Index

_

_class_namespace (hpcflow.sdk.core.json_like.BaseJSONLike attribute)

_shared_data_namespace (hpcflow.sdk.core.json_like.BaseJSONLike attribute)

A

AbstractInputValue (class in hpcflow.sdk.core.parameters) Action (class in hpcflow.sdk.core.actions) action (hpcflow.sdk.core.actions.ElementAction property) (hpcflow.sdk.core.actions.ElementActionRun property) action_idx (hpcflow.sdk.core.actions.EAR_ID attribute) (hpcflow.sdk.core.actions.ElementAction property) action_runs (hpcflow.sdk.core.element.Element property) (hpcflow.sdk.core.element.ElementIteration property) ActionEnvironment (class in hpcflow.sdk.core.actions) ActionRule (class in hpcflow.sdk.core.actions) actions (hpcflow.sdk.core.element.Element property) (hpcflow.sdk.core.element.ElementIteration property) ActionScope (class in hpcflow.sdk.core.actions) ActionScopeType (class in hpcflow.sdk.core.actions) add_EARs() (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) add_element_iterations() (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) add_element_set() (hpcflow.sdk.persistence.base.PersistentStore method) add_elements() (hpcflow.sdk.core.task.WorkflowTask method) (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) add_empty_task() (hpcflow.sdk.persistence.base.PersistentStore method) add_file_logger() (hpcflow.sdk.log.AppLog method) add_group() (hpcflow.sdk.core.task.Task method) add_iteration() (hpcflow.sdk.core.loop.WorkflowLoop method) add_loop() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) (hpcflow.sdk.persistence.base.PersistentStore method) add_object() (hpcflow.sdk.core.object_list.DotAccessObjectList method) (hpcflow.sdk.core.object_list.ObjectList method) (hpcflow.sdk.core.object_list.WorkflowTaskList method) add_objects() (hpcflow.sdk.core.object_list.DotAccessObjectList method) add_parameter_data() (hpcflow.sdk.persistence.base.PersistentStore method) add_submission() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) (hpcflow.sdk.persistence.base.PersistentStore method)

add_task() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) add_task_after() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) add_task_before() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) add_template_components() (hpcflow.sdk.persistence.base.PersistentStore method) add_unset_parameter_data() (hpcflow.sdk.persistence.base.PersistentStore method) additive_factor (hpcflow.sdk.core.parameters.ValuePerturbation attribute) address (hpcflow.sdk.core.parameters.SubParameter attribute) all_schema_actions() (hpcflow.sdk.core.task.Task method) all_schema_input_normalised_paths (hpcflow.sdk.core.task.Task property) all_schema_input_types (hpcflow.sdk.core.task.Task property) all_schema_inputs (hpcflow.sdk.core.task.Task property) all_schema_output_types (hpcflow.sdk.core.task.Task property) all_schema_outputs (hpcflow.sdk.core.task.Task property) all_sequences_normalised_paths (hpcflow.sdk.core.task.Task property) all_sourced_normalised_paths (hpcflow.sdk.core.task.Task property) all_used_sequences_normalised_paths (hpcflow.sdk.core.task.Task property) ALLOWED_PARAMETERS (hpcflow.sdk.core.parameters.ResourceSpec attribute) ANY (hpcflow.sdk.core.actions.ActionScopeType attribute) (hpcflow.sdk.core.parameters.TaskSourceType attribute) any() (hpcflow.sdk.core.actions.ActionScope class method) API_logger (hpcflow.sdk.app.BaseApp property) App (class in hpcflow.sdk.app) app (hpcflow.api.hpcflow.Workflow attribute) (hpcflow.api.hpcflow.WorkflowTemplate attribute) AppDataList (class in hpcflow.sdk.core.object_list) append() (hpcflow.sdk.config.config.Config method) append_submission_attempt() (hpcflow.sdk.persistence.base.PersistentStore method) AppLog (class in hpcflow.sdk.log) arguments (hpcflow.sdk.core.commands.Command attribute) artifacts_path (hpcflow.api.hpcflow.Workflow property) (hpcflow.sdk.core.workflow.Workflow property)

B

BaseApp (class in hpcflow.sdk.app) BaseJSONLike (class in hpcflow.sdk.core.json_like) Bash (class in hpcflow.sdk.submission.shells.bash)

batch_update() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) bisect_slice() (in module hpcflow.sdk.core.utils) BuiltinSchemaParameter (class in hpcflow.sdk.core.parameters)

C

cached_load() (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.json.JSONPersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) callback_bool() (in module hpcflow.sdk.config.callbacks) callback_file_paths() (in module hpcflow.sdk.config.callbacks) callback_vars() (in module hpcflow.sdk.config.callbacks) capitalise_first_letter() (in module hpcflow.sdk.core.utils) check_exists (hpcflow.sdk.core.actions.ActionRule attribute) check_in_object_list() (in module hpcflow.sdk.core.utils) check_load_data_files() (in module hpcflow.sdk.config.callbacks) check_missing (hpcflow.sdk.core.actions.ActionRule attribute) check_parameters_exist() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.json.JSONPersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) check_valid_py_identifier() (in module hpcflow.sdk.core.utils) ChildObjectSpec (class in hpcflow.sdk.core.json_like) class_name (hpcflow.sdk.core.json_like.ChildObjectSpec attribute) class_obj (hpcflow.sdk.core.json_like.ChildObjectSpec attribute) classproperty (class in hpcflow.sdk.core.utils) clear_helper() (in module hpcflow.sdk.helper.helper) clear_pending() (hpcflow.sdk.persistence.base.PersistentStore method) CLI_exception_wrapper_gen() (in module hpcflow.sdk.config.cli) CLI_logger (hpcflow.sdk.app.BaseApp property) Command (class in hpcflow.sdk.core.commands) command (hpcflow.sdk.core.commands.Command attribute) (hpcflow.sdk.core.environment.ExecutableInstance attribute) command_files (hpcflow.sdk.app.BaseApp property) CommandArgument (class in hpcflow.sdk.core.commands) CommandFilesList (class in hpcflow.sdk.core.object_list) commands (hpcflow.sdk.core.actions.ElementActionOLD attribute) commit_pending() (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.json.JSONPersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) COMPLETE (hpcflow.sdk.core.actions.EARSubmissionStatus attribute)

compose_commands() (hpcflow.sdk.core.actions.ElementActionRun method) compose_jobscript() (hpcflow.sdk.submission.jobscript.Jobscript method) compose_source() (hpcflow.sdk.core.actions.ElementActionRun method) (hpcflow.sdk.core.command_files.InputFileGenerator method) (hpcflow.sdk.core.command_files.OutputFileParser method) condition (hpcflow.sdk.core.element.ElementFilter attribute) Config (class in hpcflow.sdk.config.config) config (hpcflow.sdk.app.BaseApp property) config_logger (hpcflow.sdk.app.BaseApp property) ConfigChangeFileUpdateError ConfigChangeInvalidError ConfigChangeInvalidJSONError ConfigChangePopIndexError ConfigChangeTypeInvalidError ConfigChangeValidationError ConfigDefaultValidationError ConfigError ConfigFile (class in hpcflow.sdk.config.config_file) ConfigFileInvocationIncompatibleError ConfigFileValidationError ConfigInvocationKeyNotFoundError ConfigItemAlreadyUnsetError ConfigItemCallbackError ConfigNonConfigurableError ConfigOptions (class in hpcflow.sdk.config.config) ConfigUnknownItemError ConfigUnknownOverrideError ConfigValidationError copy() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.json.JSONPersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) creation_info (hpcflow.api.hpcflow.Workflow property) (hpcflow.sdk.core.workflow.Workflow property) custom_warning_formatter() (in module hpcflow.sdk.config.cli)

D

data_idx (hpcflow.sdk.core.actions.ElementActionRun property) (hpcflow.sdk.core.element.ElementIteration property) (hpcflow.sdk.core.element.ElementParameter attribute) data_idx_is_set (hpcflow.sdk.core.element.ElementParameter property) DEFAULT (hpcflow.sdk.core.parameters.InputSourceType attribute) default (hpcflow.sdk.core.task.Parameters attribute) default() (hpcflow.sdk.core.parameters.InputSource class method) DEFAULT_ARRAY_ITEM_VAR (hpcflow.sdk.submission.schedulers.sge.SGEPosix attribute) (hpcflow.sdk.submission.schedulers.slurm.SlurmPosix attribute) DEFAULT_ARRAY_SWITCH (hpcflow.sdk.submission.schedulers.sge.SGEPosix attribute) (hpcflow.sdk.submission.schedulers.slurm.SlurmPosix attribute) default_config (hpcflow.sdk.config.config.ConfigOptions attribute) DEFAULT_CWD_SWITCH (hpcflow.sdk.submission.schedulers.sge.SGEPosix attribute) DEFAULT_DEL_CMD (hpcflow.sdk.submission.schedulers.sge.SGEPosix attribute) (hpcflow.sdk.submission.schedulers.slurm.SlurmPosix attribute) default_directory (hpcflow.sdk.config.config.ConfigOptions attribute) DEFAULT_EXE (hpcflow.sdk.submission.shells.bash.Bash attribute) (hpcflow.sdk.submission.shells.powershell.WindowsPowerShell attribute) DEFAULT_JS_CMD (hpcflow.sdk.submission.schedulers.sge.SGEPosix attribute) (hpcflow.sdk.submission.schedulers.slurm.SlurmPosix attribute) DEFAULT_LOG_CONSOLE_LEVEL (hpcflow.sdk.log.AppLog attribute) DEFAULT_LOG_FILE_LEVEL (hpcflow.sdk.log.AppLog attribute) DEFAULT_SHEBANG_ARGS (hpcflow.sdk.submission.schedulers.NullScheduler attribute) (hpcflow.sdk.submission.schedulers.sge.SGEPosix attribute) (hpcflow.sdk.submission.schedulers.slurm.SlurmPosix attribute) DEFAULT_SHELL_ARGS (hpcflow.sdk.submission.schedulers.NullScheduler attribute) DEFAULT_SHELL_EXECUTABLE (hpcflow.sdk.submission.schedulers.direct.DirectPosix attribute) (hpcflow.sdk.submission.schedulers.direct.DirectWindows attribute) (hpcflow.sdk.submission.schedulers.slurm.SlurmPosix attribute)

DEFAULT_SHOW_CMD (hpcflow.sdk.submission.schedulers.sge.SGEPosix attribute) (hpcflow.sdk.submission.schedulers.slurm.SlurmPosix attribute) DEFAULT_SUBMIT_CMD (hpcflow.sdk.submission.schedulers.sge.SGEPosix attribute) (hpcflow.sdk.submission.schedulers.slurm.SlurmPosix attribute) default_value (hpcflow.sdk.core.parameters.SchemaInput attribute) DEFAULT_WSL_EXE (hpcflow.sdk.submission.shells.bash.WSLBash attribute) defined_input_types (hpcflow.sdk.core.task.ElementSet property) (hpcflow.sdk.core.task.Task property) delete() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) (hpcflow.sdk.persistence.base.PersistentStore method) delete_no_confirm() (hpcflow.sdk.persistence.base.PersistentStore method) demo_task_1_generate_t1_infile_1() (in module hpcflow.sdk.demo.scripts.demo_task_1_generate_t1_infile_1) demo_task_1_generate_t1_infile_2() (in module hpcflow.sdk.demo.scripts.demo_task_1_generate_t1_infile_2) demo_task_1_parse_p3() (in module hpcflow.sdk.demo.scripts.demo_task_1_parse_p3) dependencies (hpcflow.sdk.submission.jobscript.Jobscript property) dict_key_attr (hpcflow.sdk.core.json_like.ChildObjectSpec attribute) dict_val_attr (hpcflow.sdk.core.json_like.ChildObjectSpec attribute) dir_name (hpcflow.sdk.core.element.Element property) (hpcflow.sdk.core.task.Task property) (hpcflow.sdk.core.task.WorkflowTask property) directory_env_var (hpcflow.sdk.config.config.ConfigOptions attribute) DirectPosix (class in hpcflow.sdk.submission.schedulers.direct) DirectWindows (class in hpcflow.sdk.submission.schedulers.direct) DotAccessObjectList (class in hpcflow.sdk.core.object_list) downstream_tasks (hpcflow.sdk.core.task.WorkflowTask property) dropbox_retry_fail() (in module hpcflow.sdk.persistence.base) DuplicateExecutableError

E

EAR_ID (class in hpcflow.sdk.core.actions) (hpcflow.sdk.core.actions.ElementActionRun property) EAR_idx (hpcflow.sdk.core.actions.EAR_ID attribute) (hpcflow.sdk.submission.jobscript.Jobscript property) EAR_parallelism (hpcflow.sdk.persistence.base.PersistentStoreFeatures attribute) EARs (hpcflow.sdk.submission.jobscript.Jobscript property) EARs_initialised (hpcflow.sdk.core.element.ElementIteration property) EARSubmissionStatus (class in hpcflow.sdk.core.actions) elem_iter_global_indices (hpcflow.sdk.core.task.ElementSet property) Element (class in hpcflow.sdk.core.element) element (hpcflow.sdk.core.actions.ElementAction property) (hpcflow.sdk.core.actions.ElementActionOLD attribute) (hpcflow.sdk.core.actions.ElementActionRun property) (hpcflow.sdk.core.element.ElementIteration property) (hpcflow.sdk.core.element.ElementParameter attribute) element_action (hpcflow.sdk.core.actions.ElementActionRun property) element_ID (hpcflow.sdk.core.element.Element property) element_idx (hpcflow.sdk.core.actions.ElementID attribute) element_iteration (hpcflow.sdk.core.actions.ElementAction property) (hpcflow.sdk.core.actions.ElementActionRun property) element_iterations (hpcflow.sdk.core.task.ElementSet property) element_local_idx_range (hpcflow.sdk.core.task.ElementSet property) element_run_dir_file_name (hpcflow.sdk.submission.jobscript.Jobscript property) element_run_dir_file_path (hpcflow.sdk.submission.jobscript.Jobscript property) element_set (hpcflow.sdk.core.element.Element property) (hpcflow.sdk.core.object_list.ResourceList property) (hpcflow.sdk.core.parameters.ResourceSpec property) (hpcflow.sdk.core.task.ElementPropagation property) element_set_idx (hpcflow.sdk.core.element.Element property) element_sets (hpcflow.sdk.core.task.Task property) ElementAction (class in hpcflow.sdk.core.actions) ElementActionOLD (class in hpcflow.sdk.core.actions) ElementActionRun (class in hpcflow.sdk.core.actions) ElementFilter (class in hpcflow.sdk.core.element) ElementGroup (class in hpcflow.sdk.core.element) ElementID (class in hpcflow.sdk.core.actions) ElementInputFiles (class in hpcflow.sdk.core.element) ElementInputs (class in hpcflow.sdk.core.element) ElementIteration (class in hpcflow.sdk.core.element)

ElementOutputFiles (class in hpcflow.sdk.core.element) ElementOutputs (class in hpcflow.sdk.core.element) ElementParameter (class in hpcflow.sdk.core.element) ElementPropagation (class in hpcflow.sdk.core.task) ElementRepeats (class in hpcflow.sdk.core.element) ElementResources (class in hpcflow.sdk.core.element) Elements (class in hpcflow.sdk.core.task) elements (hpcflow.sdk.core.task.ElementSet property) (hpcflow.sdk.core.task.WorkflowTask property) elements() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) ElementSet (class in hpcflow.sdk.core.task) end_time (hpcflow.sdk.core.actions.ElementActionRun property) ensure_element_sets() (hpcflow.sdk.core.task.ElementSet class method) ensure_in() (in module hpcflow.sdk.core.utils) ensure_input_sources() (hpcflow.sdk.core.task.WorkflowTask method) Environment (class in hpcflow.sdk.core.environment) environment (hpcflow.sdk.core.actions.ActionEnvironment attribute) (hpcflow.sdk.core.command_files.InputFileGenerator attribute) (hpcflow.sdk.core.command_files.OutputFileParser attribute) (hpcflow.sdk.core.environment.Executable property) (hpcflow.sdk.core.object_list.ExecutablesList attribute) EnvironmentsList (class in hpcflow.sdk.core.object_list) EnvironmentSpecValidationError envs (hpcflow.sdk.app.BaseApp property) Executable (class in hpcflow.sdk.core.environment) executable (hpcflow.sdk.submission.shells.base.Shell property) (hpcflow.sdk.submission.shells.bash.WSLBash property) ExecutableInstance (class in hpcflow.sdk.core.environment) ExecutablesList (class in hpcflow.sdk.core.object_list) execute() (hpcflow.sdk.core.actions.ElementActionOLD method) exists() (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.json.JSONPersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) expand() (hpcflow.sdk.core.actions.Action method) EXPLICIT (hpcflow.sdk.core.parameters.ParameterPropagationMode attribute) ext (hpcflow.sdk.core.command_files.FileNameSpec property) (hpcflow.sdk.core.command_files.FileSpec property) extra_schemas (hpcflow.sdk.config.config.ConfigOptions attribute) ExtraInputs

F

features (hpcflow.sdk.persistence.base.PersistentStore property) file_name (hpcflow.sdk.core.command_files.FileNameExt attribute) (hpcflow.sdk.core.command_files.FileNameStem attribute) FileNameExt (class in hpcflow.sdk.core.command_files) FileNameSpec (class in hpcflow.sdk.core.command_files) FileNameStem (class in hpcflow.sdk.core.command_files) FileSpec (class in hpcflow.sdk.core.command_files) FileSpecValidationError filter_instances() (hpcflow.sdk.core.environment.Executable method) format_array_request() (hpcflow.sdk.submission.schedulers.sge.SGEPosix method) (hpcflow.sdk.submission.schedulers.slurm.SlurmPosix method) format_core_request_lines() (hpcflow.sdk.submission.schedulers.sge.SGEPosix method) (hpcflow.sdk.submission.schedulers.slurm.SlurmPosix method) format_options() (hpcflow.sdk.submission.schedulers.sge.SGEPosix method) (hpcflow.sdk.submission.schedulers.slurm.SlurmPosix method) format_save_parameter() (hpcflow.sdk.submission.shells.bash.Bash method) (hpcflow.sdk.submission.shells.powershell.WindowsPowerShell method) format_std_stream_file_option_lines() (hpcflow.sdk.submission.schedulers.sge.SGEPosix method) (hpcflow.sdk.submission.schedulers.slurm.SlurmPosix method) format_stream_assignment() (hpcflow.sdk.submission.shells.bash.Bash method) (hpcflow.sdk.submission.shells.powershell.WindowsPowerShell method) format_switch() (hpcflow.sdk.submission.schedulers.Scheduler method) from_file() (hpcflow.api.hpcflow.Workflow class method) (hpcflow.api.hpcflow.WorkflowTemplate class method) (hpcflow.sdk.core.workflow.Workflow class method) (hpcflow.sdk.core.workflow.WorkflowTemplate class method) from_JSON_file() (hpcflow.api.hpcflow.Workflow class method) (hpcflow.api.hpcflow.WorkflowTemplate class method) (hpcflow.sdk.core.workflow.Workflow class method) (hpcflow.sdk.core.workflow.WorkflowTemplate class method)

from_json_like() (hpcflow.api.hpcflow.WorkflowTemplate class method) (hpcflow.sdk.core.actions.ActionScope class method) (hpcflow.sdk.core.json_like.BaseJSONLike class method) (hpcflow.sdk.core.object_list.AppDataList class method) (hpcflow.sdk.core.parameters.InputSource class method) (hpcflow.sdk.core.parameters.InputValue class method) (hpcflow.sdk.submission.jobscript.Jobscript class method) from_JSON_string() (hpcflow.api.hpcflow.Workflow class method) (hpcflow.api.hpcflow.WorkflowTemplate class method) (hpcflow.sdk.core.workflow.Workflow class method) (hpcflow.sdk.core.workflow.WorkflowTemplate class method) from_linear_space() (hpcflow.sdk.core.parameters.ValueSequence class method) from_range() (hpcflow.sdk.core.parameters.ValueSequence class method) from_spec() (hpcflow.sdk.core.environment.ExecutableInstance class method) (hpcflow.sdk.core.parameters.ValuePerturbation class method) from_string() (hpcflow.sdk.core.parameters.InputSource class method) from_template() (hpcflow.api.hpcflow.Workflow class method) (hpcflow.sdk.core.workflow.Workflow class method) from_template_data() (hpcflow.api.hpcflow.Workflow class method) (hpcflow.sdk.core.workflow.Workflow class method) from_YAML_file() (hpcflow.api.hpcflow.Workflow class method) (hpcflow.api.hpcflow.WorkflowTemplate class method) (hpcflow.sdk.core.workflow.Workflow class method) (hpcflow.sdk.core.workflow.WorkflowTemplate class method) from_YAML_string() (hpcflow.api.hpcflow.Workflow class method) (hpcflow.api.hpcflow.WorkflowTemplate class method) (hpcflow.sdk.core.workflow.Workflow class method) (hpcflow.sdk.core.workflow.WorkflowTemplate class method) from_zarr() (hpcflow.sdk.core.zarr_io.ZarrEncodable class method) FromSpecMissingObjectError

G

generate_data_index() (hpcflow.sdk.core.actions.Action method) generate_EAR_resource_map() (in module hpcflow.sdk.submission.jobscript) generate_new_elements() (hpcflow.sdk.core.task.WorkflowTask method) generate_t1_file_01() (in module hpcflow.sdk.demo.scripts.generate_t1_file_01) get() (hpcflow.sdk.config.config.Config method) (hpcflow.sdk.core.actions.ElementAction method) (hpcflow.sdk.core.actions.ElementActionRun method) (hpcflow.sdk.core.element.Element method) (hpcflow.sdk.core.element.ElementIteration method) (hpcflow.sdk.core.object_list.DotAccessObjectList method) (hpcflow.sdk.core.object_list.ObjectList method) (hpcflow.sdk.core.task.WorkflowTask method) get_action_rule() (hpcflow.sdk.core.command_files.InputFileGenerator method) get_activate_env_command() (hpcflow.sdk.runtime.RunTimeInfo method) get_all() (hpcflow.sdk.config.config.Config method) (hpcflow.sdk.core.object_list.DotAccessObjectList method) (hpcflow.sdk.core.object_list.ObjectList method) get_all_element_iterations() (hpcflow.sdk.core.task.WorkflowTask method) get_all_parameter_data() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.json.JSONPersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) get_all_required_schema_inputs() (hpcflow.sdk.core.task.Task method) get_all_tasks_metadata() (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.json.JSONPersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) get_available_task_input_sources() (hpcflow.sdk.core.task.Task method) get_by_key() (hpcflow.sdk.core.task_schema.TaskSchema class method) get_child_loops() (hpcflow.sdk.core.loop.WorkflowLoop method) get_command_input_types() (hpcflow.sdk.core.actions.Action method) get_command_output_types() (hpcflow.sdk.core.actions.Action method) get_commands_action_env() (hpcflow.sdk.core.actions.Action method) get_commands_file_name() (hpcflow.sdk.submission.jobscript.Jobscript method) get_config_CLI() (in module hpcflow.sdk.config.cli) get_config_item() (hpcflow.sdk.config.config_file.ConfigFile method) get_configurable() (hpcflow.sdk.config.config.Config method) get_creation_info() (hpcflow.sdk.persistence.base.PersistentStore method) get_data_idx() (hpcflow.sdk.core.actions.ElementAction method) (hpcflow.sdk.core.actions.ElementActionRun method) (hpcflow.sdk.core.element.Element method) (hpcflow.sdk.core.element.ElementIteration method) get_deactivate_env_command() (hpcflow.sdk.runtime.RunTimeInfo method) get_defined_parameter_types() (hpcflow.sdk.core.task.ElementSet method) get_defined_sub_parameter_types() (hpcflow.sdk.core.task.ElementSet method) get_demo_software_CLI() (in module hpcflow.sdk.demo.cli) get_dependent_EARs() (hpcflow.sdk.core.element.Element method) (hpcflow.sdk.core.element.ElementIteration method) get_dependent_element_iterations() (hpcflow.sdk.core.element.Element method) (hpcflow.sdk.core.element.ElementIteration method) get_dependent_elements() (hpcflow.sdk.core.element.Element method) (hpcflow.sdk.core.element.ElementIteration method) (hpcflow.sdk.core.task.WorkflowTask method) get_dependent_elements_recursively() (hpcflow.sdk.core.element.Element method) get_dependent_tasks() (hpcflow.sdk.core.element.Element method) (hpcflow.sdk.core.element.ElementIteration method) (hpcflow.sdk.core.task.WorkflowTask method) get_dir_name() (hpcflow.sdk.core.task.WorkflowTask method) get_duplicate_items() (in module hpcflow.sdk.core.utils) get_EAR_dependencies() (hpcflow.sdk.core.actions.ElementActionRun method) (hpcflow.sdk.core.element.Element method) (hpcflow.sdk.core.element.ElementIteration method) get_EAR_ID_array() (hpcflow.sdk.submission.jobscript.Jobscript method) get_EAR_run_dirs() (hpcflow.sdk.submission.submission.Submission method) get_EAR_run_idx_array() (hpcflow.sdk.submission.jobscript.Jobscript method) get_EARs_from_IDs() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) get_element_dependencies() (hpcflow.sdk.core.element.Element method) (hpcflow.sdk.core.element.ElementIteration method) (hpcflow.sdk.core.task.WorkflowTask method) get_element_ID() (hpcflow.sdk.core.actions.IterationID method) get_element_iteration_dependencies() (hpcflow.sdk.core.element.Element method) (hpcflow.sdk.core.element.ElementIteration method) get_element_iterations_from_IDs() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) get_elements_from_IDs() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) get_environment() (hpcflow.sdk.core.actions.ElementActionOLD method) (hpcflow.sdk.core.actions.ElementActionRun method) get_helper_CLI() (in module hpcflow.sdk.helper.cli) get_helper_log_path() (in module hpcflow.sdk.helper.helper) get_helper_logger() (in module hpcflow.sdk.helper.helper) get_helper_PID() (in module hpcflow.sdk.helper.helper) get_helper_uptime() (in module hpcflow.sdk.helper.helper) get_helper_watch_list() (in module hpcflow.sdk.helper.helper) get_IFG_input_values() (hpcflow.sdk.core.actions.ElementActionRun method) get_in_container() (in module hpcflow.sdk.core.utils) get_info() (hpcflow.sdk.app.BaseApp method) get_input_dependencies() (hpcflow.sdk.core.actions.ElementActionRun method) (hpcflow.sdk.core.element.Element method) (hpcflow.sdk.core.element.ElementIteration method) get_input_file_generator_action_env() (hpcflow.sdk.core.actions.Action method) get_input_file_labels() (hpcflow.sdk.core.actions.Action method) get_input_statuses() (hpcflow.sdk.core.task.Task method) get_input_types() (hpcflow.sdk.core.actions.Action method) get_input_values() (hpcflow.sdk.core.actions.ElementActionRun method) get_invocation_command() (hpcflow.sdk.runtime.RunTimeInfo method) get_item_repeat_index() (in module hpcflow.sdk.core.utils) get_iteration_ID() (hpcflow.sdk.core.actions.EAR_ID method) get_iteration_task_pathway() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) get_jobscript_hash() (hpcflow.sdk.core.element.ElementResources method) get_key() (hpcflow.sdk.core.task_schema.TaskSchema method) get_locally_defined_inputs() (hpcflow.sdk.core.task.ElementSet method) get_loops() (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.json.JSONPersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method)

get_md5_hash() (in module hpcflow.sdk.core.utils) get_nested_indices() (in module hpcflow.sdk.core.utils) get_non_sub_parameter_input_values() (hpcflow.sdk.core.task.Task method) get_num_added_tasks() (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.json.JSONPersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) get_OFP_output_files() (hpcflow.sdk.core.actions.ElementActionRun method) get_OS_info() (in module hpcflow.sdk.api) (in module hpcflow.sdk.submission.shells.os_version) get_OS_info_POSIX() (in module hpcflow.sdk.submission.shells.os_version) get_OS_info_windows() (in module hpcflow.sdk.submission.shells.os_version) get_output_file_labels() (hpcflow.sdk.core.actions.Action method) get_output_file_parser_action_env() (hpcflow.sdk.core.actions.Action method) get_output_types() (hpcflow.sdk.core.actions.Action method) (hpcflow.sdk.core.commands.Command method) get_param_provided_element_sets() (hpcflow.sdk.core.task.Task method) get_parameter_data() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.json.JSONPersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) get_parameter_dependence() (hpcflow.sdk.core.actions.Action method) (hpcflow.sdk.core.task_schema.TaskSchema method) get_parameter_names() (hpcflow.sdk.core.actions.ElementAction method) (hpcflow.sdk.core.actions.ElementActionRun method) (hpcflow.sdk.core.element.ElementIteration method) get_parameter_source() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.json.JSONPersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) get_parameter_sources() (hpcflow.sdk.core.actions.ElementAction method) (hpcflow.sdk.core.actions.ElementActionRun method) (hpcflow.sdk.core.element.Element method) (hpcflow.sdk.core.element.ElementIteration method) get_parent_loops() (hpcflow.sdk.core.loop.WorkflowLoop method) get_PID_file_path() (in module hpcflow.sdk.helper.helper) get_possible_scopes() (hpcflow.sdk.core.actions.Action method) get_precise_scope() (hpcflow.sdk.core.actions.Action method) get_process_stamp() (in module hpcflow.sdk.core.utils) get_relative_path() (in module hpcflow.sdk.core.utils) get_resolved_action_env() (hpcflow.sdk.core.actions.Action method) get_resources() (hpcflow.sdk.core.actions.ElementActionRun method) get_schema() (in module hpcflow.sdk.core.validation) get_schema_action() (hpcflow.sdk.core.task.Task method) get_script_path() (hpcflow.sdk.core.actions.Action method) get_SDK_logger() (in module hpcflow.sdk) get_sequence_by_path() (hpcflow.sdk.core.task.ElementSet method) get_sequence_from_path() (hpcflow.sdk.core.task.ElementSet method) get_sequence_value() (hpcflow.sdk.core.element.Element method) get_shell() (in module hpcflow.sdk.submission.shells) get_shell_info() (in module hpcflow.sdk.api) get_size() (hpcflow.sdk.core.element.ElementParameter method) get_sub_parameter_input_values() (hpcflow.sdk.core.task.Task method) get_submissions() (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.json.JSONPersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) get_submit_command() (hpcflow.sdk.submission.schedulers.NullScheduler method) (hpcflow.sdk.submission.schedulers.sge.SGEPosix method) (hpcflow.sdk.submission.schedulers.slurm.SlurmPosix method) get_supported_shells() (in module hpcflow.sdk.submission.shells) get_task() (hpcflow.sdk.core.parameters.InputSource method) get_task_dependencies() (hpcflow.sdk.core.element.Element method) (hpcflow.sdk.core.element.ElementIteration method) (hpcflow.sdk.core.task.ElementSet method) (hpcflow.sdk.core.task.WorkflowTask method) get_task_element_idx_array() (hpcflow.sdk.submission.jobscript.Jobscript method) get_task_elements() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.json.JSONPersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) get_task_elements_islice() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) (hpcflow.sdk.persistence.base.PersistentStore method) get_task_idx_from_insert_ID() (hpcflow.sdk.persistence.json.JSONPersistentStore method) get_task_insert_IDs_array() (hpcflow.sdk.submission.jobscript.Jobscript method) get_task_loop_idx_array() (hpcflow.sdk.submission.jobscript.Jobscript method) get_task_unique_names() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.task.Task static method) (hpcflow.sdk.core.workflow.Workflow method) get_template() (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.json.JSONPersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) get_template_components() (hpcflow.sdk.persistence.base.PersistentStore method) get_template_resources() (hpcflow.sdk.core.actions.ElementActionRun method) get_time_stamp() (in module hpcflow.sdk.core.utils) get_unique_schedulers() (hpcflow.sdk.submission.submission.Submission method) get_unique_shells() (hpcflow.sdk.submission.submission.Submission method) get_user_data_dir() (in module hpcflow.sdk.helper.helper) get_version_info() (hpcflow.sdk.submission.schedulers.NullScheduler method) (hpcflow.sdk.submission.schedulers.sge.SGEPosix method) (hpcflow.sdk.submission.schedulers.slurm.SlurmPosix method) (hpcflow.sdk.submission.shells.base.Shell method) (hpcflow.sdk.submission.shells.bash.Bash method) (hpcflow.sdk.submission.shells.bash.WSLBash method) (hpcflow.sdk.submission.shells.powershell.WindowsPowerShell method) get_watcher_file_path() (in module hpcflow.sdk.helper.helper) global_idx (hpcflow.sdk.core.element.ElementIteration property) group (hpcflow.sdk.core.parameters.SchemaInput attribute) group_by_dict_key_values() (in module hpcflow.sdk.core.utils) group_by_distinct (hpcflow.sdk.core.element.ElementGroup attribute) group_resource_map_into_jobscripts() (in module hpcflow.sdk.submission.jobscript) GroupList (class in hpcflow.sdk.core.object_list)

H

has_default (hpcflow.sdk.core.task.InputStatus attribute) has_pending (hpcflow.sdk.persistence.base.PersistentStore property) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore property) helper_timeout() (in module hpcflow.sdk.helper.helper) hpcflow.sdk module hpcflow.sdk.api module hpcflow.sdk.app module hpcflow.sdk.config module hpcflow.sdk.config.callbacks module hpcflow.sdk.config.cli module hpcflow.sdk.config.config module hpcflow.sdk.config.config_file module hpcflow.sdk.config.errors module hpcflow.sdk.core module hpcflow.sdk.core.actions module hpcflow.sdk.core.command_files module hpcflow.sdk.core.commands module hpcflow.sdk.core.element module hpcflow.sdk.core.environment module hpcflow.sdk.core.errors module hpcflow.sdk.core.json_like module hpcflow.sdk.core.loop module hpcflow.sdk.core.object_list module hpcflow.sdk.core.parameters module hpcflow.sdk.core.task module hpcflow.sdk.core.task_schema module hpcflow.sdk.core.test_utils module hpcflow.sdk.core.utils module hpcflow.sdk.core.validation module hpcflow.sdk.core.workflow module hpcflow.sdk.core.zarr_io module hpcflow.sdk.data module hpcflow.sdk.data.template_components module hpcflow.sdk.demo module

hpcflow.sdk.demo.cli module hpcflow.sdk.demo.scripts module hpcflow.sdk.demo.scripts.demo_task_1_generate_t1_infile_1 module hpcflow.sdk.demo.scripts.demo_task_1_generate_t1_infile_2 module hpcflow.sdk.demo.scripts.demo_task_1_parse_p3 module hpcflow.sdk.demo.scripts.generate_t1_file_01 module hpcflow.sdk.demo.scripts.parse_t1_file_01 module hpcflow.sdk.helper module hpcflow.sdk.helper.cli module hpcflow.sdk.helper.helper module hpcflow.sdk.helper.watcher module hpcflow.sdk.log module hpcflow.sdk.persistence module hpcflow.sdk.persistence.base module hpcflow.sdk.persistence.json module hpcflow.sdk.persistence.zarr module hpcflow.sdk.runtime module hpcflow.sdk.scripting module hpcflow.sdk.submission module hpcflow.sdk.submission.jobscript module hpcflow.sdk.submission.schedulers module hpcflow.sdk.submission.schedulers.direct module hpcflow.sdk.submission.schedulers.sge module hpcflow.sdk.submission.schedulers.slurm module hpcflow.sdk.submission.shells module hpcflow.sdk.submission.shells.base module hpcflow.sdk.submission.shells.bash module hpcflow.sdk.submission.shells.os_version module hpcflow.sdk.submission.shells.powershell module hpcflow.sdk.submission.submission module hpcflow.sdk.typing module

I

ignore_invalid_actions() (hpcflow.sdk.core.task_schema.TaskSchema class method) IMPLICIT (hpcflow.sdk.core.parameters.ParameterPropagationMode attribute) IMPORT (hpcflow.sdk.core.parameters.InputSourceType attribute) import_() (hpcflow.sdk.core.parameters.InputSource class method) index (hpcflow.sdk.core.actions.ElementActionRun property) (hpcflow.sdk.core.element.Element property) (hpcflow.sdk.core.element.ElementIteration property) (hpcflow.sdk.core.loop.WorkflowLoop property) (hpcflow.sdk.core.task.ElementSet property) (hpcflow.sdk.core.task.Task property) (hpcflow.sdk.core.task.WorkflowTask property) (hpcflow.sdk.submission.jobscript.Jobscript property) (hpcflow.sdk.submission.submission.Submission property) index() (in module hpcflow.sdk.core.object_list) init_loop_index() (hpcflow.sdk.core.element.Element method) initialise_EARs() (hpcflow.sdk.core.task.WorkflowTask method) inject_into() (hpcflow.sdk.app.BaseApp method) INPUT (hpcflow.sdk.core.parameters.TaskSourceType attribute) input_file (hpcflow.sdk.core.command_files.InputFileGenerator attribute) INPUT_FILE_GENERATOR (hpcflow.sdk.core.actions.ActionScopeType attribute) input_file_generator (hpcflow.sdk.core.actions.ElementActionOLD attribute) input_file_generator() (hpcflow.sdk.core.actions.ActionScope class method) input_files (hpcflow.sdk.core.actions.ElementAction property) (hpcflow.sdk.core.actions.ElementActionRun property) (hpcflow.sdk.core.element.Element property) (hpcflow.sdk.core.element.ElementIteration property) input_or_output (hpcflow.sdk.core.parameters.SchemaInput property) (hpcflow.sdk.core.parameters.SchemaOutput property) input_path (hpcflow.sdk.core.parameters.ValueSequence property) input_source_idx (hpcflow.sdk.core.element.Element property) input_sources (hpcflow.sdk.core.element.Element property) input_type (hpcflow.sdk.core.parameters.ValueSequence property) input_types (hpcflow.sdk.core.task.ElementSet property) (hpcflow.sdk.core.task_schema.TaskSchema property) InputFile (class in hpcflow.sdk.core.command_files) InputFileGenerator (class in hpcflow.sdk.core.command_files) InputFileGeneratorSource (class in hpcflow.sdk.core.command_files) inputs (hpcflow.sdk.core.actions.ElementAction property) (hpcflow.sdk.core.actions.ElementActionRun property) (hpcflow.sdk.core.command_files.InputFileGenerator attribute) (hpcflow.sdk.core.command_files.OutputFileParser attribute) (hpcflow.sdk.core.element.Element property) (hpcflow.sdk.core.element.ElementIteration property) (hpcflow.sdk.core.task.WorkflowTask property) InputSource (class in hpcflow.sdk.core.parameters)

InputSourceType (class in hpcflow.sdk.core.parameters) InputSourceValidationError InputStatus (class in hpcflow.sdk.core.task) InputValue (class in hpcflow.sdk.core.parameters) InputValueDuplicateSequenceAddress insert_ID (hpcflow.sdk.core.task.Task property) (hpcflow.sdk.core.task.WorkflowTask property) InvalidIdentifier InvalidInputSourceTaskReference invoc_data (hpcflow.sdk.config.config_file.ConfigFile property) is_array (hpcflow.sdk.submission.jobscript.Jobscript property) is_config_loaded (hpcflow.sdk.app.BaseApp property) is_dict_values (hpcflow.sdk.core.json_like.ChildObjectSpec attribute) is_dict_values_ensure_list (hpcflow.sdk.core.json_like.ChildObjectSpec attribute) is_enum (hpcflow.sdk.core.json_like.ChildObjectSpec attribute) is_extra (hpcflow.sdk.core.task.InputStatus property) is_file (hpcflow.sdk.core.parameters.Parameter attribute) is_in() (hpcflow.sdk.core.parameters.InputSource method) is_input_type_provided() (hpcflow.sdk.core.task.ElementSet method) is_input_type_required() (hpcflow.sdk.core.actions.Action method) (hpcflow.sdk.core.task.Task method) is_item_set() (hpcflow.sdk.config.config_file.ConfigFile method) is_modified_on_disk() (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.json.JSONPersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) is_multiple (hpcflow.sdk.core.json_like.ChildObjectSpec attribute) is_parameter_set() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.json.JSONPersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) is_provided (hpcflow.sdk.core.task.InputStatus attribute) is_required (hpcflow.sdk.core.task.InputStatus attribute) is_set (hpcflow.sdk.core.element.ElementParameter property) is_single_attribute (hpcflow.sdk.core.json_like.ChildObjectSpec attribute) is_sub_value (hpcflow.sdk.core.parameters.InputValue property) (hpcflow.sdk.core.parameters.ValueSequence property) is_template_components_loaded (hpcflow.sdk.app.BaseApp property) islice() (hpcflow.sdk.core.task.Elements method) (hpcflow.sdk.core.task.Parameters method) iterable_parameters (hpcflow.sdk.core.loop.WorkflowLoop property) iteration_ID (hpcflow.sdk.core.element.ElementIteration property) iteration_idx (hpcflow.sdk.core.actions.IterationID attribute) IterationID (class in hpcflow.sdk.core.actions) iterations (hpcflow.sdk.core.element.Element property)

J

Jobscript (class in hpcflow.sdk.submission.jobscript) jobscript_indices (hpcflow.sdk.submission.submission.Submission property) jobscript_name (hpcflow.sdk.submission.jobscript.Jobscript property) jobscript_parallelism (hpcflow.sdk.persistence.base.PersistentStoreFeatures attribute) jobscript_path (hpcflow.sdk.submission.jobscript.Jobscript property) jobscripts (hpcflow.sdk.submission.submission.Submission property) jobscripts_to_list() (in module hpcflow.sdk.submission.jobscript) JobscriptSubmissionFailure join() (hpcflow.sdk.helper.watcher.MonitorController method) JS_DIRECT_HEADER (hpcflow.sdk.submission.shells.bash.Bash attribute) (hpcflow.sdk.submission.shells.powershell.WindowsPowerShell attribute) JS_ELEMENT_ARRAY (hpcflow.sdk.submission.shells.bash.Bash attribute) JS_ELEMENT_LOOP (hpcflow.sdk.submission.shells.bash.Bash attribute) (hpcflow.sdk.submission.shells.powershell.WindowsPowerShell attribute) JS_ENV_SETUP_INDENT (hpcflow.sdk.submission.shells.bash.Bash attribute) (hpcflow.sdk.submission.shells.powershell.WindowsPowerShell attribute)

JS_EXT (hpcflow.sdk.submission.shells.bash.Bash attribute) (hpcflow.sdk.submission.shells.powershell.WindowsPowerShell attribute) JS_HEADER (hpcflow.sdk.submission.shells.bash.Bash attribute) (hpcflow.sdk.submission.shells.bash.WSLBash attribute) (hpcflow.sdk.submission.shells.powershell.WindowsPowerShell attribute) JS_INDENT (hpcflow.sdk.submission.shells.bash.Bash attribute) (hpcflow.sdk.submission.shells.powershell.WindowsPowerShell attribute) JS_MAIN (hpcflow.sdk.submission.shells.bash.Bash attribute) (hpcflow.sdk.submission.shells.powershell.WindowsPowerShell attribute) JS_parallelism (hpcflow.sdk.submission.submission.Submission property) JS_SCHEDULER_HEADER (hpcflow.sdk.submission.shells.bash.Bash attribute) JS_SHEBANG (hpcflow.sdk.submission.shells.bash.Bash attribute) (hpcflow.sdk.submission.shells.powershell.WindowsPowerShell attribute) json_like_name (hpcflow.sdk.core.json_like.ChildObjectSpec attribute) JSONLike (class in hpcflow.sdk.core.json_like) JSONPersistentStore (class in hpcflow.sdk.persistence.json)

K

kill_proc_tree() (in module hpcflow.sdk.helper.helper)

L

label (hpcflow.sdk.core.command_files.FileSpec attribute) latest_iteration (hpcflow.sdk.core.element.Element property) linux_release_file (hpcflow.sdk.submission.shells.bash.Bash property) list_attrs() (hpcflow.sdk.core.object_list.ObjectList method) list_to_dict() (in module hpcflow.sdk.core.utils) load() (hpcflow.sdk.persistence.json.JSONPersistentStore method) load_builtin_template_component_data() (hpcflow.sdk.app.BaseApp class method) load_config() (hpcflow.sdk.app.BaseApp method) (in module hpcflow.sdk.core.utils) load_metadata() (hpcflow.sdk.persistence.json.JSONPersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) load_parameter_data() (hpcflow.sdk.persistence.json.JSONPersistentStore method)

load_submissions() (hpcflow.sdk.persistence.json.JSONPersistentStore method) load_template_components() (hpcflow.sdk.app.BaseApp method) LOCAL (hpcflow.sdk.core.parameters.InputSourceType attribute) local() (hpcflow.sdk.core.parameters.InputSource class method) logger (hpcflow.sdk.app.BaseApp property) Loop (class in hpcflow.sdk.core.loop) loop_idx (hpcflow.sdk.core.element.ElementIteration property) LoopAlreadyExistsError loops (hpcflow.api.hpcflow.Workflow property) (hpcflow.api.hpcflow.WorkflowTemplate attribute) (hpcflow.sdk.core.workflow.Workflow property) (hpcflow.sdk.core.workflow.WorkflowTemplate attribute)

M

MAIN (hpcflow.sdk.core.actions.ActionScopeType attribute) main() (hpcflow.sdk.core.actions.ActionScope class method) make_actions() (in module hpcflow.sdk.core.test_utils) make_and_submit_workflow() (in module hpcflow.sdk.api) make_artifact_dirs() (hpcflow.sdk.submission.jobscript.Jobscript method) make_parameters() (in module hpcflow.sdk.core.test_utils) make_persistent() (hpcflow.sdk.core.parameters.AbstractInputValue method) (hpcflow.sdk.core.parameters.ResourceSpec method) (hpcflow.sdk.core.parameters.ValueSequence method) (hpcflow.sdk.core.task_schema.TaskSchema method) make_schemas() (in module hpcflow.sdk.core.test_utils) make_tasks() (in module hpcflow.sdk.core.test_utils) make_workflow() (in module hpcflow.api.hpcflow) (in module hpcflow.sdk.api) (in module hpcflow.sdk.core.test_utils) make_workflow_id() (in module hpcflow.sdk.core.utils) MalformedParameterPathError merge_jobscripts_across_tasks() (in module hpcflow.sdk.submission.jobscript) metadata (hpcflow.sdk.core.actions.ElementActionRun property) MissingActionEnvironment MissingCompatibleActionEnvironment MissingEnvironmentFileError MissingInputs MissingTaskSchemaFileError module hpcflow.sdk hpcflow.sdk.api hpcflow.sdk.app hpcflow.sdk.config hpcflow.sdk.config.callbacks hpcflow.sdk.config.cli hpcflow.sdk.config.config hpcflow.sdk.config.config_file hpcflow.sdk.config.errors hpcflow.sdk.core hpcflow.sdk.core.actions hpcflow.sdk.core.command_files hpcflow.sdk.core.commands hpcflow.sdk.core.element hpcflow.sdk.core.environment hpcflow.sdk.core.errors hpcflow.sdk.core.json_like hpcflow.sdk.core.loop hpcflow.sdk.core.object_list hpcflow.sdk.core.parameters hpcflow.sdk.core.task hpcflow.sdk.core.task_schema hpcflow.sdk.core.test_utils hpcflow.sdk.core.utils hpcflow.sdk.core.validation hpcflow.sdk.core.workflow hpcflow.sdk.core.zarr_io hpcflow.sdk.data hpcflow.sdk.data.template_components hpcflow.sdk.demo hpcflow.sdk.demo.cli hpcflow.sdk.demo.scripts hpcflow.sdk.demo.scripts.demo_task_1_generate_t1_infile_1 hpcflow.sdk.demo.scripts.demo_task_1_generate_t1_infile_2 hpcflow.sdk.demo.scripts.demo_task_1_parse_p3 hpcflow.sdk.demo.scripts.generate_t1_file_01 hpcflow.sdk.demo.scripts.parse_t1_file_01 hpcflow.sdk.helper hpcflow.sdk.helper.cli hpcflow.sdk.helper.helper hpcflow.sdk.helper.watcher hpcflow.sdk.log hpcflow.sdk.persistence hpcflow.sdk.persistence.base hpcflow.sdk.persistence.json hpcflow.sdk.persistence.zarr hpcflow.sdk.runtime hpcflow.sdk.scripting hpcflow.sdk.submission hpcflow.sdk.submission.jobscript hpcflow.sdk.submission.schedulers hpcflow.sdk.submission.schedulers.direct hpcflow.sdk.submission.schedulers.sge hpcflow.sdk.submission.schedulers.slurm hpcflow.sdk.submission.shells hpcflow.sdk.submission.shells.base hpcflow.sdk.submission.shells.bash hpcflow.sdk.submission.shells.os_version hpcflow.sdk.submission.shells.powershell hpcflow.sdk.submission.submission hpcflow.sdk.typing

MonitorController (class in hpcflow.sdk.helper.watcher) multiplicative_factor (hpcflow.sdk.core.parameters.ValuePerturbation attribute)

N

name (hpcflow.api.hpcflow.Workflow property) (hpcflow.api.hpcflow.WorkflowTemplate attribute) (hpcflow.sdk.core.command_files.FileSpec attribute) (hpcflow.sdk.core.element.ElementGroup attribute) (hpcflow.sdk.core.json_like.ChildObjectSpec attribute) (hpcflow.sdk.core.loop.Loop property) (hpcflow.sdk.core.loop.WorkflowLoop property) (hpcflow.sdk.core.parameters.SchemaParameter property) (hpcflow.sdk.core.parameters.ValuePerturbation attribute) (hpcflow.sdk.core.task.Task property) (hpcflow.sdk.core.task.WorkflowTask property) (hpcflow.sdk.core.task_schema.TaskObjective attribute) (hpcflow.sdk.core.task_schema.TaskSchema property) (hpcflow.sdk.core.workflow.Workflow property) (hpcflow.sdk.core.workflow.WorkflowTemplate attribute) need_EAR_file_name (hpcflow.sdk.submission.jobscript.Jobscript property) need_EAR_file_path (hpcflow.sdk.submission.jobscript.Jobscript property) needs_submit (hpcflow.sdk.submission.submission.Submission property) nesting_order (hpcflow.sdk.core.task.ElementPropagation attribute) NEVER (hpcflow.sdk.core.parameters.ParameterPropagationMode attribute) new_empty_loop() (hpcflow.sdk.core.loop.WorkflowLoop class method) new_empty_task() (hpcflow.sdk.core.task.WorkflowTask class method) non_iterable_parameters (hpcflow.sdk.core.loop.Loop property) non_universal_input_types (hpcflow.sdk.core.task.Task property) normalised_files_path (hpcflow.sdk.core.command_files.InputFile property) normalised_inputs_path (hpcflow.sdk.core.parameters.InputValue property) (hpcflow.sdk.core.parameters.ValueSequence property) normalised_path (hpcflow.sdk.core.command_files.InputFile property) (hpcflow.sdk.core.parameters.InputValue property) (hpcflow.sdk.core.parameters.ResourceSpec property) (hpcflow.sdk.core.parameters.ValueSequence property)

normalised_resources_path (hpcflow.sdk.core.parameters.ResourceSpec property) NullScheduler (class in hpcflow.sdk.submission.schedulers) num_actions (hpcflow.sdk.core.task.WorkflowTask property) (hpcflow.sdk.submission.jobscript.Jobscript property) num_added_iterations (hpcflow.sdk.core.loop.WorkflowLoop property) num_added_tasks (hpcflow.api.hpcflow.Workflow property) (hpcflow.sdk.core.workflow.Workflow property) num_all_schema_actions (hpcflow.sdk.core.task.Task property) num_cores (hpcflow.sdk.core.element.ElementResources attribute) (hpcflow.sdk.core.environment.ExecutableInstance attribute) (hpcflow.sdk.core.parameters.ResourceSpec property) num_EARs (hpcflow.sdk.core.task.WorkflowTask property) num_element_iterations (hpcflow.api.hpcflow.Workflow property) (hpcflow.sdk.core.task.WorkflowTask property) (hpcflow.sdk.core.workflow.Workflow property) num_element_sets (hpcflow.sdk.core.task.Task property) (hpcflow.sdk.core.task.WorkflowTask property) num_elements (hpcflow.api.hpcflow.Workflow property) (hpcflow.sdk.core.task.WorkflowTask property) (hpcflow.sdk.core.workflow.Workflow property) (hpcflow.sdk.submission.jobscript.Jobscript property) num_iterations (hpcflow.sdk.core.loop.Loop property) (hpcflow.sdk.core.loop.WorkflowLoop property) num_loops (hpcflow.api.hpcflow.Workflow property) (hpcflow.sdk.core.workflow.Workflow property) num_runs (hpcflow.sdk.core.actions.ElementAction property) num_submissions (hpcflow.api.hpcflow.Workflow property) (hpcflow.sdk.core.workflow.Workflow property) num_tasks (hpcflow.api.hpcflow.Workflow property) (hpcflow.sdk.core.workflow.Workflow property) number (hpcflow.sdk.core.element.ElementRepeats attribute) NumCores (class in hpcflow.sdk.core.environment)

O

objective (hpcflow.sdk.core.task.Task property) ObjectList (class in hpcflow.sdk.core.object_list) on_modified() (hpcflow.sdk.helper.watcher.MonitorController method) (hpcflow.sdk.helper.watcher.WorkflowMonitor method) options (hpcflow.sdk.core.command_files.OutputFileParser attribute) os_name (hpcflow.sdk.core.element.ElementResources attribute) (hpcflow.sdk.core.parameters.ResourceSpec property) (hpcflow.sdk.submission.jobscript.Jobscript property) output (hpcflow.sdk.core.command_files.OutputFileParser attribute) OUTPUT (hpcflow.sdk.core.parameters.TaskSourceType attribute) OUTPUT_FILE_PARSER (hpcflow.sdk.core.actions.ActionScopeType attribute) output_file_parser() (hpcflow.sdk.core.actions.ActionScope class method) output_files (hpcflow.sdk.core.actions.ElementAction property) (hpcflow.sdk.core.actions.ElementActionRun property) (hpcflow.sdk.core.command_files.OutputFileParser attribute) (hpcflow.sdk.core.element.Element property) (hpcflow.sdk.core.element.ElementIteration property)

output_parser (hpcflow.sdk.core.actions.ElementActionOLD attribute) output_types (hpcflow.sdk.core.task_schema.TaskSchema property) OutputFileParser (class in hpcflow.sdk.core.command_files) OutputFileParserSource (class in hpcflow.sdk.core.command_files) outputs (hpcflow.sdk.core.actions.ElementAction property) (hpcflow.sdk.core.actions.ElementActionRun property) (hpcflow.sdk.core.element.Element property) (hpcflow.sdk.core.element.ElementIteration property) (hpcflow.sdk.core.task.WorkflowTask property) outstanding_jobscripts (hpcflow.sdk.submission.submission.Submission property)

P

parallel_mode (hpcflow.sdk.core.environment.ExecutableInstance attribute) Parameter (class in hpcflow.sdk.core.parameters) parameter (hpcflow.sdk.core.parameters.SchemaInput attribute) (hpcflow.sdk.core.parameters.SchemaOutput attribute) (hpcflow.sdk.core.parameters.SubParameter attribute) (hpcflow.sdk.core.parameters.ValueSequence property) parameter_path (hpcflow.sdk.core.element.ElementFilter attribute) ParameterPath (class in hpcflow.sdk.core.parameters) ParameterPropagationMode (class in hpcflow.sdk.core.parameters) Parameters (class in hpcflow.sdk.core.task) parameters (hpcflow.sdk.app.BaseApp property) ParametersList (class in hpcflow.sdk.core.object_list) ParameterSpecValidationError ParameterValue (class in hpcflow.sdk.core.parameters) parent (hpcflow.sdk.core.element.ElementParameter attribute) parent_ref (hpcflow.sdk.core.json_like.ChildObjectSpec attribute) parse_submission_output() (hpcflow.sdk.submission.schedulers.NullScheduler method) (hpcflow.sdk.submission.schedulers.sge.SGEPosix method) (hpcflow.sdk.submission.schedulers.slurm.SlurmPosix method) parse_t1_file_01() (in module hpcflow.sdk.demo.scripts.parse_t1_file_01) parse_watch_workflows_file() (hpcflow.sdk.helper.watcher.MonitorController static method) PARTIALLY_SUBMITTED (hpcflow.sdk.submission.submission.SubmissionStatus attribute) parts (hpcflow.sdk.core.commands.CommandArgument attribute) path (hpcflow.sdk.core.element.ElementParameter attribute) (hpcflow.sdk.core.parameters.ParameterPath attribute) (hpcflow.sdk.core.parameters.ValuePerturbation attribute) (hpcflow.sdk.core.task.Parameters attribute) (hpcflow.sdk.submission.submission.Submission property)

path_has_store() (hpcflow.sdk.persistence.base.PersistentStore class method) (hpcflow.sdk.persistence.json.JSONPersistentStore class method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore class method) path_split (hpcflow.sdk.core.parameters.ValueSequence property) path_type (hpcflow.sdk.core.parameters.ValueSequence property) PENDING (hpcflow.sdk.core.actions.EARSubmissionStatus attribute) (hpcflow.sdk.submission.submission.SubmissionStatus attribute) PersistentStore (class in hpcflow.sdk.persistence.base) PersistentStoreFeatures (class in hpcflow.sdk.persistence.base) pop() (hpcflow.sdk.config.config.Config method) prepare_EAR_submission_idx_update() (hpcflow.sdk.submission.submission.Submission method) prepare_element_resolution() (hpcflow.sdk.core.task.Task method) prepare_element_run_dirs() (hpcflow.sdk.submission.shells.base.Shell method) (hpcflow.sdk.submission.shells.bash.WSLBash method) prepare_JS_path() (hpcflow.sdk.submission.shells.base.Shell method) (hpcflow.sdk.submission.shells.bash.WSLBash method) prepare_persistent_copy() (hpcflow.sdk.core.task.ElementSet method) PREPARED (hpcflow.sdk.core.actions.EARSubmissionStatus attribute) prepend() (hpcflow.sdk.config.config.Config method) PrettyPrinter (class in hpcflow.sdk.core.utils) process_JS_header_args() (hpcflow.sdk.submission.shells.base.Shell method) (hpcflow.sdk.submission.shells.bash.WSLBash method) PROCESSING (hpcflow.sdk.core.actions.ActionScopeType attribute) processing() (hpcflow.sdk.core.actions.ActionScope class method) propagation_mode (hpcflow.sdk.core.parameters.SchemaInput attribute) (hpcflow.sdk.core.parameters.SchemaOutput attribute) provides_parameters (hpcflow.sdk.core.task.Task property) (hpcflow.sdk.core.task_schema.TaskSchema property)

R

raise_on_missing (hpcflow.sdk.core.task.Parameters attribute) read_JSON_file() (in module hpcflow.sdk.core.utils) read_JSON_string() (in module hpcflow.sdk.core.utils) read_YAML() (in module hpcflow.sdk.core.utils) read_YAML_file() (in module hpcflow.sdk.core.utils) register_config_get_callback() (hpcflow.sdk.config.config.Config method) register_config_set_callback() (hpcflow.sdk.config.config.Config method) register_input_file_writer() (in module hpcflow.sdk.scripting) register_output_parser() (in module hpcflow.sdk.scripting) reinstate_replaced_dir() (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.json.JSONPersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) reject_pending() (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) reload_config() (hpcflow.sdk.app.BaseApp method) reload_template_components() (hpcflow.sdk.app.BaseApp method) remove_ansi_escape_sequences() (in module hpcflow.sdk.core.utils) remove_dir() (in module hpcflow.sdk.persistence.base) remove_replaced_dir() (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.json.JSONPersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) rename() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) rename_dir() (in module hpcflow.sdk.persistence.base)

replace_items() (in module hpcflow.sdk.core.utils) resolve_element_data_indices() (hpcflow.sdk.core.task.WorkflowTask static method) resolve_jobscript_dependencies() (in module hpcflow.sdk.submission.jobscript) resolve_jobscripts() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) resource_scope (hpcflow.sdk.core.parameters.ValueSequence property) ResourceList (class in hpcflow.sdk.core.object_list) resources (hpcflow.api.hpcflow.WorkflowTemplate attribute) (hpcflow.sdk.core.actions.ElementActionRun property) (hpcflow.sdk.core.workflow.WorkflowTemplate attribute) (hpcflow.sdk.submission.jobscript.Jobscript property) ResourceSpec (class in hpcflow.sdk.core.parameters) restart_helper() (in module hpcflow.sdk.helper.helper) return_element_parameters (hpcflow.sdk.core.task.Parameters attribute) root_action (hpcflow.sdk.core.actions.ElementActionOLD attribute) rule (hpcflow.sdk.core.actions.ActionRule attribute) run_helper() (in module hpcflow.sdk.helper.helper) run_hpcflow_tests() (in module hpcflow.sdk.api) run_idx (hpcflow.sdk.core.actions.EAR_ID attribute) (hpcflow.sdk.core.actions.ElementActionRun property) run_tests() (in module hpcflow.sdk.api) RUNNING (hpcflow.sdk.core.actions.EARSubmissionStatus attribute) runs (hpcflow.sdk.core.actions.ElementAction property) runtime_info_logger (hpcflow.sdk.app.BaseApp property) RunTimeInfo (class in hpcflow.sdk.runtime)

S

save() (hpcflow.sdk.config.config.Config method) (hpcflow.sdk.config.config_file.ConfigFile method) (hpcflow.sdk.persistence.base.PersistentStore method) save_parameter() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) save_parameters() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) Scheduler (class in hpcflow.sdk.submission.schedulers) scheduler (hpcflow.sdk.core.element.ElementResources attribute) (hpcflow.sdk.core.parameters.ResourceSpec property) (hpcflow.sdk.submission.jobscript.Jobscript property) scheduler_args (hpcflow.sdk.core.element.ElementResources attribute) (hpcflow.sdk.core.parameters.ResourceSpec property) scheduler_job_ID (hpcflow.sdk.submission.jobscript.Jobscript property) scheduler_name (hpcflow.sdk.submission.jobscript.Jobscript property) scheduler_options (hpcflow.sdk.core.element.ElementResources attribute) (hpcflow.sdk.core.parameters.ResourceSpec property) scheduler_version_info (hpcflow.sdk.submission.jobscript.Jobscript property) schedulers (hpcflow.sdk.persistence.base.PersistentStoreFeatures attribute) SchedulerVersionsFailure schema_parameters (hpcflow.sdk.core.element.Element property) (hpcflow.sdk.core.element.ElementIteration property) SchemaInput (class in hpcflow.sdk.core.parameters) SchemaOutput (class in hpcflow.sdk.core.parameters) SchemaParameter (class in hpcflow.sdk.core.parameters) schemas (hpcflow.sdk.core.task.Task property) scope (hpcflow.sdk.core.actions.ActionEnvironment attribute) scratch (hpcflow.sdk.core.element.ElementResources attribute) (hpcflow.sdk.core.parameters.ResourceSpec property) script (hpcflow.sdk.core.command_files.InputFileGenerator attribute) (hpcflow.sdk.core.command_files.OutputFileParser attribute) scripts (hpcflow.sdk.app.BaseApp property) search_dir_files_by_regex() (in module hpcflow.sdk.core.utils) sentry_DSN (hpcflow.sdk.config.config.ConfigOptions attribute) sentry_env (hpcflow.sdk.config.config.ConfigOptions attribute) sentry_traces_sample_rate (hpcflow.sdk.config.config.ConfigOptions attribute) sentry_wrap() (in module hpcflow.sdk.core.utils) sequence_idx (hpcflow.sdk.core.element.Element property) set() (hpcflow.sdk.config.config.Config method) set_callback_file_paths() (in module hpcflow.sdk.config.callbacks) set_EAR_end() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) (hpcflow.sdk.persistence.base.PersistentStore method) set_EAR_start() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) (hpcflow.sdk.persistence.base.PersistentStore method) set_EAR_submission_indices() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) (hpcflow.sdk.persistence.base.PersistentStore method) set_in_container() (in module hpcflow.sdk.core.utils) set_jobscript_job_ID() (hpcflow.sdk.persistence.base.PersistentStore method) set_jobscript_submit_time() (hpcflow.sdk.persistence.base.PersistentStore method) set_jobscript_version_info() (hpcflow.sdk.persistence.base.PersistentStore method) set_parameter() (hpcflow.sdk.persistence.base.PersistentStore method) (hpcflow.sdk.persistence.json.JSONPersistentStore method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore method) set_sequence_parameters() (hpcflow.sdk.core.task.Task method) SGEPosix (class in hpcflow.sdk.submission.schedulers.sge) shared_data_name (hpcflow.sdk.core.json_like.ChildObjectSpec attribute) shared_data_primary_key (hpcflow.sdk.core.json_like.ChildObjectSpec attribute)

shebang_executable (hpcflow.sdk.submission.shells.base.Shell property) (hpcflow.sdk.submission.shells.bash.WSLBash property) Shell (class in hpcflow.sdk.submission.shells.base) shell (hpcflow.sdk.core.element.ElementResources attribute) (hpcflow.sdk.core.parameters.ResourceSpec property) (hpcflow.sdk.submission.jobscript.Jobscript property) shell_args (hpcflow.sdk.core.element.ElementResources attribute) (hpcflow.sdk.core.parameters.ResourceSpec property) shell_name (hpcflow.sdk.submission.jobscript.Jobscript property) show_all_EAR_statuses() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) Singleton (class in hpcflow.sdk.core.utils) SlurmPosix (class in hpcflow.sdk.submission.schedulers.slurm) start (hpcflow.sdk.core.environment.NumCores attribute) start_helper() (in module hpcflow.sdk.helper.helper) start_time (hpcflow.sdk.core.actions.ElementActionRun property) status (hpcflow.sdk.submission.submission.Submission property) stderr (hpcflow.sdk.core.commands.Command attribute) stdin (hpcflow.sdk.core.commands.Command attribute) stdout (hpcflow.sdk.core.commands.Command attribute) stem (hpcflow.sdk.core.command_files.FileNameSpec property) (hpcflow.sdk.core.command_files.FileSpec property) step (hpcflow.sdk.core.environment.NumCores attribute) stop (hpcflow.sdk.core.environment.NumCores attribute) stop() (hpcflow.sdk.helper.watcher.MonitorController method) (hpcflow.sdk.helper.watcher.WorkflowMonitor method) stop_helper() (in module hpcflow.sdk.helper.helper) store_cls_from_path() (in module hpcflow.sdk.persistence) store_cls_from_str() (in module hpcflow.sdk.persistence) store_format (hpcflow.api.hpcflow.Workflow property) (hpcflow.sdk.core.workflow.Workflow property) store_name (hpcflow.sdk.persistence.base.PersistentStore property) store_path (hpcflow.sdk.persistence.base.PersistentStore property) (hpcflow.sdk.persistence.json.JSONPersistentStore property) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore property) sub_parameters (hpcflow.sdk.core.parameters.Parameter attribute) Submission (class in hpcflow.sdk.submission.submission) submission (hpcflow.sdk.persistence.base.PersistentStoreFeatures attribute) (hpcflow.sdk.submission.jobscript.Jobscript property) submission_attempts (hpcflow.sdk.submission.submission.Submission property) submission_idx (hpcflow.sdk.core.actions.ElementActionRun property) submission_status (hpcflow.sdk.core.actions.ElementActionRun property) SubmissionFailure submissions (hpcflow.api.hpcflow.Workflow property) (hpcflow.sdk.core.workflow.Workflow property) submissions_path (hpcflow.api.hpcflow.Workflow property) (hpcflow.sdk.core.workflow.Workflow property) SubmissionStatus (class in hpcflow.sdk.submission.submission) submit() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) (hpcflow.sdk.submission.jobscript.Jobscript method) (hpcflow.sdk.submission.submission.Submission method) submit_time (hpcflow.sdk.submission.jobscript.Jobscript property) submit_workflow() (in module hpcflow.sdk.api) SUBMITTED (hpcflow.sdk.core.actions.EARSubmissionStatus attribute) (hpcflow.sdk.submission.submission.SubmissionStatus attribute) submitted_jobscripts (hpcflow.sdk.submission.submission.Submission property) SubParameter (class in hpcflow.sdk.core.parameters) success (hpcflow.sdk.core.actions.ElementActionRun property) sys_base_prefix (hpcflow.sdk.runtime.RunTimeInfo attribute) sys_prefix (hpcflow.sdk.runtime.RunTimeInfo attribute)

T

Task (class in hpcflow.sdk.core.task) task (hpcflow.sdk.core.actions.ElementAction property) (hpcflow.sdk.core.actions.ElementActionRun property) (hpcflow.sdk.core.element.Element property) (hpcflow.sdk.core.element.ElementIteration property) (hpcflow.sdk.core.element.ElementParameter attribute) TASK (hpcflow.sdk.core.parameters.InputSourceType attribute) task (hpcflow.sdk.core.parameters.ParameterPath attribute) (hpcflow.sdk.core.task.ElementPropagation attribute) (hpcflow.sdk.core.task.Elements property) (hpcflow.sdk.core.task.ElementSet property) (hpcflow.sdk.core.task.Parameters attribute) (hpcflow.sdk.core.task.TaskInputParameters attribute) (hpcflow.sdk.core.task.TaskOutputParameters attribute) task() (hpcflow.sdk.core.parameters.InputSource class method) task_actions (hpcflow.sdk.submission.jobscript.Jobscript property) task_artifacts_path (hpcflow.api.hpcflow.Workflow property) (hpcflow.sdk.core.workflow.Workflow property) task_elements (hpcflow.sdk.submission.jobscript.Jobscript property) task_indices (hpcflow.sdk.core.loop.WorkflowLoop property) task_insert_ID (hpcflow.sdk.core.actions.ElementID attribute) task_insert_IDs (hpcflow.sdk.core.loop.Loop property) (hpcflow.sdk.core.loop.WorkflowLoop property) (hpcflow.sdk.submission.jobscript.Jobscript property) task_loop_idx (hpcflow.sdk.submission.jobscript.Jobscript property) task_objects (hpcflow.sdk.core.loop.Loop property) (hpcflow.sdk.core.loop.WorkflowLoop property) task_schema (hpcflow.sdk.core.actions.Action property) (hpcflow.sdk.core.parameters.SchemaInput property) task_schemas (hpcflow.sdk.app.BaseApp property) task_template (hpcflow.sdk.core.task.ElementSet property) (hpcflow.sdk.core.task_schema.TaskSchema property) TaskInputParameters (class in hpcflow.sdk.core.task) TaskList (class in hpcflow.sdk.core.object_list) TaskObjective (class in hpcflow.sdk.core.task_schema) TaskOutputParameters (class in hpcflow.sdk.core.task) tasks (hpcflow.api.hpcflow.Workflow property) (hpcflow.api.hpcflow.WorkflowTemplate attribute) (hpcflow.sdk.core.workflow.Workflow property) (hpcflow.sdk.core.workflow.WorkflowTemplate attribute) TaskSchema (class in hpcflow.sdk.core.task_schema) TaskSchemaMissingParameterError TaskSchemasList (class in hpcflow.sdk.core.object_list) TaskSchemaSpecValidationError TaskSourceType (class in hpcflow.sdk.core.parameters) TaskTemplateInvalidNesting TaskTemplateList (class in hpcflow.sdk.core.object_list) TaskTemplateMultipleInputValues TaskTemplateMultipleSchemaObjectives

TaskTemplateUnexpectedInput TaskTemplateUnexpectedSequenceInput template (hpcflow.api.hpcflow.Workflow property) (hpcflow.sdk.core.loop.WorkflowLoop property) (hpcflow.sdk.core.task.WorkflowTask property) (hpcflow.sdk.core.workflow.Workflow property) template_components (hpcflow.api.hpcflow.Workflow property) (hpcflow.sdk.app.BaseApp property) (hpcflow.sdk.core.workflow.Workflow property) template_components_from_json_like() (hpcflow.sdk.app.BaseApp method) temporary_workflow_rename() (in module hpcflow.sdk.persistence) test_action_rule() (hpcflow.sdk.core.task.WorkflowTask method) time_limit (hpcflow.sdk.core.element.ElementResources attribute) (hpcflow.sdk.core.parameters.ResourceSpec property) timedelta_format() (in module hpcflow.sdk.submission.submission) timedelta_parse() (in module hpcflow.sdk.submission.submission) to_dict() (hpcflow.api.hpcflow.WorkflowTemplate method) (hpcflow.sdk.core.command_files.InputFile method) (hpcflow.sdk.core.json_like.BaseJSONLike method) (hpcflow.sdk.core.json_like.JSONLike method) (hpcflow.sdk.core.loop.Loop method) (hpcflow.sdk.core.object_list.AppDataList method) (hpcflow.sdk.core.parameters.AbstractInputValue method) (hpcflow.sdk.core.parameters.Parameter method) (hpcflow.sdk.core.parameters.ParameterValue method) (hpcflow.sdk.core.parameters.ResourceSpec method) (hpcflow.sdk.core.parameters.ValueSequence method) (hpcflow.sdk.core.task.ElementSet method) (hpcflow.sdk.core.task.Task method) (hpcflow.sdk.core.zarr_io.ZarrEncodable method) (hpcflow.sdk.submission.jobscript.Jobscript method) (hpcflow.sdk.submission.submission.Submission method) to_element_set_data() (hpcflow.sdk.core.element.Element method) to_json_like() (hpcflow.api.hpcflow.WorkflowTemplate method) (hpcflow.sdk.core.json_like.BaseJSONLike method) (hpcflow.sdk.core.object_list.ResourceList method) (in module hpcflow.sdk.core.json_like) to_persistent() (hpcflow.sdk.core.task.Task method) to_string() (hpcflow.sdk.config.config.Config method) (hpcflow.sdk.core.actions.ActionScope method) (hpcflow.sdk.core.parameters.InputSource method) to_zarr() (hpcflow.sdk.core.zarr_io.ZarrEncodable method) ToJSONLikeChildReferenceError ts_fmt (hpcflow.api.hpcflow.Workflow property) (hpcflow.sdk.core.workflow.Workflow property) (hpcflow.sdk.persistence.base.PersistentStore property) ts_name_fmt (hpcflow.api.hpcflow.Workflow property) (hpcflow.sdk.core.workflow.Workflow property) typ (hpcflow.sdk.core.parameters.Parameter attribute) (hpcflow.sdk.core.parameters.SchemaParameter property)

U

undefined_input_types (hpcflow.sdk.core.task.ElementSet property) (hpcflow.sdk.core.task.Task property) undefined_inputs (hpcflow.sdk.core.task.Task property) unique_name (hpcflow.sdk.core.task.WorkflowTask property) universal_input_types (hpcflow.sdk.core.task.Task property) UnknownResourceSpecItemError UnrequiredInputSources unset() (hpcflow.sdk.config.config.Config method)

UnsetParameterDataError unsourced_inputs (hpcflow.sdk.core.task.Task property) UnsupportedShellError update_console_level() (hpcflow.sdk.log.AppLog method) update_loop_num_added_iters() (hpcflow.sdk.persistence.base.PersistentStore method) update_workflow_paths() (hpcflow.sdk.helper.watcher.WorkflowMonitor method) upstream_tasks (hpcflow.sdk.core.task.WorkflowTask property) use_job_array (hpcflow.sdk.core.element.ElementResources attribute) (hpcflow.sdk.core.parameters.ResourceSpec property)

V

value (hpcflow.sdk.core.element.ElementParameter property) (hpcflow.sdk.core.parameters.AbstractInputValue property) value() (hpcflow.sdk.core.command_files.FileNameExt method) (hpcflow.sdk.core.command_files.FileNameSpec method) (hpcflow.sdk.core.command_files.FileNameStem method) (hpcflow.sdk.core.command_files.FileSpec method)

ValuePerturbation (class in hpcflow.sdk.core.parameters) values (hpcflow.sdk.core.parameters.ValueSequence property) ValuesAlreadyPersistentError ValueSequence (class in hpcflow.sdk.core.parameters)

W

warning_formatter() (in module hpcflow.sdk.config.cli) where (hpcflow.sdk.core.element.ElementGroup attribute) (hpcflow.sdk.core.element.ElementRepeats attribute) (hpcflow.sdk.core.parameters.SchemaInput attribute) WindowsPowerShell (class in hpcflow.sdk.submission.shells.powershell) Workflow (class in hpcflow.api.hpcflow) (class in hpcflow.sdk.core.workflow) workflow (hpcflow.api.hpcflow.WorkflowTemplate attribute) (hpcflow.sdk.core.actions.ElementActionRun property) (hpcflow.sdk.core.element.Element property) (hpcflow.sdk.core.element.ElementIteration property) (hpcflow.sdk.core.loop.WorkflowLoop property) (hpcflow.sdk.core.parameters.AbstractInputValue property) (hpcflow.sdk.core.parameters.ResourceSpec property) (hpcflow.sdk.core.parameters.ValueSequence property) (hpcflow.sdk.core.task.WorkflowTask property) (hpcflow.sdk.core.workflow.WorkflowTemplate attribute) (hpcflow.sdk.persistence.base.PersistentStore property) (hpcflow.sdk.submission.jobscript.Jobscript property) (hpcflow.sdk.submission.submission.Submission property) workflow_app_alias (hpcflow.sdk.submission.jobscript.Jobscript property) workflow_path (hpcflow.sdk.persistence.base.PersistentStore property) workflow_template (hpcflow.sdk.core.loop.Loop property) (hpcflow.sdk.core.object_list.ResourceList property) (hpcflow.sdk.core.parameters.ResourceSpec property) (hpcflow.sdk.core.workflow.WorkflowBlueprint attribute) WorkflowBatchUpdateFailedError

WorkflowBlueprint (class in hpcflow.sdk.core.workflow) WorkflowLimitsError WorkflowLoop (class in hpcflow.sdk.core.loop) WorkflowLoopList (class in hpcflow.sdk.core.object_list) WorkflowMonitor (class in hpcflow.sdk.helper.watcher) WorkflowNotFoundError WorkflowParameterMissingError WorkflowSpecValidationError WorkflowSubmissionFailure WorkflowTask (class in hpcflow.sdk.core.task) WorkflowTaskList (class in hpcflow.sdk.core.object_list) WorkflowTemplate (class in hpcflow.api.hpcflow) (class in hpcflow.sdk.core.workflow) wrap_in_subshell() (hpcflow.sdk.submission.shells.bash.Bash method) (hpcflow.sdk.submission.shells.powershell.WindowsPowerShell method) write_commands() (hpcflow.api.hpcflow.Workflow method) (hpcflow.sdk.core.workflow.Workflow method) write_element_run_dir_file() (hpcflow.sdk.submission.jobscript.Jobscript method) write_empty_workflow() (hpcflow.sdk.persistence.base.PersistentStore class method) (hpcflow.sdk.persistence.json.JSONPersistentStore class method) (hpcflow.sdk.persistence.zarr.ZarrPersistentStore class method) write_jobscript() (hpcflow.sdk.submission.jobscript.Jobscript method) write_need_EARs_file() (hpcflow.sdk.submission.jobscript.Jobscript method) write_source() (hpcflow.sdk.core.actions.ElementActionRun method) (hpcflow.sdk.core.command_files.InputFileGenerator method) (hpcflow.sdk.core.command_files.OutputFileParser method) WSLBash (class in hpcflow.sdk.submission.shells.bash)

Z

zarr_decode() (in module hpcflow.sdk.core.zarr_io) zarr_encode() (in module hpcflow.sdk.core.zarr_io)

ZarrEncodable (class in hpcflow.sdk.core.zarr_io) ZarrPersistentStore (class in hpcflow.sdk.persistence.zarr)