zzh
/
gatk-3.8
1
0
Fork 0
Code Issues Pull Requests Packages Projects Releases Wiki Activity
gatk-3.8/public/scala/src/org/broadinstitute/sting/queue/QCommandPlugin.scala

12 lines
326 B
Scala
Raw Normal View History

Added another utility that can convert to RemoteFiles. QScripts will now generate remote versions of files if the caller has not already passed in remote versions (or the QScript replaces the passed in remote references... not good) Instead of having yet another plugin, combined QStatusMessenger and RemoteFileConverter under general QCommandPlugin trait.
2012-10-18 07:39:03 +08:00
package org.broadinstitute.sting.queue
import engine.QStatusMessenger
import util.RemoteFileConverter
trait QCommandPlugin {
def statusMessenger: QStatusMessenger = null
def remoteFileConverter: RemoteFileConverter = null
Scala classes were only returning direct subclasses (confirmed when inspected in debugger) so changed PluginManager to allow specifying the explicit subclass. Removed some generics from PluginManager for now until able to figure out syntax for requesting explicit subclass. QStatusMessenger uses a slightly more primitive Map[String, Seq[RemoteFile]] instead of Map[ArgumentSource, Seq[RemoteFile]]. Added an QCommandPlugin.initScript utility method for handling specialized script types.
2012-11-05 12:42:02 +08:00
def qScriptClass: Class[_ <: QScript] = classOf[QScript]
def initScript(script: QScript) {}
Added another utility that can convert to RemoteFiles. QScripts will now generate remote versions of files if the caller has not already passed in remote versions (or the QScript replaces the passed in remote references... not good) Instead of having yet another plugin, combined QStatusMessenger and RemoteFileConverter under general QCommandPlugin trait.
2012-10-18 07:39:03 +08:00
}