fr.profi.mzdb.io.writer.mgf

Class MgfWriter

java.lang.Object

fr.profi.mzdb.io.writer.mgf.MgfWriter

public class MgfWriter
extends Object

Author:

MDB

Field Summary

Fields

Modifier and Type	Field and Description
static String	LINE_SPERATOR

Constructor Summary

Constructors

Constructor and Description
MgfWriter(String mzDBFilePath)
MgfWriter(String mzDBFilePath, int msLevel)

Method Summary

Modifier and Type	Method and Description
MzDbReader	getMzDbReader()
protected String	stringifySpectrum(Spectrum spectrum, DataEncoding dataEnc, IPrecursorComputation precComp, float intensityCutoff, boolean exportProlineTitle)
void	write(String mgfFile, IPrecursorComputation precComp, float intensityCutoff, boolean exportProlineTitle)
void	write(String mgfFile, PrecursorMzComputationEnum precComp, float mzTolPPM, float intensityCutoff, boolean exportProlineTitle)

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

LINE_SPERATOR

public static String LINE_SPERATOR

Constructor Detail

MgfWriter

public MgfWriter(String mzDBFilePath,
                 int msLevel)
          throws com.almworks.sqlite4java.SQLiteException,
                 FileNotFoundException,
                 ClassNotFoundException

Parameters:

mzDBFilePath -

msLevel -

Throws:

com.almworks.sqlite4java.SQLiteException

FileNotFoundException

ClassNotFoundException

MgfWriter

public MgfWriter(String mzDBFilePath)
          throws com.almworks.sqlite4java.SQLiteException,
                 FileNotFoundException,
                 ClassNotFoundException

Throws:

com.almworks.sqlite4java.SQLiteException

FileNotFoundException

ClassNotFoundException

Method Detail

getMzDbReader

public MzDbReader getMzDbReader()

write

public void write(String mgfFile,
                  PrecursorMzComputationEnum precComp,
                  float mzTolPPM,
                  float intensityCutoff,
                  boolean exportProlineTitle)
           throws com.almworks.sqlite4java.SQLiteException,
                  IOException

Throws:

com.almworks.sqlite4java.SQLiteException

IOException

write

public void write(String mgfFile,
                  IPrecursorComputation precComp,
                  float intensityCutoff,
                  boolean exportProlineTitle)
           throws com.almworks.sqlite4java.SQLiteException,
                  IOException

Throws:

com.almworks.sqlite4java.SQLiteException

IOException

stringifySpectrum

protected String stringifySpectrum(Spectrum spectrum,
                                   DataEncoding dataEnc,
                                   IPrecursorComputation precComp,
                                   float intensityCutoff,
                                   boolean exportProlineTitle)
                            throws com.almworks.sqlite4java.SQLiteException,
                                   StreamCorruptedException

Parameters:

spectrum -

dataEnc -

precComp -

intensityCutoff -

Returns:

Throws:

com.almworks.sqlite4java.SQLiteException

StreamCorruptedException