b/public/gatk-framework/src/main/java/org/broadinstitute/sting/commandline/ArgumentTypeDescriptor.java index 14b5118ad..8f0abe360 100644 --- a/public/gatk-framework/src/main/java/org/broadinstitute/sting/commandline/ArgumentTypeDescriptor.java +++ b/public/gatk-framework/src/main/java/org/broadinstitute/sting/commandline/ArgumentTypeDescriptor.java @@ -374,7 +374,7 @@ public abstract class ArgumentTypeDescriptor { FeatureManager.FeatureDescriptor featureDescriptor = manager.getByFiletype(file); if ( featureDescriptor != null ) { tribbleType = featureDescriptor.getName(); - logger.info("Dynamically determined type of " + file + " to be " + tribbleType); + logger.debug("Dynamically determined type of " + file + " to be " + tribbleType); } } diff --git a/public/gatk-framework/src/main/java/org/broadinstitute/sting/gatk/refdata/tracks/RMDTrackBuilder.java b/public/gatk-framework/src/main/java/org/broadinstitute/sting/gatk/refdata/tracks/RMDTrackBuilder.java index 4c50cfaae..3433b5342 100644 --- a/public/gatk-framework/src/main/java/org/broadinstitute/sting/gatk/refdata/tracks/RMDTrackBuilder.java +++ b/public/gatk-framework/src/main/java/org/broadinstitute/sting/gatk/refdata/tracks/RMDTrackBuilder.java @@ -169,7 +169,7 @@ public class RMDTrackBuilder { // extends PluginManager { */ private Pair createTabixIndexedFeatureSource(FeatureManager.FeatureDescriptor descriptor, String name, File inputFile) { // we might not know the index type, try loading with the default reader constructor - logger.info("Attempting to blindly load " + inputFile + " as a tabix indexed file"); + logger.debug("Attempting to load " + inputFile + " as a tabix indexed file without validating it"); try { return new Pair(AbstractFeatureReader.getFeatureReader(inputFile.getAbsolutePath(), createCodec(descriptor, name)),null); } catch (TribbleException e) { @@ -318,7 +318,7 @@ public class RMDTrackBuilder { // extends PluginManager { * @return an Index, or null if we're unable to load */ protected Index loadFromDisk( final File inputFile, final File indexFile ) { - logger.info("Loading Tribble index from disk for file " + inputFile); + logger.debug("Loading Tribble index from disk for file " + inputFile); Index index = IndexFactory.loadIndex(indexFile.getAbsolutePath()); // check if the file is up-to date (filestamp and version check) @@ -384,7 +384,7 @@ public class RMDTrackBuilder { // extends PluginManager { */ protected Index createIndexInMemory(File inputFile, FeatureCodec codec) { // this can take a while, let them know what we're doing - logger.info("Creating Tribble index in memory for file " + inputFile); + logger.debug("Creating Tribble index in memory for file " + inputFile); Index idx = IndexFactory.createDynamicIndex(inputFile, codec, IndexFactory.IndexBalanceApproach.FOR_SEEK_TIME); validateAndUpdateIndexSequenceDictionary(inputFile, idx, dict); return idx;