def test_localhost(self):
try:
host=Host(config_file, 'clutch')
except Excption:
self.fail('clutch not found')
self.assertEquals(host.get('n_procs'), '2')
def test_variant_splitter(self):
host=Host(hostname=self.args.host)
pipeline=Pipeline('mock', host, working_dir, True)
data_basename='data/rawdata/1047-COPD.10K'
variants_fn='data/trip_neg_Vic/triple_negativ_mut_seq'
output_dir=os.path.join(root_dir, 't', 'fixtures', 'var2reads')
cmd=RunVariantSplitter(pipeline, data_basename, variants_fn, output_dir)
cmd=cmd.cmd_string()
print cmd
self.assertIn(host.get('variant_splitter.script'), cmd)
self.assertIn(data_basename, cmd)
self.assertIn(variants_fn, cmd)
