Commit ef10b38d authored by Peter van 't Hof's avatar Peter van 't Hof

Added test in shiva for cnvcalling

parent 6c15d952
......@@ -60,6 +60,7 @@ trait ShivaTestTrait extends TestNGSuite with Matchers {
def libraryCalling = false
def dbsnp = true
def svCalling = false
def cnvCalling = false
def annotation = false
@Test(dataProvider = "shivaOptions")
......@@ -77,6 +78,7 @@ trait ShivaTestTrait extends TestNGSuite with Matchers {
"use_indel_realigner" -> realign,
"use_base_recalibration" -> baseRecalibration,
"sv_calling" -> svCalling,
"cnv_calling" -> cnvCalling,
"annotation" -> annotation), m)
}
......@@ -151,6 +153,13 @@ class ShivaWithSvCallingTest extends ShivaTestTrait {
override def baseRecalibrationProvider = Array(false)
override def svCalling = true
}
class ShivaWithCnvCallingTest extends ShivaTestTrait {
override def sample1 = Array(true)
override def sample2 = Array(false)
override def realignProvider = Array(false)
override def baseRecalibrationProvider = Array(false)
override def cnvCalling = true
}
class ShivaWithAnnotationTest extends ShivaTestTrait {
override def sample1 = Array(true)
override def sample2 = Array(false)
......
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