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MAKECATALOG(1) User Commands MAKECATALOG(1) NAME MakeCatalog - Make a catalog from labeled input images SYNOPSIS astmkcatalog [OPTION...] ASTRdata DESCRIPTION MakeCatalog is part of GNU Astronomy Utilities 0.23. MakeCatalog will create a catalog from an input, labeled, and noise images. For more information, please run any of the following commands. In par- ticular the second contains a very comprehensive explanation of Make- Catalog's invocation: expected input(s), output(s), and a full descrip- tion of all the options. All options and their values: $ astmkcatalog -P Inputs/Outputs and options: $ info astmkcatalog Full section in manual/book: $ info MakeCatalog Full Gnuastro manual/book: $ info gnuastro If you couldn't find your answer in the manual, you can get direct help from experienced Gnuastro users and developers. For more information, please run: $ info help-gnuastro MakeCatalog options: Input: --clumpshdu=STR Clump labels extension name or number. --forcereadstd Read STD even if no columns need it. -h, --hdu=STR/INT Extension name or number of input data. -l, --clumpsfile=FITS Dataset containing clump labels. --sigmaclip=FLT,FLT Sigma-clip column multiple and tolerance. --skyhdu=STR Sky image extension name or number. --stdhdu=STR Sky STD extension name or number. --subtractsky Subtract the Sky dataset from the values. -s, --insky=FITS/FLT Input Sky value or file. -t, --instd=STR/FLT Sky standard deviation value or dataset. --valueshdu=STR Name or number of extension containing values. --variance STD input dataset is actually variance. -v, --valuesfile=FITS Values/brightness dataset. --zeropoint=FLT Zeropoint magnitude of input dataset. Tessellation (tile grid): --checktiles Tile IDs in an image, the size of input. -F, --remainderfrac=FLT Fraction of remainder to split last tile. --interpmetric=STR Interpolation metric (radial, manhattan). -M, --numchannels=INT[,..] No. of channels in dim.s (FITS order). --oneelempertile Display 1 element/tile, not full input res. -Z, --tilesize=INT[,INT] Regular tile size on dim.s (FITS order). Output: -C, --clumpscat Make a clumps catalog also. -D, --dontdelete Don't delete output if it exists. --inbetweenints Keep rows (integer ids) with no labels. -K, --keepinputdir Keep input directory for automatic output. --noclumpsort Don't sort the clumps catalog by ID. --outfitsnocommit No Git commit in 0-th HDU of output FITS. --outfitsnoconfig No metadata in 0-th HDU of output FITS. --outfitsnodate No 'DATE' in 0-th HDU of output FITS. --outfitsnoversions No versions in 0-th HDU of output FITS. -o, --output=STR Output file name. --sfmagarea=FLT Surface brightness area (in arcseconds^2). --sfmagnsigma=FLT Surface brightness multiple of Sky STD. --tableformat=STR Table fmt: 'fits-ascii', 'fits-binary', 'txt'. --wcslinearmatrix=STR WCS linear matrix of output ('pc' or 'cd'). Upper limit magnitude settings: --checkuplim=INT[,INT] Check random distribution for one label. -e, --envseed Use GSL_RNG_SEED environment variable for seed. --upmaskfile=FITS Mask image file name only for upper limit. --upmaskhdu=STR Mask image HDU only for upper limit. --upnsigma=FLT Multiple of sigma to define upperlimit. --upnum=INT Number of randomly positioned samples --uprange=INT,INT Range of random positions (pix) around target. --upsigmaclip=FLT,FLT Sigma multiple and, tolerance or number. Settings for other columns: --frac-max=FLT[,FLT] Fraction(s) in --frac-max* options. --spatialresolution=FLT Spatial resolution (for surf. brightness err). Identifier columns --id-in-host-obj ID of clump in host object. -i, --ids All IDs of objects and clumps. -j, --host-obj-id ID of object hosting this clump. --obj-id Object label/ID. Positional (pixel/image) measurements --area-max-val Number of pixels used in '--max-val-*'. --area-min-val Number of pixels used in '--min-val-*'. --clumps-geo-x Geometric center of all clumps in obj. (X). --clumps-geo-y Geometric center of all clumps in obj. (Y). --clumps-geo-z Geometric center of all clumps in obj. (Z). --clumps-x Flux.wht center of all clumps in obj. (X). --clumps-y Flux.wht center of all clumps in obj. (Y). --clumps-z Flux.wht center of all clumps in obj. (Z). --geo-x Geometric center in first FITS axis. --geo-y Geometric center in second FITS axis. --geo-z Geometric center in third FITS axis. --max-val-x Maximum value's X axis position. --max-val-y Maximum value's Y axis position. --max-val-z Maximum value's Z axis position --max-x Maximum X axis position. --max-y Maximum Y axis position. --max-z Maximum Z axis position. --min-val-x Minimum value's X axis position. --min-val-y Minimum value's Y axis position. --min-val-z Minimum value's Z axis position. --min-x Minimum X axis position. --min-y Minimum Y axis position. --min-z Minimum Z axis position -x, --x Flux weighted center in first FITS axis. -y, --y Flux weighted center in second FITS axis. -z, --z Flux weighted center in third FITS axis. Positional (WCS) measurements --clumps-geo-w1 Geometric center of all clumps in 1st WCS. --clumps-geo-w2 Geometric center of all clumps in 2nd WCS. --clumps-geo-w3 Geometric center of all clumps in 3rd WCS. --clumps-w1 Flux.wht center of all clumps in 1st WCS. --clumps-w2 Flux.wht center of all clumps in 2nd WCS. --clumps-w3 Flux.wht center of all clumps in 3rd WCS. -d, --dec Flux weighted center declination. --geo-w1 Geometric center in first WCS axis. --geo-w2 Geometric center in second WCS axis. --geo-w3 Geometric center in third WCS axis. -r, --ra Flux weighted center right ascension. --w1 Flux weighted center in first WCS axis. --w2 Flux weighted center in second WCS axis. --w3 Flux weighted center in third WCS axis. Brightness/magnitude (only using pixel value/error) measurements --clumps-magnitude Magnitude of all clumps in object. --clumps-sum Brightness of clumps in an object. --magnitude-error Magnitude error of objects or clumps. --maximum Maximum value (mean of top three pixels) --mean Mean of values in object/clump. --median Median of values in object/clump. -m, --magnitude Total magnitude of objects or clumps. --river-max Maximum river value around clump. --river-mean Mean river value surrounding a clump. --river-min Minimum river value around clump. --river-num Number of river pixels around a clump. --sigclip-mean Mean after Sigma-clipping --sigclip-median Median after Sigma-clipping --sigclip-number Number of pixels in Sigma-clipped measurement. --sigclip-std Standard deviation after Sigma-clipping --sky Sky value (per pixel). --sky-std Sky standard deviation (per pixel). --sn Signal to noise ratio of objects or clumps. --std Standard dev. of values in object/clump. --sum Sum of pixel values in each label. --sum-error Error (1-sigma) in measuring sum. --sum-no-river Sky (not river) subtracted clump sum. --upperlimit Upper-limit value, use other options to config. --upperlimit-mag Upper-limit mag. use other options to config. --upperlimit-onesigma Upper-limit one sigma value. --upperlimit-quantile Quantile in random distribution (max 1). --upperlimit-sigma Place in random distribution (sigma multiple). --upperlimit-skew (Mean-Median)/STD of random distribution. Surface brightness measurements (all: mag/arcsec^2) --half-max-sb Surface brightness within half the maximum. --half-sum-sb Surface brightness within --halfsumarea. --sb Surface brightness. --sb-error Surface brightness error from STD/VAR image. --sigclip-mean-sb Surface brightness of sigclip-mean (1 pix area). --sigclip-mean-sb-delta sigclip-mean-sb delta from sigclip'd STD. --sigclip-std-sb Surface brightness of sigclip-std (1 pix area). --upperlimit-sb Upper-limit surface brightness. Morphology/shape (non-parametric) measurements --area Number of non-blank valued pixels. --area-arcsec2 Area of labeled region in arcsec^2. --area-xy Projected area in first two dimensions. --clumps-area Non-blank area covered by clumps. --frac-max1-area Area containing 1st fraction of maximum. --frac-max1-radius Radius calculated from --fracmaxarea1. --frac-max1-sum Sum of pixels brighter than 1st frac. of max. --frac-max2-area Area containing 2nd fraction of maximum. --frac-max2-radius Radius calculated from --fracmaxarea2. --frac-max2-sum Sum of pixels brighter than 2nd frac. of max. --fwhm Full width at half max (non-parametric). --geo-area Area labled region (irrespective of value). --geo-area-xy Projected geo-area in first two dimensions. --half-max-area No. pixels valued above half the max. --half-max-radius Radius at half the maximum (non-parametric). --half-max-sum Sum of pixels above half the maximum. --half-sum-area Area containing half of --brightness. --half-sum-radius Radius calculated from --halfsumarea. --num-clumps Number of clumps in this object. --weight-area Area used for value weighted positions. Morphology/shape (elliptical) measurements --axis-ratio Flux weighted axis ratio. --geo-axis-ratio Geometric (ignoring values, only lab) axis ratio. --geo-position-angle Geometric (ignoring values, only lab) pos. angle. --geo-semi-major Geometric RMS along major axis (ignoring value). --geo-semi-minor Geometric RMS along minor axis (ignoring value). --position-angle Flux weighted position angle. --semi-major RMS along major axis (in pixels). --semi-minor RMS along minor axis (in pixels). Vector (multi-valued) measurements --area-in-slice [3D input] Number of labeled in each slice. --area-other-in-slice [3D input] Area of other lab. in projected area. --area-proj-in-slice [3D input] Num. voxels in '--sum-proj-in-slice'. --sum-err-in-slice [3D input] Error in '--sum-in-slice'. --sum-in-slice [3D input] Sum of values in each slice. --sum-other-err-in-slice [3D input] Area in '--sum-other-in-slice'. --sum-other-in-slice [3D input] Sum of other lab. in projected area. --sum-proj-err-in-slice [3D input] Error of '--sum-proj-in-slice'. --sum-proj-in-slice [3D input] Sum of projected area in each slice. Operating modes: -?, --help give this help list --checkconfig List all config files and variables read. --cite BibTeX citation for this program. --config=STR Read configuration file STR immediately. --config-prefix=STR Custom prefix of option names config files. --lastconfig Do not parse any more configuration files. --minmapsize=INT Min. bytes to avoid RAM automatically. -N, --numthreads=INT Number of CPU threads to use. --onlyversion=STR Only run if the program version is STR. -P, --printparams Print parameter values to be used and abort. --quietmmap Don't print mmap'd file's name and size. -q, --quiet Only report errors, remain quiet about steps. -S, --setdirconf Set default values for this directory and abort. --usage give a short usage message -U, --setusrconf Set default values for this user and abort. -V, --version print program version Mandatory or optional arguments to long options are also mandatory or optional for any corresponding short options. GNU Astronomy Utilities home page: http://www.gnu.org/software/gnuas- tro/ REPORTING BUGS Report bugs to bug-gnuastro@gnu.org. COPYRIGHT Copyright (C) 2015-2024 Free Software Foundation, Inc. License GPLv3+: GNU General public license version 3 or later. This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. Written/developed by Mohammad Akhlaghi SEE ALSO The full documentation for MakeCatalog is maintained as a Texinfo man- ual. If the info and MakeCatalog programs are properly installed at your site, the command info MakeCatalog should give you access to the complete manual. GNU Astronomy Utilities 0.23 July 2024 MAKECATALOG(1)
NAME | SYNOPSIS | DESCRIPTION | REPORTING BUGS | COPYRIGHT | SEE ALSO
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