spatstat.options(...) reset.spatstat.options()name=value pairs.
See below for the parameter names.
spatstat.options but are intended for
software development or testing purposes.
FALSE.
closepairs.
Initialised to TRUE.
crossing.psp.
Initialised to TRUE.
crosspairs.
Initialised to TRUE.
densityC=TRUE) or interpreted R code (densityC=FALSE)
to evaluate density.ppp(X, at="points").
Initialised to TRUE.
'off', 'on' or
'test' determining whether to use accelerated C code
to evaluate the conditional intensity of a Gibbs model.
Initialised to 'on'.
FALSE.
selfcrossing.psp.
Initialised to TRUE.
TRUE.
spatstat.options
allows the user to examine and reset the values
of global parameters which control actions in the
spatstat package.
It is analogous to the system function options. The function reset.spatstat.options resets all the
global parameters in spatstat to their original,
default values.
The global parameters of interest to the user are:
owin and as.owin should
apply very strict checks on the validity of polygon data.
These strict checks are no longer necessary, and the default is
checkpolygons=FALSE.
See also fixpolygons below.
psp and as.psp should check
the validity of line segment data (in particular, checking that
the endpoints of the line segments are inside the specified
window). It is advisable to leave this flag set to TRUE.
Gcom, Gres
Kcom, Kres,
psstA,
psstG,
psst.
The flag indicates whether to compute intensity estimates
on an eroded window (eroded.intensity=TRUE)
or on the original data window
(eroded.intensity=FALSE, the default).
rmh (see rmhcontrol).
Initialised to 2.
polynom
in a model formula should be expanded, so that
polynom(x,2) is replaced by x + I(x^2) and so on.
Initialised to TRUE.
rpoispp
when the argument lambda is a pixel image.
Initialised to TRUE.
Should be set to FALSE if needed to guarantee repeatability
of results computed using earlier versions of spatstat.
rthin when the argument
P is a single number.
Initialised to TRUE.
Should be set to FALSE if needed to guarantee repeatability
of results computed using earlier versions of spatstat.
lgcp.estK or Kmodel.
The slow algorithm uses accurate numerical integration; the
fast algorithm uses Simpson's Rule for numerical integration,
and is about two orders of magnitude faster.
Initialised to FALSE.
owin and as.owin should
repair errors in polygon data. For example,
self-intersecting polygons and overlapping polygons will
be repaired. The default is fixpolygons=TRUE.
n for which runif(n) will
not generate an error (possible errors include failure to allocate
sufficient memory, and integer overflow of n).
An attempt to generate more than this number of random points
triggers a warning from runifpoint and other
functions. Defaults to 1e6.
plot.im. When called with one integer argument
n, this function should return a character vector of length
n specifying n different colours.
Kcom and Kres
removes or retains the contributions to the function
from pairs of points that are identical. If these are
retained then the function has a jump at $r=0$.
Initialised to TRUE.
edge.Trans or edge.Ripley
and used in Kest and its relatives.
ppm and predict.ppm
(for example) to decide when to
split a large calculation into blocks.
Defaults to 2^24=16777216.
monochrome=TRUE) or
in colour (monochrome=FALSE, the default).
bw.relrisk and similar
functions.
default.dummy.
Either an integer or a pair of integers
giving the minimum number of dummy points in the x and y
directions respectively.
areaLoss and areaGain
when exact calculation is not available.
A single integer.
x and y
directions respectively.
F3est.
Initialised to 4 megavoxels: nvoxel = 2^22 = 4194304.
image
when displaying a binary image mask (in plot.owin
or plot.ppp).
Typically used to reset the colours of foreground and background.
contour.im.
plot.fv and its relatives.
persp
when displaying a real-valued image, such as the fitted surfaces
in plot.ppm.
plot.ppp.
plot.pp3.
print.ppm
to decide whether to calculate and print standard errors
of the estimated coefficients of the model.
One of the strings "always", "never" or
"poisson" (the latter indicating that standard errors
will be calculated only for Poisson models). The default is
"poisson" because the calculation for non-Poisson models
can take a long time.
progressreport. Either
"tty", "tk" or "txtbar".
For explanation of these options, see progressreport.
TRUE, the algorithm of
project.ppm
will be accelerated using a shorcut.
Initialised to FALSE.
psstA.
The area of a disc is approximated by counting points on
an $n * n$ grid.
Initialised to 32.
psstA will be evaluated
(in the default case where argument r is absent).
Initialised to 30.
psstG
removes or retains the contributions to the function
from pairs of points that are identical. If these are
retained then the function has a jump at $r=0$.
Initialised to TRUE.
p, q
and nrep in the Metropolis-Hastings simulation
algorithm. These override the defaults
in rmhcontrol.default.
rmh.default
which makes the results scalable (invariant to change of units)
should be used. In order to recover former behaviour (so that
previous results can be reproduced) set this option equal to
FALSE. See the “Warning” section in the help for
rmh() for more detail.
| 0 |
| Full output |
| 1 |
| Avoid wasteful output |
| 2 |
| Remove space between paragraphs |
| 3 |
| Suppress extras such as standard errors |
terse is initialised to 0.
TRUE.
Currently this only affects plot.ppp.
unitname. This text is seen in
the text output of functions like print.ppp and
in the graphics generated by plot.fv.
The value should be one of the character strings '(', '[',
'{' or ''. The default is '('.
If no arguments are given, the current values of all parameters are returned, in a list.
If one parameter name is given, the current value of this
parameter is returned (not in a list, just the value).
If several parameter names are given,
the current values of these parameters are returned, in a list.
If name=value pairs are given, the named parameters
are reset to the given values, and the previous values of
these parameters are returned, in a list.
options
# save current values
oldopt <- spatstat.options()
spatstat.options("npixel")
spatstat.options(npixel=150)
spatstat.options(npixel=c(100,200))
spatstat.options(par.binary=list(col=grey(c(0.5,1))))
spatstat.options(par.persp=list(theta=-30,phi=40,d=4))
# see help(persp.default) for other options
# revert
spatstat.options(oldopt)
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