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)
