java.lang.Object
- org.rcsb.cif.model.BaseCategory
- - org.rcsb.cif.model.generated.EmMap

All Implemented Interfaces:

Category
```
@Generated("org.rcsb.cif.generator.SchemaGenerator")
public class EmMap
extends BaseCategory
```
Data items in the EMD_MAP category record parameters of the CCP4 binary-format map file header (see ftp://ftp.wwpdb.org/pub/emdb/doc/map_format/EMDB_mapFormat_v1.0.pdf), parameters derived from the map header, pixel size, contour level, and annotation details from the depositor. The map is a three-dimensional array of data-values of the same data-type. Important parameters are data-type and array size in three dimensions (i.e. the number of columns, rows and sections). Columns are the fastest changing, followed by rows and sections.

Field Summary
- Fields inherited from class org.rcsb.cif.model.BaseCategory
  isText, textFields

Constructor Summary

Constructors
Constructor	Description
`EmMap(String name)`
`EmMap(String name, int rowCount, Object[] encodedColumns)`
`EmMap(String name, Map<String,Column> columns)`

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`StrColumn`	`getAnnotationDetails()`	map annotation details
`StrColumn`	`getAxisOrderFast()`	The map axis that corresponds to Columns.
`StrColumn`	`getAxisOrderMedium()`	The map axis that corresponds to Rows.
`StrColumn`	`getAxisOrderSlow()`	The map axis that corresponds to Sections.
`FloatColumn`	`getCellA()`	Map unit cell length parameter a.
`FloatColumn`	`getCellAlpha()`	Value of map unit cell angle parameter alpha in degrees.
`FloatColumn`	`getCellB()`	Map unit cell length parameter b.
`FloatColumn`	`getCellBeta()`	Value of map unit cell angle parameter beta in degrees.
`FloatColumn`	`getCellC()`	Map unit cell length parameter c.
`FloatColumn`	`getCellGamma()`	Value of map unit cell angle parameter gamma in degrees.
`FloatColumn`	`getContourLevel()`	recommended contour level for viewing the map
`StrColumn`	`getContourLevelSource()`	source of the recommended contour level
`StrColumn`	`getDataType()`	The map data_type describes the data structure of the map voxels.
`IntColumn`	`getDimensionsCol()`	The number of columns in the map.
`IntColumn`	`getDimensionsRow()`	The number of rows in the map.
`IntColumn`	`getDimensionsSec()`	The number of sections in the map.
`StrColumn`	`getEndianType()`	map file endian type
`StrColumn`	`getEntryId()`	This data item is a pointer to the ENTRY category.
`StrColumn`	`getFile()`	Map file name.
`StrColumn`	`getFormat()`	map format
`IntColumn`	`getId()`	Unique id for the EMD_MAP category.
`StrColumn`	`getLabel()`	text stored in the label field of the CCP4 map header (WORDS 57-256)
`IntColumn`	`getLimitCol()`	The final column position of the map relative to the Cartesian coordinate origin in voxel grid units.
`IntColumn`	`getLimitRow()`	The final row position of the map relative to the Cartesian coordinate origin in voxel grid units.
`IntColumn`	`getLimitSec()`	The final section position of the map relative to the Cartesian coordinate origin in voxel grid units.
`IntColumn`	`getOriginCol()`	The position of the first column of the map relative to the Cartesian coordinate origin in voxel grid units.
`IntColumn`	`getOriginRow()`	The position of the first row of the map relative to the Cartesian coordinate origin in voxel grid units.
`IntColumn`	`getOriginSec()`	The position of the first section of the map relative to the Cartesian coordinate origin in voxel grid units.
`IntColumn`	`getPartition()`	Identifies the archive file partition number of a primary map, half map, additional map, or mask.
`FloatColumn`	`getPixelSpacingX()`	The length in Angstroms of one voxel along the X axis.
`FloatColumn`	`getPixelSpacingY()`	The length in Angstroms of one voxel along the Y axis.
`FloatColumn`	`getPixelSpacingZ()`	The length in Angstroms of one voxel along the Z axis.
`IntColumn`	`getSizeKb()`	map storage size in Kilobytes (before compression)
`IntColumn`	`getSpacingX()`	The number of intervals per cell repeat in X.
`IntColumn`	`getSpacingY()`	The number of intervals per cell repeat in Y.
`IntColumn`	`getSpacingZ()`	The number of intervals per cell repeat in Z.
`FloatColumn`	`getStatisticsAverage()`	Mean (average) density value of the map.
`FloatColumn`	`getStatisticsMaximum()`	Maximum density value of the map.
`FloatColumn`	`getStatisticsMinimum()`	Minimum density value of the map.
`FloatColumn`	`getStatisticsStd()`	The standard deviation of the map density values.
`StrColumn`	`getSymmetrySpaceGroup()`	The space group number for the map.
`StrColumn`	`getType()`	map format

Methods inherited from class org.rcsb.cif.model.BaseCategory
getBinaryColumn, getCategoryName, getColumn, getColumnNames, getRowCount, isDefined

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface org.rcsb.cif.model.Category
columnNames, columns, get

- Constructor Detail
  - EmMap
```
public EmMap(String name,
             Map<String,Column> columns)
```
  - EmMap
```
public EmMap(String name,
             int rowCount,
             Object[] encodedColumns)
```
  - EmMap
```
public EmMap(String name)
```
- Method Detail
  - getAnnotationDetails
```
public StrColumn getAnnotationDetails()
```
    map annotation details
    
    Returns:
    
    StrColumn
  - getAxisOrderFast
```
public StrColumn getAxisOrderFast()
```
    The map axis that corresponds to Columns. (CCP4 HEADER WORD 17 MAPC 1=x, 2=y, 3=z)
    
    Returns:
    
    StrColumn
  - getAxisOrderMedium
```
public StrColumn getAxisOrderMedium()
```
    The map axis that corresponds to Rows. (CCP4 map header word 18 MAPR 1=x, 2=y, 3=z)
    
    Returns:
    
    StrColumn
  - getAxisOrderSlow
```
public StrColumn getAxisOrderSlow()
```
    The map axis that corresponds to Sections. (CCP4 map header word 19 MAPS 1=x, 2=y, 3=z)
    
    Returns:
    
    StrColumn
  - getCellA
```
public FloatColumn getCellA()
```
    Map unit cell length parameter a. (CCP4 map header word 11)
    
    Returns:
    
    FloatColumn
  - getCellB
```
public FloatColumn getCellB()
```
    Map unit cell length parameter b. (CCP4 map header word 12)
    
    Returns:
    
    FloatColumn
  - getCellC
```
public FloatColumn getCellC()
```
    Map unit cell length parameter c. (CCP4 map header word 13)
    
    Returns:
    
    FloatColumn
  - getCellAlpha
```
public FloatColumn getCellAlpha()
```
    Value of map unit cell angle parameter alpha in degrees. (CCP4 map header word 14)
    
    Returns:
    
    FloatColumn
  - getCellBeta
```
public FloatColumn getCellBeta()
```
    Value of map unit cell angle parameter beta in degrees. (CCP4 map header word 15)
    
    Returns:
    
    FloatColumn
  - getCellGamma
```
public FloatColumn getCellGamma()
```
    Value of map unit cell angle parameter gamma in degrees. (CCP4 map header word 16)
    
    Returns:
    
    FloatColumn
  - getContourLevel
```
public FloatColumn getContourLevel()
```
    recommended contour level for viewing the map
    
    Returns:
    
    FloatColumn
  - getContourLevelSource
```
public StrColumn getContourLevelSource()
```
    source of the recommended contour level
    
    Returns:
    
    StrColumn
  - getDataType
```
public StrColumn getDataType()
```
    The map data_type describes the data structure of the map voxels. (CCP4 map header word 4 MODE) EMDB currently holds MODE=0,1,and 2 maps; the majority are MODE=2. MAPS with MODES other than 2 and 0 may not work in CCP4 programs. MODE = 0: 8 bits, density stored as a signed byte (-128 to 127, ISO/IEC 10967) MODE = 1: 16 bits, density stored as a signed integer (-32768 to 32767, ISO/IEC 10967) MODE = 2: 32 bits, density stored as a floating point number (IEEE 754)
    
    Returns:
    
    StrColumn
  - getDimensionsCol
```
public IntColumn getDimensionsCol()
```
    The number of columns in the map. (CCP4 map header word 1 NC)
    
    Returns:
    
    IntColumn
  - getDimensionsRow
```
public IntColumn getDimensionsRow()
```
    The number of rows in the map. (CCP4 map header word 2 NR)
    
    Returns:
    
    IntColumn
  - getDimensionsSec
```
public IntColumn getDimensionsSec()
```
    The number of sections in the map. (CCP4 map header word 3 NS)
    
    Returns:
    
    IntColumn
  - getEndianType
```
public StrColumn getEndianType()
```
    map file endian type
    
    Returns:
    
    StrColumn
  - getFile
```
public StrColumn getFile()
```
    Map file name.
    
    Returns:
    
    StrColumn
  - getFormat
```
public StrColumn getFormat()
```
    map format
    
    Returns:
    
    StrColumn
  - getId
```
public IntColumn getId()
```
    Unique id for the EMD_MAP category.
    
    Returns:
    
    IntColumn
  - getPartition
```
public IntColumn getPartition()
```
    Identifies the archive file partition number of a primary map, half map, additional map, or mask.
    
    Returns:
    
    IntColumn
  - getEntryId
```
public StrColumn getEntryId()
```
    This data item is a pointer to the ENTRY category.
    
    Returns:
    
    StrColumn
  - getLabel
```
public StrColumn getLabel()
```
    text stored in the label field of the CCP4 map header (WORDS 57-256)
    
    Returns:
    
    StrColumn
  - getLimitCol
```
public IntColumn getLimitCol()
```
    The final column position of the map relative to the Cartesian coordinate origin in voxel grid units. (derived = .origin_col + .dimensions_col -1)
    
    Returns:
    
    IntColumn
  - getLimitRow
```
public IntColumn getLimitRow()
```
    The final row position of the map relative to the Cartesian coordinate origin in voxel grid units. (derived = .origin_row + .dimensions_row -1)
    
    Returns:
    
    IntColumn
  - getLimitSec
```
public IntColumn getLimitSec()
```
    The final section position of the map relative to the Cartesian coordinate origin in voxel grid units. (derived -- .origin_sec + .dimensions_sec -1)
    
    Returns:
    
    IntColumn
  - getOriginCol
```
public IntColumn getOriginCol()
```
    The position of the first column of the map relative to the Cartesian coordinate origin in voxel grid units. (CCP4 map header word 5 NCSTART)
    
    Returns:
    
    IntColumn
  - getOriginRow
```
public IntColumn getOriginRow()
```
    The position of the first row of the map relative to the Cartesian coordinate origin in voxel grid units. (CCP4 map header word 6 NRSTART)
    
    Returns:
    
    IntColumn
  - getOriginSec
```
public IntColumn getOriginSec()
```
    The position of the first section of the map relative to the Cartesian coordinate origin in voxel grid units. (CCP4 map header word 7 NSSTART)
    
    Returns:
    
    IntColumn
  - getPixelSpacingX
```
public FloatColumn getPixelSpacingX()
```
    The length in Angstroms of one voxel along the X axis.
    
    Returns:
    
    FloatColumn
  - getPixelSpacingY
```
public FloatColumn getPixelSpacingY()
```
    The length in Angstroms of one voxel along the Y axis.
    
    Returns:
    
    FloatColumn
  - getPixelSpacingZ
```
public FloatColumn getPixelSpacingZ()
```
    The length in Angstroms of one voxel along the Z axis.
    
    Returns:
    
    FloatColumn
  - getSizeKb
```
public IntColumn getSizeKb()
```
    map storage size in Kilobytes (before compression)
    
    Returns:
    
    IntColumn
  - getSpacingX
```
public IntColumn getSpacingX()
```
    The number of intervals per cell repeat in X. (CCP4 map header word 8 NX)
    
    Returns:
    
    IntColumn
  - getSpacingY
```
public IntColumn getSpacingY()
```
    The number of intervals per cell repeat in Y. (CCP4 map header word 9 NY)
    
    Returns:
    
    IntColumn
  - getSpacingZ
```
public IntColumn getSpacingZ()
```
    The number of intervals per cell repeat in Z. (CCP4 map header word 10 NZ)
    
    Returns:
    
    IntColumn
  - getStatisticsAverage
```
public FloatColumn getStatisticsAverage()
```
    Mean (average) density value of the map.
    
    Returns:
    
    FloatColumn
  - getStatisticsMaximum
```
public FloatColumn getStatisticsMaximum()
```
    Maximum density value of the map.
    
    Returns:
    
    FloatColumn
  - getStatisticsMinimum
```
public FloatColumn getStatisticsMinimum()
```
    Minimum density value of the map.
    
    Returns:
    
    FloatColumn
  - getStatisticsStd
```
public FloatColumn getStatisticsStd()
```
    The standard deviation of the map density values.
    
    Returns:
    
    FloatColumn
  - getSymmetrySpaceGroup
```
public StrColumn getSymmetrySpaceGroup()
```
    The space group number for the map. The value is 1 unless the sample is crystalline. (CCP4 map header word 23 ISPG)
    
    Returns:
    
    StrColumn
  - getType
```
public StrColumn getType()
```
    map format
    
    Returns:
    
    StrColumn

Class EmMap

Field Summary

Fields inherited from class org.rcsb.cif.model.BaseCategory

Constructor Summary

Method Summary

Methods inherited from class org.rcsb.cif.model.BaseCategory

Methods inherited from class java.lang.Object

Methods inherited from interface org.rcsb.cif.model.Category

Constructor Detail

EmMap

EmMap

EmMap

Method Detail

getAnnotationDetails

getAxisOrderFast

getAxisOrderMedium

getAxisOrderSlow

getCellA

getCellB

getCellC

getCellAlpha

getCellBeta

getCellGamma

getContourLevel

getContourLevelSource

getDataType

getDimensionsCol

getDimensionsRow

getDimensionsSec

getEndianType

getFile

getFormat

getId

getPartition

getEntryId

getLabel

getLimitCol

getLimitRow

getLimitSec

getOriginCol

getOriginRow

getOriginSec

getPixelSpacingX

getPixelSpacingY

getPixelSpacingZ

getSizeKb

getSpacingX

getSpacingY

getSpacingZ

getStatisticsAverage

getStatisticsMaximum

getStatisticsMinimum

getStatisticsStd

getSymmetrySpaceGroup

getType