o

io.projectglow.vcf

TabixIndexHelper

object TabixIndexHelper extends GlowLogging

Contains filter parsing tools and other tools used to apply tabix index

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GlowLogging, LazyLogging, AnyRef, Any
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  1. final def !=(arg0: Any): Boolean
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  9. final def getClass(): Class[_]
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  10. def getFileRangeToRead(hadoopFs: FileSystem, file: PartitionedFile, conf: Configuration, hasFilter: Boolean, useIndex: Boolean, filteredSimpleInterval: Option[SimpleInterval]): Option[(Long, Long)]

    Performs all the checks needed to use tabix index If a check fails generates appropriate message Otherwise generates block range by querying tabix index based on the filteredSimpleInterval produces by makeFilteredInterval.

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  13. lazy val logger: Logger
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    LazyLogging
  14. def makeFilteredInterval(filters: Seq[Filter], useFilterParser: Boolean, useIndex: Boolean): Option[SimpleInterval]

    Getting Seq of filters, returns an Option[SimpleInterval] representing contig and SQI, and takes care of useFilterParser option.

    Getting Seq of filters, returns an Option[SimpleInterval] representing contig and SQI, and takes care of useFilterParser option.

    returns

    Option[SimpleInterval] indicating contig and SQI of the filtered interval; None: if filter results in a null set of records; Contig is empty if filtering is skipped due to multiple contigs or unsupported elements.

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Inherited from GlowLogging

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