Shiva.scala 1.18 KB
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/**
 * Biopet is built on top of GATK Queue for building bioinformatic
 * pipelines. It is mainly intended to support LUMC SHARK cluster which is running
 * SGE. But other types of HPC that are supported by GATK Queue (such as PBS)
 * should also be able to execute Biopet tools and pipelines.
 *
 * Copyright 2014 Sequencing Analysis Support Core - Leiden University Medical Center
 *
 * Contact us at: sasc@lumc.nl
 *
 * A dual licensing mode is applied. The source code within this project that are
 * not part of GATK Queue is freely available for non-commercial use under an AGPL
 * license; For commercial users or users who do not want to follow the AGPL
 * license, please contact us to obtain a separate license.
 */
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package nl.lumc.sasc.biopet.pipelines.shiva

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import nl.lumc.sasc.biopet.core.PipelineCommand
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import nl.lumc.sasc.biopet.utils.config.Configurable
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import org.broadinstitute.gatk.queue.QScript

/**
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 * Implementation shiva without GATK parts
 *
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 * Created by pjvan_thof on 2/24/15.
 */
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class Shiva(val root: Configurable) extends QScript with ShivaTrait {
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  def this() = this(null)
}

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/** This object give a default main method to the pipelines */
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object Shiva extends PipelineCommand