toil.test.wdl.wdltoil_test

Module Contents

Classes

WdlToilTest

Version of the old Toil WDL tests that tests the new MiniWDL-based implementation.
class toil.test.wdl.wdltoil_test.WdlToilTest(methodName='runTest')

Bases: toil.test.wdl.toilwdlTest.ToilWdlTest

Inheritance diagram of toil.test.wdl.wdltoil_test.WdlToilTest

Version of the old Toil WDL tests that tests the new MiniWDL-based implementation.

classmethod setUpClass()

Runs once for all tests.

Return type

None

testMD5sum()

Test if toilwdl produces the same outputs as known good outputs for WDL’s GATK tutorial #1.

test_miniwdl_self_test()

Test if the MiniWDL self test runs and produces the expected output.

test_giraffe_deepvariant()

Test if Giraffe and CPU DeepVariant run. This could take 25 minutes.

test_giraffe()

Test if Giraffe runs. This could take 12 minutes. Also we scale it down.