70 lines
3.1 KiB
Scala
70 lines
3.1 KiB
Scala
/*
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* Copyright (c) 2011, The Broad Institute
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*
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* Permission is hereby granted, free of charge, to any person
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* obtaining a copy of this software and associated documentation
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* files (the "Software"), to deal in the Software without
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* restriction, including without limitation the rights to use,
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* copy, modify, merge, publish, distribute, sublicense, and/or sell
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* copies of the Software, and to permit persons to whom the
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* Software is furnished to do so, subject to the following
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* conditions:
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*
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* The above copyright notice and this permission notice shall be
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* included in all copies or substantial portions of the Software.
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* THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
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* EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES
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* OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
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* NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT
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* HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY,
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* WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
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* FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR
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* OTHER DEALINGS IN THE SOFTWARE.
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*/
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package org.broadinstitute.sting.queue
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import java.io.File
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import org.broadinstitute.sting.commandline.{ArgumentCollection, Argument}
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import org.broadinstitute.sting.queue.util.{SystemUtils, EmailSettings}
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/**
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* Default settings settable on the command line and passed to CommandLineFunctions.
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*/
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class QSettings {
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@Argument(fullName="job_name_prefix", shortName="jobPrefix", doc="Default name prefix for compute farm jobs.", required=false)
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var jobNamePrefix: String = QSettings.processNamePrefix
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@Argument(fullName="job_project", shortName="jobProject", doc="Default project for compute farm jobs.", required=false)
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var jobProject: String = _
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@Argument(fullName="job_queue", shortName="jobQueue", doc="Default queue for compute farm jobs.", required=false)
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var jobQueue: String = _
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@Argument(fullName="job_priority", shortName="jobPriority", doc="Default priority for jobs.", required=false)
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var jobPriority: Option[Int] = None
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@Argument(fullName="default_memory_limit", shortName="memLimit", doc="Default memory limit for jobs, in gigabytes.", required=false)
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var memoryLimit: Option[Double] = None
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@Argument(fullName="run_directory", shortName="runDir", doc="Root directory to run functions from.", required=false)
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var runDirectory = new File(".")
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@Argument(fullName="temp_directory", shortName="tempDir", doc="Temp directory to pass to functions.", required=false)
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var tempDirectory = new File(System.getProperty("java.io.tmpdir"))
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@Argument(fullName="job_scatter_gather_directory", shortName="jobSGDir", doc="Default directory to place scatter gather output for compute farm jobs.", required=false)
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var jobScatterGatherDirectory: File = _
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@ArgumentCollection
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val emailSettings = new EmailSettings
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}
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/**
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* Default settings settable on the command line and passed to CommandLineFunctions.
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*/
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object QSettings {
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/** A semi-unique job prefix using the host name and the process id. */
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private val processNamePrefix = "Q-" + SystemUtils.pidAtHost
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}
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