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Fixed input annotations for master/test files on DiffObjectsWalker.

This commit is contained in:
Khalid Shakir 2012-07-16 13:32:54 -04:00
parent 2a830939df
commit 07822d6c0f
1 changed files with 3 additions and 2 deletions
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5
public/java/src/org/broadinstitute/sting/gatk/walkers/diffengine/DiffObjectsWalker.java
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@ -25,6 +25,7 @@
package org.broadinstitute.sting.gatk.walkers.diffengine; package org.broadinstitute.sting.gatk.walkers.diffengine;
import org.broadinstitute.sting.commandline.Argument; import org.broadinstitute.sting.commandline.Argument;
import org.broadinstitute.sting.commandline.Input;
import org.broadinstitute.sting.commandline.Output; import org.broadinstitute.sting.commandline.Output;
import org.broadinstitute.sting.gatk.contexts.AlignmentContext; import org.broadinstitute.sting.gatk.contexts.AlignmentContext;
import org.broadinstitute.sting.gatk.contexts.ReferenceContext; import org.broadinstitute.sting.gatk.contexts.ReferenceContext;
@ -144,7 +145,7 @@ public class DiffObjectsWalker extends RodWalker<Integer, Integer> {
* files to do the comparison. Conceptually master is the original file contained the expected * files to do the comparison. Conceptually master is the original file contained the expected
* results, but this doesn't currently have an impact on the calculations, but might in the future. * results, but this doesn't currently have an impact on the calculations, but might in the future.
*/ */
@Argument(fullName="master", shortName="m", doc="Master file: expected results", required=true) @Input(fullName="master", shortName="m", doc="Master file: expected results", required=true)
File masterFile; File masterFile;
/** /**
@ -152,7 +153,7 @@ public class DiffObjectsWalker extends RodWalker<Integer, Integer> {
* files to do the comparison. Conceptually test is the derived file from master, but this * files to do the comparison. Conceptually test is the derived file from master, but this
* doesn't currently have an impact on the calculations, but might in the future. * doesn't currently have an impact on the calculations, but might in the future.
*/ */
@Argument(fullName="test", shortName="t", doc="Test file: new results to compare to the master file", required=true) @Input(fullName="test", shortName="t", doc="Test file: new results to compare to the master file", required=true)
File testFile; File testFile;
/** /**