def load_cfg_and_run(pth, compare=True, fails=False):
try:
# This is a crappy way to do it, but it works
if "DNA" in pth or "rerun" in pth:
dt = "DNA"
else:
dt = "protein"
cfg = config.Configuration(dt)
cfg.load_base_path(pth)
method = analysis_method.choose_method(cfg.search)
rpt = reporter.TextReporter(cfg)
meth = method(cfg, rpt, force_restart=False, threads=-1)
results = meth.analyse()
if compare:
results.compare(cfg)
# Note -- we only get here if everything completes
# Failed tests leave shit around!
finally:
# If it fails, but we expect it to, then clean up
if fails:
cleanup(cfg)
cfg.reset()
if not fails: # Might already be done
cleanup(cfg)
def load_cfg_and_run(name):
try:
pth = os.path.join(QUICK_PATH, name)
cfg = config.Configuration()
cfg.load_base_path(pth)
method = analysis_method.choose_method(cfg.search)
rpt = reporter.TextReporter(cfg)
meth = method(cfg, rpt, True, False)
results = meth.analyse()
finally:
# Always do this
shutil.rmtree(cfg.full_output_path)
cfg.reset()