diff options
| -rw-r--r-- | doc/man/pattern_sim.1 | 12 | ||||
| -rw-r--r-- | src/pattern_sim.c | 44 |
2 files changed, 18 insertions, 38 deletions
diff --git a/doc/man/pattern_sim.1 b/doc/man/pattern_sim.1 index a9528654..e34bf11d 100644 --- a/doc/man/pattern_sim.1 +++ b/doc/man/pattern_sim.1 @@ -120,6 +120,18 @@ Generate random crystal sizes between \fImin\fR and \fImax\fR nanometres. These .PD Do not calculate Poisson noise. +.PD 0 +.IP "\fB-s\fR \fIn\fR" +.IP \fB--sample-spectrum=\fR\fIn\fR +.PD +Include \fIn\fR samples from the spectrum in the calculation. + +.PD 0 +.IP "\fB-x\fR \fItype\fR" +.IP \fB--spectrum=\fR\fItype\fR +.PD +Use \fItype\fR of spectrum. \fItype\fR can be one of \fBtophat\fR or \fBsase\fR. + .SH REFLECTION LISTS diff --git a/src/pattern_sim.c b/src/pattern_sim.c index 5ea328bf..7be2acfb 100644 --- a/src/pattern_sim.c +++ b/src/pattern_sim.c @@ -73,54 +73,22 @@ static void show_help(const char *s) " available devices.\n" " -g, --geometry=<file> Get detector geometry from file.\n" " -b, --beam=<file> Get beam parameters from file.\n" -"\n" " -n, --number=<N> Generate N images. Default 1.\n" " --no-images Do not output any HDF5 files.\n" " -o, --output=<filename> Output HDF5 filename. Default: sim.h5.\n" -" If you choose to simulate more than one pattern,\n" -" the filename given will be postfixed with a\n" -" hyphen, the image number and '.h5'. In this\n" -" case, the default value is 'sim', such that the\n" -" files produced are sim-1.h5, sim-2.h5 and so on.\n" -" -r, --random-orientation Use a randomly generated orientation\n" -" (a new orientation will be used for each image).\n" +" -r, --random-orientation Use randomly generated orientations.\n" " --powder=<file> Write a summed pattern of all images simulated by\n" " this invocation as the given filename.\n" " -i, --intensities=<file> Specify file containing reflection intensities\n" " (and phases) to use.\n" " -y, --symmetry=<sym> The symmetry of the intensities file.\n" -" -t, --gradients=<method> Use <method> for the calculation of shape\n" -" transform intensities. Choose from:\n" -" mosaic : Take the intensity of the nearest\n" -" Bragg position. This is the\n" -" fastest method and the only one\n" -" supported on the GPU.\n" -" interpolate : Interpolate trilinearly between\n" -" six adjacent Bragg intensities.\n" -" This method has intermediate\n" -" accuracy.\n" -" phased : As 'interpolate', but take phase\n" -" values into account. This is the\n" -" most accurate method, but the\n" -" slowest.\n" -" --really-random Use really random numbers for the orientation and\n" -" crystal size. By default, the same sequence\n" -" will be used for each new run.\n" -" --min-size=<s> Generate random crystal sizes using <s> as the\n" -" minimum crystal size in nm. --max-size is also\n" -" required.\n" -" --max-size=<s> Use <s> as the maximum crystal size in nm.\n" -" --min-size is also required.\n" +" -t, --gradients=<method> Select method for calculation of shape transforms\n" +" --really-random Seed the random number generator with /dev/urandom.\n" +" --min-size=<s> Minimum crystal size in nm.\n" +" --max-size=<s> Naximum crystal size in nm.\n" " --no-noise Do not calculate Poisson noise.\n" " -s, --sample-spectrum=<N> Use N samples from spectrum. Default 3.\n" -" -x, --spectrum=<type> Use <type> for the calculation of spectrum.\n" -" Choose from:\n" -" tophat : Tophat spectrum. Bandwidth is\n" -" taken from beam parameters.\n" -" SASE : SASE spectrum. Random SASE pulse \n" -" is generated from a model.\n" -" Bandwidth is taken from beam \n" -" parameters.\n" +" -x, --spectrum=<type> Type of spectrum to simulate.\n" ); } |