zzh
/
gatk-3.8
1
0
Fork 0
Code Issues Pull Requests Packages Projects Releases Wiki Activity

Disabled ExampleUG Queue Tests, fixed internal extensions dependency. 

EUG tests disabled due to new protected qscript directory path, post GATK artifact splitting.
This commit is contained in:
Khalid Shakir 2014-05-27 16:16:53 -04:00
parent 3696c2d817
commit 6c9e68ef41
1 changed files with 8 additions and 5 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

13
protected/gatk-queue-extensions-distribution/src/test/scala/org/broadinstitute/gatk/queue/pipeline/examples/ExampleUnifiedGenotyperQueueTest.scala
View File

@ -50,8 +50,11 @@ import org.testng.annotations.{DataProvider, Test}
import org.broadinstitute.gatk.queue.pipeline.{QueueTest, QueueTestSpec}
import org.broadinstitute.gatk.utils.BaseTest
/*
* TODO: Tests are all currently disabled until we fix the paths to use the qscript directory, or as a patch the gatk.basedir as a passed in variable.
*/
class ExampleUnifiedGenotyperQueueTest {
@Test(timeOut=36000000)
@Test(timeOut=36000000, enabled=false)
def testUnifiedGenotyper() {
val spec = new QueueTestSpec
spec.name = "unifiedgenotyper"
@ -73,7 +76,7 @@ class ExampleUnifiedGenotyperQueueTest {
Array("vcf_intervals", BaseTest.validationDataLocation + "intervalTest.1.vcf")
).asInstanceOf[Array[Array[Object]]]
@Test(dataProvider = "ugIntervals", timeOut=36000000)
@Test(dataProvider = "ugIntervals", timeOut=36000000, enabled=false)
def testUnifiedGenotyperWithIntervals(intervalsName: String, intervalsPath: String) {
val spec = new QueueTestSpec
spec.name = "unifiedgenotyper_with_" + intervalsName
@ -86,7 +89,7 @@ class ExampleUnifiedGenotyperQueueTest {
QueueTest.executeTest(spec)
}
@Test(timeOut=36000000)
@Test(timeOut=36000000, enabled=false)
def testUnifiedGenotyperNoGCOpt() {
val spec = new QueueTestSpec
spec.name = "unifiedgenotyper_no_gc_opt"
@ -102,7 +105,7 @@ class ExampleUnifiedGenotyperQueueTest {
@DataProvider(name="resMemReqParams")
def getResMemReqParam = Array(Array("mem_free"), Array("virtual_free")).asInstanceOf[Array[Array[Object]]]
@Test(dataProvider = "resMemReqParams", timeOut=36000000)
@Test(dataProvider = "resMemReqParams", timeOut=36000000, enabled=false)
def testUnifiedGenotyperResMemReqParam(reqParam: String) {
val spec = new QueueTestSpec
spec.name = "unifiedgenotyper_" + reqParam
@ -115,7 +118,7 @@ class ExampleUnifiedGenotyperQueueTest {
QueueTest.executeTest(spec)
}
@Test(timeOut=36000000)
@Test(timeOut=36000000, enabled=false)
def testUnifiedGenotyperLogDirectory() {
val spec = new QueueTestSpec
spec.name = "unifiedgenotyper_with_log_directory"