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author | Joseph Hunkeler <jhunkeler@gmail.com> | 2015-07-08 20:46:52 -0400 |
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committer | Joseph Hunkeler <jhunkeler@gmail.com> | 2015-07-08 20:46:52 -0400 |
commit | fa080de7afc95aa1c19a6e6fc0e0708ced2eadc4 (patch) | |
tree | bdda434976bc09c864f2e4fa6f16ba1952b1e555 /noao/artdata/doc/mkobjects.hlp | |
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diff --git a/noao/artdata/doc/mkobjects.hlp b/noao/artdata/doc/mkobjects.hlp new file mode 100644 index 00000000..e641635a --- /dev/null +++ b/noao/artdata/doc/mkobjects.hlp @@ -0,0 +1,636 @@ +.help mkobjects Jan92 noao.artdata +.ih +NAME +mkobjects - Make/add artificial stars and galaxies to 2D images +.ih +USAGE +mkobjects input +.ih +PARAMETERS +.ls input +Images to create or modify. +.le +.ls output = "" +Output images when modifying input images. If no output images are +given then existing images in the input list are modified directly. +If an output image list is given then it must match in number the +input list. +.le + +WHEN CREATING NEW IMAGES +.ls title = "" +Image title to be given to the images. Maximum of 79 characters. +.le +.ls ncols = 512, nlines = 512 +Number of columns and lines. +.le +.ls header = "artdata$stdheader.dat" +Image or header keyword data file. If an image is given then the image header +is copied. If a file is given then the FITS format cards are copied. +This only applies to new images. The data file consists of lines +in FITS format with leading whitespace ignored. A FITS card must begin +with an uppercase/numeric keyword. Lines not beginning with a FITS +keyword such as comments or lower case are ignored. The user keyword +output of \fBimheader\fR is an acceptable data file. See \fBmkheader\fR +for further information. +.le +.ls background = 1000. +Default background and poisson noise background. This is in data numbers +with the conversion to photons determined by the \fIgain\fR parameter. +.le + +OBJECT PARAMETERS +.ls objects = "" +List of object files. The number of object files must match the number of +input images. The object files contain lines of object coordinates, +magnitudes, and shape parameters (see the DESCRIPTION section). +.le +.ls xoffset = 0., yoffset = 0. +X and Y coordinate offset to be added to the object list coordinates. +.le +.ls star = "moffat" +Type of star and point spread function. The choices are: +.ls gaussian +An elliptical Gaussian profile with major axis half-intensity radius +given by the parameter \fIradius\fR, axial ratio given by the parameter +\fIar\fR, and position angle given by the parameter \fIpa\fR. +.le +.ls moffat +An elliptical Moffat profile with major axis half-intensity radius +given by the parameter \fIradius\fR, model parameter \fIbeta\fR, +axial ratio given by the parameter \fIar\fR, and position angle given +by the parameter \fIpa\fR. +.le +.ls <image> +If not one of the profiles above, an image of the specified name is +sought. If found the center of the template image is assumed to be the +center of the star/psf and the image template is scaled so that the +radius of the template along the first axis is given by the \fIradius\fR +parameter. The axial ratio and position angle define an +elliptical sampling of the template. +.le +.ls <profile file> +If not one of the above, a text file is sought giving either an intensity +per unit area profile or a cumulative flux profile from the center to the +edge. The two are differentiated by whether the first profile point is 0 +for a cumulative profile or nonzero for an intensity profile. An intensity +profile is recommended. If found the profile defines an elliptical star/psf +with the major axis radius to the last profile point given by the parameter +\fIradius\fR, axial ratio given by the parameter \fIar\fR, and position +angle given by the parameter \fIpa\fR. +.le +.le +.ls radius = 1. +Seeing radius/scale in pixels along the major axis. For the "gaussian" +and "moffat" profiles this is the half-intensity radius of the major +axis, for image templates this is the template radius along the x dimension, +specifically one half the number of columns, and for arbitrary user profiles +this is the radius to the last profile point. +.le +.ls beta = 2.5 +Moffat model parameter. See the DESCRIPTION for a definition of the +Moffat profile. +.le +.ls ar = 1. +Minor to major axial ratio for the star/psf. +.le +.ls pa = 0. +Position angle in degrees measured counterclockwise from the X axis +for the star/psf. +.le +.ls distance = 1. +Relative distance to be applied to the object list coordinates, +magnitudes, and scale sizes. This factor is divided into the +object coordinates, after adding the offset factors, to allow expanding +or contracting about any origin. The magnitudes scale as the +square of the distance and the sizes of the galaxies scale +linearly. This parameter allows changing image sizes and fluxes +at a given seeing and sampling with one value. +.le +.ls exptime = 1. +Relative exposure time. The object magnitudes and background +level are scaled by this parameter. This is comparable to changing the +magnitude zero point except that it includes changing the background. +.le +.ls magzero = 7. +Magnitude zero point defining the conversion from magnitudes in the +object list to instrumental/image fluxes. +.le + +NOISE PARAMETERS +.ls gain = 1. +Gain in electrons per data number. The gain is used for scaling the +read noise parameter, the background, and in computing poisson noise. +.le +.ls rdnoise = 0. +Gaussian read noise in electrons. For new images this applies to the +entire image while for existing images this is added only to the objects. +.le +.ls poisson = no +Add poisson photon noise? For new images this applies to the entire image +while for existing images this is only applied to the objects. Note +that in the latter case the background parameter is added before +computing the new value and then subtracted again. +.le +.ls seed = 1 +Random number seed. If a value of "INDEF" is given then the clock +time (integer seconds since 1980) is used as the seed yielding +different random numbers for each execution. +.le + +.ls comments = yes +Include comments recording task parameters in the image header? +.le + +PACKAGE PARAMETERS + +These parameters define certain computational shortcuts which greatly +affect the computational speed. They should be adjusted with care. +.ls nxc = 5, nyc = 5 +Number of star and psf centers per pixel in X and Y. Rather than evaluate +stars and the psf convolution functions precisely at each subpixel +coordinate, a set of templates with a grid of subpixel centers is +computed and then the nearest template to the desired position is chosen. +The larger the number the more memory and startup time required. +.le +.ls nxsub = 10, nysub = 10 +Number of pixel subsamples in X and Y used in computing the star and +psf. This is the subsampling in the central +pixel and the number of subsamples decreases linearly from the center. +The larger the numbers the longer it takes to compute the star and psf +convolution templates. +.le +.ls nxgsub = 5, nygsub = 5 +Number of pixel subsamples in X and Y used in computing galaxy images. +This is the subsampling in the central pixel and the number of +subsamples decreases linearly from the center. Because galaxy images +are extended and each subsample is convolved by the psf convolution it +need not be as finely sampled as the stars. This is a critical +parameter in the execution time if galaxies are being modeled. +The larger the numbers the longer the execution time. +.le +.ls dynrange = 100000., psfrange = 10. +The intensity profiles of the analytic functions extend to infinity so +a dynamic range, the ratio of the peak intensity to the cutoff +intensity, is imposed to cutoff the profiles. The \fIdynrange\fR +parameter applies to the stellar templates and to the galaxy profiles. +The larger this parameter the further the profile extends. +When modeling galaxies this has a fairly +strong affect on the time (larger numbers means larger images and more +execution time). Only for very high signal-to-noise +objects will the cutoff be noticeable. A correction is made to +the object magnitudes to reflect light lost by this cutoff. + +The psf convolution, used on galaxies, is generally not +evaluated over as large a dynamic range, given by the parameter +\fIpsfrange\fR, especially since it has a very strong affect on the +execution time. The convolution is normalized to unit weight over the +specified dynamic range. +.le +.ls ranbuf = 0 +Random number buffer size. When generating readout and poisson noise, +evaluation of new random values has an affect on the execution time. +If truly (or computationally truly) random numbers are not needed +then this number of random values is stored and a simple +uniform random number is used to select from the stored values. +To force evaluation of new random values for every pixel set the +value of this parameter to zero. +.le +.ih +DESCRIPTION +This task creates or modifies images by adding models of astronomical +objects, stars and galaxies, as specified in object lists. New images are +created with the specified dimensions, background, title, and real datatype. +Existing images may be modified in place or new images output. The +task includes the effects of image scale, pixel sampling, atmospheric +seeing, and noise. The object models may be analytic one dimensional +profiles, user defined one dimensional profiles, and user defined image +templates. The profiles and templates are given elliptical shapes by +specifying a scale radius for the major axis, a minor axis to major +axis axial ratio, and a position angle. + +For new images a set of header keywords may be added by specifying an +image or data file with the \fIheader\fR parameter (see also \fBmkheader\fR). +If a data file is specified lines beginning with FITS keywords are +entered in the image header. Leading whitespace is ignored and any +lines beginning with words having lowercase and nonvalid FITS keyword +characters are ignored. In addition to this optional header, +keywords, parameters for the gain, read noise, and exposure time are +defined. Finally, comments may be added to the image header recording the task +parameters and any information from the objects file which are not +object definitions; in particular, the \fBstarlist\fR and +\fBgallist\fR parameters are recorded. + +A completely accurate simulation of the effects of pixel sampling, +atmospheric seeing, object appearance, luminosity functions, and noise +can require a large amount of computer time even on +supercomputers. This task is intended to allow generation of large +numbers of objects and images over large image sizes representative of +current deep optical astronomical images. All this is to be done +on typical workstations. Thus, there are many approximations and +subtle algorithms used to make this possible to as high a degree of +accuracy as practical. The discussion will try to describe these in +sufficient detail for the user to judge the accuracy of the artificial +data generated and understand the trade offs with many of the +parameters. + +New images are created with the specified dimensions, title, and real +datatype. The images have a constant background value given by the +\fIbackground\fR parameter (in data numbers) before adding objects and +noise. Noise consists of gaussian and poisson components. For existing +images, noise is only added to the objects and the background parameter is +used in the calculation of the poisson noise: specifically, a poisson +random value with mean given by the sum of the object and the background is +generated and then the background is subtracted. For more on how the noise +is computed and approximations used see \fBmknoise\fR. + +Objects are specified by a position, magnitude, model, scale, axial +ratio, and position angle. Since the point spread function (PSF) +is assumed constant over the image the star model, size, axial ratio, +and position angle are specified by the task parameters \fIstar\fR, +\fIradius\fR, \fIar\fR, and \fIpa\fR. For galaxies, where the +intrinsic shapes vary from object to object, these parameters are +specified as part of the object lists. For both types of objects the +positions and magnitudes are specified in the object lists. + +There is a great deal of flexibility in defining the object models. +The models are defined either in terms of a one dimensional radial +intensity or cumulative flux profile +or an image template. The flux profiles may be +analytic functions or a user defined profile given as an equally spaced +set of values in a text file. The first point is zero at the center +for a cumulative profile +and increases monotonically to the edge. Note that intensity profiles +are to be preferred to avoid artifacts in the conversion from cumulative +flux. In particular, cumulative flux profiles may give a spike at the +center. In either case, the profile should be specified fairly finely, +many points, to avoid interpolation effects. + +The functional form of the analytic profiles the user profiles, and +image template are given below. + +.nf + gaussian: I = exp (-ln (2) * (R/radius)**2) + moffat: I = (1 + (2**(1/beta)-1) * (R/radius)**2) ** -beta + sersic<n>: I = exp (-b * (R/radius)**1/n) + expdisk: I = exp (-1.6783 * R/radius) + devauc: I = exp (-7.67 * (R/radius)**1/4) + flux profile: I = intensity (nprofile * R/radius) + flux profile: F = flux (nprofile * R/radius) +image template: I = image (nc/2+nc/2*dX/radius, nl/2+nc/2*dY/radius) +.fi + +where R, dX, and dY are defined below, \fIradius\fR is the scale parameter +and \fIbeta\fR is the Moffat parameter specified by the user, +nprofile is the number of profile points in the user profile, and nc and nl +are the image template column and line dimensions. The Gaussian, "gaussian", +and Moffat, "moffat", profiles are used for stars and the point spread +function, while the Sersic (sersic), exponential disk (expdisk), and +De Vaucouleurs (devauc) profiles are common models for spiral and elliptical +galaxies. The image templates are intended to model images with +some complex structure. The usual case is to have a very well sampled +and high signal-to-noise image be reduced in scale (a more distant +example), convolved with seeing (loss of detail), and noise (degraded +signal-to-noise). This also allows for more complex point spread +functions. + +The radial profiles are mapped into two dimensional objects by an elliptical +transformation. The image templates are also mapped by an elliptical +transformation to rotate and stretch them. If the output image +coordinates are given by (x, y), and the specified object center +coordinates are given by (xc, yc) then the transformation is defined +as shown below. + +.nf + dx = x - xc + dy = y - yc + dX = dx * cos(pa) + dy * sin(pa) + dY = (-dx * sin(pa) + dy * cos(pa)) / ar + R = sqrt (dX ** 2 + dY ** 2) +.fi + +where dx and dy are the object coordinates relative to the object +center, dX and dY are the object coordinates in the transformed +circular coordinates, and R is the circularly symmetric radius. +The transformation parameters are the axial ratio \fIar\fR +defined as the ratio of the minor axis to the major axis, +and the position angle \fIpa\fR defined counterclockwise from +the x axis. + +The \fIradius\fR parameter defines the size, in pixels, of the model +object (before seeing for the galaxies) in the output image. It +consistently refers to the major axis of the object but its meaning +does depend on the model. For the gaussian and moffat profiles it is +defined as the half-intensity radius. For the sersic, expdisk, and devauc +profiles it is defined as the half-flux radius. For the user specified +profiles it is the radius of the last profile point. And for the image +templates it is the radius of the image along the first or x axis given +by one-half of the image dimension; i.e. nc/2. + +The profiles of the analytic functions extend to infinity so a dynamic +range, the ratio of the peak intensity to the cutoff intensity, is imposed +to cutoff the profiles. The \fIdynrange\fR package parameter applies to +the stellar and galaxy analytic profiles. The larger this parameter the +further the profile extends, particularly for the large index Sersic and De +Vaucouleurs models. When modeling large galaxies this has a fairly strong +affect on the execution time because the overall extent of the images +becomes rapidly greater. Only for very high signal-to-noise objects will +the cutoff be noticeable. A correction is made to account for lost light +(light beyond the modeled dynamic range) so that an aperture magnitude +will give the correct value for an object of the specified total magnitude. +This can become quite significant for larger index Sersic profiles and +for the default dynamic range. + +The object models are integrated over the size of the image pixels. This +is done by subsampling, dividing up a pixel into smaller pieces called +subpixels. For the image templates a bilinear surface interpolation +function is used and integrated analytically over the extent of the +subpixels. The user cumulative one dimensional profiles are first +converted to intensity profiles. The various intensity profiles are then +binned into pixel fluxes per subpixel on a grid much finer than the +subpixel spacing. Then for any particular radius and object center the +appropriate subpixel flux can be determined quickly and accurately. + +The number of subpixels per image pixel is determined by the package +parameters \fInxsub\fR, \fInysub\fR, \fInxgsub\fR, and \fInygsub\fR. The +first two apply to the stars and the PSF and the latter two apply to the +galaxies. Typically the subsampling will be the same in each dimension. +The galaxies are generally subsampled less since they will have less +rapidly changing profiles and are convolved by the PSF. Also, the stars +are computed only a few times and then scaled and moved, as described +below, while each galaxy needs to be computed separately. Therefore, one +can afford greater precision in the stars than in the galaxies. + +Given an image of several hundred pixels subsampled by a factor of 100 +(10 x 10) this will be a very large number of computations. A +shortcut to reduce this number of operations is allow the number +of subpixels to change as a function of distance from the +profile center. Since the profile center is where the intensity +changes most rapidly with position, the greatest subsampling is needed for +the pixel nearest the center. Further from the object center the intensity +changes more slowly and the number of subpixels may be reduced. +Thus, the number of subpixels in each dimension in each pixel is +decreased linearly with distance from the profile center. For example, +a pixel which is 3.2 pixels from the profile center will have +\fInxsub\fR - 3 subpixels in the x dimension. There is, of course, a +minimum of one subpixel per pixel or, in other words, no subsampling +for the outer parts of the objects. By adjusting the subsampling +parameters one can set the degree of accuracy desired at the trade off of +greatly different execution times. + +The star shapes are assumed constant over the images and only their +position and magnitude change. Thus, rather than compute each desired +star from the model profile or image template, a normalized star +template is computed once, using the spatial transformation and +subsampling operations described above, and simply scaled each time to +achieve the desired magnitude and added at the requested position. +However, the apparent star shape does vary depending on where its +center lies within an image pixel. To handle this a set of +normalized star templates is precomputed over a grid of centers +relative to the center of a pixel. Then the template with center +nearest to that requested, relative to a pixel center, is used. The +number of such templates is set by the package parameters \fInxc\fR and +\fInyc\fR where the two axis typically have the same values. The +larger the number of centers the more memory and startup time required +but the better the representation of this sampling effect. The choice +also depends on the scale of the stars since the larger the star +profile compared to a pixel the smaller the subcentering effect is. +This technique allows generating images with many stars, such as a +globular cluster or a low galactic latitude field, quite +efficiently. + +Unlike the stars, the galaxies will each have different profiles, +ellipticities, and position angles and so templates cannot be used (except +for special test cases as mentioned later). Another difference is that the +galaxy models need to be convolved by the PSF; i.e. the shapes are defined +prior to seeing. The PSF convolution must also be subsampled and the +convolution operation requires as many operations as the number of pixels +in the PSF for each galaxy subpixel. Thus, computing seeing convolved, +well subsampled, large galaxy images is the most demanding task of all, +requiring all the shortcuts described above (larger and variable +subsampling and the subpixel flux approximation) as well as further ones. + +The PSF used for convolving galaxies is truncated at a lower dynamic +range than the stars according to the package parameter +\fIpsfrange\fR. This reduces the number of elements in the convolution +dramatically at the expense of losing only a small amount of the flux +in the wings. Like the stars, the PSF is precomputed on a grid of +pixel subcenters and the appropriate PSF template is used for each +galaxy subpixel convolution. Unlike the stars, the truncated PSF is +normalized to unit flux in order to conserve the total flux in the +galaxies. For the extended galaxies this approximation has only a very +small effect. As with the other approximations one may increase the +dynamic range of the PSF at the expense of an increase in execution +time. + +There is an exception to using the truncated PSF. If the size of the +galaxy because very small, 0.01 pixel, then a stellar image is substituted. + + +OBJECT FILES + +The object files contain lines defining stars and galaxies. Stars +are defined by three numbers and galaxies by seven or eight as +represented symbolically below. + +.nf + stars: xc yc magnitude + galaxies: xc yc magnitude model radius ar pa <save> +.fi + +.ls 6 xc, yc: +Object center coordinates. These coordinates are transformed to image +coordinates as follows. + +.nf + xc in image = xoffset + xc / distance + yc in image = yoffset + yc / distance +.fi + +where \fIxoffset\fR and \fIyoffset\fR are the task offset parameters. +Objects whose image centers fall outside the image dimensions are ignored. +.le +.ls magnitude: +Object magnitude. This is converted to instrumental fluxes as follows. + +.nf + flux = exptime/distance**2 * 10**(-0.4*(magnitude-magzero)) +.fi + +where \fIexptime\fR, \fIdistance\fR, and \fImagzero\fR are task parameters. +For the analytic star and galaxy models a correction +is made for lost light due to the finite extent of the image in the +sense that the flux added to the image will never quite be that +requested. +.le +.ls model: +The types of galaxy models are as follows: +.ls 4 sersic<n> +A Sersic model of index n. The index may real but the value will be rounded +to the nearest multiple of 0.5 or, equivalently, two times the index value will +be rounded to an integer. The index must be between 0.5 and 10. The Sersic +model defined as + +.nf + I = exp (-b * (R/radius)**1/n) +.fi + +where radius is the major axis scale length corresponding to half of the +total flux. The value of b is computed using the formula of Ciotti and +Bertin (AA v352, p447, 1999); + +.nf + b = 2n - 1/3 + 4/(405n) + 46 / (25515n^2) +.fi +.le +.ls 4 expdisk +An exponential disk model defined as + +.nf + I = exp (-b * R/radius) +.fi + +where radius is the major axis scale length corresponding to half of the total +flux and b is computed as with the Sersic model for n=1. In fact, the +algorithm is identical with that for the Sersic model using n=1. Note that +because of this there will be slight differences with the earlier versions. +.le +.ls devauc +A De Vaucouleurs profile defined as + +.nf + I = exp (-b * (R/radius)**1/4) +.fi + +where radius is the major axis scale length corresponding to half of the total +flux and b is computed as with the Sersic model for n=4. In fact, the +algorithm is identical with that for the Sersic model using n=4. Note that +because of this there will be slight differences with the earlier versions. +.le +.ls <image> +If not one of the profiles above an image of the specified name is +sought. If found the center of the template image is assumed to be the +center of the object and the image template is scaled so that the +radius of the template is given by the major axis scale radius parameter. +.le +.ls <profile file> +If not one of the above a text file giving a cumulative flux profile from +the center to the edge is sought. If found the profile defines +a model galaxy of extent to the last profile point given by +the major axis scale radius parameter. +.le +.le +.ls 6 radius: +Major axis scale radius parameter in pixels as defined above for the different +galaxy models. The actual image radius is modified as follows. + + radius in image = radius / distance +.le +.ls ar: +Minor to major axis axial ratio. +.le +.ls pa: +Major axis position angle in degrees measured counterclockwise from the X axis. +.le +.ls save: +If a large number of identically shaped galaxies (size, axial ratio, +and position angle) located at the same subpixel (the same x and y +fractional part) but with varying magnitudes is desired then by +putting the word "yes" as the eighth field the model will be saved +the first time and reused subsequent times. This speeds up the execution. +There may certain algorithm testing situations where this might be useful. +.le +.ih +EXAMPLES +1. Create a galaxy cluster with a power law distribution of field galaxies +and stars as background/foreground. + +.nf + ar> gallist galaxies.dat 100 spatial=hubble lum=schecter egal=.8 + ar> gallist galaxies.dat 500 + ar> starlist galaxies.dat 100 + ar> mkobjects galaxies obj=galaxies.dat gain=3 rdnoise=10 poisson+ +.fi + +Making the image takes about 5 minutes (2.5 min cpu) on a SPARCstation 1. + +2. Create a uniform artificial starfield of 5000 stars for a 512 square image. + +.nf + ar> starlist starfield.dat 5000 + ar> mkobjects starfield obj=starfield.dat gain=2 rdnoise=10 poisson+ +.fi + +This example takes about a minute on a SPARCstation 1. + +3. Create a globular cluster field of 5000 stars for a 512 square image. + +.nf + ar> starlist gc.dat 5000 spat=hubble lum=bands + ar> mkobjects gc obj=gc.dat gain=2 rdnoise=10 poisson+ +.fi + +This example takes about a minute on a SPARCstation 1. + +4. Add stars to an existing image for test purposes. + +.nf + ar> mkobjects starfield obj=STDIN gain=2 pois+ magzero=30 + 100 100 20 + 100 200 21 + 200 100 22 + 200 200 23 + [EOF] +.fi + +5. Look at the center of the globular cluster with no noise and very +good seeing. + +.nf + cl> mkobjects gc1 obj=gc.dat nc=400 nl=400 distance=.5 \ + >>> xo=-313 yo=-313 radius=.1 +.fi + +The offset parameters are used to recenter the cluster from +(256,256) in the data file to (200,200) in the expanded field. +This example takes 30 sec (5 sec CPU) on a SPARCstation 1. To expand +and contract about a fixed point define the object list to have an +origin at zero. + +.nf + ar> starlist gc.dat 5000 spat=hubble lum=bands xmin=-256 xmax=256 \ + >>> ymin=-256 ymax=256 + ar> mkobjects gc obj=gc.dat xo=257 yo=257 gain=2 rdnoise=10 poisson+ + ar> mkobjects gc1 obj=gc.dat xo=257 yo=257 gain=2 \ + >>> distance=.5 rdnoise=10 poisson+ +.fi + +6. Make an image of dev$pix at various distances and orientation. First we +must subtract the background. + +.nf + cl> imarith dev$pix - 38 pix + cl> mkobjects pix1 obj=STDIN nc=200 nl=200 back=1000 \ + >>> magzero=30 rd=10 poi+ + 50 50 15.0 pix 40 1 0 + 150 50 15.6 pix 30 .8 45 + 50 150 16.5 pix 20 .6 90 + 150 150 17.1 pix 15 .4 135 + [EOF] +.fi + +It would be somewhat more efficient to first block average the +template since the oversampling in this case is very large. +.ih +REVISIONS +.ls MKOBJECTS V2.11+ +The random number seed can be set from the clock time by using the value +"INDEF" to yield different random numbers for each execution. +.le +.ls MKOBJECTS V2.11 +The default value of "ranbuf" was changed to zero. +.le +.ih +SEE ALSO +gallist, starlist, mknoise, mkheader +.endhelp |