ad3a3aa35005aa6bfb7fb2450230860d2d8dc0c7,java/src/org/broadinstitute/sting/gatk/GenomeAnalysisEngine.java,GenomeAnalysisEngine,parseIntervalRegion,#String#boolean#,244

Before Change


     */
    public static List<GenomeLoc> parseIntervalRegion(final String intervalsString, boolean quiet ) {
        List<GenomeLoc> locs = null;
        if ( intervalsString != null) {
            if (new File(intervalsString).exists()) {
                if (! quiet) logger.info("Intervals argument specifies a file.  Loading intervals from file.");
                locs = GenomeLocParser.intervalFileToList(intervalsString);
            } else {
                if (! quiet) logger.info("Intervals argument does not specify a file.  Trying to parse it as a simple string.");
                locs = GenomeLocParser.parseGenomeLocs(intervalsString);
            }
        }
        return locs;

After Change


            if (new File(interval).exists()) {
                locs.addAll(GenomeLocParser.intervalFileToList(interval));
            } else {
                locs.addAll(GenomeLocParser.parseGenomeLocs(interval));
            }

        }