diff --git a/adam-core/src/main/scala/org/bdgenomics/adam/rdd/feature/FeatureRDD.scala b/adam-core/src/main/scala/org/bdgenomics/adam/rdd/feature/FeatureRDD.scala index b376a9906e..dc256e7667 100644 --- a/adam-core/src/main/scala/org/bdgenomics/adam/rdd/feature/FeatureRDD.scala +++ b/adam-core/src/main/scala/org/bdgenomics/adam/rdd/feature/FeatureRDD.scala @@ -72,7 +72,7 @@ private trait FeatureOrdering[T <: Feature] extends Ordering[T] { } private object FeatureOrdering extends FeatureOrdering[Feature] {} -private[rdd] object FeatureRDD { +object FeatureRDD { /** * @param elem The feature to extract a sequence record from. @@ -128,7 +128,7 @@ private[rdd] object FeatureRDD { * @param feature Feature to write in IntervalList format. * @return Feature as a one line interval list string. */ - def toInterval(feature: Feature): String = { + private[rdd] def toInterval(feature: Feature): String = { val sequenceName = feature.getContigName val start = feature.getStart + 1 // IntervalList ranges are 1-based val end = feature.getEnd // IntervalList ranges are closed @@ -141,7 +141,7 @@ private[rdd] object FeatureRDD { * @param feature Feature to write in the narrow peak format. * @return Returns this feature as a single narrow peak line. */ - def toNarrowPeak(feature: Feature): String = { + private[rdd] def toNarrowPeak(feature: Feature): String = { val chrom = feature.getContigName val start = feature.getStart val end = feature.getEnd @@ -159,7 +159,7 @@ private[rdd] object FeatureRDD { * @param feature Feature to write in BED format. * @return Returns the feature as a single line BED string. */ - def toBed(feature: Feature): String = { + private[rdd] def toBed(feature: Feature): String = { val chrom = feature.getContigName val start = feature.getStart val end = feature.getEnd @@ -186,7 +186,7 @@ private[rdd] object FeatureRDD { * @param feature Feature to write in GFF3 format. * @return Returns this feature as a single line GFF3 string. */ - def toGff3(feature: Feature): String = { + private[rdd] def toGff3(feature: Feature): String = { def escape(entry: (Any, Any)): String = { entry._1 + "=" + entry._2 }