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Index
A
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C
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D
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E
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F
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G
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H
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I
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K
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L
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M
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N
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P
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R
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S
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T
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U
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V
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W
A
AbstractPlan (class in renku.core.models.workflow.plan)
activities_for_paths() (renku.core.management.repository.RepositoryApiMixin method)
Activity (class in renku.core.models.provenance.activity)
ACTIVITY_INDEX (renku.core.management.repository.RepositoryApiMixin attribute)
activity_index_path() (renku.core.management.repository.RepositoryApiMixin property)
actual_value() (renku.core.models.workflow.parameter.CommandParameterBase property)
(renku.core.models.workflow.parameter.ParameterMapping property)
actual_value_set() (renku.core.models.workflow.parameter.CommandParameterBase property)
add_command_input() (renku.core.management.workflow.plan_factory.PlanFactory method)
add_command_output() (renku.core.management.workflow.plan_factory.PlanFactory method)
add_command_output_from_input() (renku.core.management.workflow.plan_factory.PlanFactory method)
add_command_output_from_parameter() (renku.core.management.workflow.plan_factory.PlanFactory method)
add_command_parameter() (renku.core.management.workflow.plan_factory.PlanFactory method)
add_data_to_dataset() (renku.core.management.datasets.DatasetsApiMixin method)
add_explicit_inputs() (renku.core.management.workflow.plan_factory.PlanFactory method)
add_indirect_inputs() (renku.core.management.workflow.plan_factory.PlanFactory method)
add_indirect_outputs() (renku.core.management.workflow.plan_factory.PlanFactory method)
add_indirect_parameter() (in module renku.core.management.workflow.plan_factory)
add_inputs_and_parameters() (renku.core.management.workflow.plan_factory.PlanFactory method)
add_link() (renku.core.models.workflow.composite_plan.CompositePlan method)
add_mapping() (renku.core.models.workflow.composite_plan.CompositePlan method)
add_or_update_files() (renku.core.models.dataset.Dataset method)
add_outputs() (renku.core.management.workflow.plan_factory.PlanFactory method)
add_to_activity_index() (renku.core.management.repository.RepositoryApiMixin method)
Annotation (class in renku.core.models.provenance.annotation)
apply() (renku.core.models.workflow.parameter.ParameterLink method)
apply_composite_run_values() (in module renku.core.management.workflow.value_resolution)
apply_parameter_defaults() (in module renku.core.management.workflow.value_resolution)
apply_parameter_links() (in module renku.core.management.workflow.value_resolution)
apply_parameters_values() (in module renku.core.management.workflow.value_resolution)
apply_run_values() (in module renku.core.management.workflow.value_resolution)
apply_single_run_values() (in module renku.core.management.workflow.value_resolution)
assign_new_id() (renku.core.models.workflow.plan.AbstractPlan method)
C
CACHE (renku.core.management.datasets.DatasetsApiMixin attribute)
calculate_concrete_execution_graph() (renku.core.management.workflow.concrete_execution_graph.ExecutionGraph method)
candidate_paths() (renku.core.management.git.GitCore property)
check_ref_format() (renku.core.models.refs.LinkReference class method)
clear_files() (renku.core.models.dataset.Dataset method)
clear_temporary_datasets_path() (renku.core.management.datasets.DatasetsApiMixin method)
cmdline_tool_annotations() (in module renku.core.plugins.run)
Collection (class in renku.core.models.entity)
CommandInput (class in renku.core.models.workflow.parameter)
CommandInputSchema (class in renku.core.models.workflow.parameter)
CommandInputSchema.Meta (class in renku.core.models.workflow.parameter)
CommandOutput (class in renku.core.models.workflow.parameter)
CommandOutputSchema (class in renku.core.models.workflow.parameter)
CommandOutputSchema.Meta (class in renku.core.models.workflow.parameter)
CommandParameter (class in renku.core.models.workflow.parameter)
CommandParameterBase (class in renku.core.models.workflow.parameter)
CommandParameterBaseSchema (class in renku.core.models.workflow.parameter)
CommandParameterBaseSchema.Meta (class in renku.core.models.workflow.parameter)
CommandParameterSchema (class in renku.core.models.workflow.parameter)
CommandParameterSchema.Meta (class in renku.core.models.workflow.parameter)
commit() (renku.core.management.git.GitCore method)
CompositePlan (class in renku.core.models.workflow.composite_plan)
CompositePlanSchema (class in renku.core.models.workflow.composite_plan)
CompositePlanSchema.Meta (class in renku.core.models.workflow.composite_plan)
convert() (renku.core.management.workflow.converters.cwl.CWLConverter static method)
copy() (renku.core.models.dataset.Dataset method)
(renku.core.models.dataset.DatasetFile method)
create() (renku.core.models.refs.LinkReference class method)
create_dataset() (renku.core.management.datasets.DatasetsApiMixin method)
creators_csv() (renku.core.models.dataset.Dataset property)
creators_full_csv() (renku.core.models.dataset.Dataset property)
cwl_prefix() (renku.core.management.repository.RepositoryApiMixin property)
CWLConverter (class in renku.core.management.workflow.converters.cwl)
cycles() (renku.core.management.workflow.concrete_execution_graph.ExecutionGraph property)
D
data_dir (renku.core.management.repository.RepositoryApiMixin attribute)
DATABASE_PATH (renku.core.management.repository.RepositoryApiMixin attribute)
database_path() (renku.core.management.repository.RepositoryApiMixin property)
Dataset (class in renku.core.models.dataset)
DATASET_IMAGES (renku.core.management.datasets.DatasetsApiMixin attribute)
DatasetFile (class in renku.core.models.dataset)
DATASETS (renku.core.management.datasets.DatasetsApiMixin attribute)
datasets() (renku.core.management.datasets.DatasetsApiMixin property)
DATASETS_PROVENANCE (renku.core.management.datasets.DatasetsApiMixin attribute)
datasets_provenance_path() (renku.core.management.datasets.DatasetsApiMixin property)
DatasetsApiMixin (class in renku.core.management.datasets)
default_path() (in module renku.core.management.repository)
delete() (renku.core.models.refs.LinkReference method)
delete_indirect_files_list() (in module renku.core.management.workflow.plan_factory)
DEPENDENCY_GRAPH (renku.core.management.repository.RepositoryApiMixin attribute)
dependency_graph_path() (renku.core.management.repository.RepositoryApiMixin property)
derive() (renku.core.models.workflow.composite_plan.CompositePlan method)
(renku.core.models.workflow.plan.Plan method)
derive_from() (renku.core.models.dataset.Dataset method)
dirty_paths() (renku.core.management.git.GitCore property)
docker_path() (renku.core.management.repository.RepositoryApiMixin property)
DOCKERFILE (renku.core.management.repository.RepositoryApiMixin attribute)
E
ensure_clean() (renku.core.management.git.GitCore method)
ensure_unstaged() (renku.core.management.git.GitCore method)
ensure_untracked() (renku.core.management.git.GitCore method)
Entity (class in renku.core.models.entity)
ExecutionGraph (class in renku.core.management.workflow.concrete_execution_graph)
F
files() (renku.core.models.dataset.Dataset property)
filter_repo_name() (in module renku.core.models.git)
finalize_commit() (in module renku.core.management.git)
finalize_worktree() (in module renku.core.management.git)
find_attr() (renku.core.management.git.GitCore method)
find_file() (renku.core.models.dataset.Dataset method)
find_ignored_paths() (renku.core.management.git.GitCore method)
find_link_by_target() (renku.core.models.workflow.composite_plan.CompositePlan method)
find_parameter() (renku.core.models.workflow.composite_plan.CompositePlan method)
(renku.core.models.workflow.plan.AbstractPlan method)
(renku.core.models.workflow.plan.Plan method)
find_parameter_workflow() (renku.core.models.workflow.composite_plan.CompositePlan method)
(renku.core.models.workflow.plan.AbstractPlan method)
(renku.core.models.workflow.plan.Plan method)
find_previous_commit() (renku.core.management.repository.RepositoryApiMixin method)
freeze() (renku.core.models.dataset.Dataset method)
(renku.core.models.provenance.activity.Activity method)
from_client() (renku.core.models.project.Project class method)
(renku.core.models.provenance.agent.Person class method)
from_commit() (renku.core.models.provenance.agent.Person class method)
(renku.core.models.provenance.agent.SoftwareAgent class method)
from_dict() (renku.core.models.provenance.agent.Person class method)
from_git() (renku.core.models.provenance.agent.Person class method)
from_jsonld() (renku.core.models.dataset.Dataset class method)
(renku.core.models.provenance.agent.Person class method)
from_path() (renku.core.models.dataset.DatasetFile class method)
from_plan() (renku.core.models.provenance.activity.Activity class method)
from_revision() (renku.core.models.entity.Collection class method)
(renku.core.models.entity.Entity class method)
from_string() (renku.core.models.provenance.agent.Person class method)
full_identity() (renku.core.models.provenance.agent.Person property)
G
generate_id() (renku.core.models.dataset.Dataset static method)
(renku.core.models.dataset.DatasetFile static method)
(renku.core.models.entity.Collection static method)
(renku.core.models.entity.Entity static method)
(renku.core.models.project.Project static method)
(renku.core.models.provenance.activity.Activity static method)
(renku.core.models.provenance.agent.Person static method)
(renku.core.models.workflow.composite_plan.CompositePlan static method)
(renku.core.models.workflow.parameter.CommandInput static method)
(renku.core.models.workflow.parameter.CommandOutput static method)
(renku.core.models.workflow.parameter.CommandParameter static method)
(renku.core.models.workflow.parameter.MappedIOStream static method)
(renku.core.models.workflow.parameter.ParameterLink static method)
(renku.core.models.workflow.parameter.ParameterMapping static method)
(renku.core.models.workflow.plan.AbstractPlan static method)
get_dataset() (renku.core.management.datasets.DatasetsApiMixin static method)
get_directory_members() (renku.core.models.entity.Collection class method)
(renku.core.models.entity.Entity class method)
get_full_identity() (renku.core.models.provenance.agent.Person static method)
get_indirect_inputs_path() (in module renku.core.management.workflow.plan_factory)
get_indirect_outputs_path() (in module renku.core.management.workflow.plan_factory)
get_indirect_parameters_path() (in module renku.core.management.workflow.plan_factory)
get_mapped_std_streams() (in module renku.core.management.git)
get_namespace_and_name() (renku.core.models.project.Project static method)
get_stream_mapping_for_value() (renku.core.management.workflow.plan_factory.PlanFactory method)
get_template_files() (renku.core.management.repository.RepositoryApiMixin method)
get_user_info() (in module renku.core.models.git)
GitCore (class in renku.core.management.git)
GitURL (class in renku.core.models.git)
guess_type() (renku.core.management.workflow.plan_factory.PlanFactory method)
H
has_external_files() (renku.core.management.datasets.DatasetsApiMixin method)
has_graph_files() (renku.core.management.repository.RepositoryApiMixin method)
I
image() (renku.core.models.git.GitURL property)
immutable() (renku.core.models.dataset.Dataset property)
(renku.core.models.provenance.activity.Activity property)
import_from_template() (renku.core.management.repository.RepositoryApiMixin method)
init_repository() (renku.core.management.repository.RepositoryApiMixin method)
is_equal_to() (renku.core.models.dataset.DatasetFile method)
is_existing_path() (renku.core.management.workflow.plan_factory.PlanFactory method)
is_external_file() (renku.core.management.datasets.DatasetsApiMixin method)
is_project_set() (renku.core.management.repository.RepositoryApiMixin method)
is_protected_path() (renku.core.management.datasets.DatasetsApiMixin method)
is_removed() (renku.core.models.dataset.Dataset method)
(renku.core.models.dataset.DatasetFile method)
is_similar_to() (renku.core.models.workflow.plan.Plan method)
is_using_temporary_datasets_path() (renku.core.management.datasets.DatasetsApiMixin method)
is_workflow() (renku.core.management.repository.RepositoryApiMixin method)
iter_input_files() (renku.core.management.workflow.plan_factory.PlanFactory method)
iter_items() (renku.core.models.refs.LinkReference class method)
K
keywords_csv() (renku.core.models.dataset.Dataset property)
(renku.core.models.workflow.plan.Plan property)
L
latest_agent() (renku.core.management.repository.RepositoryApiMixin property)
leaf_parameters() (renku.core.models.workflow.parameter.ParameterMapping property)
LinkReference (class in renku.core.models.refs)
LocalClient (class in renku.core.management)
lock() (renku.core.management.repository.RepositoryApiMixin property)
LOCK_SUFFIX (renku.core.management.repository.RepositoryApiMixin attribute)
M
make_instance() (renku.core.models.dataset.DatasetFile class method)
(renku.core.models.entity.Collection class method)
(renku.core.models.entity.Entity class method)
(renku.core.models.provenance.agent.Person class method)
(renku.core.models.provenance.agent.SoftwareAgent class method)
map_all_inputs() (renku.core.models.workflow.composite_plan.CompositePlan method)
map_all_outputs() (renku.core.models.workflow.composite_plan.CompositePlan method)
map_all_parameters() (renku.core.models.workflow.composite_plan.CompositePlan method)
MappedIOStream (class in renku.core.models.workflow.parameter)
MappedIOStreamSchema (class in renku.core.models.workflow.parameter)
MappedIOStreamSchema.Meta (class in renku.core.models.workflow.parameter)
migration_type() (renku.core.management.repository.RepositoryApiMixin property)
model (renku.core.models.project.ProjectSchema.Meta attribute)
(renku.core.models.workflow.composite_plan.CompositePlanSchema.Meta attribute)
(renku.core.models.workflow.parameter.CommandInputSchema.Meta attribute)
(renku.core.models.workflow.parameter.CommandOutputSchema.Meta attribute)
(renku.core.models.workflow.parameter.CommandParameterBaseSchema.Meta attribute)
(renku.core.models.workflow.parameter.CommandParameterSchema.Meta attribute)
(renku.core.models.workflow.parameter.MappedIOStreamSchema.Meta attribute)
(renku.core.models.workflow.parameter.ParameterLinkSchema.Meta attribute)
(renku.core.models.workflow.parameter.ParameterMappingSchema.Meta attribute)
(renku.core.models.workflow.plan.PlanSchema.Meta attribute)
modified_paths() (renku.core.management.git.GitCore property)
module
renku.api.models.dataset
renku.api.models.project
renku.api.models.run
renku.cli
renku.cli.clone
renku.cli.config
renku.cli.dataset
renku.cli.doctor
renku.cli.exception_handler
renku.cli.githooks
renku.cli.init
renku.cli.log
renku.cli.login
renku.cli.migrate
renku.cli.move
renku.cli.remove
renku.cli.rerun
renku.cli.run
renku.cli.save
renku.cli.show
renku.cli.status
renku.cli.storage
renku.cli.update
renku.cli.workflow
renku.core.management
renku.core.management.datasets
renku.core.management.git
renku.core.management.repository
renku.core.management.workflow
renku.core.management.workflow.concrete_execution_graph
renku.core.management.workflow.converters
renku.core.management.workflow.converters.cwl
renku.core.management.workflow.plan_factory
renku.core.management.workflow.value_resolution
renku.core.models
renku.core.models.dataset
renku.core.models.entity
renku.core.models.git
renku.core.models.project
renku.core.models.provenance
renku.core.models.provenance.activity
renku.core.models.provenance.agent
renku.core.models.provenance.annotation
renku.core.models.refs
renku.core.models.workflow
renku.core.models.workflow.composite_plan
renku.core.models.workflow.parameter
renku.core.models.workflow.plan
renku.core.plugins.run
move_files() (renku.core.management.datasets.DatasetsApiMixin method)
N
name_validator() (renku.core.models.refs.LinkReference method)
P
ParameterLink (class in renku.core.models.workflow.parameter)
ParameterLinkSchema (class in renku.core.models.workflow.parameter)
ParameterLinkSchema.Meta (class in renku.core.models.workflow.parameter)
ParameterMapping (class in renku.core.models.workflow.parameter)
ParameterMappingSchema (class in renku.core.models.workflow.parameter)
ParameterMappingSchema.Meta (class in renku.core.models.workflow.parameter)
parent (renku.core.management.repository.RepositoryApiMixin attribute)
parse() (renku.core.models.git.GitURL class method)
path() (renku.core.models.refs.LinkReference property)
path_activity_cache() (renku.core.management.repository.RepositoryApiMixin property)
path_converter() (in module renku.core.management.repository)
PathMixin (class in renku.core.management.repository)
Person (class in renku.core.models.provenance.agent)
Plan (class in renku.core.models.workflow.plan)
PlanDetailsJson (class in renku.core.models.workflow.plan)
PlanFactory (class in renku.core.management.workflow.plan_factory)
PlanSchema (class in renku.core.models.workflow.plan)
PlanSchema.Meta (class in renku.core.models.workflow.plan)
POINTERS (renku.core.management.datasets.DatasetsApiMixin attribute)
pre_run() (in module renku.core.plugins.run)
prepare_commit() (in module renku.core.management.git)
prepare_git_repo() (renku.core.management.datasets.DatasetsApiMixin method)
prepare_worktree() (in module renku.core.management.git)
process_commit() (renku.core.management.repository.RepositoryApiMixin method)
process_run_annotations() (in module renku.core.plugins.run)
Project (class in renku.core.models.project)
project() (renku.core.management.repository.RepositoryApiMixin property)
ProjectSchema (class in renku.core.models.project)
ProjectSchema.Meta (class in renku.core.models.project)
PROVENANCE_GRAPH (renku.core.management.repository.RepositoryApiMixin attribute)
provenance_graph_path() (renku.core.management.repository.RepositoryApiMixin property)
R
Range (class in renku.core.models.git)
read_indirect_parameters() (in module renku.core.management.workflow.plan_factory)
reassign_oid() (renku.core.models.dataset.Dataset method)
(renku.core.models.provenance.activity.Activity method)
reference() (renku.core.models.refs.LinkReference property)
REFS (renku.core.models.refs.LinkReference attribute)
remote() (renku.core.management.repository.RepositoryApiMixin property)
remove() (renku.core.models.dataset.Dataset method)
(renku.core.models.dataset.DatasetFile method)
remove_file() (renku.core.management.datasets.DatasetsApiMixin static method)
remove_graph_files() (renku.core.management.repository.RepositoryApiMixin method)
remove_unmodified() (renku.core.management.git.GitCore method)
rename() (renku.core.models.refs.LinkReference method)
renku.api.models.dataset
module
renku.api.models.project
module
renku.api.models.run
module
renku.cli
module
renku.cli.clone
module
renku.cli.config
module
renku.cli.dataset
module
renku.cli.doctor
module
renku.cli.exception_handler
module
renku.cli.githooks
module
renku.cli.init
module
renku.cli.log
module
renku.cli.login
module
renku.cli.migrate
module
renku.cli.move
module
renku.cli.remove
module
renku.cli.rerun
module
renku.cli.run
module
renku.cli.save
module
renku.cli.show
module
renku.cli.status
module
renku.cli.storage
module
renku.cli.update
module
renku.cli.workflow
module
renku.core.management
module
renku.core.management.datasets
module
renku.core.management.git
module
renku.core.management.repository
module
renku.core.management.workflow
module
renku.core.management.workflow.concrete_execution_graph
module
renku.core.management.workflow.converters
module
renku.core.management.workflow.converters.cwl
module
renku.core.management.workflow.plan_factory
module
renku.core.management.workflow.value_resolution
module
renku.core.models
module
renku.core.models.dataset
module
renku.core.models.entity
module
renku.core.models.git
module
renku.core.models.project
module
renku.core.models.provenance
module
renku.core.models.provenance.activity
module
renku.core.models.provenance.agent
module
renku.core.models.provenance.annotation
module
renku.core.models.refs
module
renku.core.models.workflow
module
renku.core.models.workflow.composite_plan
module
renku.core.models.workflow.parameter
module
renku.core.models.workflow.plan
module
renku.core.plugins.run
module
renku_dataset_images_path() (renku.core.management.datasets.DatasetsApiMixin property)
renku_datasets_path() (renku.core.management.datasets.DatasetsApiMixin property)
renku_home (renku.core.management.repository.RepositoryApiMixin attribute)
renku_path (renku.core.management.repository.RepositoryApiMixin attribute)
renku_pointers_path() (renku.core.management.datasets.DatasetsApiMixin property)
replace_identifier() (renku.core.models.dataset.Dataset method)
repo (renku.core.management.git.GitCore attribute)
RepositoryApiMixin (class in renku.core.management.repository)
resolve_direct_reference() (renku.core.models.workflow.composite_plan.CompositePlan method)
(renku.core.models.workflow.plan.AbstractPlan method)
(renku.core.models.workflow.plan.Plan method)
resolve_in_submodules() (renku.core.management.repository.RepositoryApiMixin method)
resolve_mapping_path() (renku.core.models.workflow.composite_plan.CompositePlan method)
(renku.core.models.workflow.plan.AbstractPlan method)
(renku.core.models.workflow.plan.Plan method)
rev_parse() (renku.core.models.git.Range class method)
role() (renku.core.models.workflow.parameter.CommandParameterBase property)
S
set_dataset_images() (renku.core.management.datasets.DatasetsApiMixin method)
set_links_from_strings() (renku.core.models.workflow.composite_plan.CompositePlan method)
set_mapping_defaults() (renku.core.models.workflow.composite_plan.CompositePlan method)
set_mapping_descriptions() (renku.core.models.workflow.composite_plan.CompositePlan method)
set_mappings_from_strings() (renku.core.models.workflow.composite_plan.CompositePlan method)
set_parameters_from_strings() (renku.core.models.workflow.plan.Plan method)
set_reference() (renku.core.models.refs.LinkReference method)
set_temporary_datasets_path() (renku.core.management.datasets.DatasetsApiMixin method)
setup_credential_helper() (renku.core.management.git.GitCore method)
short_name() (renku.core.models.provenance.agent.Person property)
SoftwareAgent (class in renku.core.models.provenance.agent)
split_command_and_args() (renku.core.management.workflow.plan_factory.PlanFactory method)
subclients() (renku.core.management.repository.RepositoryApiMixin method)
submodules() (renku.core.management.repository.RepositoryApiMixin property)
T
template_checksums() (renku.core.management.repository.RepositoryApiMixin property)
to_argv() (renku.core.models.workflow.parameter.CommandParameterBase method)
(renku.core.models.workflow.plan.Plan method)
to_jsonld() (renku.core.models.dataset.Dataset method)
(renku.core.models.dataset.DatasetFile method)
to_plan() (renku.core.management.workflow.plan_factory.PlanFactory method)
to_stream_representation() (renku.core.models.workflow.parameter.CommandInput method)
(renku.core.models.workflow.parameter.CommandOutput method)
(renku.core.models.workflow.parameter.ParameterMapping method)
U
unlink_file() (renku.core.models.dataset.Dataset method)
update_dataset_git_files() (renku.core.management.datasets.DatasetsApiMixin method)
update_dataset_local_files() (renku.core.management.datasets.DatasetsApiMixin method)
update_external_files() (renku.core.management.datasets.DatasetsApiMixin method)
update_files_from() (renku.core.models.dataset.Dataset method)
update_metadata() (renku.core.models.dataset.Dataset method)
update_metadata_from() (renku.core.models.dataset.Dataset method)
V
validate_name() (renku.core.models.workflow.plan.AbstractPlan static method)
W
watch() (renku.core.management.workflow.plan_factory.PlanFactory method)
with_dataset() (renku.core.management.datasets.DatasetsApiMixin method)
with_metadata() (renku.core.management.repository.RepositoryApiMixin method)
WORKFLOW (renku.core.management.repository.RepositoryApiMixin attribute)
workflow_graph() (renku.core.management.workflow.concrete_execution_graph.ExecutionGraph property)
workflow_names() (renku.core.management.repository.RepositoryApiMixin property)
workflow_path() (renku.core.management.repository.RepositoryApiMixin property)
worktree() (renku.core.management.git.GitCore method)
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