Package fr.igred.omero.annotations

Class TableWrapper

java.lang.Object

fr.igred.omero.annotations.TableWrapper

public class TableWrapper
extends Object

Class containing the information to create a Table in OMERO.

The TableData itself is not contained, only the elements to create it, because once created the TableData cannot be altered.

To get the TableData corresponding to the elements contained use createTable.

Constructor Summary

Constructors

Constructor	Description
TableWrapper(int columnCount, String name)	Constructor of the class TableWrapper
TableWrapper(Client client, ResultsTable results, Long imageId, List<? extends Roi> ijRois)	Constructor of the class TableWrapper.
TableWrapper(Client client, ResultsTable results, Long imageId, List<? extends Roi> ijRois, String roiProperty)	Constructor of the class TableWrapper.
TableWrapper(TableData table)	Constructor of the class TableWrapper.

Method Summary

Modifier and Type	Method	Description
void	addRow(Object... os)	Adds a row to the table.
void	addRows(Client client, ResultsTable results, Long imageId, List<? extends Roi> ijRois)	Adds rows from an ImageJ ResultsTable.
void	addRows(Client client, ResultsTable results, Long imageId, List<? extends Roi> ijRois, String roiProperty)	Adds rows from an ImageJ ResultsTable.
TableData	createTable()	Creates the corresponding TableData object.
int	getColumnCount()	Returns the number of columns in the table.
String	getColumnName(int column)	Returns the name of the column.
TableDataColumn[]	getColumns()	Gets the TableDataColumn which contains information on each column of the table
Class<?>	getColumnType(int column)	Returns the type of the column.
Object[][]	getData()	Gets the value contained in the table
Object	getData(int x, int y)	Gets a certain value of the table
Long	getFileId()	Returns the fileId of the table.
Long	getId()	Returns the table ID.
String	getName()	Returns the name of the table.
int	getRowCount()	Returns the number of rows in the table.
boolean	isComplete()	Checks if the table is complete
void	saveAs(String path, char delimiter)	Saves the current table as a character-delimited text file.
void	setColumn(int column, String columnName, Class<?> type)	Sets the information about a certain column.
void	setFileId(Long fileId)	Sets the fileId of the table.
void	setId(Long id)	Sets the id of the table.
void	setName(String name)	Sets the name of the table.
void	setRowCount(int rowCount)	Sets the number of row in the table.
String	toString()	Overridden to return the name of the class and the object id.
void	truncateRow()	Deletes all unused row in the table

Methods inherited from class java.lang.Object

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

Constructor Detail

TableWrapper

public TableWrapper(int columnCount,
                    String name)

Constructor of the class TableWrapper

Parameters:

columnCount - Number of column in the table.

name - Name of the table.

TableWrapper

public TableWrapper(TableData table)

Constructor of the class TableWrapper. Uses an already existing table to create.

Parameters:

table - The table.

TableWrapper

public TableWrapper(Client client,
                    ResultsTable results,
                    Long imageId,
                    List<? extends Roi> ijRois)
             throws ServiceException,
                    AccessException,
                    ExecutionException

Constructor of the class TableWrapper. Uses an ImageJ ResultsTable to create.

Parameters:

client - The client handling the connection.

results - An ImageJ results table.

imageId - An image ID.

ijRois - A list of ImageJ Rois.

Throws:

ServiceException - Cannot connect to OMERO.

AccessException - Cannot access data.

ExecutionException - A Facility can't be retrieved or instantiated.

TableWrapper

public TableWrapper(Client client,
                    ResultsTable results,
                    Long imageId,
                    List<? extends Roi> ijRois,
                    String roiProperty)
             throws ServiceException,
                    AccessException,
                    ExecutionException

Constructor of the class TableWrapper. Uses an ImageJ ResultsTable to create.

Parameters:

client - The client handling the connection.

results - An ImageJ results table.

imageId - An image ID.

ijRois - A list of ImageJ Rois.

roiProperty - The Roi property storing the local index/label. Defaults to ROIWrapper.IJ_PROPERTY if null or empty.

Throws:

ServiceException - Cannot connect to OMERO.

AccessException - Cannot access data.

ExecutionException - A Facility can't be retrieved or instantiated.

Method Detail

toString

public String toString()

Overridden to return the name of the class and the object id.

Overrides:

toString in class Object

addRows

public void addRows(Client client,
                    ResultsTable results,
                    Long imageId,
                    List<? extends Roi> ijRois)
             throws ServiceException,
                    AccessException,
                    ExecutionException

Adds rows from an ImageJ ResultsTable.

Parameters:

client - The client handling the connection.

results - An ImageJ results table.

imageId - An image ID.

ijRois - A list of ImageJ Rois.

Throws:

ServiceException - Cannot connect to OMERO.

AccessException - Cannot access data.

ExecutionException - A Facility can't be retrieved or instantiated.

addRows

public void addRows(Client client,
                    ResultsTable results,
                    Long imageId,
                    List<? extends Roi> ijRois,
                    String roiProperty)
             throws ServiceException,
                    AccessException,
                    ExecutionException

Adds rows from an ImageJ ResultsTable.

Parameters:

client - The client handling the connection.

results - An ImageJ results table.

imageId - An image ID.

ijRois - A list of ImageJ Rois.

roiProperty - The Roi property storing the local ROI index/label. Defaults to ROIWrapper.IJ_PROPERTY if null or empty.

Throws:

ServiceException - Cannot connect to OMERO.

AccessException - Cannot access data.

ExecutionException - A Facility can't be retrieved or instantiated.

getColumns

public TableDataColumn[] getColumns()

Gets the TableDataColumn which contains information on each column of the table

Returns:

the TableDataColumn which contains information on each column of the table.

getData

public Object[][] getData()

Gets the value contained in the table

Returns:

the value contained in the table.

getData

public Object getData(int x,
                      int y)

Gets a certain value of the table

Parameters:

x - Row position.

y - Column position.

Returns:

the value at position data[y][x].

getFileId

public Long getFileId()

Returns the fileId of the table.

Returns:

See above.

setFileId

public void setFileId(Long fileId)

Sets the fileId of the table.

Parameters:

fileId - New fileId.

getId

public Long getId()

Returns the table ID.

Returns:

See above.

setId

public void setId(Long id)

Sets the id of the table.

Parameters:

id - New id.

getName

public String getName()

Returns the name of the table.

Returns:

See above.

setName

public void setName(String name)

Sets the name of the table.

Parameters:

name - New name.

getColumnCount

public int getColumnCount()

Returns the number of columns in the table.

Returns:

See above.

getColumnName

public String getColumnName(int column)

Returns the name of the column.

Parameters:

column - Column number.

Returns:

See above.

getColumnType

public Class<?> getColumnType(int column)

Returns the type of the column.

Parameters:

column - Column number.

Returns:

See above.

getRowCount

public int getRowCount()

Returns the number of rows in the table.

Returns:

See above.

setRowCount

public void setRowCount(int rowCount)

Sets the number of row in the table. Copies already existing data if some were already in the data

Parameters:

rowCount - New rowCount.

isComplete

public boolean isComplete()

Checks if the table is complete

Returns:

true if the table is completed, false if some rows are still empty.

setColumn

public void setColumn(int column,
                      String columnName,
                      Class<?> type)

Sets the information about a certain column.

Parameters:

column - Column number.

columnName - Name of the column.

type - Type of the column.

Throws:

IndexOutOfBoundsException - Column number is bigger than actual number of column in the table.

addRow

public void addRow(Object... os)

Adds a row to the table.

Parameters:

os - Value for each column for the row.

Throws:

IndexOutOfBoundsException - Table is not initialized or already full.

IllegalArgumentException - Incorrect argument number.

truncateRow

public void truncateRow()

Deletes all unused row in the table

createTable

public TableData createTable()

Creates the corresponding TableData object.

Returns:

See above.

saveAs

public void saveAs(String path,
                   char delimiter)
            throws FileNotFoundException,
                   UnsupportedEncodingException

Saves the current table as a character-delimited text file.

Parameters:

path - The path to the file where the table will be saved.

delimiter - The character used to specify the boundary between columns.

Throws:

FileNotFoundException - The requested file cannot be written.

UnsupportedEncodingException - If the UTF8 charset is not supported.