[3] | 1 | #include <iostream> |
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| 2 | #include <sstream> |
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| 3 | #include <string> |
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| 4 | #include <wcs.h> |
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| 5 | #include <wcshdr.h> |
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[146] | 6 | #define WCSLIB_GETWCSTAB |
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| 7 | // define this so that we don't try and redefine wtbarr |
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| 8 | // (this is a problem when using cfitsio v.3 and g++ v.4) |
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| 9 | |
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[66] | 10 | #include <fitsio.h> |
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[71] | 11 | #include <duchamp.hh> |
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[3] | 12 | #include <Cubes/cubes.hh> |
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| 13 | |
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[71] | 14 | void write_header_info(fitsfile *fptr, Param &par, string nature); |
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[86] | 15 | |
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[3] | 16 | void Cube::saveReconstructedCube() |
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| 17 | { |
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[86] | 18 | /** |
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| 19 | * Cube::saveReconstructedCube() |
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| 20 | * |
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| 21 | * A function to save the reconstructed and/or residual arrays. |
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[146] | 22 | * A number of header keywords are written as well, indicating the |
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| 23 | * nature of the reconstruction that has been done. |
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| 24 | * The file is always written -- if the filename (as calculated |
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| 25 | * based on the recon parameters) exists, then it is overwritten. |
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[86] | 26 | */ |
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[3] | 27 | |
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[71] | 28 | int newbitpix = FLOAT_IMG; |
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| 29 | |
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[3] | 30 | float *resid = new float[this->numPixels]; |
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[146] | 31 | for(int i=0;i<this->numPixels;i++) |
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| 32 | resid[i] = this->array[i] - this->recon[i]; |
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[3] | 33 | float blankval = this->par.getBlankPixVal(); |
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| 34 | |
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[71] | 35 | long *fpixel = new long[this->numDim]; |
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| 36 | for(int i=0;i<this->numDim;i++) fpixel[i]=1; |
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| 37 | int status = 0; /* MUST initialize status */ |
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[3] | 38 | fitsfile *fptrOld, *fptrNew; |
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| 39 | fits_open_file(&fptrOld,this->par.getImageFile().c_str(),READONLY,&status); |
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| 40 | if (status) fits_report_error(stderr, status); |
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| 41 | |
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| 42 | if(this->par.getFlagOutputRecon()){ |
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[146] | 43 | string fileout = "!" + this->par.outputReconFile(); |
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| 44 | // the ! is there so that it writes over an existing file. |
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[3] | 45 | |
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| 46 | status = 0; |
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[71] | 47 | fits_create_file(&fptrNew,fileout.c_str(),&status); |
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[103] | 48 | if (status) |
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| 49 | fits_report_error(stderr, status); |
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| 50 | else |
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| 51 | { |
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| 52 | status = 0; |
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| 53 | fits_movabs_hdu(fptrOld, 1, NULL, &status); |
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| 54 | if (status) fits_report_error(stderr, status); |
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| 55 | status = 0; |
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| 56 | fits_copy_header(fptrOld, fptrNew, &status); |
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| 57 | if (status) fits_report_error(stderr, status); |
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| 58 | char *comment = new char[80]; |
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| 59 | long dud; |
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| 60 | status = 0; |
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[146] | 61 | fits_update_key(fptrNew, TINT, "BITPIX", &newbitpix, |
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| 62 | "number of bits per data pixel", &status); |
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[103] | 63 | if (status) fits_report_error(stderr, status); |
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| 64 | status = 0; |
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| 65 | float bscale=1., bzero=0.; |
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[146] | 66 | fits_update_key(fptrNew, TFLOAT, "BSCALE", &bscale, |
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| 67 | "PHYSICAL = PIXEL*BSCALE + BZERO", &status); |
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[103] | 68 | fits_update_key(fptrNew, TFLOAT, "BZERO", &bzero, "", &status); |
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| 69 | fits_set_bscale(fptrNew, 1., 0., &status); |
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| 70 | if (status) fits_report_error(stderr, status); |
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[146] | 71 | // Need to correct the dimensions, if we have subsectioned the image |
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[103] | 72 | if(this->par.getFlagSubsection()){ |
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| 73 | fits_read_key(fptrOld, TLONG, "NAXIS1", &dud, comment, &status); |
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[146] | 74 | fits_update_key(fptrNew, TLONG, "NAXIS1", |
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| 75 | &(this->axisDim[0]), comment, &status); |
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[103] | 76 | fits_read_key(fptrOld, TLONG, "NAXIS2", &dud, comment, &status); |
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[146] | 77 | fits_update_key(fptrNew, TLONG, "NAXIS2", |
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| 78 | &(this->axisDim[1]), comment, &status); |
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[103] | 79 | fits_read_key(fptrOld, TLONG, "NAXIS3", &dud, comment, &status); |
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[146] | 80 | fits_update_key(fptrNew, TLONG, "NAXIS3", |
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| 81 | &(this->axisDim[2]), comment, &status); |
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[103] | 82 | } |
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[46] | 83 | |
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[103] | 84 | write_header_info(fptrNew, this->par, "recon"); |
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[3] | 85 | |
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[103] | 86 | if(this->par.getFlagBlankPix()) |
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[146] | 87 | fits_write_pixnull(fptrNew, TFLOAT, fpixel, this->numPixels, |
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| 88 | this->recon, &blankval, &status); |
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| 89 | else fits_write_pix(fptrNew, TFLOAT, fpixel, this->numPixels, |
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| 90 | this->recon, &status); |
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[3] | 91 | |
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[103] | 92 | status = 0; |
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| 93 | fits_close_file(fptrNew, &status); |
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| 94 | if (status) fits_report_error(stderr, status); |
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| 95 | } |
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[3] | 96 | } |
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| 97 | |
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[103] | 98 | |
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[3] | 99 | if(this->par.getFlagOutputResid()){ |
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[146] | 100 | string fileout = "!" + this->par.outputResidFile(); |
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| 101 | // the ! is there so that it writes over an existing file. |
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[3] | 102 | status = 0; |
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[71] | 103 | fits_create_file(&fptrNew,fileout.c_str(),&status); |
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[103] | 104 | if (status) |
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| 105 | fits_report_error(stderr, status); |
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| 106 | else |
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| 107 | { |
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| 108 | status = 0; |
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| 109 | fits_movabs_hdu(fptrOld, 1, NULL, &status); |
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| 110 | if (status) fits_report_error(stderr, status); |
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| 111 | status = 0; |
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| 112 | fits_copy_header(fptrOld, fptrNew, &status); |
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| 113 | if (status) fits_report_error(stderr, status); |
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[46] | 114 | |
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[103] | 115 | status = 0; |
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[146] | 116 | fits_update_key(fptrNew, TINT, "BITPIX", &newbitpix, |
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| 117 | "number of bits per data pixel", &status); |
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[103] | 118 | if (status) fits_report_error(stderr, status); |
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| 119 | status = 0; |
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| 120 | float bscale=1., bzero=0.; |
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[146] | 121 | fits_update_key(fptrNew, TFLOAT, "BSCALE", &bscale, |
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| 122 | "PHYSICAL = PIXEL*BSCALE + BZERO", &status); |
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[103] | 123 | fits_update_key(fptrNew, TFLOAT, "BZERO", &bzero, "", &status); |
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| 124 | fits_set_bscale(fptrNew, 1., 0., &status); |
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| 125 | if (status) fits_report_error(stderr, status); |
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[71] | 126 | |
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[103] | 127 | // Need to correct the dimensions, if we have subsectioned the image... |
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| 128 | char *comment = new char[80]; |
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| 129 | long dud; |
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| 130 | if(this->pars().getFlagSubsection()){ |
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| 131 | fits_read_key(fptrOld, TLONG, "NAXIS1", &dud, comment, &status); |
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[146] | 132 | fits_update_key(fptrNew, TLONG, "NAXIS1", |
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| 133 | &(this->axisDim[0]), comment, &status); |
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[103] | 134 | fits_read_key(fptrOld, TLONG, "NAXIS2", &dud, comment, &status); |
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[146] | 135 | fits_update_key(fptrNew, TLONG, "NAXIS2", |
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| 136 | &(this->axisDim[1]), comment, &status); |
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[103] | 137 | fits_read_key(fptrOld, TLONG, "NAXIS3", &dud, comment, &status); |
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[146] | 138 | fits_update_key(fptrNew, TLONG, "NAXIS3", |
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| 139 | &(this->axisDim[2]), comment, &status); |
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[103] | 140 | } |
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[3] | 141 | |
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[103] | 142 | write_header_info(fptrNew, this->par, "resid"); |
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[71] | 143 | |
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[103] | 144 | if(this->par.getFlagBlankPix()) |
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[146] | 145 | fits_write_pixnull(fptrNew, TFLOAT, fpixel, this->numPixels, |
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| 146 | resid, &blankval, &status); |
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| 147 | else fits_write_pix(fptrNew, TFLOAT, fpixel, this->numPixels, |
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| 148 | resid, &status); |
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[3] | 149 | |
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[103] | 150 | fits_close_file(fptrNew, &status); |
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| 151 | } |
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[3] | 152 | } |
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| 153 | |
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| 154 | delete [] resid; |
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| 155 | delete [] fpixel; |
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| 156 | |
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| 157 | } |
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[71] | 158 | |
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| 159 | |
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| 160 | void write_header_info(fitsfile *fptr, Param &par, string nature) |
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| 161 | { |
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[86] | 162 | /** |
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| 163 | * write_header_info(fptr, par, nature) |
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| 164 | * |
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| 165 | * A simple function that writes all the necessary keywords and comments |
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| 166 | * to the FITS header pointed to by fptr. |
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| 167 | * The keyword names and comments are taken from duchamp.hh |
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| 168 | * The parameter "nature" indicates what type of file is being written: |
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| 169 | * should be either "recon" or "resid". |
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| 170 | */ |
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| 171 | |
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| 172 | |
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[71] | 173 | int status = 0; |
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| 174 | char *comment, *keyword; |
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| 175 | string explanation = "",ReconResid=""; |
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| 176 | |
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| 177 | fits_write_history(fptr, (char *)header_history1.c_str(), &status); |
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| 178 | |
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| 179 | fits_write_history(fptr, (char *)header_history2.c_str(), &status); |
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| 180 | |
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[105] | 181 | fits_write_history(fptr, (char *)header_history_input.c_str(), &status); |
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[71] | 182 | |
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[105] | 183 | fits_write_history(fptr, (char *)par.getImageFile().c_str(), &status); |
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| 184 | |
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| 185 | if(par.getFlagSubsection()){ |
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[146] | 186 | fits_write_comment(fptr,(char *)header_subsection_comment.c_str(),&status); |
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[105] | 187 | fits_write_key(fptr, TSTRING, (char *)keyword_subsection.c_str(), |
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| 188 | (char *)par.getSubsection().c_str(), |
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| 189 | (char *)comment_subsection.c_str(), &status); |
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| 190 | } |
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| 191 | |
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| 192 | fits_write_comment(fptr, (char *)header_atrous_comment.c_str(), &status); |
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| 193 | |
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[71] | 194 | float valf = par.getAtrousCut(); |
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| 195 | fits_write_key(fptr, TFLOAT, (char *)keyword_snrRecon.c_str(), &valf, |
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| 196 | (char *)comment_snrRecon.c_str(), &status); |
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| 197 | |
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[103] | 198 | int vali = par.getReconDim(); |
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| 199 | fits_write_key(fptr, TINT, (char *)keyword_reconDim.c_str(), &vali, |
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| 200 | (char *)comment_reconDim.c_str(), &status); |
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| 201 | |
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| 202 | vali = par.getMinScale(); |
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[71] | 203 | fits_write_key(fptr, TINT, (char *)keyword_scaleMin.c_str(), &vali, |
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| 204 | (char *)comment_scaleMin.c_str(), &status); |
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| 205 | |
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| 206 | vali = par.getFilterCode(); |
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| 207 | fits_write_key(fptr, TINT, (char *)keyword_filterCode.c_str(), &vali, |
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| 208 | (char *)comment_filterCode.c_str(), &status); |
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| 209 | |
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| 210 | if(nature == "recon"){ |
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| 211 | explanation = "Duchamp: This is the RECONSTRUCTED cube"; |
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| 212 | ReconResid = "RECON"; |
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| 213 | } |
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| 214 | else if(nature == "resid"){ |
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| 215 | explanation = "Duchamp: This is the RESIDUAL cube"; |
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| 216 | ReconResid = "RESID"; |
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| 217 | } |
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[120] | 218 | else duchampWarning("write_header_info","explanation not present!\n"); |
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[71] | 219 | fits_write_comment(fptr, (char *)explanation.c_str(), &status); |
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| 220 | fits_write_key(fptr, TSTRING, (char *)keyword_ReconResid.c_str(), |
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[146] | 221 | (char *)ReconResid.c_str(), |
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| 222 | (char *)comment_ReconResid.c_str(), &status); |
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[71] | 223 | |
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| 224 | } |
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