core::import_pose::pose_stream Namespace Reference

Classes
class	ExtendedPoseInputStream
class	LazySilentFilePoseInputStream
class	MetaPoseInputStream
class	PDBPoseInputStream
class	PoseInputStream
class	SilentFilePoseInputStream

Typedefs
using	string = std::string
using	FileName = utility::file::FileName
typedef utility::pointer::shared_ptr < LazySilentFilePoseInputStream >	LazySilentFilePoseInputStreamOP
typedef utility::pointer::shared_ptr < PDBPoseInputStream >	PDBPoseInputStreamOP
typedef utility::pointer::shared_ptr < PoseInputStream >	PoseInputStreamOP
typedef utility::pointer::shared_ptr < SilentFilePoseInputStream >	SilentFilePoseInputStreamOP

Functions
static basic::Tracer	tr ("core.io.pose_stream.lazy_silent_file")
static basic::Tracer	tr ("core.io.pose_stream.silent")
utility::vector1 < utility::file::FileName >	filenames_from_list_file (utility::vector1< utility::file::FileName > const &list_fns)
MetaPoseInputStream	streams_from_cmd_line (bool const do_renumber_decoys)
	Get all input streams based on command-line input. More...
MetaPoseInputStream	streams_from_cmd_line ()
	Get all input streams based on command-line input, sorting silent file decoys in alphabetical order of tags. More...

Typedef Documentation

typedef utility::file::FileName core::import_pose::pose_stream::FileName

typedef utility::pointer::shared_ptr< LazySilentFilePoseInputStream > core::import_pose::pose_stream::LazySilentFilePoseInputStreamOP

typedef utility::pointer::shared_ptr< PDBPoseInputStream > core::import_pose::pose_stream::PDBPoseInputStreamOP

typedef utility::pointer::shared_ptr< PoseInputStream > core::import_pose::pose_stream::PoseInputStreamOP

typedef utility::pointer::shared_ptr< SilentFilePoseInputStream > core::import_pose::pose_stream::SilentFilePoseInputStreamOP

typedef std::string core::import_pose::pose_stream::string

Function Documentation

utility::vector1< utility::file::FileName > core::import_pose::pose_stream::filenames_from_list_file

(

utility::vector1< utility::file::FileName > const &

list_fns

)

References protocols::abinitio::filename().

Referenced by streams_from_cmd_line().

MetaPoseInputStream core::import_pose::pose_stream::streams_from_cmd_line

(

bool const

do_renumber_decoys

)

Get all input streams based on command-line input.

If do_renumber_decoys is true, silent file decoys are sorted in alphabetical order of tags.

If renumber_decoys is true, silent file decoys are sorted in alphabetical order of tags.

References core::sequence::end, filenames_from_list_file(), and core::sequence::read_fasta_file().

Referenced by protocols::loophash::LoopHashLibrary::create_db(), protocols::energy_based_clustering::EnergyBasedClusteringProtocol::do_initial_import_and_scoring(), protocols::jd2::PoseInputStreamJobInputter::fill_jobs(), protocols::loophash::MPI_LoopHashRefine::load_structures_from_cmdline_into_library(), protocols::mpi_refinement::MPI_Refinement::load_structures_from_cmdline_into_library(), protocols::jobdist::not_universal_main(), protocols::wum::SilentStructStore::read_from_cmd_line(), and streams_from_cmd_line().

MetaPoseInputStream core::import_pose::pose_stream::streams_from_cmd_line

(

)

Get all input streams based on command-line input, sorting silent file decoys in alphabetical order of tags.

References streams_from_cmd_line().

static basic::Tracer core::import_pose::pose_stream::tr ( "core.io.pose_stream.silent"  )

static

static basic::Tracer core::import_pose::pose_stream::tr ( "core.io.pose_stream.lazy_silent_file"  )

static

Referenced by core::import_pose::pose_stream::LazySilentFilePoseInputStream::fill_pose(), core::import_pose::pose_stream::SilentFilePoseInputStream::fill_pose(), core::import_pose::pose_stream::SilentFilePoseInputStream::read_all_files_(), and core::import_pose::pose_stream::SilentFilePoseInputStream::set_silent_file_data().