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Diffstat (limited to 'doc/man')
| -rw-r--r-- | doc/man/pattern_sim.1 | 22 |
1 files changed, 21 insertions, 1 deletions
diff --git a/doc/man/pattern_sim.1 b/doc/man/pattern_sim.1 index 85c199f1..7c761c71 100644 --- a/doc/man/pattern_sim.1 +++ b/doc/man/pattern_sim.1 @@ -126,7 +126,7 @@ Include \fIn\fR samples from the spectrum in the calculation. .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. +Use \fItype\fR of spectrum. \fItype\fR can be one of \fBtophat\fR, \fBsase\fR or \fBtwocolour\fR. See the section \fBSPECTRUM TYPES\fR below. .PD 0 .IP \fB--background=\fR\fIn\fR @@ -158,6 +158,10 @@ Set the central photon energy, in eV, for the incident beam. The default is \fB .PD Set the number of photons per X-ray pulse. The default is \fB--nphotons=1e12\fR. A physically reasonable value is such that the pulse energy (number of photons multiplied by photon energy) is about 1 mJ. +.IP "\fB--beam-radius=\fIval\fR" +.PD +Set the radius of the X-ray beam, in metres. The default is \fB--beam-radius=1e-6\fR, i.e. a beam of 2 microns' diameter. + .SH REFLECTION LISTS You'll need to create a file containing the intensities of the reflections. The normal way to do this is to use CCP4 via the "gen-sfs" script in CrystFEL's script folder. Run it like this: @@ -219,6 +223,22 @@ Interpolate trilinearly between six adjacent Bragg intensities. This method has .PD As 'interpolate', but take phase values into account. This is the most accurate method, but the slowest. +.SH SPECTRUM TYPES + +The available options for \fB--spectrum\fR are: + +.IP \fBtophat\fR +.PD +The spectrum samples will be distributed equidistantly either side of the specified photon energy to give a uniform distribution. + +.IP \fBsase\fR +.PD +A self-amplified spontaneous emission (SASE) spectrum will be simulated, as follows. First, a central photon energy will be chosen using a Gaussian distribution centered on the specified photon energy with a standard deviation of 8 eV. A Gaussian spectrum will then be calculated using the specified bandwidth, and noise added to simulatie the SASE 'spikes'. + +.IP \fBtwocolour\fR +.PD +The spectrum will consist of two Gaussian peaks separated by the specified bandwidth, each with a standard deviation of one fifth the specified bandwidth. + .SH AUTHOR This page was written by Thomas White. |