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));
}
}