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Adding back a removed method #1321

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Mar 12, 2019
Merged

Adding back a removed method #1321

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12 changes: 11 additions & 1 deletion src/main/java/htsjdk/samtools/util/IntervalList.java
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Original file line number Diff line number Diff line change
Expand Up @@ -257,10 +257,20 @@ public static List<Interval> getUniqueIntervals(final IntervalList list, final b
/**
* Merges list of intervals and reduces them like htsjdk.samtools.util.IntervalList#getUniqueIntervals()
*
* @param combineAbuttingIntervals If true, intervals that are abutting will be combined into one interval.
* @param concatenateNames If false, the merged interval has the name of the earlier interval. This keeps name shorter.
* @param enforceSameStrands enforce that merged intervals have the same strand, otherwise ignore.
*/
public static List<Interval> getUniqueIntervals(final IntervalList list, final boolean concatenateNames, final boolean enforceSameStrands) {
return getUniqueIntervals(list, true, concatenateNames, enforceSameStrands);
}

/**
* Merges list of intervals and reduces them like htsjdk.samtools.util.IntervalList#getUniqueIntervals()
*
* @param combineAbuttingIntervals If true, intervals that are abutting will be combined into one interval.
* @param concatenateNames If false, the merged interval has the name of the earlier interval. This keeps name shorter.
* @param enforceSameStrands enforce that merged intervals have the same strand, otherwise ignore.
*/
public static List<Interval> getUniqueIntervals(final IntervalList list, final boolean combineAbuttingIntervals, final boolean concatenateNames, final boolean enforceSameStrands) {

final List<Interval> intervals;
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