pyrosetta.distributed.cluster.converter_tasks Namespace Reference

Functions
def	get_protocols_list_of_str
def	get_scores_dict
def	get_yml
def	to_iterable
def	_catch_pose
def	_iterate
def	to_int
def	_is_int
def	to_packed
def	_to_packed
def	_is_packed
def	_none_to_packed
def	to_str
def	_to_int
def	_to_float
def	parse_input_file_to_protocols_str
def	_parse_str
def	parse_input_file_to_instance_kwargs
def	parse_scorefile
def	parse_decoy_name
def	_from_str
def	reserve_scores_in_results
def	_parse_packed
def	_parse_iterable
def	_default_none
def	parse_client
def	_default
def	parse_input_packed_pose
def	_from_packed_or_none
def	_from_pose
def	parse_instance_kwargs
def	_parse_dict

Variables
string	__author__ = "Jason C. Klima"
string	__email__ = "klima.jason@gmail.com"
tuple	ClientType = TypeVar("ClientType", bound=distributed.client.Client)

Function Documentation

def pyrosetta.distributed.cluster.converter_tasks._catch_pose (   obj )

private

Referenced by pyrosetta.distributed.cluster.converter_tasks.to_iterable().

def pyrosetta.distributed.cluster.converter_tasks._default (   obj )

private

def pyrosetta.distributed.cluster.converter_tasks._default_none (   obj )

private

References pyrosetta.distributed.cluster.converter_tasks.to_packed().

Referenced by pyrosetta.distributed.cluster.converter_tasks._parse_dict(), pyrosetta.distributed.cluster.converter_tasks._parse_iterable(), pyrosetta.distributed.cluster.converters._parse_pyrosetta_build(), pyrosetta.distributed.cluster.converters._parse_scratch_dir(), pyrosetta.distributed.cluster.converters._parse_sha1(), and pyrosetta.distributed.cluster.converters._parse_system_info().

def pyrosetta.distributed.cluster.converter_tasks._from_packed_or_none (   obj )

private

def pyrosetta.distributed.cluster.converter_tasks._from_pose (   obj )

private

def pyrosetta.distributed.cluster.converter_tasks._from_str (   obj )

private

References pyrosetta.distributed.cluster.converter_tasks.reserve_scores_in_results().

def pyrosetta.distributed.cluster.converter_tasks._is_int (   obj )

private

def pyrosetta.distributed.cluster.converter_tasks._is_packed (   obj )

private

References DRRAFTER.type.

def pyrosetta.distributed.cluster.converter_tasks._iterate (   objs )

private

def pyrosetta.distributed.cluster.converter_tasks._none_to_packed (   obj )

private

def pyrosetta.distributed.cluster.converter_tasks._parse_dict (   obj )

private

References pyrosetta.distributed.cluster.converter_tasks._default_none(), and DRRAFTER.type.

def pyrosetta.distributed.cluster.converter_tasks._parse_iterable (   objs )

private

References pyrosetta.distributed.cluster.converter_tasks._default_none(), pyrosetta.distributed.cluster.converter_tasks.to_packed(), and DRRAFTER.type.

Referenced by pyrosetta.distributed.cluster.converter_tasks._parse_packed().

def pyrosetta.distributed.cluster.converter_tasks._parse_packed (   obj )

private

References pyrosetta.distributed.cluster.converter_tasks._parse_iterable(), and pyrosetta.distributed.cluster.converter_tasks.to_packed().

Referenced by pyrosetta.distributed.cluster.converter_tasks.reserve_scores_in_results().

def pyrosetta.distributed.cluster.converter_tasks._parse_str (   obj )

private

References pyrosetta.distributed.cluster.converter_tasks.get_scores_dict().

Referenced by pyrosetta.distributed.cluster.converters._parse_environment(), pyrosetta.distributed.cluster.converter_tasks.parse_input_file_to_instance_kwargs(), and pyrosetta.distributed.cluster.converter_tasks.parse_scorefile().

def pyrosetta.distributed.cluster.converter_tasks._to_float (   obj )

private

def pyrosetta.distributed.cluster.converter_tasks._to_int (   obj )

private

def pyrosetta.distributed.cluster.converter_tasks._to_packed (   obj )

private

def pyrosetta.distributed.cluster.converter_tasks.get_protocols_list_of_str

(

input_file

)

References basic::database.open(), pyrosetta.distributed.cluster.converter_tasks.parse_decoy_name(), pyrosetta.distributed.cluster.converter_tasks.parse_input_file_to_protocols_str(), and pyrosetta.distributed.cluster.converter_tasks.parse_scorefile().

Referenced by pyrosetta.distributed.cluster.tools.get_protocols().

def pyrosetta.distributed.cluster.converter_tasks.get_scores_dict

(

obj

)

Get the PyRosettaCluster scores dictionary from a .pdb or .pdb.bz2 file.

References basic::options::OptionKeys::out::path.all, pyrosetta.tests.distributed.test_dask.format, and basic::database.open().

Referenced by pyrosetta.distributed.cluster.converter_tasks._parse_str(), and pyrosetta.distributed.cluster.converter_tasks.parse_input_file_to_instance_kwargs().

def pyrosetta.distributed.cluster.converter_tasks.get_yml

(

str

)

Use `conda env export` to return a YML file string with the current conda
enviroment, excluding certain source domains.

References basic::options::OptionKeys::out::path.all.

Referenced by pyrosetta.distributed.cluster.converters._parse_environment(), and pyrosetta.distributed.cluster.tools._print_conda_warnings().

def pyrosetta.distributed.cluster.converter_tasks.parse_client

(

obj

)

References pyrosetta.tests.distributed.test_dask.format, and DRRAFTER.type.

Referenced by pyrosetta.distributed.cluster.tools.reproduce().

def pyrosetta.distributed.cluster.converter_tasks.parse_decoy_name

(

obj

)

References pyrosetta.tests.distributed.test_dask.format, and DRRAFTER.type.

Referenced by pyrosetta.distributed.cluster.tools.get_instance_kwargs(), and pyrosetta.distributed.cluster.converter_tasks.get_protocols_list_of_str().

def pyrosetta.distributed.cluster.converter_tasks.parse_input_file_to_instance_kwargs

(

obj

)

References pyrosetta.distributed.cluster.converter_tasks._parse_str(), and pyrosetta.distributed.cluster.converter_tasks.get_scores_dict().

Referenced by pyrosetta.distributed.cluster.tools.get_instance_kwargs().

def pyrosetta.distributed.cluster.converter_tasks.parse_input_file_to_protocols_str

(

obj

)

Referenced by pyrosetta.distributed.cluster.converter_tasks.get_protocols_list_of_str().

def pyrosetta.distributed.cluster.converter_tasks.parse_input_packed_pose

(

obj

)

References pyrosetta.tests.distributed.test_dask.format, and DRRAFTER.type.

Referenced by pyrosetta.distributed.cluster.tools.reproduce().

def pyrosetta.distributed.cluster.converter_tasks.parse_instance_kwargs

(

obj

)

References pyrosetta.tests.distributed.test_dask.format, and DRRAFTER.type.

Referenced by pyrosetta.distributed.cluster.tools.reproduce().

def pyrosetta.distributed.cluster.converter_tasks.parse_scorefile

(

obj

)

References pyrosetta.distributed.cluster.converter_tasks._parse_str(), pyrosetta.tests.distributed.test_dask.format, and DRRAFTER.type.

Referenced by pyrosetta.distributed.cluster.tools.get_instance_kwargs(), and pyrosetta.distributed.cluster.converter_tasks.get_protocols_list_of_str().

def pyrosetta.distributed.cluster.converter_tasks.reserve_scores_in_results

(

obj

)

References pyrosetta.distributed.cluster.converter_tasks._parse_packed().

Referenced by pyrosetta.distributed.cluster.converter_tasks._from_str(), and pyrosetta.distributed.cluster.tools.reserve_scores().

def pyrosetta.distributed.cluster.converter_tasks.to_int

(

obj

)

def pyrosetta.distributed.cluster.converter_tasks.to_iterable

(

obj

)

References pyrosetta.distributed.cluster.converter_tasks._catch_pose().

Referenced by pyrosetta.distributed.cluster.converters._parse_decoy_ids(), pyrosetta.distributed.cluster.converters._parse_empty_queue(), pyrosetta.distributed.cluster.converters._parse_protocol_results(), and pyrosetta.distributed.cluster.converters._parse_seeds().

def pyrosetta.distributed.cluster.converter_tasks.to_packed

(

obj

)

Referenced by pyrosetta.distributed.cluster.converter_tasks._default_none(), pyrosetta.distributed.cluster.converter_tasks._parse_iterable(), pyrosetta.distributed.cluster.converter_tasks._parse_packed(), pyrosetta.distributed.io.to_output_record(), and pyrosetta.distributed.io.to_pdbstring().

def pyrosetta.distributed.cluster.converter_tasks.to_str

(

obj

)

Variable Documentation

string pyrosetta.distributed.cluster.converter_tasks.__author__ = "Jason C. Klima"

string pyrosetta.distributed.cluster.converter_tasks.__email__ = "klima.jason@gmail.com"

tuple pyrosetta.distributed.cluster.converter_tasks.ClientType = TypeVar("ClientType", bound=distributed.client.Client)