SageFastqCountTest. Not much to do here.

public/biopet-framework/src/test/scala/nl/lumc/sasc/biopet/tools/SageCountFastqTest.scala

+package nl.lumc.sasc.biopet.tools
+
+import java.io.File
+import java.nio.file.Paths
+
+import org.scalatest.Matchers
+import org.scalatest.mock.MockitoSugar
+import org.scalatest.testng.TestNGSuite
+import org.testng.annotations.Test
+
+/**
+ * Created by ahbbollen on 28-8-15.
+ */
+class SageCountFastqTest extends TestNGSuite with MockitoSugar with Matchers {
+  import SageCountFastq._
+  private def resourcePath(p: String): String = {
+    Paths.get(getClass.getResource(p).toURI).toString
+  }
+
+  val fq = resourcePath("/paired01a.fq")
+
+  @Test
+  def testMain() = {
+    val temp = File.createTempFile("out", ".fastq")
+
+    val args = Array("-I", fq, "-o", temp.getAbsolutePath)
+    main(args)
+  }
+
+}