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chnage class name, now it compiles... 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@451 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
asivache 2009-04-16 16:51:00 +00:00
parent 4f9bc7206f
commit 55537c0d1e
1 changed files with 2 additions and 3 deletions
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5
java/src/org/broadinstitute/sting/playground/indels/IndelInspectorMain.java
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@ -17,7 +17,7 @@ import edu.mit.broad.picard.reference.ReferenceSequence;
import net.sf.samtools.*;
import org.broadinstitute.sting.utils.GenomeLoc;
public class IndelInspector extends CommandLineProgram {
public class IndelInspectorMain extends CommandLineProgram {
// Usage and parameters
@Usage(programVersion="1.0") public String USAGE = "Investigates indels called in the alignment data\n";
@ -34,7 +34,7 @@ public class IndelInspector extends CommandLineProgram {
/** Required main method implementation. */
public static void main(final String[] argv) {
System.exit(new IndelInspector().instanceMain(argv));
System.exit(new IndelInspectorMain().instanceMain(argv));
}
protected int doWork() {
@ -110,7 +110,6 @@ public class IndelInspector extends CommandLineProgram {
if ( location == null || GenomeLoc.compareContigs(cur_contig, location.getContig()) == 0 ) {
contig_seq = reference.get(r.getReferenceIndex());
String refstr = new String(contig_seq.getBases());
col.setReferenceSequence(refstr);
if (!CONTROL_RUN) pileBuilder.setReferenceSequence(refstr);
System.out.println("loaded contig "+cur_contig+" (index="+r.getReferenceIndex()+"); length="+contig_seq.getBases().length+" tst="+contig_seq.toString());
}