def testVariantsSearchArguments(self):
cliInput = """--workarounds WORK,AROUND
--key KEY -O --outputFile /dev/null
--referenceName REFERENCENAME
--variantName VARIANTNAME --callSetIds CALL,SET,IDS --start 0
--end 1 --pageSize 2 BASEURL VARIANTSETID"""
stubConverterModule = StubConverterModuleVcf(self)
with mock.patch('ga4gh.converters.VcfConverter', stubConverterModule):
parser = StubArgumentParserCli(self, cliInput)
cli.ga2vcf_main(parser)
parser.assertParseArgsCountEquals(1)
stubConverterModule.assertVcfConvertCountEquals(1)
def testVariantsSearchArguments(self):
cliInput = """--workarounds WORK,AROUND
--key KEY -O --outputFile /dev/null
variants-search --referenceName REFERENCENAME
--variantName VARIANTNAME --callSetIds CALL,SET,IDS --start 0
--end 1 --pageSize 2 --variantSetIds VARIANT,SET,IDS
--datasetIds DATASET,IDS --maxCalls 5
BASEURL"""
stubConverterModule = StubConverterModuleVcf(self)
with mock.patch(
'ga4gh.converters.VcfConverter',
stubConverterModule):
parser = StubArgumentParserCli(self, cliInput)
cli.ga2vcf_main(parser)
parser.assertParseArgsCountEquals(1)
stubConverterModule.assertVcfConvertCountEquals(1)
def testGa2VcfNoInput(self):
cli.ga2vcf_main(self.parser)
def testGa2VcfNoInput(self):
cli.ga2vcf_main(self.parser)