Commit 7f682612 authored by Peter van 't Hof's avatar Peter van 't Hof
Browse files

Improved unit test

parent 93080450
......@@ -15,6 +15,7 @@
*/
package nl.lumc.sasc.biopet.tools
import java.io.File
import java.nio.file.Paths
import org.scalatest.Matchers
......@@ -36,25 +37,25 @@ class VcfWithVcfTest extends TestNGSuite with MockitoSugar with Matchers {
Paths.get(getClass.getResource(p).toURI).toString
}
val vepped_path = resourcePath("/VEP_oneline.vcf.gz")
val unvepped_path = resourcePath("/unvepped.vcf.gz")
val veppedPath = resourcePath("/VEP_oneline.vcf.gz")
val unveppedPath = resourcePath("/unvepped.vcf.gz")
val rand = new Random()
@Test def testOutputTypeVcf() = {
val tmp_path = "/tmp/VcfWithVcf_" + rand.nextString(10) + ".vcf"
val arguments = Array("-I", unvepped_path, "-s", vepped_path, "-o", tmp_path, "-f", "CSQ")
val tmpPath = File.createTempFile("VcfWithVcf_", ".vcf").getAbsolutePath
val arguments = Array("-I", unveppedPath, "-s", veppedPath, "-o", tmpPath, "-f", "CSQ")
main(arguments)
}
@Test def testOutputTypeVcfGz() = {
val tmp_path = "/tmp/VcfWithVcf_" + rand.nextString(10) + ".vcf.gz"
val arguments = Array("-I", unvepped_path, "-s", vepped_path, "-o", tmp_path, "-f", "CSQ")
val tmpPath = File.createTempFile("VcfWithVcf_", ".vcf").getAbsolutePath
val arguments = Array("-I", unveppedPath, "-s", veppedPath, "-o", tmpPath, "-f", "CSQ")
main(arguments)
}
@Test def testOutputTypeBcf() = {
val tmp_path = "/tmp/VcfWithVcf_" + rand.nextString(10) + ".bcf"
val arguments = Array("-I", unvepped_path, "-s", vepped_path, "-o", tmp_path, "-f", "CSQ")
val tmpPath = File.createTempFile("VcfWithVcf_", ".vcf").getAbsolutePath
val arguments = Array("-I", unveppedPath, "-s", veppedPath, "-o", tmpPath, "-f", "CSQ")
main(arguments)
}
......
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