uk.ac.starlink.fits.StandardFitsTableSerializer Maven / Gradle / Ivy
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package uk.ac.starlink.fits;
import java.io.DataOutput;
import java.io.IOException;
import java.lang.reflect.Array;
import java.math.BigDecimal;
import java.math.BigInteger;
import java.util.ArrayList;
import java.util.Arrays;
import java.util.List;
import java.util.logging.Level;
import java.util.logging.Logger;
import uk.ac.starlink.table.ColumnInfo;
import uk.ac.starlink.table.DescribedValue;
import uk.ac.starlink.table.HealpixTableInfo;
import uk.ac.starlink.table.RowSequence;
import uk.ac.starlink.table.StarTable;
import uk.ac.starlink.table.TableFormatException;
import uk.ac.starlink.table.Tables;
/**
* Class which knows how to do the various bits of serializing a StarTable
* to FITS BINTABLE format. A normal (row-oriented) organisation of the
* data is used.
* Array-valued columns are all written as fixed size arrays.
* This class does the hard work for FitsTableWriter.
*
* When writing tables that are marked up using the headers defined in
* {@link uk.ac.starlink.table.HealpixTableInfo},
* this serializer will attempt to insert FITS headers corresponding
* to the HEALPix-FITS convention.
*
* @author Mark Taylor (Starlink)
* @see
* HEALPix-FITS convention
*/
public class StandardFitsTableSerializer implements FitsTableSerializer {
private static Logger logger = Logger.getLogger( "uk.ac.starlink.fits" );
private final FitsTableSerializerConfig config_;
private StarTable table;
private ColumnWriter[] colWriters;
private ColumnInfo[] colInfos;
private long rowCount;
/**
* Package-private constructor intended for use by subclasses.
* The {@link #init} method must be called after this constructor
* is invoked.
*
* @param config configuration
*/
StandardFitsTableSerializer( FitsTableSerializerConfig config ) {
config_ = config;
}
/**
* Constructor.
*
* @param config configuration
* @param table table to serialize
* @throws IOException if it won't be possible to write the given table
*/
public StandardFitsTableSerializer( FitsTableSerializerConfig config,
StarTable table )
throws IOException {
this( config );
init( table );
}
/**
* Returns the configuration information for this serializer.
*
* @return config
*/
public FitsTableSerializerConfig getConfig() {
return config_;
}
/**
* Configures this serializer for use with a given table and column writer
* factory. Should be called before this object is ready for use;
* in a constructor would be a good place.
* Calls {@link #createColumnWriter}.
*
* @param table table to be written
* @throws IOException if it won't be possible to write the given table,
* for instance if it has too many columns
*/
final void init( StarTable table ) throws IOException {
if ( this.table != null ) {
throw new IllegalStateException( "Table already initialised" );
}
this.table = table;
/* Get table dimensions (though we may need to calculate the row
* count directly later. */
int ncol = table.getColumnCount();
long nrow = table.getRowCount();
/* Store column infos. */
colInfos = Tables.getColumnInfos( table );
/* Work out column shapes, and check if any are unknown (variable
* last dimension). */
boolean hasVarShapes = false;
boolean checkForNullableInts = false;
int[][] shapes = new int[ ncol ][];
int[] maxChars = new int[ ncol ];
int[] maxElements = new int[ ncol ];
long[] totalElements = new long[ ncol ];
boolean[] useCols = new boolean[ ncol ];
boolean[] varShapes = new boolean[ ncol ];
boolean[] varChars = new boolean[ ncol ];
boolean[] varElementChars = new boolean[ ncol ];
boolean[] mayHaveNullableInts = new boolean[ ncol ];
Arrays.fill( useCols, true );
boolean[] hasNulls = new boolean[ ncol ];
for ( int icol = 0; icol < ncol; icol++ ) {
ColumnInfo colinfo = colInfos[ icol ];
Class clazz = colinfo.getContentClass();
if ( clazz.isArray() ) {
shapes[ icol ] = colinfo.getShape().clone();
int[] shape = shapes[ icol ];
if ( shape[ shape.length - 1 ] < 0 ) {
varShapes[ icol ] = true;
hasVarShapes = true;
}
else {
int nel = shape.length > 0 ? 1 : 0;
for ( int id = 0; id < shape.length; id++ ) {
nel *= shape[ id ];
}
assert nel >= 0;
maxElements[ icol ] = nel;
}
if ( clazz.getComponentType().equals( String.class ) ) {
maxChars[ icol ] = colinfo.getElementSize();
if ( maxChars[ icol ] <= 0 ) {
varElementChars[ icol ] = true;
hasVarShapes = true;
}
}
}
else if ( clazz.equals( String.class ) ) {
maxChars[ icol ] = colinfo.getElementSize();
if ( maxChars[ icol ] <= 0 ) {
varChars[ icol ] = true;
hasVarShapes = true;
}
}
else if ( colinfo.isNullable() &&
( clazz == Byte.class || clazz == Short.class ||
clazz == Integer.class || clazz == Long.class ) ) {
mayHaveNullableInts[ icol ] = true;
/* Only set the flag which forces a first pass if we need
* to work out whether nulls actually exist. If the
* aux datum giving a null value exists we will use it in
* any case, so finding out whether there are in fact null
* values by scanning the data is not necessary. */
if ( colinfo.getAuxDatumValue( Tables.NULL_VALUE_INFO,
Number.class ) != null ) {
hasNulls[ icol ] = true;
}
else {
checkForNullableInts = true;
}
}
}
/* If necessary, make a first pass through the table data to
* find out the maximum size of variable length fields and the length
* of the table. */
if ( hasVarShapes || checkForNullableInts || nrow < 0 ) {
StringBuffer sbuf = new StringBuffer( "First pass needed: " );
if ( hasVarShapes ) {
sbuf.append( "(variable array shapes) " );
}
if ( checkForNullableInts ) {
sbuf.append( "(nullable ints) " );
}
if ( nrow < 0 ) {
sbuf.append( "(unknown row count) " );
}
logger.config( sbuf.toString() );
nrow = 0L;
/* Get the maximum dimensions. */
RowSequence rseq = table.getRowSequence();
try {
while ( rseq.next() ) {
nrow++;
for ( int icol = 0; icol < ncol; icol++ ) {
if ( useCols[ icol ] &&
( varShapes[ icol ] ||
varChars[ icol ] ||
varElementChars[ icol ] ||
( mayHaveNullableInts[ icol ] &&
! hasNulls[ icol ] ) ) ) {
Object cell = rseq.getCell( icol );
if ( cell == null ) {
if ( mayHaveNullableInts[ icol ] ) {
hasNulls[ icol ] = true;
}
}
else {
if ( varChars[ icol ] ) {
int leng = ((String) cell).length();
maxChars[ icol ] =
Math.max( maxChars[ icol ], leng );
}
else if ( varElementChars[ icol ] ) {
String[] svals = (String[]) cell;
for ( int i = 0; i < svals.length; i++ ) {
String sv = svals[ i ];
if ( sv != null ) {
maxChars[ icol ] =
Math.max( maxChars[ icol ],
sv.length() );
}
}
}
if ( varShapes[ icol ] ) {
int nel = Array.getLength( cell );
maxElements[ icol ] =
Math.max( maxElements[ icol ], nel );
totalElements[ icol ] += nel;
}
}
}
}
}
}
finally {
rseq.close();
}
/* In the case of variable string lengths and no non-null data
* in any of the cells, maxChars could still be set negative.
* Fix that here. */
for ( int icol = 0; icol < ncol; icol++ ) {
if ( maxChars[ icol ] < 0 ) {
maxChars[ icol ] = 0;
}
}
/* If required, make sure that all output strings have a length
* of at least 1. */
if ( ! config_.allowZeroLengthString() ) {
for ( int icol = 0; icol < ncol; icol++ ) {
if ( maxChars[ icol ] == 0 ) {
maxChars[ icol ] = 1;
}
}
}
/* Work out the actual shapes for columns which have variable ones,
* based on the shapes that we encountered in the rows. */
if ( hasVarShapes ) {
for ( int icol = 0; icol < ncol; icol++ ) {
if ( useCols[ icol ] ) {
if ( varShapes[ icol ] ) {
int[] shape = shapes[ icol ];
int ndim = shape.length;
assert shape[ ndim - 1 ] <= 0;
int nel = 1;
for ( int i = 0; i < ndim - 1; i++ ) {
nel *= shape[ i ];
}
shape[ ndim - 1 ] =
Math.max( 1, ( maxElements[ icol ]
+ nel - 1 ) / nel );
}
}
}
}
}
/* Store the row count, which we must have got by now. */
assert nrow >= 0;
rowCount = nrow;
/* We now have all the information we need about the table.
* Construct and store a custom writer for each column which
* knows about the characteristics of the column and how to
* write values to the stream. For columns which can't be
* written in FITS format store a null in the writers array
* and log a message. */
colWriters = new ColumnWriter[ ncol ];
int rbytes = 0;
int nUseCol = 0;
for ( int icol = 0; icol < ncol; icol++ ) {
if ( useCols[ icol ] ) {
ColumnInfo cinfo = colInfos[ icol ];
ColumnWriter writer =
createColumnWriter( cinfo, shapes[ icol ],
varShapes[ icol ], maxChars[ icol ],
maxElements[ icol ],
totalElements[ icol ],
mayHaveNullableInts[ icol ]
&& hasNulls[ icol ] );
if ( writer == null ) {
logger.warning( "Ignoring column " + cinfo.getName() +
" - don't know how to write to FITS" );
}
else {
nUseCol++;
}
colWriters[ icol ] = writer;
}
}
/* Check column count is permissible. */
FitsUtil.checkColumnCount( config_.getWide(), nUseCol );
}
/**
* Returns the array of column writers used by this serializer.
* The list is generated once by the sole call of the
* init method.
*
* @return column writer array
*/
ColumnWriter[] getColumnWriters() {
return colWriters;
}
public CardImage[] getHeader() {
/* Work out the dimensions in columns and bytes of the table. */
int rowLength = 0;
int extLength = 0;
int nUseCol = 0;
int ncol = table.getColumnCount();
WideFits wide = config_.getWide();
for ( int icol = 0; icol < ncol; icol++ ) {
ColumnWriter writer = colWriters[ icol ];
if ( writer != null ) {
nUseCol++;
int leng = writer.getLength();
rowLength += leng;
if ( wide != null &&
nUseCol >= wide.getContainerColumnIndex() ) {
extLength += leng;
}
}
}
/* Work out the number of standard and extended columns.
* We know it is actually possible to write the given number of
* columns using the current wide value, because of a check carried
* out during initialisation. */
int nStdCol = wide != null && nUseCol > wide.getContainerColumnIndex()
? wide.getContainerColumnIndex()
: nUseCol;
boolean hasExtCol = nUseCol > nStdCol;
/* Add HDU layout metadata. */
CardFactory cfact = CardFactory.DEFAULT;
List cards = new ArrayList<>();
cards.addAll( Arrays.asList( new CardImage[] {
cfact.createStringCard( "XTENSION", "BINTABLE",
"binary table extension" ),
cfact.createIntegerCard( "BITPIX", 8, "8-bit bytes" ),
cfact.createIntegerCard( "NAXIS", 2, "2-dimensional table" ),
cfact.createIntegerCard( "NAXIS1", rowLength,
"width of table in bytes" ),
cfact.createIntegerCard( "NAXIS2", rowCount,
"number of rows in table" ),
cfact.createIntegerCard( "PCOUNT", 0, "size of special data area" ),
cfact.createIntegerCard( "GCOUNT", 1, "one data group" ),
cfact.createIntegerCard( "TFIELDS", nStdCol, "number of columns" ),
} ) );
/* Add EXTNAME record containing table name. */
String tname = table.getName();
if ( tname != null && tname.trim().length() > 0 ) {
cards.add( cfact
.createStringCard( "EXTNAME", tname, "table name" ) );
}
/* Add extended column header information if applicable. */
if ( hasExtCol ) {
cards.addAll( Arrays.asList( wide.getExtensionCards( nUseCol ) ) );
AbstractWideFits.logWideWrite( logger, nStdCol, nUseCol );
}
/* If the table is explicitly annotated as a HEALPix map,
* add HEALPix-specific headers according to the HEALPix-FITS
* convention. */
List tparams = table.getParameters();
if ( HealpixTableInfo.isHealpix( tparams ) ) {
HealpixTableInfo hpxInfo = HealpixTableInfo.fromParams( tparams );
CardImage[] hpxCards = null;
try {
hpxCards = getHealpixHeaders( hpxInfo );
}
catch ( TableFormatException e ) {
logger.log( Level.WARNING,
"Failed to write HEALPix-specific FITS headers: "
+ e.getMessage(), e );
}
if ( hpxCards != null && hpxCards.length > 0 ) {
logger.info( "Adding HEALPix-specific FITS headers" );
cards.addAll( Arrays.asList( hpxCards ) );
}
}
/* Add HDU metadata describing columns. */
int jcol = 0;
for ( int icol = 0; icol < ncol; icol++ ) {
ColumnWriter colwriter = colWriters[ icol ];
if ( colwriter != null ) {
jcol++;
if ( hasExtCol && jcol == nStdCol ) {
cards.addAll( Arrays.asList(
wide.getContainerColumnCards( extLength, 0 ) ) );
}
BintableColumnHeader colhead =
hasExtCol && jcol >= nStdCol
? wide.createExtendedHeader( nStdCol, jcol )
: BintableColumnHeader.createStandardHeader( jcol );
cards.addAll( Arrays.asList( getHeaders( colhead,
colInfos[ icol ],
colwriter, jcol ) ) );
}
}
return cards.toArray( new CardImage[ 0 ] );
}
/**
* Returns header information for a given column.
*
* @param colhead header key handler for column to write
* @param colinfo column metadata
* @param colwriter column writer
* @param column index; first column is 1
* @return header cards
*/
private CardImage[] getHeaders( BintableColumnHeader colhead,
ColumnInfo colinfo, ColumnWriter colwriter,
int jcol ) {
CardFactory cfact = colhead.getCardFactory();
String forcol = " for column " + jcol;
List cards = new ArrayList<>();
/* Name. */
String name = colinfo.getName();
if ( name != null && name.trim().length() > 0 ) {
cards.add( cfact.createStringCard( colhead.getKeyName( "TTYPE" ),
name, "label" + forcol ) );
}
/* Format. */
String form = colwriter.getFormat();
cards.add( cfact.createStringCard( colhead.getKeyName( "TFORM" ), form,
"format" + forcol ) );
/* Units. */
String unit = colinfo.getUnitString();
if ( unit != null && unit.trim().length() > 0 ) {
cards.add( cfact.createStringCard( colhead.getKeyName( "TUNIT" ),
unit, "units" + forcol ) );
}
/* Blank. */
Number bad = colwriter.getBadNumber();
if ( bad != null ) {
cards.add( cfact.createIntegerCard( colhead.getKeyName( "TNULL" ),
bad.longValue(),
"blank value" + forcol ) );
}
/* Shape. */
int[] dims = colwriter.getDims();
if ( dims != null && dims.length > 1 ) {
StringBuffer sbuf = new StringBuffer();
for ( int i = 0; i < dims.length; i++ ) {
sbuf.append( i == 0 ? '(' : ',' );
sbuf.append( dims[ i ] );
}
sbuf.append( ')' );
cards.add( cfact.createStringCard( colhead.getKeyName( "TDIM" ),
sbuf.toString(),
"dimensions" + forcol ) );
}
/* Scaling. */
BigDecimal zero = colwriter.getZero();
double scale = colwriter.getScale();
if ( zero != null && ! BigDecimal.ZERO.equals( zero ) ) {
cards.add( cfact.createLiteralCard( colhead.getKeyName( "TZERO" ),
zero.toString(),
"base" + forcol ) );
}
if ( scale != 1.0 ) {
cards.add( cfact.createRealCard( colhead.getKeyName( "TSCALE" ),
scale, "factor" + forcol ) );
}
/* Comment (non-standard). */
String comm = colinfo.getDescription();
if ( comm != null && comm.trim().length() > 0 ) {
cards.add( cfact.createStringCard( colhead.getKeyName( "TCOMM" ),
comm, null ) );
}
/* UCD (non-standard). */
String ucd = colinfo.getUCD();
if ( ucd != null && ucd.trim().length() > 0 ) {
cards.add( cfact.createStringCard( colhead.getKeyName( "TUCD" ),
ucd, null ) );
}
/* Utype (non-standard). */
String utype = colinfo.getUtype();
if ( utype != null && utype.trim().length() > 0 ) {
cards.add( cfact.createStringCard( colhead.getKeyName( "TUTYP" ),
utype, null ) );
}
return cards.toArray( new CardImage[ 0 ] );
}
public void writeData( DataOutput strm ) throws IOException {
long nWritten = writeDataOnly( strm );
/* Write padding. */
int extra = (int) ( nWritten % (long) 2880 );
if ( extra > 0 ) {
strm.write( new byte[ 2880 - extra ] );
}
}
/**
* Writes the table data content without any trailing padding.
*
* @param strm destination stream
* @return number of bytes written
*/
public long writeDataOnly( DataOutput strm ) throws IOException {
/* Work out the length of each row in bytes. */
int rowBytes = 0;
int ncol = table.getColumnCount();
for ( int icol = 0; icol < ncol; icol++ ) {
ColumnWriter writer = colWriters[ icol ];
if ( writer != null ) {
rowBytes += writer.getLength();
}
}
/* Write the data cells, delegating the item in each column to
* the writer that knows how to handle it. */
long nWritten = 0L;
RowSequence rseq = table.getRowSequence();
try {
while ( rseq.next() ) {
Object[] row = rseq.getRow();
for ( int icol = 0; icol < ncol; icol++ ) {
ColumnWriter writer = colWriters[ icol ];
if ( writer != null ) {
writer.writeValue( strm, row[ icol ] );
}
}
nWritten += rowBytes;
}
}
finally {
rseq.close();
}
return nWritten;
}
public char getFormatChar( int icol ) {
if ( colWriters[ icol ] == null ) {
return (char) 0;
}
else {
return colWriters[ icol ].getFormatChar();
}
}
public int[] getDimensions( int icol ) {
if ( colWriters[ icol ] == null ) {
return null;
}
else {
int[] dims = colWriters[ icol ].getDims();
return dims == null ? new int[ 0 ] : dims;
}
}
public String getBadValue( int icol ) {
if ( colWriters[ icol ] == null ) {
return null;
}
else {
Number badnum = colWriters[ icol ].getBadNumber();
return badnum == null ? null : badnum.toString();
}
}
public long getRowCount() {
return rowCount;
}
/**
* Returns a column writer capable of writing a given column to
* a stream in FITS format.
*
* @param cinfo describes the column to write
* @param maxShape shape for array values
* @param varShape whether shapes are variable
* @param elementSize element size
* @param maxEls maximum number of elements for any array in column
* (only applies if varShape is true)
* @param totalEls total number of elements for all array values in col
* (only applies if varShape is true)
* @param nullableInt true if we are going to have to store nulls in
* an integer column
* @return a suitable column writer, or null if we don't
* know how to write this to FITS
*/
ColumnWriter createColumnWriter( ColumnInfo cinfo, int[] shape,
boolean varShape, int eSize,
final int maxEls, long totalEls,
boolean nullableInt ) {
Class clazz = cinfo.getContentClass();
BigInteger longOffset = ScalarColumnWriter.getLongOffset( cinfo );
if ( clazz == String.class && longOffset == null ) {
final int maxChars = eSize;
final int[] dims = new int[] { maxChars };
final byte[] buf = new byte[ maxChars ];
final byte[] blankBuf = new byte[ maxChars ];
final byte padByte = config_.getPadCharacter();
Arrays.fill( blankBuf, padByte );
return new ColumnWriter() {
public void writeValue( DataOutput out, Object value )
throws IOException {
final byte[] bytes;
if ( value == null ) {
bytes = blankBuf;
}
else {
bytes = buf;
String sval = (String) value;
int leng = Math.min( sval.length(), maxChars );
for ( int i = 0; i < leng; i++ ) {
bytes[ i ] = (byte) sval.charAt( i );
}
for ( int i = leng; i < maxChars; i++ ) {
bytes[ i ] = padByte;
}
}
out.write( bytes );
}
public String getFormat() {
return Integer.toString( maxChars ) + 'A';
}
public char getFormatChar() {
return 'A';
}
public int getLength() {
return maxChars;
}
public int[] getDims() {
return dims;
}
public BigDecimal getZero() {
return BigDecimal.ZERO;
}
public double getScale() {
return 1.0;
}
public Number getBadNumber() {
return null;
}
};
}
else if ( clazz == String[].class && longOffset == null ) {
final int maxChars = eSize;
final int[] charDims = new int[ shape.length + 1 ];
charDims[ 0 ] = maxChars;
System.arraycopy( shape, 0, charDims, 1, shape.length );
final byte[] buf = new byte[ maxChars ];
final byte padByte = config_.getPadCharacter();
return new ColumnWriter() {
public void writeValue( DataOutput out, Object value )
throws IOException {
int is = 0;
if ( value != null ) {
String[] svals = (String[]) value;
int leng = Math.min( svals.length, maxEls );
for ( ; is < leng; is++ ) {
String str = svals[ is ];
int ic = 0;
if ( str != null ) {
int sleng = Math.min( str.length(), maxChars );
for ( ; ic < sleng; ic++ ) {
buf[ ic ] = (byte) str.charAt( ic );
}
}
Arrays.fill( buf, ic, maxChars, padByte );
out.write( buf );
}
}
if ( is < maxEls ) {
Arrays.fill( buf, padByte );
for ( ; is < maxEls; is++ ) {
out.write( buf );
}
}
}
public String getFormat() {
return Integer.toString( maxChars * maxEls ) + 'A';
}
public char getFormatChar() {
return 'A';
}
public int getLength() {
return maxChars * maxEls;
}
public int[] getDims() {
return charDims;
}
public BigDecimal getZero() {
return BigDecimal.ZERO;
}
public double getScale() {
return 1.0;
}
public Number getBadNumber() {
return null;
}
};
}
else {
boolean allowSignedByte = config_.allowSignedByte();
byte padChar = config_.getPadCharacter();
ColumnWriter cw = ScalarColumnWriter
.createColumnWriter( cinfo, nullableInt,
allowSignedByte, padChar );
if ( cw != null ) {
return cw;
}
else {
ArrayWriter aw =
ArrayWriter.createArrayWriter( cinfo, allowSignedByte );
if ( aw != null ) {
return new FixedArrayColumnWriter( aw, shape );
}
else {
return null;
}
}
}
}
/**
* Returns FITS headers specific for a table containing a HEALPix map.
* If this method is called the assumption is that the table looks like
* it should be a HEALPix map of some sort. If there are problems
* with the metadata that prevent a consistent set of headers from
* being generated, a TableFormatException with an informative
* message should be thrown.
*
* @param hpxInfo non-null healpix description
* @return array of FITS headers describing healpix information
*/
protected CardImage[] getHealpixHeaders( HealpixTableInfo hpxInfo )
throws TableFormatException {
String ipixColName = hpxInfo.getPixelColumnName();
int level = hpxInfo.getLevel();
String ordering = hpxInfo.isNest() ? "NESTED" : "RING";
HealpixTableInfo.HpxCoordSys csys = hpxInfo.getCoordSys();
/* Work out if we have explicit or implicit HEALPix pixel indices. */
final boolean isExplicit;
if ( ipixColName == null ) {
isExplicit = false;
}
else if ( ipixColName.equals( table.getColumnInfo( 0 ).getName() ) ) {
isExplicit = true;
}
else {
throw new TableFormatException( "HEALPix pixel index column \""
+ ipixColName + "\""
+ " is not first column" );
}
/* Check we have or can guess the HEALPix level (hence NSIDE),
* and that the table row count is not inconsistent with it. */
long nrow = rowCount;
assert nrow >= 0;
if ( level < 0 && ! isExplicit ) {
int clevel = Long.numberOfTrailingZeros( nrow / 12 ) / 2;
if ( 12 * ( 1L << ( 2 * clevel ) ) == nrow ) {
level = clevel;
logger.warning( "Inferred HEALPix level " + clevel );
}
}
if ( level < 0 ) {
throw new TableFormatException( "No HEALPix level specified" );
}
if ( ! isExplicit ) {
long npix = 12 * ( 1L << ( 2 * level ) );
if ( npix != nrow ) {
throw new TableFormatException( "Row count does not match level"
+ " for implicitly indexed"
+ " HEALPix table ("
+ nrow + " != " + npix + ")" );
}
}
final long npix = 12 * ( 1L << ( 2 * level ) );
final long nside = 1L << level;
/* Prepare HEALPix format FITS headers. */
List cards = new ArrayList<>();
CardFactory cfact = CardFactory.DEFAULT;
cards.addAll( Arrays.asList( new CardImage[] {
cfact.createStringCard( "PIXTYPE", "HEALPIX", "HEALPix map" ),
cfact.createIntegerCard( "NSIDE", nside, "HEALPix level parameter"),
cfact.createStringCard( "ORDERING", ordering,
"HEALPix index ordering scheme" ),
} ) );
if ( csys != null ) {
cards.add( cfact.createStringCard( "COORDSYS", csys.getCharString(),
"HEALPix coordinate system "
+ csys.getWord() ) );
}
if ( isExplicit ) {
cards.add( cfact
.createStringCard( "INDXSCHM", "EXPLICIT",
"HEALPix indices given explicitly" ) );
cards.add( cfact
.createIntegerCard( "OBS_NPIX", nrow,
"HEALPix pixel count" ) );
if ( nrow < npix ) {
cards.add( cfact.createStringCard( "OBJECT", "PARTIAL",
"HEALPix sky coverage "
+ "is partial" ) );
}
}
else {
cards.addAll( Arrays.asList( new CardImage[] {
cfact.createStringCard( "INDXSCHM", "IMPLICIT",
"HEALPix indices given implicitly" ),
cfact.createIntegerCard( "FIRSTPIX", 0, "First HEALPix index" ),
cfact.createIntegerCard( "LASTPIX", npix - 1,
"Last HEALPix index" ),
cfact.createStringCard( "OBJECT", "FULLSKY",
"HEALPix sky coverage is full" ),
} ) );
}
return cards.toArray( new CardImage[ 0 ] );
}
/**
* ColumnWriter implementation for arrays with fixed sizes.
*/
static class FixedArrayColumnWriter implements ColumnWriter {
private final ArrayWriter arrayWriter_;
private final int[] shape_;
private final int nel_;
/**
* Constructor.
*
* @param arrayWriter writer which knows how to output the correct
* data type
* @param shape fixed array dimensions of objects to be written
*/
FixedArrayColumnWriter( ArrayWriter arrayWriter, int[] shape ) {
arrayWriter_ = arrayWriter;
shape_ = shape;
int nel = 1;
if ( shape != null ) {
for ( int i = 0; i < shape.length; i++ ) {
nel *= shape[ i ];
}
}
nel_ = nel;
}
public void writeValue( DataOutput out, Object value )
throws IOException {
int leng = Math.min( value == null ? 0 : Array.getLength( value ),
nel_ );
for ( int i = 0; i < leng; i++ ) {
arrayWriter_.writeElement( out, value, i );
}
for ( int i = leng; i < nel_; i++ ) {
arrayWriter_.writePad( out );
}
}
public char getFormatChar() {
return arrayWriter_.getFormatChar();
}
public String getFormat() {
String fc = new String( new char[] { getFormatChar() } );
return nel_ == 1 ? fc
: ( Integer.toString( nel_ ) + fc );
}
public int getLength() {
return nel_ * arrayWriter_.getByteCount();
}
public int[] getDims() {
return shape_;
}
public BigDecimal getZero() {
return arrayWriter_.getZero();
}
public double getScale() {
return 1.0;
}
public Number getBadNumber() {
return null;
}
}
}