Classes | Typedefs | Functions
protocols::jd3::pose_inputters Namespace Reference


class  PDBPoseInputter
 This is the simplest implementation of PoseInputter, which reads from -s/-l and PDB files. These can be any Protein Data Bank file type: .pdb, .cif, .mmtf. More...
class  PDBPoseInputterCreator
class  PoseInputSource
 The PoseInputSource is a small class for holding data about the starting Pose for a Job and where it comes from (i.e. which of the PoseInputters claims responsibility for creating a Pose for this instance). The "input_tag" is a string description of the input source and will be used as the "job_tag" to control output – the input tag should not include the file extension. It is perfectly reasonable for complex PoseInputters to subclass from PoseInputSource to tuck more complex data in the PoseInputSource, though, the string-string map ought to provide considerable flexibility in storing data without deriving new subclasses. More...
class  PoseInputter
 The PoseInputter is responsible for reading from the command line a set of structures that are each to be run through a protocol, where each input struture will be the starting point for some number of jobs (where that number is at the JobQueen's discretion). The PoseInputter is responsible for two things: More...
class  PoseInputterCreator
class  PoseInputterRegistrator
 This templated class will register an instance of an PoseInputterCreator (class T) with the PoseInputterFactory. It will ensure that no PoseInputterCreator is registered twice, and, centralizes this registration logic so that thread safety issues can be handled in one place. More...
class  PoseInputterFactory
class  SilentFilePoseInputter
class  SilentFilePoseInputterCreator


typedef utility::pointer::shared_ptr< PDBPoseInputterPDBPoseInputterOP
typedef utility::pointer::shared_ptr< PDBPoseInputter const > PDBPoseInputterCOP
typedef utility::pointer::shared_ptr< PoseInputSourcePoseInputSourceOP
typedef utility::pointer::shared_ptr< PoseInputSource const > PoseInputSourceCOP
typedef utility::vector1< PoseInputSourceOPPoseInputSources
typedef utility::pointer::shared_ptr< PoseInputterPoseInputterOP
typedef utility::pointer::shared_ptr< PoseInputter const > PoseInputterCOP
typedef utility::vector1< std::pair< PoseInputSourceOP, PoseInputterOP > > PoseInputSourcesAndInputters
typedef utility::pointer::shared_ptr< PoseInputterCreatorPoseInputterCreatorOP
typedef utility::pointer::shared_ptr< PoseInputterCreator const > PoseInputterCreatorCOP
typedef utility::pointer::shared_ptr< SilentFilePoseInputterSilentFilePoseInputterOP
typedef utility::pointer::shared_ptr< SilentFilePoseInputter const > SilentFilePoseInputterCOP


static basic::Tracer TR ("protocols.jd3.pose_inputter.PDBPoseInputter")
void pose_inputter_xsd_type_definition_w_attributes (utility::tag::XMLSchemaDefinition &xsd, std::string const &inputter_type, std::string const &description, utility::tag::AttributeList const &attributes)
 Define the XML schema definition for a PoseInputter that contains no subtags but may contain any number of attributes (aka options). More...
static basic::Tracer TR ("protocols.jd3.pose_inputters.PoseInputterFactory")

Typedef Documentation

◆ PDBPoseInputterCOP

typedef utility::pointer::shared_ptr< PDBPoseInputter const > protocols::jd3::pose_inputters::PDBPoseInputterCOP

◆ PDBPoseInputterOP

typedef utility::pointer::shared_ptr< PDBPoseInputter > protocols::jd3::pose_inputters::PDBPoseInputterOP

◆ PoseInputSourceCOP

typedef utility::pointer::shared_ptr< PoseInputSource const > protocols::jd3::pose_inputters::PoseInputSourceCOP

◆ PoseInputSourceOP

typedef utility::pointer::shared_ptr< PoseInputSource > protocols::jd3::pose_inputters::PoseInputSourceOP

◆ PoseInputSources

◆ PoseInputSourcesAndInputters

◆ PoseInputterCOP

typedef utility::pointer::shared_ptr< PoseInputter const > protocols::jd3::pose_inputters::PoseInputterCOP

◆ PoseInputterCreatorCOP

typedef utility::pointer::shared_ptr< PoseInputterCreator const > protocols::jd3::pose_inputters::PoseInputterCreatorCOP

◆ PoseInputterCreatorOP

◆ PoseInputterOP

typedef utility::pointer::shared_ptr< PoseInputter > protocols::jd3::pose_inputters::PoseInputterOP

◆ SilentFilePoseInputterCOP

◆ SilentFilePoseInputterOP

Function Documentation

◆ pose_inputter_xsd_type_definition_w_attributes()

void protocols::jd3::pose_inputters::pose_inputter_xsd_type_definition_w_attributes ( utility::tag::XMLSchemaDefinition &  xsd,
std::string const &  inputter_type,
std::string const &  description,
utility::tag::AttributeList const &  attributes 

◆ TR() [1/2]

static basic::Tracer protocols::jd3::pose_inputters::TR ( "protocols.jd3.pose_inputter.PDBPoseInputter"  )

◆ TR() [2/2]

static basic::Tracer protocols::jd3::pose_inputters::TR ( "protocols.jd3.pose_inputters.PoseInputterFactory"  )