Package picard.analysis
Interface CollectMultipleMetrics.ProgramInterface
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- All Known Implementing Classes:
CollectMultipleMetrics.Program
- Enclosing class:
- CollectMultipleMetrics
public static interface CollectMultipleMetrics.ProgramInterface
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Method Summary
All Methods Instance Methods Abstract Methods Default Methods Modifier and Type Method Description SinglePassSamProgram
makeInstance(String outbase, String outext, File input, File reference, Set<MetricAccumulationLevel> metricAccumulationLevel, File dbSnp, File intervals, File refflat, Set<String> ignoreSequence)
default SinglePassSamProgram
makeInstance(String outbase, String outext, File input, File reference, Set<MetricAccumulationLevel> metricAccumulationLevel, File dbSnp, File intervals, File refflat, Set<String> ignoreSequence, boolean includeUnpaired)
By default, this method calls themakeInstance(String, String, File, File, Set, File, File, File, Set)
method without 'includeUnpaired' parameter.default boolean
needsReferenceSequence()
default boolean
needsRefflatFile()
default boolean
supportsMetricAccumulationLevel()
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Method Detail
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makeInstance
default SinglePassSamProgram makeInstance(String outbase, String outext, File input, File reference, Set<MetricAccumulationLevel> metricAccumulationLevel, File dbSnp, File intervals, File refflat, Set<String> ignoreSequence, boolean includeUnpaired)
By default, this method calls themakeInstance(String, String, File, File, Set, File, File, File, Set)
method without 'includeUnpaired' parameter.
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makeInstance
SinglePassSamProgram makeInstance(String outbase, String outext, File input, File reference, Set<MetricAccumulationLevel> metricAccumulationLevel, File dbSnp, File intervals, File refflat, Set<String> ignoreSequence)
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needsReferenceSequence
default boolean needsReferenceSequence()
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needsRefflatFile
default boolean needsRefflatFile()
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supportsMetricAccumulationLevel
default boolean supportsMetricAccumulationLevel()
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