1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 256 257 258 259 260 261 262 263 264 265 266 267 268 269 270 271 272 273 274 275 276 277 278 279 280 281 282 283 284 285 286 287 288 289 290 291 292 293 294 295 296 297 298 299 300 301 302 303 304 305 306 307 308 309 310 311 312 313 314 315 316 317 318 319 320 321 322 323 324 325 326 327 328 329 330 331 332 333 334 335 336 337 338 339 340 341 342 343 344 345 346 347 348 349 350 351 352 353 354 355 356 357 358 359 360 361 362 363 364 365 366 367 368 369 370 371 372 373 374 375 376 377 378 379 380 381 382 383 384 385 386 387 388 389 390 391 392 393 394 395 396 397 398 399 400 401 402 403 404 405 406 407 408 409 410 411 412 413 414 415 416 417 418 419 420 421 422 423 424 425 426 427 428 429 430 431 432 433 434 435 436 437 438 439 440 441 442 443 444 445 446 447 448 449 450 451 452 453 454 455 456 457 458 459 460 461 462 463 464 465 466 467 468 469 470 471 472 473 474 475 476 477 478 479 480 481 482 483
|
// Astrophysics Science Division,
// NASA/ Goddard Space Flight Center
// HEASARC
// http://heasarc.gsfc.nasa.gov
// e-mail: ccfits@legacy.gsfc.nasa.gov
//
// Original author: Ben Dorman
// ColumnCreator
#include "ColumnCreator.h"
// Column
#include "Column.h"
// BinTable
#include "BinTable.h"
#ifdef SSTREAM_DEFECT
#include <strstream>
#else
#include <sstream>
#endif
#include <utility>
namespace CCfits {
// Class CCfits::BinTable
BinTable::BinTable(const BinTable &right)
: Table(right)
{
}
BinTable::BinTable (FITSBase* p, const String &hduName, bool readFlag, const std::vector<String>& keys, int version)
: Table(p, BinaryTbl, hduName, version)
{
init(readFlag,keys);
}
BinTable::BinTable (FITSBase* p, const String &hduName, int rows, const std::vector<String>& columnName, const std::vector<String>& columnFmt, const std::vector<String>& columnUnit, int version)
: Table(p, BinaryTbl, hduName, rows, columnName, columnFmt, columnUnit, version)
{
long repeat=0;
long width=0;
int status=0;
int colType=0;
ColumnCreator create(this);
for (int i=0; i < numCols(); i++)
{
status = fits_binary_tform(const_cast<char *>(columnFmt[i].c_str()),
&colType, &repeat, &width, &status);
string unitString("");
if (i < static_cast<int>(columnUnit.size()))
unitString = columnUnit[i];
Column *newCol = create.createColumn(i+1, ValueType(colType),
columnName[i], columnFmt[i],
unitString,repeat,width);
setColumn(columnName[i], newCol);
newCol->setLimits(ValueType(colType));
}
}
BinTable::BinTable (FITSBase* p, int number)
: Table(p,BinaryTbl,number)
{
init();
}
BinTable::~BinTable()
{
}
void BinTable::readTableHeader (int ncols, std::vector<String>& colName, std::vector<String>& colFmt, std::vector<String>& colUnit)
{
int status=0;
char hduName[FLEN_KEYWORD];
char** columnName = new char*[ncols];
char** columnFmt = new char*[ncols];
char** columnUnit = new char*[ncols];
int i = 0; // for MS VC++
for( ; i < ncols; i++)
{
columnName[i] = new char[FLEN_KEYWORD];
columnFmt[i] = new char[FLEN_KEYWORD];
columnUnit[i] = new char[FLEN_KEYWORD];
}
long pct = 0;
long nr = 0;
int tf = 0;
status = fits_read_btblhdr(fitsPointer(), ncols, &nr, &tf, columnName,
columnFmt, columnUnit, hduName, &pct,&status);
pcount(pct);
rows(nr);
numCols(tf);
for( i = 0; i < ncols; i++)
{
colName[i] = String(columnName[i]);
colFmt[i] = String(columnFmt[i]);
colUnit[i] = String(columnUnit[i]);
delete [] columnName[i];
delete [] columnFmt[i];
delete [] columnUnit[i];
}
delete [] columnName;
delete [] columnFmt;
delete [] columnUnit;
// throw the exception after the garbage has been collected.
if (status != 0) throw FitsError(status);
}
BinTable * BinTable::clone (FITSBase* p) const
{
BinTable* cloned = new BinTable(*this);
cloned->parent() = p;
return cloned;
}
void BinTable::readData (bool readFlag, const std::vector<String>& keys)
{
int rowsRead=0;
std::vector<String> varCols;
int status = 0;
long rowSize = 0;
// grab the optimal rowsize using the get_rowsize call. It just
// might have changed since the Table HDU was constructed so it should
// be set just before reading takes place.
if (fits_get_rowsize(fitsPointer(), &rowSize, &status)) throw FitsError(status);
// if a set of strings were supplied, interpret these as
// keywords and columns to be read.
ColMap::iterator endColumn = column().end();
size_t keysRead = 0;
size_t nkey=keys.size();
// get a container for keys which correspond to columns.
std::vector<String> colKeys;
colKeys.reserve(nkey);
if (nkey > 0)
{
// first, look for keywords if strings are supplied and read them.
for (keysRead = 0; keysRead < nkey; keysRead++)
{
try
{
// after the read function is called by the ctor,
// the columns in the table have been indexed.
// check that the key in question is not a column
// name.
if (column().find(keys[keysRead]) == endColumn) readKeyword(keys[keysRead]);
else colKeys.push_back(keys[keysRead]);
}
catch (HDU::NoSuchKeyword)
{
continue;
}
catch (...)
{
throw;
}
}
}
// if readFlag is false, don't get any data.
if (!readFlag) return;
for (rowsRead=0; rowsRead< rows() ; rowsRead+=rowSize)
{
ColMap::iterator col;
if (colKeys.size() > 0)
{
for (size_t i=0; i < colKeys.size() ; i++)
{
// if a set of keys was entered, read the data in the ones
// that correspond to columns, as checked earlier
col = column().find(colKeys[i]);
Column& current = *((*col).second);
// if the column is not of variable repeat count...
if (!current.varLength())
{
current.readData(rowsRead+1,
current.repeat()*std::min<size_t>(rowSize,rows()-rowsRead),1);
}
else
{
// store the column numbers of variable columns for later.
varCols.push_back(current.name());
}
}
}
else
{
// if no keys that correspond to column names were supplied, read all the data.
for(col = column().begin(); col != column().end(); col++ )
{
Column& current = *(*col).second;
if (!current.varLength())
{
current.readData(rowsRead+1,
current.repeat()*std::min<size_t>(rowSize,rows() - rowsRead),1);
}
else
{
varCols.push_back(current.name());
}
}
}
}
// if successful, mark read columns.
if (colKeys.size() == 0)
{
// mark all columns read
for (ColMap::iterator col = column().begin();
col != column().end(); ++col)
{
if (!(*col).second->varLength()) (*col).second->isRead(true);
}
}
else
{
for (size_t i=0; i < colKeys.size() ; i++)
{
// if a set of keys was entered, read the data in the ones
// that correspond to columns, as checked earlier.
ColMap::iterator col = column().find(colKeys[i]);
if (!(*col).second->varLength()) (*col).second->isRead(true);
}
}
// now read the variable length columns that were found earlier.
if (varCols.size() > 0 ) readVariableColumns(varCols);
}
void BinTable::readVariableColumns (const std::vector<String> &varColumns)
{
int rowsRead=0;
int status=0;
int sz=varColumns.size();
int i = 0;
while ( i < sz && status == 0 )
{
// Get bin size for the current column
Column& thisColumn = column(varColumns[i]);
int colnum = thisColumn.index();
if (thisColumn.type() == VTstring)
{
// Variable-length string columns must be treated differently.
// They are still represented as scalar columns rather than
// vector columns. Their variation refers to the string lengths,
// not the number of elements in a row.
thisColumn.readData(1, rows(), 1);
}
else
{
FITSUtil::auto_array_ptr<long> pBinSizes(new long[rows()]);
long* binSizes = pBinSizes.get();
FITSUtil::auto_array_ptr<long> pOffsets(new long[rows()]);
long* offsets = pOffsets.get();
status = fits_read_descripts(fitsPointer(), colnum, 1, rows() , binSizes,
offsets, &status);
if (status != 0) break;
// Read vector column rows one at a time.
for (rowsRead=0; rowsRead < rows() ; rowsRead++)
{
if (binSizes[rowsRead] > 0)
thisColumn.readData(rowsRead+1, binSizes[rowsRead], 1);
}
}
column(varColumns[i]).isRead(true);
i++;
}
if (status != 0) throw FitsError(status);
}
void BinTable::addColumn (ValueType type, const String& columnName, long repeatWidth, const String& colUnit, long decimals, size_t columnNumber)
{
#ifdef SSTREAM_DEFECT
std::ostrstream tformStr;
#else
std::ostringstream tformStr;
#endif
// we do NOT support the extension allowed by cfitsio whereby multiple
// strings can be saved in a binary table column cell.
String diag;
if ( repeatWidth != 1 && type != Tstring && type != VTstring)
{
tformStr << repeatWidth;
}
if (type < 0) tformStr << 'P';
switch (type)
{
case Tstring:
tformStr << repeatWidth << 'A';
break;
case VTstring:
// For variable string cols, cannot precede 'PA' with a number > 1.
tformStr << 'A';
break;
case Tbyte:
case VTbyte:
tformStr << 'B';
break;
case Tbit:
case VTbit:
tformStr << 'X';
break;
case Tlogical:
case VTlogical:
tformStr << 'L';
break;
case Tushort:
case VTushort:
tformStr << 'U';
break;
case Tshort:
case VTshort:
tformStr << 'I';
break;
case Tulong:
case VTulong:
tformStr << 'V';
break;
case Tlong:
case VTlong:
tformStr << 'J';
break;
case Tlonglong:
case VTlonglong:
tformStr << 'K';
break;
case Tuint:
case VTuint:
tformStr << 'V';
break;
case Tint:
case VTint:
tformStr << 'J';
break;
case Tfloat:
case VTfloat:
tformStr << 'E';
break;
case Tdouble:
case VTdouble:
tformStr << 'D';
break;
case Tcomplex:
case VTcomplex:
tformStr << 'C';
break;
case Tdblcomplex:
case VTdblcomplex:
tformStr << 'M';
break;
default:
diag += "Unrecognized data type for column: ";
diag += columnName;
throw InvalidColumnSpecification(diag);
}
#ifdef SSTREAM_DEFECT
tformStr << std::ends;
#endif
makeThisCurrent();
int status(0);
int colNum(0);
if ( columnNumber == 0)
{
// add one to number of existing columns.
if (fits_get_num_cols(fitsPointer(),&colNum,&status)) throw FitsError(status);
colNum +=1;
}
else
{
colNum = columnNumber;
}
String tfString(tformStr.str());
// the C prototypes don't use const, so these casts are necessary.
char* tform = const_cast<char*>(tfString.c_str());
char* ttype = const_cast<char*>(columnName.c_str());
if (fits_insert_col(fitsPointer(),colNum,ttype,tform,&status)) throw FitsError(status);
if (colUnit.size())
{
std::ostringstream ustream;
char unitComment[] = "";
ustream << "TUNIT" << colNum;
if (fits_write_key (fitsPointer(), Tstring,
const_cast<char*>(ustream.str().c_str()),
const_cast<char*>(colUnit.c_str()),
unitComment, &status))
{
throw FitsError (status);
}
}
ColumnCreator create(this);
if (columnNumber != 0) reindex(columnNumber, true);
if (type == Tstring)
{
// For fixed-width scalar string cols, TFORM is "wA" where 'w' is the
// string length. Store this value in Column::m_width and just set
// m_repeat to 1. [For vector columns the format would be
// "rAw" where r corresponds to m_repeat, but these are not currently
// supported in CCfits.]
setColumn(columnName,create.createColumn(colNum,type,columnName,tfString,
colUnit,1,repeatWidth));
}
else if (type == VTstring)
{
// For variable string column, Column::m_width could only refer to the
// width of the largest string in the col (the value 'w' in "PA(w)")
// This can't be known at column creation time (CFITSIO determines the
// 'w' each time the file is closed), so just set the m_width to 1.
setColumn(columnName,create.createColumn(colNum,type,columnName,tfString,
colUnit,1,1));
}
else
{
Column *newCol = create.createColumn(colNum,type,columnName,tfString,
colUnit,repeatWidth,1);
setColumn(columnName,newCol);
newCol->setLimits(type);
}
}
// Additional Declarations
} // namespace CCfits
|