Index

_

__init__() (pype.exceptions.ArgumentError method) (pype.exceptions.BatchArgumentError method) (pype.exceptions.CommandError method) (pype.exceptions.EnvModulesError method) (pype.exceptions.PipelineError method) (pype.exceptions.PipelineItemError method) (pype.exceptions.PipelineVersionError method) (pype.exceptions.ProfileError method) (pype.exceptions.PypeError method) (pype.exceptions.SnippetError method) (pype.exceptions.SnippetExecutionError method) (pype.exceptions.SnippetNotFoundError method) (pype.logger.ExtLog method) (pype.logger.PypeLogger method) (pype.misc.Tee method) (pype.process.Command method) (pype.process.DockerConfig method) (pype.process.Namespace method) (pype.process.Volume method) (pype.utils.pipeline.Pipeline method), [1] (pype.utils.pipeline.PipelineItem method), [1]

A

About add_input() (pype.process.Command method) add_log() (pype.logger.PypeLogger method) add_namespace() (pype.process.Command method)

add_output() (pype.process.Command method) add_volume() (pype.process.Command method) ArgumentError Available modules

B

basename_no_extension() (in module pype.misc) bases_format() (in module pype.misc)

BatchArgumentError bind_prefix (pype.process.Volume attribute)

C

cache_dir (pype.process.DockerConfig attribute) check_exit_code() (in module pype.misc) child_close() (pype.process.Command method) close() (pype.process.Command method)

Command (class in pype.process) CommandError CommandNamespaceError Configuration

D

DefaultHelpParser (class in pype.misc)

docker_run() (pype.process.Command method) DockerConfig (class in pype.process)

E

EnvModulesError error() (pype.misc.DefaultHelpParser method)

exec_path (pype.process.DockerConfig attribute) ExtLog (class in pype.logger)

F

first() (pype.process.Namespace method)

G

generate_uid() (in module pype.misc) Get started get_module_cmd() (in module pype.process) get_module_method() (in module pype.misc)

get_modules() (in module pype.misc) get_modules_names() (in module pype.misc) get_pipelines() (in module pype.utils.pipeline) get_visible_pipelines() (in module pype.utils.pipeline)

H

has_same_basedir() (in module pype.process)

human_format() (in module pype.misc)

I

import_module() (in module pype.misc) is_in_directory() (in module pype.process)

is_singularity (pype.process.DockerConfig property) is_udocker (pype.process.DockerConfig property)

L

local_run() (pype.process.Command method)

Logs

M

module pype.exceptions pype.logger pype.misc pype.process pype.utils

module_avail() (in module pype.process) module_run() (pype.process.Command method)

N

Namespace (class in pype.process)

normalize_volumes() (pype.process.Command method)

O

output (pype.process.Volume attribute)

P

package_files() (in module pype.misc) package_modules() (in module pype.misc) path (pype.process.Volume attribute) pipe_in() (pype.process.Command method) Pipeline (class in pype.utils.pipeline) PipelineError PipelineItem (class in pype.utils.pipeline) PipelineItemError Pipelines PipelineVersionError ProfileError Profiles

program_string() (in module pype.process) pype.exceptions module pype.logger module pype.misc module pype.process module pype.utils module PypeError PypeLogger (class in pype.logger)

R

remove_mode() (pype.process.Volume method) replace_values_in_code() (pype.process.Command method)

run() (pype.process.Command method) (pype.utils.pipeline.PipelineItem method) runtime (pype.process.DockerConfig attribute)

S

singularity_volume() (pype.process.Volume method) SnippetError SnippetExecutionError

SnippetNotFoundError Snippets SubcommandHelpFormatter (class in pype.misc) submit() (pype.utils.pipeline.Pipeline method)

T

Tee (class in pype.misc)

to_str() (pype.process.Volume method) try_import() (in module pype.misc)

V

Volume (class in pype.process)

W

write() (pype.misc.Tee method)

X

xopen() (in module pype.misc)