Struct SequenceProcessor¶

Defined in File SequenceProcessor.h

Inheritance Relationships¶

Base Types¶

public SmartPeak::IProcessorDescription (Struct IProcessorDescription)
public SmartPeak::IFilenamesHandler (Struct IFilenamesHandler)

Derived Types¶

public SmartPeak::LoadSequence (Struct LoadSequence)
public SmartPeak::LoadWorkflow (Struct LoadWorkflow)
public SmartPeak::ProcessSampleGroups (Struct ProcessSampleGroups)
public SmartPeak::ProcessSequence (Struct ProcessSequence)
public SmartPeak::ProcessSequenceSegments (Struct ProcessSequenceSegments)
public SmartPeak::StoreSequence (Struct StoreSequence)
public SmartPeak::StoreWorkflow (Struct StoreWorkflow)

Struct Documentation¶

struct SequenceProcessor : public SmartPeak::IProcessorDescription, public SmartPeak::IFilenamesHandler ¶

Subclassed by SmartPeak::LoadSequence, SmartPeak::LoadWorkflow, SmartPeak::ProcessSampleGroups, SmartPeak::ProcessSequence, SmartPeak::ProcessSequenceSegments, SmartPeak::StoreSequence, SmartPeak::StoreWorkflow

Public Functions

inline explicit SequenceProcessor(SequenceHandler &sh)¶

virtual ~SequenceProcessor() = default¶

virtual void process(Filenames &filenames_I)¶

inline virtual ParameterSet getParameterSchema() const override¶: Get the Schema (possible, default parameters) of the processor.

inline virtual std::vector<std::string> getFilenameRequirements() const override¶: Returns the list of file ids that has to be defined prior to be process.

inline virtual std::set<std::string> getInputs() const override¶: Returns the list of data type accepted as input.

inline virtual std::set<std::string> getOutputs() const override¶: Returns the list of data type produced as output.

inline virtual void getFilenames(Filenames &filenames) const override¶: add files handled by the processor to the Filnames instance

Public Members

SequenceHandler *sequenceHandler_IO = nullptr¶

Protected Functions

virtual void doProcess(Filenames &filenames_I) = 0¶: Sequence handler, used by all SequenceProcessor derived classes.