Package net.sf.basedb.core
Enum Class VirtualTable
- All Implemented Interfaces:
Serializable
,Comparable<VirtualTable>
,Constable
This enumeration defines constants that are used to specify different
virtual tables in the dynamic part of the database used for analysis.
For each
VirtualDb
it is possible to create one real
table for each VirtualTable
constant.
The information in these objects are used
by HibernateUtil.createVirtualTable(VirtualDb, VirtualTable)
to create the extra tables needed by an experiment to store analysed
data. These objects are also used in query elements by DynamicQuery
:s
when it needs to reference a certain column in one of the dynamic tables.
- Version:
- 2.0
- Author:
- Nicklas
- See Also:
- Last modified
- $Date: 2019-03-12 07:53:27 +0100 (tis, 12 mars 2019) $
-
Nested Class Summary
Nested classes/interfaces inherited from class java.lang.Enum
Enum.EnumDesc<E extends Enum<E>>
-
Enum Constant Summary
Enum ConstantDescriptionTable that holds cloned reporter information for an experiment.Table that maps columns coordinates in a data cube to raw bioassays.Table that stores float column extra values.Table that stores integer column extra values.Table that stores string column extra values.Table that holds column/position coordinates that remains after a filtering operation has been applied to a data cube layer.Table that maps position coordinates in a data cube to reporters.Table that stores float position extra values.Table that stores integer position extra values.Table that stores string position extra values.Table that maps column/position coordinates in a data cube to the id's of the raw spots their intensities where calculated from.Table that stores spot intensities for each spot in a data cube.Table that stores float spot extra values.Table that stores integer spot extra values.Table that stores string spot extra values. -
Field Summary
Modifier and TypeFieldDescriptionprivate final String
The alias to use in queries for this table.private final VirtualColumn[]
The columns in the table.private final String
The name template, # is replaced by the ID of theVirtualDb
item. -
Constructor Summary
ModifierConstructorDescriptionprivate
VirtualTable
(String nameTemplate, String alias, VirtualColumn... columns) Creates a new virtual table. -
Method Summary
Modifier and TypeMethodDescriptiongetAlias()
Get the alias of this table.final long
getBytesPerRow
(Experiment experiment) long
getBytesPerRow
(VirtualDb vdb) Get the number of bytes a single row in the database occupies.final VirtualColumn[]
getColumns
(Experiment exp) Get all columns in this table.getColumns
(VirtualDb vdb) Get all columns in this table.Get the real table name of this table in the database, quoted and with catalog/schema information prepended to it.getTableName
(VirtualDb vdb) Get the real table name of this table in the database.boolean
hasColumn
(VirtualColumn column) Check if the specified column is part of the virtual table or not.static VirtualTable
Returns the enum constant of this class with the specified name.static VirtualTable[]
values()
Returns an array containing the constants of this enum class, in the order they are declared.
-
Enum Constant Details
-
SPOT
Table that stores spot intensities for each spot in a data cube. The number of intensity columns are the same as the number of channels in the experiment. -
SPOT_EXTRA_INT
Table that stores integer spot extra values. One value can be stored for each spot. -
SPOT_EXTRA_FLOAT
Table that stores float spot extra values. One value can be stored for each spot. -
SPOT_EXTRA_STRING
Table that stores string spot extra values. One value can be stored for each spot. -
POSITION
Table that maps position coordinates in a data cube to reporters. Each position may map to one reporter or null. -
POSITION_EXTRA_INT
Table that stores integer position extra values. One value can be stored for each position. -
POSITION_EXTRA_FLOAT
Table that stores float position extra values. One value can be stored for each position. -
POSITION_EXTRA_STRING
Table that stores string position extra values. One value can be stored for each position. -
COLUMN
Table that maps columns coordinates in a data cube to raw bioassays. Each column may map to any number of raw bioassays. -
COLUMN_EXTRA_INT
Table that stores integer column extra values. One value can be stored for each column. -
COLUMN_EXTRA_FLOAT
Table that stores float column extra values. One value can be stored for each column. -
COLUMN_EXTRA_STRING
Table that stores string column extra values. One value can be stored for each column. -
RAWPARENTS
Table that maps column/position coordinates in a data cube to the id's of the raw spots their intensities where calculated from. Each column/position coordinate may map to any number of raw spots. -
FILTER
Table that holds column/position coordinates that remains after a filtering operation has been applied to a data cube layer. -
CLONED_REPORTERS
Table that holds cloned reporter information for an experiment. The reporter id, version and external id are mandatory columns. Additional columns will be added according to what is defined by theReporterCloneTemplate
attached to an experiment.- Since:
- 3.1
-
-
Field Details
-
nameTemplate
The name template, # is replaced by the ID of theVirtualDb
item. -
alias
The alias to use in queries for this table. -
columns
The columns in the table.
-
-
Constructor Details
-
VirtualTable
Creates a new virtual table.- Parameters:
nameTemplate
- The template for generating table namesalias
- The alias of the table used in queriescolumns
- The columns that are part of the table
-
-
Method Details
-
values
Returns an array containing the constants of this enum class, in the order they are declared.- Returns:
- an array containing the constants of this enum class, in the order they are declared
-
valueOf
Returns the enum constant of this class with the specified name. The string must match exactly an identifier used to declare an enum constant in this class. (Extraneous whitespace characters are not permitted.)- Parameters:
name
- the name of the enum constant to be returned.- Returns:
- the enum constant with the specified name
- Throws:
IllegalArgumentException
- if this enum class has no constant with the specified nameNullPointerException
- if the argument is null
-
getTableName
Get the real table name of this table in the database.- Parameters:
vdb
- The virtual database
-
getQualifiedTableName
Get the real table name of this table in the database, quoted and with catalog/schema information prepended to it.- Parameters:
vdb
- The virtual database
-
getAlias
Get the alias of this table. Used in queries:SELECT ... FROM table AS alias ...
-
getColumns
Get all columns in this table.- Parameters:
vdb
- The virtual database this table belongs to- Since:
- 3.1
-
getColumns
Get all columns in this table.- Parameters:
exp
- The experiment this table belongs to- Since:
- 3.1
-
hasColumn
Check if the specified column is part of the virtual table or not. This method doesn't check columns that depends on the raw data type, ie. the number of intensity columns in theSPOT
table.- Parameters:
column
- The column to check- Returns:
- TRUE if the column is part of the table, FALSE otherwise
-
getBytesPerRow
- Since:
- 3.1
- See Also:
-
getBytesPerRow
Get the number of bytes a single row in the database occupies. The number doesn't include any variable length columns, ie. string columns. The caller should add the string length to the value returned from this method.- Parameters:
vdb
- The virtual database where the table is stored- Since:
- 3.1
-