Mercurial > repos > timpalpant > java_genomics_toolkit
diff src/edu/unc/genomics/IntervalFileConverter.java @ 2:e16016635b2a
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author | timpalpant |
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date | Mon, 13 Feb 2012 22:12:06 -0500 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/src/edu/unc/genomics/IntervalFileConverter.java Mon Feb 13 22:12:06 2012 -0500 @@ -0,0 +1,28 @@ +package edu.unc.genomics; + +import java.io.IOException; +import java.nio.file.Path; + +import com.beust.jcommander.IStringConverter; +import com.beust.jcommander.ParameterException; + +import edu.unc.genomics.io.IntervalFile; + +/** + * @author timpalpant + * + */ +public class IntervalFileConverter implements IStringConverter<IntervalFile<? extends Interval>> { + + @Override + public IntervalFile<? extends Interval> convert(String value) throws ParameterException { + PathConverter converter = new PathConverter(); + Path p = converter.convert(value); + try { + return IntervalFile.autodetect(p); + } catch (IOException e) { + throw new ParameterException("IOException while attempting to autodetect interval file type"); + } + } + +}