image_t *readimage(const char *filename) {
char errmsg[80];
image_t *image = NULL;
// open the FITS file
int status = 0;
fitsfile *fits = NULL;
if (fits_open_file(&fits, filename, READONLY, &status)) {
fits_get_errstatus(status, errmsg);
fprintf(stderr, "cannot read fits file %s: %s\n",
filename, errmsg);
return NULL;
}
// find dimensions of pixel array
int igt;
int naxis;
long naxes[3];
if (fits_get_img_param(fits, 3, &igt, &naxis, naxes, &status)) {
fits_get_errstatus(status, errmsg);
fprintf(stderr, "cannot read fits file info: %s\n", errmsg);
goto bad;
}
image = (image_t *)malloc(sizeof(image_t));
image->width = naxes[0];
image->height = naxes[1];
// read the pixel data
long npixels = image->width * image->height;
image->data = (double *)malloc(npixels * sizeof(double));
long firstpixel[3] = { 1, 1, 1 };
if (fits_read_pix(fits, TDOUBLE, firstpixel, npixels, NULL, image->data,
NULL, &status)) {
fits_get_errstatus(status, errmsg);
fprintf(stderr, "cannot read pixel data: %s\n", errmsg);
goto bad;
}
// close the file
if (fits_close_file(fits, &status)) {
fits_get_errstatus(status, errmsg);
fprintf(stderr, "cannot close fits file %s: %s\n",
filename, errmsg);
goto bad;
}
// return the image
return image;
bad:
if (image) {
if (image->data) {
free(image->data);
}
free(image);
}
if (fits) {
fits_close_file(fits, &status);
}
return NULL;
}
void writeFITS(const cv::Mat& cvImage, const std::string& filename)
{
if(cvImage.channels() != 1)
{
CustomException("writeFITS: Only able to write FITS from single channel images.");
}
fitsfile *fptr; //pointer to the FITS file defined in fitsioh
int status;
char err_text[100];
cv::Mat floatImg = cv::Mat_<float>(cvImage);
long fpixel = 1, naxis = 2, nelements;
long naxes[2] = {cvImage.cols, cvImage.rows};
float array[cvImage.cols][cvImage.rows];
for(int i = 0;i < floatImg.rows ;i++)
{
for(int j = 0;j < floatImg.cols ;j++)
{
array[j][i] = floatImg.at<float>(j,i);
}
}
status=0;
fits_create_file(&fptr, filename.c_str(), &status);
if (status)
{
fits_report_error(stdout, status);
fits_get_errstatus(status,err_text);
fptr = nullptr;
throw CustomException("writeFITS: Cannot create fits file.");
}
fits_create_img(fptr, FLOAT_IMG, naxis, naxes, &status);
if (status)
{
fits_report_error(stdout, status);
fits_get_errstatus(status,err_text);
fptr = nullptr;
throw CustomException("writeFITS: Cannot create image file.");
}
nelements = naxes[0] * naxes[1];
fits_write_img(fptr, TFLOAT, fpixel, nelements, array[0], &status);
if (status)
{
fits_report_error(stdout, status);
fits_get_errstatus(status,err_text);
fptr = nullptr;
throw CustomException("writeFITS: Cannot write image file.");
}
fits_close_file(fptr, &status);
fits_report_error(stderr, status);
}
/*--------------------------------------------------------------------------*/
void printerror( int status)
{
/*****************************************************/
/* Print out cfitsio error messages and exit program */
/*****************************************************/
char status_str[FLEN_STATUS], errmsg[FLEN_ERRMSG];
if (status)
fprintf(stderr, "\n*** Error occurred during program execution ***\n");
fits_get_errstatus(status, status_str); /* get the error description */
fprintf(stderr, "\nstatus = %d: %s\n", status, status_str);
/* get first message; null if stack is empty */
if ( fits_read_errmsg(errmsg) )
{
fprintf(stderr, "\nError message stack:\n");
fprintf(stderr, " %s\n", errmsg);
while ( fits_read_errmsg(errmsg) ) /* get remaining messages */
fprintf(stderr, " %s\n", errmsg);
}
exit( status ); /* terminate the program, returning error status */
}
/** Opens a FITS file.
* \param[in] fileName The name of the file to open.
* \param[in] openMode Mask defining how the file should be opened; bits are
* NDFileModeRead, NDFileModeWrite, NDFileModeAppend, NDFileModeMultiple
* \param[in] pArray A pointer to an NDArray; this is used to determine the array and attribute properties.
*/
asynStatus
NDFileFITS::openFile(const char *fileName, NDFileOpenMode_t openMode, NDArray *pArray) {
static const char *functionName = "openFile";
// We don't support reading yet
if (openMode & NDFileModeRead) return(asynError);
// We don't support opening an existing file for appending yet
if (openMode & NDFileModeAppend) return(asynError);
// At present only 16 bits unsigned images are valid.
if (pArray->dataType != NDUInt16) return(asynError);
//>>>>>>>>>>>>>>if (FITSType != 0) return(asynError);
fitsStatus = 0;
if(fits_create_file(&fitsFilePtr, fileName, &fitsStatus)) {// create new FITS file
// get the error description
fits_get_errstatus(fitsStatus, fits_status_str);
asynPrint(pasynUserSelf, ASYN_TRACE_ERROR,
"%s::%s error opening file %s error=%s\n",
driverName, functionName, fileName, fits_status_str);
fits_clear_errmsg();
return (asynError);
}
return(asynSuccess);
}
void FITSTab::saveFile()
{
int err_status;
char err_text[FLEN_STATUS];
KUrl backupCurrent = currentURL;
QString currentDir = Options::fitsDir();
if (currentURL.path().contains("/tmp/"))
currentURL.clear();
// If no changes made, return.
if( mDirty == false && !currentURL.isEmpty())
return;
if (currentURL.isEmpty())
{
currentURL = KFileDialog::getSaveUrl( currentDir, "*.fits |Flexible Image Transport System");
// if user presses cancel
if (currentURL.isEmpty())
{
currentURL = backupCurrent;
return;
}
if (currentURL.path().contains('.') == 0)
currentURL.setPath(currentURL.path() + ".fits");
if (QFile::exists(currentURL.path()))
{
int r = KMessageBox::warningContinueCancel(0,
i18n( "A file named \"%1\" already exists. "
"Overwrite it?", currentURL.fileName() ),
i18n( "Overwrite File?" ),
KGuiItem(i18n( "&Overwrite" )) );
if(r==KMessageBox::Cancel) return;
}
}
if ( currentURL.isValid() )
{
if ( (err_status = saveFITS('!' + currentURL.path())) < 0)
{
fits_get_errstatus(err_status, err_text);
// Use KMessageBox or something here
KMessageBox::error(0, i18n("FITS file save error: %1",
QString::fromUtf8(err_text)), i18n("FITS Save"));
return;
}
//statusBar()->changeItem(i18n("File saved."), 3);
emit newStatus(i18n("File saved."), FITS_MESSAGE);
modifyFITSState();
} else
{
QString message = i18n( "Invalid URL: %1", currentURL.url() );
KMessageBox::sorry( 0, message, i18n( "Invalid URL" ) );
}
}
/** Writes single NDArray to the FITS file.
* \param[in] pArray Pointer to the NDArray to be written
*/
asynStatus
NDFileFITS::writeFile(NDArray *pArray) {
static const char *functionName = "writeFile";
asynPrint(this->pasynUserSelf, ASYN_TRACE_FLOW,
"%s:%s: %lu, %lu\n",
driverName, functionName, (unsigned long)pArray->dims[0].size, (unsigned long)pArray->dims[1].size);
NDArrayInfo arrayInfo;
pArray->getInfo(&arrayInfo);
int nx = (int) arrayInfo.xSize;
int ny = (int) arrayInfo.ySize;
long naxis = 2; // 2-dimensional image
long naxes[2] = { nx, ny };
fitsStatus = 0;
if(fits_create_img(fitsFilePtr, USHORT_IMG, naxis, naxes, &fitsStatus)) {
fits_get_errstatus(fitsStatus, fits_status_str);
asynPrint(pasynUserSelf, ASYN_TRACE_ERROR,
"%s::%s error creating fits image: error=%s\n",
driverName, functionName, fits_status_str);
fits_clear_errmsg();
return asynError;
}
if(fits_write_img(fitsFilePtr, CFITSIO_TUSHORT, 1, naxes[0]*naxes[1], pArray->pData, &fitsStatus)) {
fits_get_errstatus(fitsStatus, fits_status_str);
asynPrint(pasynUserSelf, ASYN_TRACE_ERROR,
"%s::%s error writing fits image: error=%s\n",
driverName, functionName, fits_status_str);
fits_close_file(fitsFilePtr, &fitsStatus);
fits_clear_errmsg();
return asynError;
}
if(WriteKeys(fitsFilePtr, &fitsStatus)) {
fits_get_errstatus(fitsStatus, fits_status_str);
asynPrint(pasynUserSelf, ASYN_TRACE_ERROR,
"%s::%s error writing fits image: error=%s\n",
driverName, functionName, fits_status_str);
fits_close_file(fitsFilePtr, &fitsStatus);
return asynError;
}
return(asynSuccess);
}
void mShrink_printFitsError(int status)
{
char status_str[FLEN_STATUS];
fits_get_errstatus(status, status_str);
strcpy(montage_msgstr, status_str);
}
static void
vips_fits_error( int status )
{
char buf[80];
fits_get_errstatus( status, buf );
vips_error( "fits", "%s", buf );
}
void fits_error(const char* filename, int status)
{
char err_text[32];
fits_get_errstatus(status, err_text);
errorf(filename, 0, "%s", err_text);
}
static void CheckErrors(int status)
{
if(status)
{
char err_text[32];
fits_get_errstatus(status, err_text);
printf("Error: %s\n",err_text);
}
}
int FITSerror(int status)
{
char status_str[FLEN_STATUS];
fits_get_errstatus(status, status_str);
fprintf(fstatus, "[struct stat=\"ERROR\", status=%d, msg=\"%s\"]\n", status, status_str);
exit(1);
}
void montage_printFitsError(int status)
{
char status_str[FLEN_STATUS];
fits_get_errstatus(status, status_str);
fprintf(fstatus, "[struct stat=\"ERROR\", flag=%d, msg=\"%s\"]\n", status, status_str);
exit(1);
}
void writeimage(const image_t *image, const char *filename) {
if (debug) {
fprintf(stderr, "%s:%d: writing image %s\n", __FILE__, __LINE__,
filename);
}
char errmsg[80];
int status = 0;
fitsfile *fits = NULL;
if (fits_create_file(&fits, filename, &status)) {
fits_get_errstatus(status, errmsg);
fprintf(stderr, "cannot create fits file %s: %s\n",
filename, errmsg);
return;
}
// find dimensions of pixel array
int naxis = 2;
long naxes[2] = { image->width, image->height };
if (fits_create_img(fits, DOUBLE_IMG, naxis, naxes, &status)) {
fits_get_errstatus(status, errmsg);
fprintf(stderr, "cannot create image: %s\n", errmsg);
goto bad;
}
// read the pixel data
long npixels = image->width * image->height;
long firstpixel[3] = { 1, 1, 1 };
if (fits_write_pix(fits, TDOUBLE, firstpixel, npixels,
image->data, &status)) {
fits_get_errstatus(status, errmsg);
fprintf(stderr, "cannot write pixel data: %s\n", errmsg);
}
bad:
// close the file
if (fits_close_file(fits, &status)) {
fits_get_errstatus(status, errmsg);
fprintf(stderr, "cannot close fits file %s: %s\n",
filename, errmsg);
goto bad;
}
}
static void
err_FITS(GError **error, gint status)
{
gchar buf[31]; /* Max length is specified as 30. */
fits_get_errstatus(status, buf);
buf[sizeof(buf)-1] = '\0';
g_set_error(error, GWY_MODULE_FILE_ERROR, GWY_MODULE_FILE_ERROR_SPECIFIC,
_("CFITSIO error while reading the FITS file: %s."),
buf);
}
void Fits2D::printerror(int status){
if(status){
char status_str[200];
fits_get_errstatus(status, status_str);
std::string str(status_str);
BOOST_LOG_SEV(logger, fail) << "CFITSIO ERROR : " << status << " -> " << str;
cout << "CFITSIO ERROR : " << status << " -> " << str << endl;
}
}
char * get_fitsio_error_message(void)
{
if(fitsio_status == 0)
return NULL;
else
{
char string[80];
fits_get_errstatus(fitsio_status, string);
fitsio_status = 0;
return strdup(string);
}
}
/** Closes the FITS file. */
asynStatus
NDFileFITS::closeFile() {
static const char *functionName = "closeFile";
if(fits_close_file(fitsFilePtr, &fitsStatus)) {
fits_get_errstatus(fitsStatus, fits_status_str);
asynPrint(pasynUserSelf, ASYN_TRACE_ERROR,
"%s::%s error closing fits image file: error=%s\n",
driverName, functionName, fits_status_str);
fits_clear_errmsg();
return asynError;
}
return asynSuccess;
}
void FITSTab::headerFITS()
{
QString recordList;
int nkeys;
int err_status;
char err_text[FLEN_STATUS];
FITSImage *image_data = image->getImageData();
if ( (err_status = image_data->getFITSRecord(recordList, nkeys)) < 0)
{
fits_get_errstatus(err_status, err_text);
KMessageBox::error(0, i18n("FITS record error: %1", QString::fromUtf8(err_text)), i18n("FITS Header"));
return;
}
//FIXME: possible crash! Must use QPointer<...>!
QDialog fitsHeaderDialog;
Ui::fitsHeaderDialog header;
header.setupUi(&fitsHeaderDialog);
header.tableWidget->setRowCount(nkeys);
for(int i = 0; i < nkeys; i++)
{
QString record = recordList.mid(i*80, 80);
// I love regexp!
QStringList properties = record.split(QRegExp("[=/]"));
QTableWidgetItem* tempItem = new QTableWidgetItem(properties[0].simplified());
tempItem->setFlags(Qt::ItemIsSelectable | Qt::ItemIsEnabled);
header.tableWidget->setItem(i, 0, tempItem);
if (properties.size() > 1)
{
tempItem = new QTableWidgetItem(properties[1].simplified());
tempItem->setFlags(Qt::ItemIsSelectable | Qt::ItemIsEnabled);
header.tableWidget->setItem(i, 1, tempItem);
}
if (properties.size() > 2)
{
tempItem = new QTableWidgetItem(properties[2].simplified());
tempItem->setFlags(Qt::ItemIsSelectable | Qt::ItemIsEnabled);
header.tableWidget->setItem(i, 2, tempItem);
}
}
header.tableWidget->resizeColumnsToContents();
fitsHeaderDialog.exec();
}
void fits_print_error(int status) {
if (!status) return;
static char status_str[FLEN_STATUS];
static char errmsg[FLEN_ERRMSG];
/* get the error description */
fits_get_errstatus(status, status_str);
fprintf(stderr, " Error: cfitsio %d: %s\n", status, status_str);
/* get error stack messages */
while (fits_read_errmsg(errmsg))
fprintf(stderr, " %s\n", errmsg);
}
void FitsFile::CheckStatus(int status) const {
if(status) {
/* fits_get_errstatus returns at most 30 characters */
char err_text[31];
fits_get_errstatus(status, err_text);
char err_msg[81];
std::stringstream errMsg;
errMsg << "CFITSIO reported error when performing IO on file '" << _filename << "':" << err_text << " (";
while(fits_read_errmsg(err_msg))
errMsg << err_msg;
errMsg << ')';
throw FitsIOException(errMsg.str());
}
}
void __fastcall TForm1::printerror( int status)
{
char status_str[FLEN_STATUS], errmsg[FLEN_ERRMSG];
char aux[300];
if (status)
Memo1->Lines->Add("\n*** Error occurred during program execution ***\n");
fits_get_errstatus(status, status_str); // get the error description
wsprintf(aux, "\nstatus = %d: %s\n", status, status_str);
Memo1->Lines->Add(aux);
if ( fits_read_errmsg(errmsg) )//get first message; null if stack is empty
{
Memo1->Lines->Add( "\nError message stack:\n");
Memo1->Lines->Add( errmsg);
while ( fits_read_errmsg(errmsg) ) // get remaining messages
Memo1->Lines->Add( errmsg);
}
}
void printFitsError(int status)
{
char status_str[FLEN_STATUS], errmsg[FLEN_ERRMSG];
if(status)
fprintf(stderr, "\n*** Error occurred during program execution ***\n");
fits_get_errstatus(status, status_str);
fprintf(stderr, "\nstatus = %d: %s\n", status, status_str);
if(fits_read_errmsg(errmsg))
{
fprintf(stderr, "\nError message stack:\n");
fprintf(stderr, " %s\n", errmsg);
while(fits_read_errmsg(errmsg))
fprintf(stderr, " %s\n", errmsg);
}
exit(status);
}
/* copy image section from input to putput, with binning */
int copyImageSection(fitsfile *ifptr, fitsfile *ofptr,
int *dims, double *cens, int bin, char *slice,
int *status)
{
void *buf;
char card[FLEN_CARD];
char tbuf[SZ_LINE];
int numkeys, nkey, bitpix, dtype;
int start[2];
int end[2];
int naxis = 2;
long nelements;
long naxes[2];
long fpixel[2] = {1,1};
buf = getImageToArray(ifptr, dims, cens, bin, slice, start, end, &bitpix,
status);
if( !buf || *status ){
fits_get_errstatus(*status, tbuf);
fprintf(stderr, "ERROR: could not create section for output image: %s\n",
tbuf);
return *status;
}
/* get image size and total number of elements */
naxes[0] = (int)((end[0] - start[0] + 1) / bin);
naxes[1] = (int)((end[1] - start[1] + 1) / bin);
nelements = naxes[0] * naxes[1];
/* convert bitpix to cfitio data type */
switch(bitpix){
case 8:
dtype = TBYTE;
break;
case 16:
dtype = TSHORT;
break;
case -16:
dtype = TUSHORT;
break;
case 32:
dtype = TINT;
break;
case 64:
dtype = TLONGLONG;
break;
case -32:
dtype = TFLOAT;
break;
case -64:
dtype = TDOUBLE;
break;
default:
fprintf(stderr, "ERROR: unknown data type for image section\n");
return -1;
}
/* this code is modeled after cfitsio/cfileio.c/fits_copy_image_section() */
fits_create_img(ofptr, bitpix, naxis, naxes, status);
/* copy all other non-structural keywords from the input to output file */
fits_get_hdrspace(ifptr, &numkeys, NULL, status);
for(nkey=4; nkey<=numkeys; nkey++) {
fits_read_record(ifptr, nkey, card, status);
if (fits_get_keyclass(card) > TYP_CMPRS_KEY){
/* write the record to the output file */
fits_write_record(ofptr, card, status);
}
}
if( *status > 0 ){
fprintf(stderr,
"ERROR: can't copy header from input image to output section");
return(*status);
}
/* write image to FITS file */
fits_write_pix(ofptr, dtype, fpixel, nelements, buf, status);
/* update LTM/TLV values in header */
updateLTM(ifptr, ofptr,
(int)((end[0] + start[0]) / 2), (int)((end[1] + start[1]) / 2),
(int)(end[0] - start[0] + 1), (int)(end[1] - start[1] + 1),
bin, 1);
/* free up space */
if( buf ){
free(buf);
}
/* return status */
return *status;
}
int main(int argc, char **argv)
{
int i, j, indx, n_file, special_key, knul=0, anynull, hdutype, status=0;
int LastSlashIndex;
int NDump, NChan, NumHDU;
long nrows=0;
double ChanFreq, BW, CentFreq, DM;
double TDump, StartTime, DumpMiddleSecs, ScanLen;
char KeyValue[32], err_text[256];
char cur_file[256], cur_file_short[64];
char HdrVer[16];
char aspoutstr[11], dumprefstr[11];
fitsfile *Fin;
Cmdline *Cmd;
/* Get command line variables */
Cmd = parseCmdline(argc, argv);
/* Normally use this somewhere, and not showOptionValues */
Cmd->tool = Cmd->tool;
/* InfileP = (argc > 1); printf("InfileP = %d\n", InfileP);
InfileC = (argc - 1); printf("InfileC = %d\n", InfileC);
Infile = (char **)malloc(InfileC);
for (i=0; i<InfileC; i++) {
Infile[i] = (char *)malloc(256);
if (strlen(argv[i+1]) > 255) {
fprintf(stderr, "Error: argument %d is too long.\n", i+1);
exit(1);
}
else{
strcpy(Infile[i], argv[i+1]);
}
printf("Argument %d: %s = %s\n", i+1, Infile[i], argv[i+1]);
} */
/************* Keyword list output **************/
if (Cmd->ListP) {
if (argc > 2) {
fprintf(stderr,"\n-list option must be used alone. Exiting...\n");
exit(1);
}
else{
printf("\nSome available keywords/info options useable with the ");
printf("-key flag:\n");
printf("\nObserving frequency-related options:\n");
printf("\nNCHAN: No. of channels\n");
printf("CFRQ: Centre frequecy\n");
printf("BW: Bandwidth\n");
printf("STARTCHAN: First (0th) frequency channel\n");
printf("ENDCHAN: Last (NCHAN-th) frequency channel\n");
printf("ALLCHAN: List all channels (ALLCHAN keyword output does\n");
printf(" not follow convention of -col flag)\n");
printf("\nIntegration-related options:\n");
printf("\nNDUMP: No. of integrations\n");
printf("TDUMP: Individual integration time (s)\n");
printf("SCANLEN: Full scan length of input file (s)\n");
printf("NPTSPROF: No. of bins in integrated profiles\n");
printf("\nOther options:\n");
printf("\nSRC_NAME: Source Name\n");
printf("DM: Dispersion measure\n");
printf("OBS_MODE: PSR/CAL -- normal or calibration scan\n");
printf("OBSVTY: Observatory code\n");
printf("FD_POLN: Polarisation basis (e.g. L or C for linear or\n");
printf(" circular, respectively)\n");
printf("RA: Right ascension of source\n");
printf("DEC: Declination of source\n");
printf("\nNote that all -key arguments are NOT case-sensitive.\n");
}
}
else if(Cmd->TDiffP) {
if (Cmd->KeywordP) {
fprintf(stderr,"\n-tdiff option must be used alone. Exiting...\n");
exit(1);
}
}
else{
if(!Cmd->KeywordP){
printf("Must use -key option with appropriate arguments if not\n");
printf("using -list or -tdiff flag\n");
exit(1);
}
if(!Cmd->InfileP){
printf("Must use -infile option with input file arguments if not\n");
printf("using -list or -tdiff flag\n");
exit(1);
}
}
/*************************************************/
/* Print header line */
if(Cmd->KeywordP && Cmd->ColumnP) {
printf("%s ","File");
for(i=0;i<Cmd->KeywordC;i++)
printf("%s ",Cmd->Keyword[i]);
printf("\n");
}
else if(Cmd->TDiffP){ // for Tdiff
printf("File Source MJD TDIFF [ns]\n");
}
for(n_file=0;n_file<Cmd->InfileC;n_file++){
strcpy(cur_file,Cmd->Infile[n_file]);
/* Open fits file */
if(fits_open_file(&Fin, cur_file, READONLY, &status)){
printf("\nError opening FITS file %s\n",
cur_file);
fits_get_errstatus(status, err_text);
printf("FITS Error status %d: %s\n",status,err_text);
exit(1);
}
status=0;
/* get rid of everthing before and including last forward slash
in the filename for printing to screen: */
LastSlashIndex = -1;
for(i=strlen(cur_file)-1;i>0;i--){
if(!strncasecmp(&cur_file[i],"/",1)){
LastSlashIndex = i;
break;
}
}
strncpy(cur_file_short,&cur_file[LastSlashIndex+1],strlen(cur_file)-LastSlashIndex);
if(Cmd->TDiffP){
/******************** TDIFF ***********************/
int i_dump;
int IMJDStart, SMJDStart;
double StartMJD, MJD, TDiff;
char ObsCode[4], psr[12];
/* Check this is Nancay data */
fits_read_key(Fin, TSTRING, "OBSVTY", ObsCode, NULL, &status);
if(strncmp(ObsCode,"f",1)) {
printf("\nError: File %s does not contain Nancay data (obs code = %s).",
cur_file_short,ObsCode);
printf(" Cannot extract TDIFF from this file. Exiting.\n");
exit(2);
}
/* Get pulsar name */
fits_read_key(Fin, TSTRING, "SRC_NAME", psr, NULL, &status);
/* Calculate start MJD */
fits_read_key(Fin, TINT, "STT_IMJD",
&(IMJDStart),NULL, &status); status = 0;
fits_read_key(Fin, TINT, "STT_SMJD",
&(SMJDStart),NULL, &status); status = 0;
StartMJD = (double)IMJDStart + (double)SMJDStart/86400.;
/* Find nuber of dumps in this file */
fits_get_num_hdus(Fin, &NumHDU, &status);
NDump = NumHDU-3; // Nancay data is always Ver1.0
/* Loop through each dump and pick out time stamp and phase */
fits_movnam_hdu(Fin, BINARY_TBL, "ASPOUT0", 0, &status);
for (i_dump=0;i_dump<NDump;i_dump++){
fits_movrel_hdu(Fin, 1, NULL, &status);
fits_read_key(Fin, TDOUBLE, "DUMPMIDSECS",
&(DumpMiddleSecs),NULL, &status); status = 0;
fits_read_key(Fin, TDOUBLE, "DUMPTDIFF",
&(TDiff),NULL, &status); status = 0;
MJD = StartMJD + DumpMiddleSecs/86400.;
printf("%s ",cur_file_short);
printf("%s ",psr);
printf("%14.8lf ",MJD);
printf("%7.3lf \n",TDiff);
}
}
// else
if(Cmd->ColumnP) printf("%s ",cur_file_short);
else printf("\nKeywords in %s:\n\n", cur_file_short);
/* For each keyword requested... */
for(i=0;i<Cmd->KeywordC;i++){
special_key=0;
/* Clear Keyword */
strcpy(KeyValue,"\0");
/**************** Channel-based keywords: *****************/
if(!strcasecmp(Cmd->Keyword[i],"NChan") || // # of channels
!strncasecmp(Cmd->Keyword[i],"CFRQ",4) || // centre frequency
!strncasecmp(Cmd->Keyword[i],"BW",2) || // bandwidth in MHz
!strcasecmp(Cmd->Keyword[i],"StartChan") || // first channel (MHz)
!strcasecmp(Cmd->Keyword[i],"EndChan") || // last channel (MHz)
!strcasecmp(Cmd->Keyword[i],"AllChan")){ // all channels (MHz)
/* move to channel table */
fits_movnam_hdu(Fin, ASCII_TBL, "BECONFIG", 0, &status);
ffgnrw(Fin, &nrows, &status);
indx = 1;
fits_read_col(Fin, TINT, indx++, 1, 1, 1, &knul,
&NChan, &anynull, &status);
/* Write heading for AllChans keyword if requested */
if (!strcasecmp(Cmd->Keyword[i],"AllChan"))
printf("\nAll Channels:\n");
/* Read NChans number, copy to keyword */
if (!strcasecmp(Cmd->Keyword[i],"NChan"))
sprintf(KeyValue,"%d",NChan);
/* Initialize BW and CentFreq variables */
BW=CentFreq=0.;
for (j=0; j<NChan; j++) {
/* read each channel in succession */
fits_read_col(Fin, TDOUBLE, indx++, 1, 1, 1, NULL,
&ChanFreq, &anynull, &status);
/* Take not of first channel if StartChan keyword is requested */
if (!strcasecmp(Cmd->Keyword[i],"StartChan") && j==0)
sprintf(KeyValue,"%6.1lf",ChanFreq);
/* Calculate bandwidth or centre frequency using first and last
channels */
if((!strncasecmp(Cmd->Keyword[i],"BW",2) ||
!strncasecmp(Cmd->Keyword[i],"CFRQ",4))){
if (j==0)
BW = CentFreq = ChanFreq;
if (j==NChan-1) {
/* +4 because we are subtracting centres of channels,
so this includes the edges... */
BW = fabs(ChanFreq-BW)+4.;
CentFreq = 0.5*(CentFreq + ChanFreq);
}
}
/* Print each channel separately if AllChans keyword is requestes */
if (!strcasecmp(Cmd->Keyword[i],"AllChan"))
printf("%6.1lf ",ChanFreq);
}
/* Take note of last channel if requested */
if (!strcasecmp(Cmd->Keyword[i],"EndChan"))
sprintf(KeyValue,"%6.1lf",ChanFreq);
/* Copy centre frequency and bandwidth keywords to keyword variable
if requested */
if (!strncasecmp(Cmd->Keyword[i],"CFRQ",4))
sprintf(KeyValue,"%6.1lf",CentFreq);
if(!strncasecmp(Cmd->Keyword[i],"BW",2))
sprintf(KeyValue,"%6.1lf",BW);
/* If AllChans is requested, print newline */
if (!strcasecmp(Cmd->Keyword[i],"AllChan")) {
special_key=1;
printf("\n");
}
/* Move file pointer back to beginning of file */
fits_movrel_hdu(Fin, -1, NULL, &status);
/**************** End channel-based keywords: *****************/
}
/**************** DM keyword: *****************/
else if(!strcasecmp(Cmd->Keyword[i],"DM")) {
// special_key=1;
fits_movnam_hdu(Fin, ASCII_TBL, "COHDDISP", 0, &status);
ffgnrw(Fin, &nrows, &status);
indx = 1;
fits_read_col(Fin, TDOUBLE, indx, 1, 1, 1, NULL,
&DM, &anynull, &status);
sprintf(KeyValue,"%8.5lf",DM);
fits_movrel_hdu(Fin, -2, NULL, &status);
/**************** End DM keyword: *****************/
}
/**************** NDUMPS or SCANLEN keyword: *****************/
else if(!strcasecmp(Cmd->Keyword[i],"NDUMP") || // # of dumps
!strcasecmp(Cmd->Keyword[i],"NDUMPS") ||
!strcasecmp(Cmd->Keyword[i],"TDUMP") || // dump length in secs
!strcasecmp(Cmd->Keyword[i],"SCANLEN")){ // length of scans in secs
/* Get the number of dumps. this depensd on version of asp file code */
fits_get_num_hdus(Fin, &NumHDU, &status);
fits_read_key(Fin, TSTRING, "HDRVER", HdrVer, NULL, &status);
status=0;
if(!strcasecmp(HdrVer,"Ver1.0")){
/* divided by 2 since half the tables are phase/period vs. freq
before each data table */
NDump = NumHDU-3;
}
else if(!strcasecmp(HdrVer,"Ver1.0.1")){
/* the "3" is temporary, depending on how many non-data tables we
will be using */
NDump = (NumHDU-3)/2;
}
else{
printf("Do not recognize FITS file version number in header.\n");
printf("This header %s. Exiting...\n",HdrVer);
exit(3);
}
if (!strncasecmp(Cmd->Keyword[i],"NDUMP",4)) { // covers NDUMPS also...
sprintf(KeyValue,"%d",NDump);
}
// if need TDUMP or Total Scan Length (SCANLEN):
if (!strcasecmp(Cmd->Keyword[i],"TDUMP") || // dump length in secs
!strcasecmp(Cmd->Keyword[i],"SCANLEN")) {
/* Get time between successive scans */
/* Get start time */
fits_read_key(Fin, TDOUBLE, "STT_SMJD", &StartTime, NULL, &status);
if (NDump > 1) {
sprintf(aspoutstr,"ASPOUT%d",NDump-2);
sprintf(dumprefstr,"DUMPREF%d",NDump-2);
// printf ("\n%s %s\n",aspoutstr,dumprefstr);
/* Move to first data table , get central time stamp */
if(!strcasecmp(HdrVer,"Ver1.0")) {
fits_movnam_hdu(Fin, BINARY_TBL, "ASPOUT0", 0, &status);
fits_read_key(Fin, TDOUBLE, "DUMPMIDSECS",
&(DumpMiddleSecs),NULL, &status); status = 0;
}
else if (!strcasecmp(HdrVer,"Ver1.0.1")) {
fits_movnam_hdu(Fin, ASCII_TBL, "DUMPREF0", 0, &status);
fits_read_key(Fin, TDOUBLE, "MIDSECS", &(DumpMiddleSecs),
NULL, &status); status = 0;
}
TDump = DumpMiddleSecs;
/* Move to second data table , get central time stamp */
sprintf(aspoutstr,"ASPOUT%d",234);
sprintf(dumprefstr,"DUMPREF%d",234);
// printf ("\n%s %s\n",aspoutstr,dumprefstr);
if(!strcasecmp(HdrVer,"Ver1.0")) {
fits_movnam_hdu(Fin, BINARY_TBL, "ASPOUT1", 0, &status);
fits_read_key(Fin, TDOUBLE, "DUMPMIDSECS",
&(DumpMiddleSecs),NULL, &status); status = 0;
}
else if (!strcasecmp(HdrVer,"Ver1.0.1")) {
fits_movnam_hdu(Fin, ASCII_TBL, "DUMPREF1", 0, &status);
fits_read_key(Fin, TDOUBLE, "MIDSECS", &(DumpMiddleSecs),
NULL, &status); status = 0;
}
if(DumpMiddleSecs < TDump) DumpMiddleSecs += 86400.;
// printf("First = %lf, Second = %lf\n", TDump, DumpMiddleSecs);
TDump = DumpMiddleSecs - TDump;
}
else {
/* We may have switched over to the next MJD, so take care of
this if it's the case */
if (DumpMiddleSecs < StartTime) DumpMiddleSecs += 86400.;
/* TDump is twice the difference between the middle time stamp
and the start time */
TDump = 2.* ((double)floor(DumpMiddleSecs) - StartTime);
}
if (!strncasecmp(Cmd->Keyword[i],"TDUMP",4)) {
sprintf(KeyValue,"%9.3lf",TDump);
}
if (!strcasecmp(Cmd->Keyword[i],"SCANLEN")) {
ScanLen = NDump*TDump;
sprintf(KeyValue,"%7.1lf",ScanLen);
}
/* Move back to first HDU again */
fits_movabs_hdu(Fin,1,&hdutype,&status);status = 0;
}
}
/**************** Other keywords: *****************/
else{
fits_read_key(Fin, TSTRING, Cmd->Keyword[i], KeyValue, NULL, &status);
if(status == VALUE_UNDEFINED || !strcasecmp(KeyValue,"")) {
sprintf(KeyValue,"<not_found>");
}
/**************** End other keywords: *****************/
}
/* The only special keyword is AllChans. If it's not, do the following */
if(!special_key){
/* Column format */
if(Cmd->ColumnP) {
printf("%s ",KeyValue);
if(i==Cmd->KeywordC-1 && n_file<Cmd->InfileC-1) printf("\n");
}
/* Non-column format */
else {
printf("%15s: %s\n",Cmd->Keyword[i],KeyValue);
}
}
}
status=0;
fits_close_file(Fin, &status);
}
printf("\n");
fflush(stdout);
exit(0);
}
void readFITS(const std::string& fitsname, cv::Mat& cvImage)
{
fitsfile *fptr = nullptr;
int status(0);
char err_text[100];
//READONLY, READWRITE
fits_open_file(&fptr, fitsname.c_str(), READONLY, &status);
if (status)
{
fits_report_error(stdout, status);
fits_get_errstatus(status,err_text);
fptr = nullptr;
std::cout << "readFITS: Unable to open the fits file." << std::endl;
throw CustomException("readFITS: Unable to open the fits file.");
}
//turn off scaling so we read the raw pixel value
double bscale_ = 1.0, bzero_ = 0.0;
fits_set_bscale(fptr, bscale_, bzero_, &status);
int bitpix, naxis;
int maxdim(3);
long naxes[] = {1,1, 1};
fits_get_img_param(fptr, maxdim, &bitpix, &naxis, naxes, &status);
if (status)
{
fits_report_error(stdout, status);
fits_get_errstatus(status,err_text);
fptr = nullptr;
std::cout << "readFITS: Unable to get params from FITS." << std::endl;
throw CustomException("readFITS: Unable to get params from FITS.");
}
if(naxis == 2)
{
// TBYTE, TSBYTE, TSHORT, TUSHORT, TINT, TUINT, TLONG, TLONGLONG, TULONG, TFLOAT, TDOUBLE
long fpixel[] = {1, 1};
long lpixel[] = {naxes[0], naxes[1]};
long inc[] = {1, 1};
long nelements = naxes[0] * naxes[1];
double *array = new double[nelements];
fits_read_subset(fptr, TDOUBLE, fpixel, lpixel, inc, nullptr, array, nullptr, &status);
if (status)
{
fits_report_error(stdout, status);
fits_get_errstatus(status,err_text);
fptr = nullptr;
delete[] array;
throw CustomException("readFITS: Unable to read the fits file.");
}
//it seems cfitsio interprets image axes in the oppsite way of opencv
cvImage = cv::Mat(naxes[1], naxes[0], cv::DataType<double>::type, array);
fits_close_file(fptr, &status);
if (status)
{
fits_report_error(stdout, status);
fits_get_errstatus(status,err_text);
fptr = nullptr;
delete[] array;
throw CustomException("readFITS: Cannot close fits file.");
}
}
if(naxis == 3)
{
// TBYTE, TSBYTE, TSHORT, TUSHORT, TINT, TUINT, TLONG, TLONGLONG, TULONG, TFLOAT, TDOUBLE
long layer = 29; //Only consider the first layer
long fpixel[] = {1, 1, layer};
long lpixel[] = {naxes[0], naxes[1], layer};
long inc[] = {1, 1, 1};
long nelements = naxes[0] * naxes[1];
double *array = new double[nelements];
fits_read_subset(fptr, TDOUBLE, fpixel, lpixel, inc, nullptr, array, nullptr, &status);
if (status)
{
fits_report_error(stdout, status);
fits_get_errstatus(status,err_text);
fptr = nullptr;
delete[] array;
throw CustomException("readFITS: Unable to read the fits file.");
}
//it seems cfitsio interprets image axes in the oppsite way of opencv
cvImage = cv::Mat(naxes[1], naxes[0], cv::DataType<double>::type, array);
fits_close_file(fptr, &status);
if (status)
{
fits_report_error(stdout, status);
fits_get_errstatus(status,err_text);
fptr = nullptr;
delete[] array;
throw CustomException("readFITS: Cannot close fits file.");
}
}
}
int SDSS_sortredshift(spectrum *spec,int nspec) {
int i=0,*nqso=NULL;
int comp_pair(const void *x1, const void *x2);
char comment[32]="\0";
spectrum *pspec=NULL,tspec;
pair *dpair=NULL;
extern FILE *stream;
extern setblock set;
/* FITS DECLERATIONS */
int fitstatus=0;
fitsfile *infits=NULL;
/* Read in Redshifts */
for(i=0;i<nspec;i++) {
/* Just the completion counter */
if( rint(100.0*i/nspec) > rint(100.0*(i-1)/nspec))
fprintf(stream,"\b\b\b%2i%%",(int) 100*i/nspec);
fits_open_file(&infits,spec[i].file,READONLY,&fitstatus);
fits_read_key(infits,TDOUBLE,"Z",&(spec[i].zem),comment,&fitstatus);
fits_read_key(infits,TDOUBLE,"CRVAL1",&(spec[i].beginwl),comment,&fitstatus);
fits_read_key(infits,TDOUBLE,"CD1_1",&(spec[i].deltwl),comment,&fitstatus);
fits_read_key(infits,TINT,"NAXIS1",&(spec[i].np),comment,&fitstatus);
fits_close_file(infits,&fitstatus);
if(fitstatus) {
fits_get_errstatus(fitstatus,comment);
errormsg("%s",comment);
}
}
fprintf(stream,"\b\b\b");
/* Then sort in redshift */
qsort(spec,nspec,sizeof(spectrum),comp_red);
if(set.optsort==0)
return 0;
else if(set.optsort<0) {
for(i=0;i<nspec;i++) {
SPECSWAP(spec[i],spec[nspec-1-i]);
}
}
else {
/* Allocate Memory */
dpair=(pair *) malloc(nspec*sizeof(pair));
pspec=(spectrum *)malloc(nspec*sizeof(spectrum));
/* Initialize data pairs for sorting */
for(i=0;i<nspec;i++) {
dpair[i].idx=i;
if(set.optsort>0){
pspec[i]=spec[i];
dpair[i].value=fabs(set.optsort-spec[i].zem);
}
}
qsort(dpair,nspec,sizeof(pair),comp_pair);
for(i=0;i<nspec;i++){
spec[i]=pspec[dpair[i].idx];
}
free(pspec);free(dpair);
}
return 0;
}
/* process this command */
static int ProcessCmd(char *cmd, char **args, int node, int tty)
{
int ip=0;
char tbuf[SZ_LINE];
Finfo finfo, tfinfo;
#if HAVE_CFITSIO
int x0, x1, y0, y1, bin;
int xcolnum, ycolnum, hdunum, hdutype;
int status=0, status2=0;
int dims[2];
double cens[2];
char *cols[2] = {"X", "Y"};
char *ofile=NULL;
char *omode=NULL;
fitsfile *ifptr, *ofptr, *tfptr;
#endif
switch(*cmd){
case 'f':
if( !strcmp(cmd, "fitsFile") ){
if( args && word(args[0], tbuf, &ip) ){
if( !(tfinfo=FinfoLookup(tbuf)) ){
fprintf(stderr, NOIMAGE, tbuf);
return 1;
}
} else if( !(tfinfo=FinfoGetCurrent()) ){
fprintf(stderr, NOFINFO, cmd);
return 1;
}
if( tfinfo->fitsfile ){
if( node ) fprintf(stdout, "fitsFile\r");
fprintf(stdout, "%s %s\n", tfinfo->fname, tfinfo->fitsfile);
fflush(stdout);
}
return 0;
}
break;
break;
case 'i':
if( !strcmp(cmd, "image") ){
if( !args || !word(args[0], tbuf, &ip) ){
fprintf(stderr, WRONGARGS, cmd, 1, 0);
return 1;
}
/* new image */
if( !(finfo = FinfoNew(tbuf)) ){
fprintf(stderr, NONEW, cmd);
return 1;
}
/* make it current */
FinfoSetCurrent(finfo);
if( node ) fprintf(stdout, "image\r");
/* return the FITS file name, if possible */
fprintf(stdout, "%s %s\n",
finfo->fname, finfo->fitsfile ? finfo->fitsfile : "?");
fflush(stdout);
return 0;
} else if( !strcmp(cmd, "image_") ){
if( !args || !word(args[0], tbuf, &ip) ){
fprintf(stderr, WRONGARGS, cmd, 1, 0);
return 1;
}
/* new image */
if( !(finfo = FinfoNew(tbuf)) ){
fprintf(stderr, NONEW, cmd);
return 1;
}
/* make it current */
FinfoSetCurrent(finfo);
/* no output! */
return 0;
} else if( !strcmp(cmd, "imsection") ){
#if HAVE_CFITSIO
if( !(finfo=FinfoGetCurrent()) ){
fprintf(stderr, NOFINFO, cmd);
return 1;
}
ifptr = openFITSFile(finfo->fitsfile, EXTLIST, &hdutype, &status);
if( status ){
fprintf(stderr, "ERROR: can't open FITS file '%s'\n", finfo->fitsfile);
return 1;
}
if( !args || !parseSection(args[0], &x0, &x1, &y0, &y1, &bin) ){
fprintf(stderr,
"ERROR: can't parse section for '%s' [%s]\n",
finfo->fitsfile, (args && args[1]) ? args[1] : "NONE");
return 1;
}
if( args[1] ){
omode = args[1];
} else {
omode = "native";
}
ofile = "stdout";
// create image if ifile is an image or omode is not native
if( (hdutype == IMAGE_HDU) || strcmp(omode, "native") ){
fits_create_file(&ofptr, ofile, &status);
if( status ){
fits_get_errstatus(status, tbuf);
fprintf(stderr,
"ERROR: can't open output FITS file to section '%s' [%s]\n",
finfo->fitsfile, tbuf);
return 1;
}
switch(hdutype){
case IMAGE_HDU:
if( bin != 1 ){
fprintf(stderr,
"ERROR: imsection of an image must use bin 1 for '%s'\n",
finfo->fitsfile);
return 1;
}
snprintf(tbuf, SZ_LINE-1, "%d:%d,%d:%d", x0, x1, y0, y1);
fits_copy_image_section(ifptr, ofptr, tbuf, &status);
break;
default:
dims[0] = x1 - x0 + 1;
dims[1] = y1 - y0 + 1;
cens[0] = (x0 + x1) / 2;
cens[1] = (y0 + y1) / 2;
tfptr = filterTableToImage(ifptr, NULL, cols, dims, cens, bin,
&status);
if( status ){
fits_get_errstatus(status, tbuf);
fprintf(stderr,
"ERROR: can't create image from table for '%s' [%s]\n",
finfo->fitsfile, tbuf);
return 1;
}
fits_copy_image_section(tfptr, ofptr, "*,*", &status);
closeFITSFile(tfptr, &status2);
break;
}
if( status ){
fits_get_errstatus(status, tbuf);
fprintf(stderr,
"ERROR: can't write section FITS file for '%s' [%s]\n",
finfo->fitsfile, tbuf);
closeFITSFile(ofptr, &status);
return 1;
}
closeFITSFile(ofptr, &status);
} else {
// extract (native) table
snprintf(tbuf, SZ_LINE-1,
"x >= %d && x <= %d && y >= %d && y <= %d",
x0, x1, y0, y1);
// ffselect_table(&ifptr, ofile, tbuf, &status);
// copied from cfileio.c/ffselect_table()
/* create new empty file to hold copy of the image */
if (ffinit(&ofptr, ofile, &status) > 0) {
fits_get_errstatus(status, tbuf);
fprintf(stderr,
"ERROR: can't init section file for '%s' [%s]\n",
finfo->fitsfile, tbuf);
return 1;
}
/* save current HDU number in input file */
fits_get_hdu_num(ifptr, &hdunum);
/* copy the primary array */
fits_movabs_hdu(ifptr, 1, NULL, &status);
if( fits_copy_hdu(ifptr, ofptr, 0, &status) > 0){
fits_get_errstatus(status, tbuf);
fprintf(stderr,
"ERROR: can't copy primary for section file '%s' [%s]\n",
finfo->fitsfile, tbuf);
fits_close_file(ofptr, &status);
return 1;
}
/* back to current hdu */
fits_movabs_hdu(ifptr, hdunum, NULL, &status);
/* copy all the header keywords from the input to output file */
if (fits_copy_header(ifptr, ofptr, &status) > 0){
fits_get_errstatus(status, tbuf);
fprintf(stderr,
"ERROR: can't copy header for section file '%s' [%s]\n",
finfo->fitsfile, tbuf);
fits_close_file(ofptr, &status);
return 1;
}
/* set number of rows = 0 */
/* warning: start of cfitsio black magic */
fits_modify_key_lng(ofptr, "NAXIS2", 0, NULL, &status);
(ofptr->Fptr)->numrows = 0;
(ofptr->Fptr)->origrows = 0;
/* force the header to be scanned */
if (ffrdef(ofptr, &status) > 0){
fits_get_errstatus(status, tbuf);
fprintf(stderr,
"ERROR: can't rdef for section file '%s' [%s]\n",
finfo->fitsfile, tbuf);
fits_close_file(ofptr, &status);
return 1;
}
/* warning: end of cfitsio black magic */
/* select filtered rows and write to output file */
if (fits_select_rows(ifptr, ofptr, tbuf, &status) > 0){
fits_get_errstatus(status, tbuf);
fprintf(stderr,
"ERROR: can't select rows for section file '%s' [%s]\n",
finfo->fitsfile, tbuf);
fits_close_file(ofptr, &status);
return 1;
}
/* update params for this section */
if( (fits_get_colnum(ofptr, CASEINSEN, "X", &xcolnum, &status) > 0) ||
(fits_get_colnum(ofptr, CASEINSEN, "Y", &ycolnum, &status) > 0) ){
fits_get_errstatus(status, tbuf);
fprintf(stderr,
"ERROR: can't find X,Y cols for section file '%s' [%s]\n",
finfo->fitsfile, tbuf);
fits_close_file(ofptr, &status);
return 1;
}
/* we can ignore errors here */
status = 0;
snprintf(tbuf, SZ_LINE-1, "TALEN%d", xcolnum);
fits_modify_key_lng(ofptr, tbuf, x1-x0, NULL, &status);
status = 0;
snprintf(tbuf, SZ_LINE-1, "TALEN%d", ycolnum);
fits_modify_key_lng(ofptr, tbuf, y1-y0, NULL, &status);
status = 0;
snprintf(tbuf, SZ_LINE-1, "TLMIN%d", xcolnum);
fits_modify_key_flt(ofptr, tbuf, x0, 6, NULL, &status);
status = 0;
snprintf(tbuf, SZ_LINE-1, "TLMAX%d", xcolnum);
fits_modify_key_flt(ofptr, tbuf, x1, 6, NULL, &status);
status = 0;
snprintf(tbuf, SZ_LINE-1, "TLMIN%d", ycolnum);
fits_modify_key_flt(ofptr, tbuf, y0, 6, NULL, &status);
status = 0;
snprintf(tbuf, SZ_LINE-1, "TLMAX%d", ycolnum);
fits_modify_key_flt(ofptr, tbuf, y1, 6, NULL, &status);
/* close the output file */
status = 0;
fits_close_file(ofptr, &status);
}
closeFITSFile(ifptr, &status);
return 0;
#else
fprintf(stderr,
"ERROR: for section support, build js9helper with cfitsio\n");
return 1;
#endif
} else if( !strcmp(cmd, "info") ){
if( tty ){
if( !(finfo=FinfoGetCurrent()) ){
fprintf(stderr, NOFINFO, cmd);
return 1;
}
/* make sure we have a wcs */
fprintf(stdout, "fname:\t%s\n", finfo->fname);
fprintf(stdout, "fits:\t%s\n", finfo->fitsfile?finfo->fitsfile:"N/A");
fflush(stdout);
}
return 0;
}
break;
case 'l':
/* list all images */
if( !strcmp(cmd, "list") ){
FinfoList(stdout);
return 0;
}
break;
case 's':
if( !strcmp(cmd, "setDataPath") ){
if( args && word(args[0], tbuf, &ip) ){
setenv("JS9_DATAPATH", tbuf, 1);
if( node ) fprintf(stdout, "setDataPath\r");
fprintf(stdout, "%s\n", getenv("JS9_DATAPATH"));
fflush(stdout);
} else {
fprintf(stderr, WRONGARGS, cmd, 1, 0);
return 1;
}
return 0;
}
break;
case 'u':
if( !strcmp(cmd, "unimage") ){
if( !args || !word(args[0], tbuf, &ip) ){
fprintf(stderr, WRONGARGS, cmd, 1, 0);
return 1;
}
/* close this image */
FinfoFree(tbuf);
return 0;
}
break;
case '#':
case '\0':
return 0;
default:
break;
}
/* if we reached here, we did not recognize the command */
fprintf(stderr, "ERROR: unknown command '%s'\n", cmd);
/* return the news */
return 2;
}
/* process this command */
static int ProcessCmd(char *cmd, char **args, int narg, int node, int tty)
{
char tbuf[SZ_LINE];
Finfo finfo, tfinfo;
#if HAVE_CFITSIO
int xlims[2], ylims[2], bin, got, hdutype, hdunum, ncard;
int status=0, tstatus=0;
int dims[2];
double cens[2];
char extname[FLEN_CARD];
char *cols[2] = {"X", "Y"};
char *ofile="stdout";
char *section=NULL;
char *filter=NULL;
char *slice=NULL;
char *cardstr=NULL;
void *tcens=NULL;
fitsfile *ifptr, *ofptr, *tfptr;
#endif
switch(*cmd){
case 'f':
if( !strcmp(cmd, "fitsFile") ){
if( narg ){
if( !(tfinfo=FinfoLookup(args[0])) ){
fprintf(stderr, NOIMAGE, args[0]);
return 1;
}
} else if( !(tfinfo=FinfoGetCurrent()) ){
fprintf(stderr, NOFINFO, cmd);
return 1;
}
if( tfinfo->fitsfile ){
if( node ) fprintf(stdout, "fitsFile\r");
fprintf(stdout, "%s %s\n", tfinfo->fname, tfinfo->fitsfile);
fflush(stdout);
}
return 0;
}
break;
break;
case 'i':
if( !strcmp(cmd, "image") ){
if( !narg ){
fprintf(stderr, WRONGARGS, cmd, 1, 0);
return 1;
}
/* new image */
if( !(finfo = FinfoNew(args[0])) ){
return 1;
}
/* make it current */
FinfoSetCurrent(finfo);
if( node ) fprintf(stdout, "image\r");
/* return the FITS file name, if possible */
fprintf(stdout, "%s %s\n",
finfo->fname, finfo->fitsfile ? finfo->fitsfile : "?");
fflush(stdout);
return 0;
} else if( !strcmp(cmd, "image_") ){
if( !narg ){
fprintf(stderr, WRONGARGS, cmd, 1, 0);
return 1;
}
/* new image */
if( !(finfo = FinfoNew(args[0])) ){
return 1;
}
/* make it current */
FinfoSetCurrent(finfo);
/* no output! */
return 0;
} else if( !strcmp(cmd, "imsection") ){
#if HAVE_CFITSIO
if( !(finfo=FinfoGetCurrent()) ){
fprintf(stderr, NOFINFO, cmd);
return 1;
}
if( narg < 2 ){
fprintf(stderr, WRONGARGS2, cmd, 2);
return 1;
}
ifptr = openFITSFile(finfo->fitsfile, READONLY, EXTLIST, &hdutype,
&status);
if( status ){
fprintf(stderr, "ERROR: can't open FITS file '%s'\n", finfo->fitsfile);
return 1;
}
/* process args */
ofile = args[0];
section = args[1];
if( narg >= 3 && args[2] ){
filter = args[2];
}
if( narg >= 4 && args[3] ){
slice = args[3];
}
if( !section || !(got = parseSection(ifptr, hdutype, section,
xlims, ylims, dims, cens, &bin)) ){
fprintf(stderr,
"ERROR: can't parse section for '%s' [%s]\n",
finfo->fitsfile, (args && args[0]) ? args[0] : "NONE");
return 1;
}
/* output image */
fits_create_file(&ofptr, ofile, &status);
if( status ){
fits_get_errstatus(status, tbuf);
fprintf(stderr,
"ERROR: can't open output FITS file to section '%s' [%s]\n",
finfo->fitsfile, tbuf);
return 1;
}
switch(hdutype){
case IMAGE_HDU:
/* image: let cfitsio make a section */
if( copyImageSection(ifptr, ofptr, dims, cens, bin, slice, &status) ){
fits_get_errstatus(status, tbuf);
fprintf(stderr,
"ERROR: can't copy image section for '%s' [%s]\n",
finfo->fitsfile, tbuf);
return 1;
}
break;
default:
/* table: let jsfitsio create an image section by binning the table */
tfptr = filterTableToImage(ifptr, filter, cols, dims, cens, 1, &status);
if( status ){
fits_get_errstatus(status, tbuf);
fprintf(stderr,
"ERROR: can't create image from table for '%s' [%s]\n",
finfo->fitsfile, tbuf);
return 1;
}
fits_read_key(tfptr, TSTRING, "CTYPE1", tbuf, NULL, &status);
if( status == 0 ){
if( strstr(tbuf, "--HPX") || strstr(tbuf, "--hpx") ){
tcens = cens;
}
}
status = 0;
/* copy section to new image */
if( copyImageSection(tfptr, ofptr, dims, tcens, bin, NULL, &status) ){
fits_get_errstatus(status, tbuf);
fprintf(stderr,
"ERROR: can't copy image section for '%s' [%s]\n",
finfo->fitsfile, tbuf);
return 1;
}
tstatus = 0;
closeFITSFile(tfptr, &tstatus);
break;
}
if( status ){
fits_get_errstatus(status, tbuf);
fprintf(stderr,
"ERROR: can't create section FITS file for '%s' [%s]\n",
finfo->fitsfile, tbuf);
closeFITSFile(ofptr, &status);
return 1;
}
// return a json object with info about original data
fprintf(stdout, "{\"file\":\"%s\"", finfo->fitsfile);
fprintf(stdout, ",\"type\":%d", hdutype);
ffghdn(ifptr, &hdunum);
fprintf(stdout, ",\"extnum\":%d", hdunum-1);
tstatus=0;
ffgky(ifptr, TSTRING, "EXTNAME", extname, NULL, &tstatus);
if( !tstatus ){
fprintf(stdout, ",\"extname\":\"%s\"", extname);
}
fprintf(stdout, ",\"hdus\":");
_listhdu(finfo->fitsfile, NULL);
tstatus=0;
getHeaderToString(ifptr, &cardstr, &ncard, &tstatus);
if( cardstr ){
fprintf(stdout, ",\"ncard\":%d",ncard);
fprintf(stdout, ",\"cardstr\":\"%s\"",cardstr);
free(cardstr);
}
fprintf(stdout, "}\n");
fflush(stdout);
tstatus=0;
closeFITSFile(ifptr, &tstatus);
tstatus=0;
closeFITSFile(ofptr, &tstatus);
return 0;
#else
fprintf(stderr,
"ERROR: for section support, build js9helper with cfitsio\n");
return 1;
#endif
} else if( !strcmp(cmd, "info") ){
if( tty ){
if( !(finfo=FinfoGetCurrent()) ){
fprintf(stderr, NOFINFO, cmd);
return 1;
}
/* make sure we have a wcs */
fprintf(stdout, "fname:\t%s\n", finfo->fname);
fprintf(stdout, "fits:\t%s\n", finfo->fitsfile?finfo->fitsfile:"N/A");
fflush(stdout);
}
return 0;
}
break;
case 'l':
/* list all images */
if( !strcmp(cmd, "list") ){
FinfoList(stdout);
return 0;
#if HAVE_CFITSIO
} else if( !strcmp(cmd, "listhdus") ){
if( !(finfo=FinfoGetCurrent()) ){
fprintf(stderr, NOFINFO, cmd);
return 1;
}
_listhdu(finfo->fitsfile, NULL);
fflush(stdout);
return 0;
#endif
}
break;
case 's':
if( !strcmp(cmd, "setDataPath") ){
if( narg ){
setenv("JS9_DATAPATH", args[0], 1);
if( node ) fprintf(stdout, "setDataPath\r");
fprintf(stdout, "%s\n", getenv("JS9_DATAPATH"));
fflush(stdout);
} else {
fprintf(stderr, WRONGARGS, cmd, 1, 0);
return 1;
}
return 0;
}
break;
case 'u':
if( !strcmp(cmd, "unimage") ){
if( !narg ){
fprintf(stderr, WRONGARGS, cmd, 1, 0);
return 1;
}
/* close this image */
FinfoFree(args[0]);
return 0;
}
break;
case '#':
case '\0':
return 0;
default:
break;
}
/* if we reached here, we did not recognize the command */
fprintf(stderr, "ERROR: unknown command '%s'\n", cmd);
/* return the news */
return 2;
}
bool FITSImage::loadFITS ( const QString &inFilename, QProgressDialog *progress )
{
int status=0, nulval=0, anynull=0;
long fpixel[2], nelements, naxes[2];
char error_status[512];
qDeleteAll(starCenters);
starCenters.clear();
if (mode == FITS_NORMAL && progress)
{
progress->setLabelText(i18n("Please hold while loading FITS file..."));
progress->setWindowTitle(i18n("Loading FITS"));
}
if (mode == FITS_NORMAL && progress)
progress->setValue(30);
if (fptr)
{
fits_close_file(fptr, &status);
if (tempFile)
QFile::remove(filename);
}
filename = inFilename;
if (filename.contains("/tmp/"))
tempFile = true;
else
tempFile = false;
filename.remove("file://");
if (fits_open_image(&fptr, filename.toAscii(), READONLY, &status))
{
fits_report_error(stderr, status);
fits_get_errstatus(status, error_status);
if (progress)
KMessageBox::error(0, i18n("Could not open file %1 (fits_get_img_param). Error %2", filename, QString::fromUtf8(error_status)), i18n("FITS Open"));
return false;
}
if (mode == FITS_NORMAL && progress)
if (progress->wasCanceled())
return false;
if (mode == FITS_NORMAL && progress)
progress->setValue(40);
if (fits_get_img_param(fptr, 2, &(stats.bitpix), &(stats.ndim), naxes, &status))
{
fits_report_error(stderr, status);
fits_get_errstatus(status, error_status);
if (progress)
KMessageBox::error(0, i18n("FITS file open error (fits_get_img_param): %1", QString::fromUtf8(error_status)), i18n("FITS Open"));
return false;
}
if (stats.ndim < 2)
{
if (progress)
KMessageBox::error(0, i18n("1D FITS images are not supported in KStars."), i18n("FITS Open"));
return false;
}
if (fits_get_img_type(fptr, &data_type, &status))
{
fits_report_error(stderr, status);
fits_get_errstatus(status, error_status);
if (progress)
KMessageBox::error(0, i18n("FITS file open error (fits_get_img_type): %1", QString::fromUtf8(error_status)), i18n("FITS Open"));
return false;
}
if (mode == FITS_NORMAL && progress)
if (progress->wasCanceled())
return false;
if (mode == FITS_NORMAL && progress)
progress->setValue(60);
stats.dim[0] = naxes[0];
stats.dim[1] = naxes[1];
delete (image_buffer);
image_buffer = NULL;
image_buffer = new float[stats.dim[0] * stats.dim[1]];
if (image_buffer == NULL)
{
qDebug() << "Not enough memory for image_buffer";
return false;
}
if (mode == FITS_NORMAL && progress)
{
if (progress->wasCanceled())
{
delete (image_buffer);
return false;
}
}
if (mode == FITS_NORMAL && progress)
progress->setValue(70);
nelements = stats.dim[0] * stats.dim[1];
fpixel[0] = 1;
fpixel[1] = 1;
qApp->processEvents();
if (fits_read_2d_flt(fptr, 0, nulval, naxes[0], naxes[0], naxes[1], image_buffer, &anynull, &status))
{
fprintf(stderr, "fits_read_pix error\n");
fits_report_error(stderr, status);
return false;
}
if (mode == FITS_NORMAL && progress)
{
if (progress->wasCanceled())
{
delete (image_buffer);
return false;
}
}
calculateStats();
if (mode == FITS_NORMAL && progress)
progress->setValue(80);
//currentWidth = stats.dim[0];
// currentHeight = stats.dim[1];
qApp->processEvents();
if (mode == FITS_NORMAL)
{
checkWCS();
if (progress)
progress->setValue(90);
}
if (mode == FITS_NORMAL && progress)
{
if (progress->wasCanceled())
{
delete (image_buffer);
return false;
}
}
if (mode == FITS_NORMAL && progress)
progress->setValue(100);
starsSearched = false;
return true;
}
std::string FitsFileResource::getStatus() const
{
char pBuf[31];
fits_get_errstatus(mStatus, pBuf);
return std::string(pBuf);
}