object.common
Class Biostats

java.lang.Object
  object.common.Biostats

All Implemented Interfaces:

java.io.Serializable

public class Biostats
extends java.lang.Object
implements java.io.Serializable

Description
Biostats Objects : results of a statistical analysis
Infos : KLB - IPMC - 08/2007

See Also:

Serialized Form

Field Summary

private java.lang.String	background Background normalization method of Biostats Object
private java.lang.String	biostats_file Path of biostats file
private int	biostats_id ID of Biostats Object
private java.lang.String	biostats_ref reference of Biostats Object
private java.lang.String	excel_file Path of excel file
private java.util.Hashtable	hashCols Hashtable containing first line of biostats files
private java.lang.String	interslide Interslide normalization method of Biostats Object
private java.lang.String	intraslide Intraslide normalization method of Biostats Object
private java.lang.String	limma_M Path to limma M normalized file
protected static java.lang.String	pathBiostats
protected static java.lang.String	pathTmp
private java.lang.String	pdf_file Path of .pdf file
private int	project_order_id ID of Project_order Object owner of this analysis
private java.lang.String	r_script Path of R script file
private java.lang.String	serie_file Path of serie file
private java.lang.String	spottype_file Path of spottype file
private java.lang.String	tmpDir
private java.lang.String	type Type of normalized files

Constructor Summary

Biostats()
Default constructor

Biostats(int biostats_id)
Constructs a Biostats object from a Biostats ID

Method Summary

void	delete(int project_order_id) This function delete a Biostats Object if project_order_id received is the project_order_id for this Biostats Object.
java.lang.String	getBackground() Background normalization method of Biostats Object
java.lang.String	getBiostats_file() Path of biostats file
int	getBiostats_id() ID of Biostats Object
java.lang.String	getBiostats_ref() Reference of Biostats Object
java.lang.String	getExcel_file() Path of excel file
java.util.Hashtable	getHashBSData() This function return a Hashtable containing data contains in the this.biostats_file file.
java.util.Hashtable	getHashCols() Hashtable containing first line of biostats files
java.lang.String	getInterslide() Interslide normalization method of Biostats Object
java.lang.String	getIntraslide() Intraslide normalization method of Biostats Object
java.lang.String	getLimma_M() Path of Limma M normalized file
java.lang.String	getPdf_file() Path of R script file
int	getProject_order_id() ID of Project_order Object owner of this analysis
java.lang.String	getR_script() Path of R script file
java.lang.String	getSerie_file() Path of serie file
java.lang.String	getSpottype_file() Path of spottype file
java.lang.String	getTmpDir() tmp DIR in case of Mediante online Rstat production
java.lang.String	getType() Type of normalized files
boolean	save() This function save or update this Biostats Object into database
void	setBackground(java.lang.String background)
void	setBiostats_file(java.lang.String biostats_file)
void	setBiostats_id(int biostats_id)
void	setBiostats_ref(java.lang.String biostats_ref)
void	setExcel_file(java.lang.String excel_file)
void	setHashCols(java.util.Hashtable hashCols)
void	setInterslide(java.lang.String interslide)
void	setIntraslide(java.lang.String intraslide)
void	setLimma_M(java.lang.String limma_M)
void	setPdf_file(java.lang.String pdf_file)
void	setProject_order_id(int project_order_id)
void	setR_script(java.lang.String r_script)
void	setSerie_file(java.lang.String serie_file)
void	setSpottype_file(java.lang.String spottype_file)
void	setStaticParams(java.util.Hashtable configFields) Initialize static parameters from the configuration file - pathTmp - pathBiostats
void	setTmpDir(java.lang.String tmpDir)
void	setType(java.lang.String type)

Methods inherited from class java.lang.Object

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

Field Detail

biostats_id

private int biostats_id

ID of Biostats Object

project_order_id

private int project_order_id

ID of Project_order Object owner of this analysis

biostats_ref

private java.lang.String biostats_ref

reference of Biostats Object

background

private java.lang.String background

Background normalization method of Biostats Object

intraslide

private java.lang.String intraslide

Intraslide normalization method of Biostats Object

interslide

private java.lang.String interslide

Interslide normalization method of Biostats Object

type

private java.lang.String type

Type of normalized files

biostats_file

private java.lang.String biostats_file

Path of biostats file

limma_M

private java.lang.String limma_M

Path to limma M normalized file

excel_file

private java.lang.String excel_file

Path of excel file

serie_file

private java.lang.String serie_file

Path of serie file

spottype_file

private java.lang.String spottype_file

Path of spottype file

r_script

private java.lang.String r_script

Path of R script file

pdf_file

private java.lang.String pdf_file

Path of .pdf file

hashCols

private java.util.Hashtable hashCols

Hashtable containing first line of biostats files

tmpDir

private java.lang.String tmpDir

pathTmp

protected static java.lang.String pathTmp

pathBiostats

protected static java.lang.String pathBiostats

Constructor Detail

Biostats

public Biostats()

Default constructor

Biostats

public Biostats(int biostats_id)

Constructs a Biostats object from a Biostats ID

Parameters:

biostats_id - ID of existing Biostats Object

Method Detail

setStaticParams

public void setStaticParams(java.util.Hashtable configFields)

Initialize static parameters from the configuration file
- pathTmp
- pathBiostats

getBiostats_id

public int getBiostats_id()

ID of Biostats Object

setBiostats_id

public void setBiostats_id(int biostats_id)

getBiostats_ref

public java.lang.String getBiostats_ref()

Reference of Biostats Object

setBiostats_ref

public void setBiostats_ref(java.lang.String biostats_ref)

getProject_order_id

public int getProject_order_id()

ID of Project_order Object owner of this analysis

setProject_order_id

public void setProject_order_id(int project_order_id)

getBackground

public java.lang.String getBackground()

Background normalization method of Biostats Object

setBackground

public void setBackground(java.lang.String background)

getIntraslide

public java.lang.String getIntraslide()

Intraslide normalization method of Biostats Object

setIntraslide

public void setIntraslide(java.lang.String intraslide)

getInterslide

public java.lang.String getInterslide()

Interslide normalization method of Biostats Object

setInterslide

public void setInterslide(java.lang.String interslide)

getType

public java.lang.String getType()

Type of normalized files

setType

public void setType(java.lang.String type)

getBiostats_file

public java.lang.String getBiostats_file()

Path of biostats file

setBiostats_file

public void setBiostats_file(java.lang.String biostats_file)

getLimma_M

public java.lang.String getLimma_M()

Path of Limma M normalized file

setLimma_M

public void setLimma_M(java.lang.String limma_M)

getExcel_file

public java.lang.String getExcel_file()

Path of excel file

setExcel_file

public void setExcel_file(java.lang.String excel_file)

getSerie_file

public java.lang.String getSerie_file()

Path of serie file

setSerie_file

public void setSerie_file(java.lang.String serie_file)

getSpottype_file

public java.lang.String getSpottype_file()

Path of spottype file

setSpottype_file

public void setSpottype_file(java.lang.String spottype_file)

getR_script

public java.lang.String getR_script()

Path of R script file

setR_script

public void setR_script(java.lang.String r_script)

getPdf_file

public java.lang.String getPdf_file()

Path of R script file

setPdf_file

public void setPdf_file(java.lang.String pdf_file)

getHashCols

public java.util.Hashtable getHashCols()

Hashtable containing first line of biostats files

setHashCols

public void setHashCols(java.util.Hashtable hashCols)

getTmpDir

public java.lang.String getTmpDir()

tmp DIR in case of Mediante online Rstat production

setTmpDir

public void setTmpDir(java.lang.String tmpDir)

getHashBSData

public java.util.Hashtable getHashBSData()

This function return a Hashtable containing data contains in the this.biostats_file file.

Returns:

Hashtable containng data with cols name as keys

save

public boolean save()

This function save or update this Biostats Object into database

Returns:

bool true if everything ok and false if error occur

delete

public void delete(int project_order_id)

This function delete a Biostats Object if project_order_id received is the project_order_id for this Biostats Object.