Exemplos de RunManager em Python

Exemplo n.º 1

Arquivo: SET_0_pipeline.py Projeto: fireofearth/pipeline

#================================================================================
#import factory modules
#--------------------------------------------------------------------------------
import kronos.pipelineui
from kronos.run_manager import RunManager
from kronos.job_manager import DrmaaJobManager, SgeJobManager, LocalJobManager
from kronos.helpers import JobFailureError, flushqueue
from kronos.logger import PipelineLogger, LogWarnErr, LogInfo
from kronos.utils import Task

#================================================================================
#initialization
#--------------------------------------------------------------------------------
args = kronos.pipelineui.args
rm = RunManager(args.run_id, args.pipeline_name, args.working_dir)
ljm = LocalJobManager(rm.logs_dir, rm.outputs_dir)
pl = PipelineLogger()
l = pl.get_logger(args.pipeline_name, args.log_file)

#================================================================================
#environment preparations
#--------------------------------------------------------------------------------
sys.path.insert(0, args.components_dir)
job_rcs = Queue()

#================================================================================
#import components
#--------------------------------------------------------------------------------
from kronos_component_singularity import component_main as kronos_component_singularity_main

Exemplo n.º 2

#================================================================================
#import factory modules
#--------------------------------------------------------------------------------
import kronos.pipelineui
from kronos.run_manager import RunManager
from kronos.job_manager import DrmaaJobManager, SgeJobManager, LocalJobManager
from kronos.helpers import JobFailureError, flushqueue
from kronos.logger import PipelineLogger, LogWarnErr, LogInfo
from kronos.utils import Task

#================================================================================
#initialization
#--------------------------------------------------------------------------------
args = kronos.pipelineui.args
rm = RunManager(args.run_id, args.pipeline_name, args.working_dir)
ljm = LocalJobManager(rm.logs_dir, rm.outputs_dir)
pl = PipelineLogger()
l = pl.get_logger(args.pipeline_name, args.log_file)

#================================================================================
#environment preparations
#--------------------------------------------------------------------------------
sys.path.insert(0, args.components_dir)
job_rcs = Queue()

#================================================================================
#import components
#--------------------------------------------------------------------------------
from kronos_component_docker import component_main as kronos_component_docker_main

Exemplo n.º 3

Arquivo: docker.py Projeto: fireofearth/pipeline

#================================================================================
#import factory modules
#--------------------------------------------------------------------------------
import kronos.pipelineui
from kronos.run_manager import RunManager
from kronos.job_manager import DrmaaJobManager, SgeJobManager, LocalJobManager
from kronos.helpers import JobFailureError, flushqueue
from kronos.logger import PipelineLogger, LogWarnErr, LogInfo
from kronos.utils import Task

#================================================================================
#initialization
#--------------------------------------------------------------------------------
args = kronos.pipelineui.args
rm = RunManager(args.run_id, args.pipeline_name, args.working_dir)
ljm = LocalJobManager(rm.logs_dir, rm.outputs_dir)
pl = PipelineLogger()
l = pl.get_logger(args.pipeline_name, args.log_file)

#================================================================================
#environment preparations
#--------------------------------------------------------------------------------
sys.path.insert(0, args.components_dir)
job_rcs = Queue()

#================================================================================
#import components
#--------------------------------------------------------------------------------
from AnnoAndImageToPatch import component_main as AnnoAndImageToPatch_main