Commit 05096c7d authored by Peter van 't Hof's avatar Peter van 't Hof

Format fix

parent 9ec465f6
package nl.lumc.sasc.biopet.pipelines.sage
import java.io.{File, FileOutputStream}
import java.io.{ File, FileOutputStream }
import com.google.common.io.Files
import nl.lumc.sasc.biopet.utils.{ConfigUtils, Logging}
import nl.lumc.sasc.biopet.utils.{ ConfigUtils, Logging }
import nl.lumc.sasc.biopet.utils.config.Config
import org.broadinstitute.gatk.queue.QSettings
import org.scalatest.Matchers
import org.scalatest.testng.TestNGSuite
import org.testng.annotations.{DataProvider, Test}
import org.testng.annotations.{ DataProvider, Test }
/**
* Created by pjvanthof on 28/09/16.
*/
* Created by pjvanthof on 28/09/16.
*/
class SageTest extends TestNGSuite with Matchers {
def initPipeline(map: Map[String, Any]): Sage = {
new Sage() {
......@@ -71,15 +71,17 @@ class SageTest extends TestNGSuite with Matchers {
pipeline.summaryFiles shouldBe Map()
pipeline.summarySettings shouldBe Map()
pipeline.samples.foreach { case (sampleId, sample) =>
sample.summaryFiles shouldBe Map()
sample.summaryStats shouldBe Map()
sample.summarySettings shouldBe Map()
sample.libraries.foreach { case (libId, lib) =>
lib.summaryFiles shouldBe Map()
lib.summaryStats shouldBe Map()
lib.summarySettings shouldBe Map()
}
pipeline.samples.foreach {
case (sampleId, sample) =>
sample.summaryFiles shouldBe Map()
sample.summaryStats shouldBe Map()
sample.summarySettings shouldBe Map()
sample.libraries.foreach {
case (libId, lib) =>
lib.summaryFiles shouldBe Map()
lib.summaryStats shouldBe Map()
lib.summarySettings shouldBe Map()
}
}
}
......
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