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This commit is contained in:
Joel Thibault 2012-12-18 18:45:36 -05:00
parent 2b1db519d7
commit ee22c1bf44
1 changed files with 7 additions and 0 deletions
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7
public/java/test/org/broadinstitute/sting/gatk/traversals/TraverseActiveRegionsTest.java
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@ -112,6 +112,13 @@ public class TraverseActiveRegionsTest extends BaseTest {
genomeLocParser = new GenomeLocParser(dictionary); genomeLocParser = new GenomeLocParser(dictionary);
// TODO: test shard boundaries // TODO: test shard boundaries
// TODO: reads with indels
// TODO: reads which span many regions
// TODO: reads which are partially between intervals (in/outside extension)
// TODO: duplicate reads
// TODO: should we assign reads which are completely outside intervals but within extension?
intervals = new ArrayList<GenomeLoc>(); intervals = new ArrayList<GenomeLoc>();
intervals.add(genomeLocParser.createGenomeLoc("1", 10, 20)); intervals.add(genomeLocParser.createGenomeLoc("1", 10, 20));