def test_register_handler(self): backend.__handlers__ = {} target_handler = RatatoskHandler( label="target_generator_handler", mod="test.test_handler.local_target_generator") self.assertEqual(backend.__handlers__, {}) register(target_handler) self.assertEqual( fullclassname(backend.__handlers__['target_generator_handler']), "test.test_handler.local_target_generator")
def test_bwasampe(self): from ratatosk.handler import register, RatatoskHandler key = "target_generator_handler" h = RatatoskHandler(label=key, mod="test.site_functions.target_generator") register(h) luigi.run(_luigi_args([ '--target', read1.replace("1.fastq.gz", ".sam"), '--config-file', localconf, '--use-long-names' ]), main_task_cls=ratatosk.lib.align.bwa.Sampe)
def test_iterate_targets(self): obj = MergeSamFiles() target_handler = RatatoskHandler(label="target_generator_handler", mod="test.test_handler.local_target_generator") register(target_handler)
def test_register_handler(self): backend.__handlers__ = {} target_handler = RatatoskHandler(label="target_generator_handler", mod="test.test_handler.local_target_generator") self.assertEqual(backend.__handlers__, {}) register(target_handler) self.assertEqual(fullclassname(backend.__handlers__['target_generator_handler']), "test.test_handler.local_target_generator")
def test_iterate_targets(self): obj = MergeSamFiles() target_handler = RatatoskHandler( label="target_generator_handler", mod="test.test_handler.local_target_generator") register(target_handler)
def test_bwasampe(self): from ratatosk.handler import register, RatatoskHandler key = "target_generator_handler" h = RatatoskHandler(label=key, mod="test.site_functions.target_generator") register(h) luigi.run(_luigi_args(['--target', read1.replace("1.fastq.gz", ".sam"), '--config-file', localconf, '--use-long-names']), main_task_cls=ratatosk.lib.align.bwa.Sampe)