def main():
a = argparser()
a.add_argument('--run_name', type=str)
args = a.parse_args()
log_cfg.add_handler(FileHandler(args.log_file))
action = CreateReagentForRun(args.step_uri, args.username, args.password, args.run_name)
return action.run()
def _parse_args():
p = argparser()
p.add_argument('--format', dest='format', type=str, choices=['igmm', 'quantStudio'],
help='The format of the genotype file')
p.add_argument('--input_genotypes', dest='input_genotypes', type=str,
help='The file that contains the genotype for all the samples (For testing only)')
p.add_argument('--genotypes_artifact_id', dest='genotypes_artifact_id', type=str,
help='The id of the output artifact that contains the output file')
p.add_argument('--no_upload', dest='no_upload', action='store_true', help='Prevent any upload to the LIMS')
return p.parse_args()
def main():
p = argparser()
p.add_argument('--workflow', dest='workflow', type=str, required=True,
help='The name of the workflow we should route the artifacts to.')
p.add_argument('--stage', dest='stage', type=str,
help='The name of the stage in the workflow we should route the artifacts to.')
p.add_argument('--source', dest='source', type=str, required=True, choices=['input', 'output', 'submitted'],
help='The name of the stage in the workflow we should route the artifacts to.')
args = p.parse_args()
action = AssignWorkflowStage(
args.step_uri, args.username, args.password, args.log_file, args.workflow, args.stage, args.source
)
action.run()
def main():
args = argparser().parse_args()
log_cfg.add_handler(FileHandler(args.log_file))
action = FindPlateToRoute(args.step_uri, args.username, args.password, args.log_file)
return action.run()
