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Support replay and a major refactor.
Refactor task and exec system prior to new execution system.
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,44 @@ | ||
| /* | ||
| * The MIT License | ||
| * | ||
| * Copyright (c) 2017 Fulcrum GenomicsLLC | ||
| * | ||
| * Permission is hereby granted, free of charge, to any person obtaining a copy | ||
| * of this software and associated documentation files (the "Software"), to deal | ||
| * in the Software without restriction, including without limitation the rights | ||
| * to use, copy, modify, merge, publish, distribute, sublicense, and/or sell | ||
| * copies of the Software, and to permit persons to whom the Software is | ||
| * furnished to do so, subject to the following conditions: | ||
| * | ||
| * The above copyright notice and this permission notice shall be included in | ||
| * all copies or substantial portions of the Software. | ||
| * | ||
| * THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR | ||
| * IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, | ||
| * FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE | ||
| * AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER | ||
| * LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, | ||
| * OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN | ||
| * THE SOFTWARE. | ||
| * | ||
| */ | ||
|
|
||
| package dagr.core.exec | ||
|
|
||
| import scala.collection.mutable | ||
|
|
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| object ExecDef { | ||
| /** Create a thread-safe mutable map. */ | ||
| def concurrentMap[A,B](): mutable.Map[A,B] = { | ||
| import scala.collection.convert.decorateAsScala._ | ||
| new java.util.concurrent.ConcurrentHashMap[A, B]().asScala | ||
| } | ||
|
|
||
| /** Create a thread-safe mutable set. */ | ||
| def concurrentSet[A](): mutable.Set[A] = { | ||
| import scala.collection.convert.decorateAsScala._ | ||
| val map: java.util.Map[A, java.lang.Boolean] = new java.util.concurrent.ConcurrentHashMap[A, java.lang.Boolean]() | ||
| val set: java.util.Set[A] = java.util.Collections.newSetFromMap[A](map) | ||
| set.asScala | ||
| } | ||
| } |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,105 @@ | ||
| /* | ||
| * The MIT License | ||
| * | ||
| * Copyright (c) 2017 Fulcrum Genomics LLC | ||
| * | ||
| * Permission is hereby granted, free of charge, to any person obtaining a copy | ||
| * of this software and associated documentation files (the "Software"), to deal | ||
| * in the Software without restriction, including without limitation the rights | ||
| * to use, copy, modify, merge, publish, distribute, sublicense, and/or sell | ||
| * copies of the Software, and to permit persons to whom the Software is | ||
| * furnished to do so, subject to the following conditions: | ||
| * | ||
| * The above copyright notice and this permission notice shall be included in | ||
| * all copies or substantial portions of the Software. | ||
| * | ||
| * THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR | ||
| * IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, | ||
| * FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE | ||
| * AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER | ||
| * LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, | ||
| * OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN | ||
| * THE SOFTWARE. | ||
| * | ||
| */ | ||
|
|
||
| package dagr.core.exec | ||
|
|
||
| import com.fulcrumgenomics.commons.CommonsDef.{DirPath, yieldAndThen} | ||
| import dagr.core.execsystem.{SystemResources, TaskManager} | ||
| import dagr.core.reporting.ReportingDef.{TaskLogger, TaskRegister} | ||
| import dagr.core.reporting.{FinalStatusReporter, TaskStatusLogger} | ||
| import dagr.core.tasksystem.Task | ||
| import dagr.core.tasksystem.Task.{TaskInfo, TaskStatus} | ||
|
|
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| import scala.collection.mutable.ListBuffer | ||
| import scala.concurrent.ExecutionContext | ||
|
|
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| object Executor { | ||
| /** Create a new executor. */ | ||
| def apply(resources: SystemResources, | ||
| scriptsDirectory: Option[DirPath], | ||
| logDirectory: Option[DirPath] | ||
| )(implicit ex: ExecutionContext): Executor = { | ||
| new TaskManager(taskManagerResources=resources, scriptsDirectory=scriptsDirectory, logDirectory=logDirectory) | ||
| } | ||
| } | ||
|
|
||
| /** All executors of tasks should extend this trait. */ | ||
| trait Executor extends FinalStatusReporter { | ||
|
|
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| /** A list of [[TaskCache]] to use to determine if a task should be manually succeeded. */ | ||
| protected val taskCaches: ListBuffer[TaskCache] = ListBuffer[TaskCache]() | ||
|
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| /** The loggers to be notified when a task's status is updated. */ | ||
| private val _loggers: ListBuffer[TaskLogger] = ListBuffer[TaskLogger](new TaskStatusLogger) | ||
|
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| /** The loggers to be notified when a task's status is updated. */ | ||
| private val _registers: ListBuffer[TaskRegister] = ListBuffer[TaskRegister]() | ||
|
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| /** Record that the task information has changed for a task. */ | ||
| final def record(info: TaskInfo): Unit = this.synchronized { | ||
| this._loggers.foreach(_.record(info=info)) | ||
| } | ||
|
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| /** The method that will be called on the result of `Task.getTasks`. */ | ||
| final def register(parent: Task, child: Task*): Unit = this.synchronized { | ||
| this._registers.foreach(_.register(parent, child:_*)) | ||
| } | ||
|
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| /** Adds the [[dagr.core.reporting.ReportingDef.TaskLogger]] to the list of loggers to be notified when a task's status is updated. */ | ||
| final def withLogger(logger: TaskLogger): Unit = this.synchronized { | ||
| if (!this._loggers.contains(logger)) { | ||
| this._loggers.append(logger) | ||
| } | ||
| } | ||
|
|
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| /** Adds the [[TaskRegister]] to the list of registers to be notified when a list of tasks is returned by [[Task.getTasks]] */ | ||
| final def withTaskRegister(register: TaskRegister): this.type = this.synchronized { | ||
| yieldAndThen[this.type](this)(this._registers.append(register)) | ||
| } | ||
|
|
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| /** Adds the [[TaskCache]] to the list of caches to use to determine if a task should be manually succeeded. */ | ||
| final def withTaskCache(taskCache: TaskCache): this.type = yieldAndThen[this.type](this) { | ||
| this.withTaskRegister(taskCache) | ||
| this.taskCaches.append(taskCache) | ||
| } | ||
|
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| /** Start the execution of this task and all tasks that depend on it. Returns the number of tasks that were not | ||
| * executed. A given task should only be attempted once. */ | ||
| final def execute(task: Task): Int = { | ||
| task._executor = Some(this) | ||
| this.register(task, task) | ||
| this._execute(task=task) | ||
| } | ||
|
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| /** Returns the task status by ordinal */ | ||
| def from(ordinal: Int): TaskStatus | ||
|
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| /** Returns the log directory. */ | ||
| def logDir: DirPath | ||
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| /** Start the execution of this task and all tasks that depend on it. Returns the number of tasks that were not | ||
| * executed. A given task should only be attempted once. All executors should implement this method. */ | ||
| protected def _execute(task: Task): Int | ||
| } |
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