Index

A

add_atmos_forcing_preamble() (in module imsi.shell_interface.shell_inputs_outputs)

assert_imsi_version_match() (in module imsi.user_interface.ui_manager)

B

BatchJob (class in imsi.scheduler_interface.schedulers)

build_config_dir() (in module imsi.shell_interface.shell_interface_manager) build_run_config_on_disk() (in module imsi.user_interface.ui_manager)

C

cancel_command (imsi.scheduler_interface.schedulers.PBSScheduler attribute) (imsi.scheduler_interface.schedulers.Scheduler attribute) (imsi.scheduler_interface.schedulers.SLURMScheduler attribute) cancel_job() (imsi.scheduler_interface.schedulers.PBSScheduler method) (imsi.scheduler_interface.schedulers.Scheduler method) (imsi.scheduler_interface.schedulers.SLURMScheduler method) change_dir() (in module imsi.utils.general) check_if_imsi_compliant_version() (in module imsi.user_interface.ui_manager) clear_repo() (in module imsi.utils.git_tools) clone() (in module imsi.utils.git_tools) combine_json_configs() (in module imsi.utils.dict_tools) combine_yaml_configs() (in module imsi.utils.dict_tools) compile_model_execs() (in module imsi.user_interface.ui_manager) compiler (imsi.config_manager.config_manager.Configuration attribute) CompilerFactory (class in imsi.config_manager.config_manager) components (imsi.config_manager.config_manager.Configuration attribute) config() (imsi.sequencer_interface.iss_cap.IMSISimpleSequencerInterface method) (imsi.sequencer_interface.sequencers.Sequencer method) ConfigManager (class in imsi.config_manager.config_manager) Configuration (class in imsi.config_manager.config_manager) construct_job_header() (imsi.scheduler_interface.schedulers.PBSScheduler method) (imsi.scheduler_interface.schedulers.Scheduler method) (imsi.scheduler_interface.schedulers.SLURMScheduler method)

construct_job_script() (imsi.scheduler_interface.schedulers.BatchJob method) cpp_update() (in module imsi.utils.nml_tools) create_compiler() (imsi.config_manager.config_manager.ConfigManager method) create_components() (imsi.config_manager.config_manager.ConfigManager method) create_config_dirs() (in module imsi.shell_interface.shell_interface_utilities) create_configuration() (imsi.config_manager.config_manager.ConfigManager method) create_experiment() (imsi.config_manager.config_manager.ConfigManager method) create_from_database() (imsi.config_manager.config_manager.CompilerFactory static method) (imsi.config_manager.config_manager.ExperimentFactory static method) (imsi.config_manager.config_manager.PostprocFactory static method) (imsi.config_manager.config_manager.SequencingFactory static method) create_imsi_configuration() (in module imsi.user_interface.ui_manager) create_job() (in module imsi.sequencer_interface.iss_cap) create_machine() (imsi.config_manager.config_manager.ConfigManager method) create_model() (imsi.config_manager.config_manager.ConfigManager method) create_postproc() (imsi.config_manager.config_manager.ConfigManager method) create_scheduler() (in module imsi.scheduler_interface.schedulers) create_sequencer() (in module imsi.sequencer_interface.sequencers) create_sequencing() (imsi.config_manager.config_manager.ConfigManager method) create_SetupParams() (imsi.config_manager.config_manager.ConfigManager method) create_shell_sequencer() (in module imsi.sequencer_interface.iss_cap) create_utilities() (imsi.config_manager.config_manager.ConfigManager method)

D

database_factory() (in module imsi.config_manager.config_manager) default_directives (imsi.scheduler_interface.schedulers.PBSScheduler attribute) (imsi.scheduler_interface.schedulers.SLURMScheduler attribute) delete_or_abort() (in module imsi.utils.general) determine_default_flow() (imsi.config_manager.config_manager.SequencingFactory static method)

directive_prefix (imsi.scheduler_interface.schedulers.PBSScheduler attribute) (imsi.scheduler_interface.schedulers.Scheduler attribute) (imsi.scheduler_interface.schedulers.SLURMScheduler attribute) dump_config_to_stream() (in module imsi.utils.dict_tools) dump_config_to_string() (in module imsi.utils.dict_tools)

E

ensure_git_config() (in module imsi.utils.git_tools) experiment (imsi.config_manager.config_manager.Configuration attribute)

ExperimentFactory (class in imsi.config_manager.config_manager) extract_utility_files() (in module imsi.shell_interface.shell_inputs_outputs)

F

flatten() (in module imsi.utils.dict_tools)

G

generate_compilation_template() (in module imsi.shell_interface.shell_comp_environment) generate_computational_environment() (in module imsi.shell_interface.shell_comp_environment) generate_computational_environment_controller() (in module imsi.shell_interface.shell_comp_environment) generate_diag_parameters_content() (in module imsi.shell_interface.shell_diag_parameters) generate_directory_packing_content() (in module imsi.shell_interface.shell_inputs_outputs) generate_final_file_saving_content() (in module imsi.shell_interface.shell_inputs_outputs) generate_flattened_config() (in module imsi.shell_interface.shell_config_parameters) generate_input_script_content() (in module imsi.shell_interface.shell_inputs_outputs) generate_shell_parameters() (in module imsi.shell_interface.shell_config_parameters) get_active_venv() (in module imsi.utils.general) get_all_state_files() (in module imsi.user_interface.ui_manager) get_config_extension() (in module imsi.utils.dict_tools) get_current_imsi_version() (in module imsi.user_interface.ui_manager) get_date_string() (in module imsi.utils.general) get_default_postproc() (imsi.config_manager.config_manager.PostprocFactory static method)

get_head_hash() (in module imsi.utils.git_tools) get_init_src_descr() (in module imsi.user_interface.ui_manager) get_init_src_state() (in module imsi.user_interface.ui_manager) get_init_state_files() (in module imsi.user_interface.ui_manager) get_init_state_folder() (in module imsi.user_interface.ui_manager) get_init_state_hash() (in module imsi.user_interface.ui_manager) get_pip_freeze() (in module imsi.utils.general) get_repo_name() (in module imsi.utils.git_tools) get_required_imsi_version() (in module imsi.user_interface.ui_manager) get_sequencer_status() (in module imsi.user_interface.ui_manager) get_setup_param() (in module imsi.user_interface.ui_manager) get_stateful_folder_files() (in module imsi.user_interface.ui_manager) get_unique_key_value() (imsi.config_manager.config_manager.Configuration method) git_add_all() (in module imsi.utils.git_tools) git_add_commit() (in module imsi.utils.git_tools) GitException

I

imsi.cli module imsi.config_manager.config_manager module imsi.scheduler_interface.schedulers module imsi.sequencer_interface.iss_cap module imsi.sequencer_interface.sequencers module imsi.shell_interface.shell_comp_environment module imsi.shell_interface.shell_config_parameters module imsi.shell_interface.shell_diag_parameters module imsi.shell_interface.shell_inputs_outputs module imsi.shell_interface.shell_interface_manager module

imsi.shell_interface.shell_interface_utilities module imsi.user_interface.ui_manager module imsi.utils.dict_tools module imsi.utils.general module imsi.utils.git_tools module imsi.utils.nml_tools module IMSISimpleSequencerInterface (class in imsi.sequencer_interface.iss_cap) init_repo() (in module imsi.utils.git_tools) is_broken_symlink() (in module imsi.utils.general) is_git_repo() (in module imsi.utils.git_tools) is_path() (in module imsi.utils.general) is_repo_clean() (in module imsi.utils.git_tools) is_root_of() (in module imsi.utils.general) is_sha1() (in module imsi.utils.git_tools)

J

job_directives (imsi.scheduler_interface.schedulers.BatchJob attribute)

L

list_dir_contents() (in module imsi.utils.general) load_config_file() (in module imsi.utils.dict_tools) load_configuration() (imsi.config_manager.config_manager.ConfigManager method)

load_json() (in module imsi.utils.dict_tools) load_state() (imsi.config_manager.config_manager.ConfigManager method) load_yaml() (in module imsi.utils.dict_tools)

M

machine (imsi.config_manager.config_manager.Configuration attribute) main() (in module imsi.scheduler_interface.schedulers) model (imsi.config_manager.config_manager.Configuration attribute) model_config (imsi.config_manager.config_manager.Configuration attribute) (imsi.user_interface.ui_manager.Override attribute) model_post_init() (imsi.config_manager.config_manager.Configuration method) module imsi.cli imsi.config_manager.config_manager imsi.scheduler_interface.schedulers imsi.sequencer_interface.iss_cap imsi.sequencer_interface.sequencers imsi.shell_interface.shell_comp_environment imsi.shell_interface.shell_config_parameters imsi.shell_interface.shell_diag_parameters imsi.shell_interface.shell_inputs_outputs imsi.shell_interface.shell_interface_manager imsi.shell_interface.shell_interface_utilities imsi.user_interface.ui_manager imsi.utils.dict_tools imsi.utils.general imsi.utils.git_tools imsi.utils.nml_tools

N

name (imsi.scheduler_interface.schedulers.PBSScheduler attribute) (imsi.scheduler_interface.schedulers.Scheduler attribute) (imsi.scheduler_interface.schedulers.SLURMScheduler attribute)

nested_get() (in module imsi.utils.dict_tools) nml_read() (in module imsi.utils.nml_tools) nml_update() (in module imsi.utils.nml_tools) nml_write() (in module imsi.utils.nml_tools)

O

options (imsi.user_interface.ui_manager.Override attribute) output_redirect (imsi.scheduler_interface.schedulers.PBSScheduler attribute) (imsi.scheduler_interface.schedulers.Scheduler attribute) (imsi.scheduler_interface.schedulers.SLURMScheduler attribute)

Override (class in imsi.user_interface.ui_manager)

P

parse_config_inheritance() (in module imsi.utils.dict_tools) parse_config_inheritance_org() (in module imsi.utils.dict_tools) parse_memory_string_to_bytes() (in module imsi.utils.general) parse_override() (in module imsi.user_interface.ui_manager) parse_override_options() (in module imsi.user_interface.ui_manager) parse_state_components() (in module imsi.user_interface.ui_manager) parse_var() (in module imsi.utils.dict_tools)

parse_vars() (in module imsi.utils.dict_tools) PBSScheduler (class in imsi.scheduler_interface.schedulers) postproc (imsi.config_manager.config_manager.Configuration attribute) PostprocFactory (class in imsi.config_manager.config_manager) print_dict_as_config() (in module imsi.utils.dict_tools) process_cpp_file() (in module imsi.shell_interface.shell_inputs_outputs) process_model_config_files() (in module imsi.shell_interface.shell_inputs_outputs) process_namelist_file() (in module imsi.shell_interface.shell_inputs_outputs)

Q

query_queue() (imsi.scheduler_interface.schedulers.PBSScheduler method) (imsi.scheduler_interface.schedulers.Scheduler method) (imsi.scheduler_interface.schedulers.SLURMScheduler method)

query_time() (in module imsi.user_interface.ui_manager) queue_info_command (imsi.scheduler_interface.schedulers.PBSScheduler attribute) (imsi.scheduler_interface.schedulers.Scheduler attribute) (imsi.scheduler_interface.schedulers.SLURMScheduler attribute)

R

recursive_lookup() (in module imsi.utils.dict_tools) reload_config_from_source() (in module imsi.user_interface.ui_manager) remove_folder() (in module imsi.utils.general) replace_curlies_in_dict() (in module imsi.utils.dict_tools)

replace_variables() (in module imsi.utils.dict_tools) replace_variables_in_string() (in module imsi.utils.dict_tools) repo_has_commits() (in module imsi.utils.git_tools) resolve_inheritance() (in module imsi.utils.dict_tools)

S

save_config_data() (in module imsi.utils.dict_tools) save_configuration() (imsi.config_manager.config_manager.ConfigManager class method) save_restarts() (in module imsi.user_interface.ui_manager) save_state() (imsi.config_manager.config_manager.ConfigManager class method) Scheduler (class in imsi.scheduler_interface.schedulers) Sequencer (class in imsi.sequencer_interface.sequencers) sequencing (imsi.config_manager.config_manager.Configuration attribute) SequencingFactory (class in imsi.config_manager.config_manager) set_flow_config() (imsi.config_manager.config_manager.SequencingFactory static method) set_selections() (in module imsi.user_interface.ui_manager) set_sequencer_config() (imsi.config_manager.config_manager.SequencingFactory static method) set_shell_config() (in module imsi.shell_interface.shell_config_parameters) setup() (imsi.sequencer_interface.iss_cap.IMSISimpleSequencerInterface method) (imsi.sequencer_interface.sequencers.Sequencer method)

setup_params (imsi.config_manager.config_manager.Configuration attribute) SLURMScheduler (class in imsi.scheduler_interface.schedulers) status() (imsi.sequencer_interface.iss_cap.IMSISimpleSequencerInterface method) (imsi.sequencer_interface.sequencers.Sequencer method) submission_command (imsi.scheduler_interface.schedulers.PBSScheduler attribute) (imsi.scheduler_interface.schedulers.Scheduler attribute) (imsi.scheduler_interface.schedulers.SLURMScheduler attribute) submit() (imsi.scheduler_interface.schedulers.PBSScheduler method) (imsi.scheduler_interface.schedulers.Scheduler method) (imsi.scheduler_interface.schedulers.SLURMScheduler method) (imsi.sequencer_interface.iss_cap.IMSISimpleSequencerInterface method) (imsi.sequencer_interface.sequencers.Sequencer method) submit_run() (in module imsi.user_interface.ui_manager)

T

tapeload_rs() (in module imsi.user_interface.ui_manager)

U

update() (in module imsi.utils.dict_tools) update_config_from_state() (in module imsi.user_interface.ui_manager)

update_env_file() (in module imsi.utils.nml_tools) user_script (imsi.scheduler_interface.schedulers.BatchJob attribute) utilities (imsi.config_manager.config_manager.Configuration attribute)

V

validate_options() (imsi.user_interface.ui_manager.Override class method)

validate_version_reqs() (in module imsi.user_interface.ui_manager) verify_sequencing_structure() (imsi.config_manager.config_manager.SequencingFactory static method)

W

write_shell_script() (in module imsi.utils.general)

write_shell_string() (in module imsi.utils.general)

Y

yes_or_no() (in module imsi.utils.general)