diff --git a/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/EmpiricalSubstitutionProbabilities.java b/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/EmpiricalSubstitutionProbabilities.java index 4045e2ed4..04107ddb3 100755 --- a/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/EmpiricalSubstitutionProbabilities.java +++ b/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/EmpiricalSubstitutionProbabilities.java @@ -229,7 +229,7 @@ public class EmpiricalSubstitutionProbabilities extends FourBaseProbabilities { if ( pl == SequencerPlatform.UNKNOWN ) { if ( raiseErrorOnUnknownPlatform ) - throw new RuntimeException("Unknown Sequencer platform for read " + read.format()); + throw new RuntimeException("Unknown Sequencer platform for read " + read.format() + "; your BAM file is missing the PL tag for some read groups. Please specify a default platform. See your walker's documentation to accomplish this"); else { pl = defaultPlatform; //System.out.printf("Using default platform %s", pl); @@ -249,4 +249,4 @@ public class EmpiricalSubstitutionProbabilities extends FourBaseProbabilities { return log10p; } -} \ No newline at end of file +}