fr.profi.mzdb.io.reader.cache

Class AbstractRunSliceHeaderReader

java.lang.Object

fr.profi.mzdb.io.reader.cache.MzDbEntityCacheContainer

fr.profi.mzdb.io.reader.cache.AbstractRunSliceHeaderReader

Direct Known Subclasses:

RunSliceHeaderAsyncReader, RunSliceHeaderReader

public abstract class AbstractRunSliceHeaderReader
extends MzDbEntityCacheContainer

The Class AbstractRunSliceHeaderReader.

Author:

bouyssie

Constructor Summary

Constructors

Constructor and Description
AbstractRunSliceHeaderReader(AbstractMzDbReader mzDbReader) Instantiates a new abstract run slice header reader.

Method Summary

Modifier and Type	Method and Description
protected RunSliceHeader	getRunSliceForMz(double mz, int msLevel, com.almworks.sqlite4java.SQLiteConnection connection) Gets the run slice for mz.
protected RunSliceHeader	getRunSliceHeader(int id, com.almworks.sqlite4java.SQLiteConnection connection) Gets the run slice header.
HashMap<Integer,RunSliceHeader>	getRunSliceHeaderById(int msLevel, com.almworks.sqlite4java.SQLiteConnection connection) Gets the run slice by id.
protected Map<Integer,RunSliceHeader>	getRunSliceHeaderById(com.almworks.sqlite4java.SQLiteConnection connection) Gets the run slice header by id.
protected RunSliceHeader[]	getRunSliceHeaders(int msLevel, com.almworks.sqlite4java.SQLiteConnection connection) Gets the run slices.
protected RunSliceHeader[]	getRunSliceHeaders(com.almworks.sqlite4java.SQLiteConnection connection) Gets the run slices.
protected int[]	getRunSliceIdsForMzRange(double minMz, double maxMz, int msLevel, com.almworks.sqlite4java.SQLiteConnection connection) Gets the run slice ids for mz range.

Methods inherited from class fr.profi.mzdb.io.reader.cache.MzDbEntityCacheContainer

getEntityCache, getMzDbReader

Methods inherited from class java.lang.Object

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

Constructor Detail

AbstractRunSliceHeaderReader

public AbstractRunSliceHeaderReader(AbstractMzDbReader mzDbReader)

Instantiates a new abstract run slice header reader.

Parameters:

mzDbReader - the mz db reader

Method Detail

getRunSliceHeaders

protected RunSliceHeader[] getRunSliceHeaders(com.almworks.sqlite4java.SQLiteConnection connection)
                                       throws com.almworks.sqlite4java.SQLiteException

Gets the run slices.

Parameters:

connection - the connection

Returns:

array of runSlice instance without data associated

Throws:

com.almworks.sqlite4java.SQLiteException - the SQLite exception

getRunSliceHeaders

protected RunSliceHeader[] getRunSliceHeaders(int msLevel,
                                              com.almworks.sqlite4java.SQLiteConnection connection)
                                       throws com.almworks.sqlite4java.SQLiteException

Gets the run slices.

Parameters:

msLevel - the ms level

connection - the connection

Returns:

array of runSlice instance without data associated

Throws:

com.almworks.sqlite4java.SQLiteException - the SQLite exception

getRunSliceHeaderById

public HashMap<Integer,RunSliceHeader> getRunSliceHeaderById(int msLevel,
                                                             com.almworks.sqlite4java.SQLiteConnection connection)
                                                      throws com.almworks.sqlite4java.SQLiteException

Gets the run slice by id.

Parameters:

msLevel - the ms level

connection - the connection

Returns:

the run slice by id

Throws:

com.almworks.sqlite4java.SQLiteException - the sQ lite exception

getRunSliceHeaderById

protected Map<Integer,RunSliceHeader> getRunSliceHeaderById(com.almworks.sqlite4java.SQLiteConnection connection)
                                                     throws com.almworks.sqlite4java.SQLiteException

Gets the run slice header by id.

Parameters:

connection - the connection

Returns:

the run slice header by id

Throws:

com.almworks.sqlite4java.SQLiteException - the sQ lite exception

getRunSliceHeader

protected RunSliceHeader getRunSliceHeader(int id,
                                           com.almworks.sqlite4java.SQLiteConnection connection)
                                    throws com.almworks.sqlite4java.SQLiteException

Gets the run slice header.

Parameters:

id - the id

connection - the connection

Returns:

the run slice header

Throws:

com.almworks.sqlite4java.SQLiteException - the sQ lite exception

getRunSliceForMz

protected RunSliceHeader getRunSliceForMz(double mz,
                                          int msLevel,
                                          com.almworks.sqlite4java.SQLiteConnection connection)
                                   throws com.almworks.sqlite4java.SQLiteException

Gets the run slice for mz.

Parameters:

mz - the mz

msLevel - the ms level

connection - the connection

Returns:

the run slice for mz

Throws:

com.almworks.sqlite4java.SQLiteException - the sQ lite exception

getRunSliceIdsForMzRange

protected int[] getRunSliceIdsForMzRange(double minMz,
                                         double maxMz,
                                         int msLevel,
                                         com.almworks.sqlite4java.SQLiteConnection connection)
                                  throws com.almworks.sqlite4java.SQLiteException

Gets the run slice ids for mz range.

Parameters:

minMz - the min mz

maxMz - the max mz

msLevel - the ms level

connection - the connection

Returns:

the run slice ids for mz range

Throws:

com.almworks.sqlite4java.SQLiteException - the sQ lite exception