Index

_

__init__() (client.WorkflowController method)

A

add_dependencies() (client.Workflow method) add_dependencies_from_links() (client.Workflow method)

add_workflow() (client.Workflow method) append_to_list() (in module param_link_functions)

B

BarrierJob (class in client_types) build_scheduler() (in module scheduler) (scheduler.Scheduler class method) (soma_workflow.schedulers.local_scheduler.ConfiguredLocalScheduler class method) (soma_workflow.schedulers.pbspro_scheduler.PBSProScheduler class method)

C

change_workflow_expiration_date() (client.WorkflowController method) command (client_types.Job attribute) commandline_repl() (client_types.Job method) ConfigurationError (class in errors)

ConfiguredLocalScheduler (class in soma_workflow.schedulers.local_scheduler) ConnectionError (class in errors) convert_wf_file_for_p2_5() (client.Helper static method) create_process() (soma_workflow.schedulers.local_scheduler.LocalScheduler static method) CrossValidationFoldJob (class in custom_jobs)

D

DatabaseError (class in errors) delete_all_workflows() (client.Helper static method) delete_transfer() (client.WorkflowController method)

delete_workflow() (client.WorkflowController method) dependencies (client.Workflow attribute) disposal_timeout (client_types.Job attribute) DRMError (class in errors)

E

EngineError (class in errors) EngineExecutionJob (class in client_types)

env (client.Workflow attribute) (client_types.Job attribute) env_builder_code (client.Workflow attribute)

F

FileTransfer (class in client)

from_dict() (client_types.BarrierJob class method) (client_types.Job class method)

G

get_job_exit_info() (scheduler.Scheduler method) (soma_workflow.schedulers.local_scheduler.LocalScheduler method) (soma_workflow.schedulers.pbspro_scheduler.PBSProScheduler method) get_job_extended_status() (soma_workflow.schedulers.pbspro_scheduler.PBSProScheduler method) get_job_status() (scheduler.Scheduler method) (soma_workflow.schedulers.local_scheduler.LocalScheduler method) (soma_workflow.schedulers.pbspro_scheduler.PBSProScheduler method)

get_pbs_version() (soma_workflow.schedulers.pbspro_scheduler.PBSProScheduler method) get_scheduler_implementation() (in module scheduler) get_schedulers_list() (in module scheduler) Group (class in client)

H

has_outputs (client_types.Job attribute)

I

input_params_file (client_types.Job attribute)

J

Job (class in client_types) job_status() (client.WorkflowController method) job_submission() (scheduler.Scheduler method) (soma_workflow.schedulers.local_scheduler.LocalScheduler method) (soma_workflow.schedulers.pbspro_scheduler.PBSProScheduler method)

job_termination_status() (client.WorkflowController method) JobError (class in errors) jobs (client.Workflow attribute) jobs() (client.WorkflowController method) join_stderrout (client_types.Job attribute)

K

kill_job() (scheduler.Scheduler method) (soma_workflow.schedulers.local_scheduler.LocalScheduler method) (soma_workflow.schedulers.pbspro_scheduler.PBSProScheduler method)

kill_process_tree() (in module soma_workflow.schedulers.local_scheduler)

L

LeaveOneOutJob (class in custom_jobs) list_all_but_one() (in module param_link_functions) list_cat() (in module param_link_functions) list_cv_test_fold() (in module param_link_functions) list_cv_train_fold() (in module param_link_functions)

list_failed_jobs() (client.Helper static method) list_to_sequence() (in module param_link_functions) ListCatJob (class in custom_jobs) LocalScheduler (class in soma_workflow.schedulers.local_scheduler) LocalSchedulerError

M

MapJob (class in custom_jobs) module param_link_functions scheduler soma_workflow.schedulers.drmaa_scheduler soma_workflow.schedulers.local_scheduler soma_workflow.schedulers.pbspro_scheduler

N

name (client.Workflow attribute) (client_types.Job attribute)

native_specification (client_types.Job attribute)

O

out_of_container_command() (soma_workflow.schedulers.pbspro_scheduler.PBSProScheduler static method)

output_params_file (client_types.Job attribute)

P

parallel_job_info (client_types.Job attribute) param_dict (client_types.Job attribute) param_link_functions module

param_links (client.Workflow attribute) PBSProScheduler (class in soma_workflow.schedulers.pbspro_scheduler) priority (client_types.Job attribute)

R

ReduceJob (class in custom_jobs) referenced_input_files (client_types.Job attribute) referenced_output_files (client_types.Job attribute) register_transfer() (client.WorkflowController method)

restart_jobs() (client.WorkflowController method) restart_workflow() (client.WorkflowController method) retrieve_job_stdouterr() (client.WorkflowController method) root_group (client.Workflow attribute)

S

scheduler module Scheduler (class in scheduler) sequence_max() (in module param_link_functions) sequence_min() (in module param_link_functions) sequence_sum() (in module param_link_functions) sequence_to_list() (in module param_link_functions) serialize() (client.Helper static method) setup_pbs_variant() (soma_workflow.schedulers.pbspro_scheduler.PBSProScheduler method) SharedResourcePath (class in client) soma_workflow.schedulers.drmaa_scheduler module

soma_workflow.schedulers.local_scheduler module soma_workflow.schedulers.pbspro_scheduler module stderr_file (client_types.Job attribute) stdin (client_types.Job attribute) stdout_file (client_types.Job attribute) stop_workflow() (client.WorkflowController method) StrCatJob (class in custom_jobs) submit_simple_test_job() (soma_workflow.schedulers.pbspro_scheduler.PBSProScheduler method) submit_workflow() (client.WorkflowController method)

T

TemporaryPath (class in client) to_dict() (client.Workflow method) (client_types.BarrierJob method) (client_types.Job method) transfer_files() (client.WorkflowController method)

transfer_input_files() (client.Helper static method) transfer_output_files() (client.Helper static method) transfer_status() (client.WorkflowController method) TransferError (class in errors) transfers() (client.WorkflowController method)

U

UnknownObjectError (class in errors) unserialize() (client.Helper static method)

use_input_params_file (client_types.Job attribute) user_storage (client.Workflow attribute) (client_types.Job attribute)

W

wait_job() (client.WorkflowController method) (soma_workflow.schedulers.pbspro_scheduler.PBSProScheduler method) wait_workflow() (client.Helper static method) (client.WorkflowController method) Workflow (class in client) workflow() (client.WorkflowController method)

workflow_elements_status() (client.WorkflowController method) workflow_status() (client.WorkflowController method) WorkflowController (class in client) WorkflowError (class in errors) workflows() (client.WorkflowController method) working_directory (client_types.Job attribute)