Re: [R] Deciphering an error message
Hello again,
Below is the code I am using which generates the error message.
Any comments greatly appreciated,
S.
#
# Function to create a PPP object for all the points in a particular
# include. Mark the points with their species name (or a number
# indicating it)
#
# Usage:
# x - getBigPPP(year, include, species, number=FALSE)
#
# Where:
# x = ppp object with coordinates and bounds for indicated species
# and plots.
# year = year(s) to include data for. Either a single number or a
#vector of numbers
# include = name(s) of plots to include data from. Either a single
# character expression or a vector of characters.
# species = name(s) of species to include data for. Either a single
# species name or a vector of characters.
# number = flag indicating whether species names or numbers are used
# as marks in ppp object. Species names are default. To
# use numbers, set number=TRUE. This argument is not needed
# unless numbers are desired.
#
# Example:
# source(spat1.R) # source file to install functions
# getBigPPP(1992, G1, apple) # print PPP object (summary of)
## for apple in G1 in 1992. Marks
## will be species name 'apple'
# x - getBigPPP(1992, c(P1,P2,P3), c(apple,hawthorn), number=TRUE)
## x is defined as PPP object with
## coordinates and plot information
## for apple and hawthorn species
## in plots P1, P2, and P3, with
## marks set to numbers.
# plot(x)# plot locations of species, with
## different marks for each one, and
## plot boundaries.
#
getBigPPP - function(year=NULL, include=NULL, species=NULL, number=FALSE,
spColNam=Species) {
# message about usage
if(is.null(year) || is.null(include)) {
return(ERROR !)
}
# create species selection if it is now null
spCol - t(trees[spColNam])
# print(spCol)
if(is.null(species)) {
species - as.character(unique(spCol))
}
# create the bounds for this object
bounds - plotBounds(include)
# selection based on include and year
select - (trees$Plot %in% include) (trees$Year %in% year)
(spCol %in% species) (!is.na(trees$Northing))
(!is.na(trees$Easting)) (trees$Present == 1)
# mark with numbers or with species name
if(!number) {
return(ppp(x=trees$Easting[select], y=trees$Northing[select],
marks=as.factor(spCol[select]), poly=bounds))
}
specs - unique(spCol[select])
marks - apply(as.matrix(spCol[select]), 1, function(x) {
which(specs == x)[1]
})
return(ppp(x=trees$Easting[select], y=trees$Northing[select],
marks=as.factor(marks), poly=bounds))
}
--
Uwe Ligges [EMAIL PROTECTED] wrote:
Suzanne E. Blatt wrote:
Hello,
I'm working in spatstat and having difficulty with the ppp objects. I can get a
ppp object for one set of data, but with the same code applied to a second data set
(all I am changing is the field identifier), I get the following error message:
Error in switch(w$type, rectangle={: internal error: some total scores are neither
0 nor 1
What is a ppp object?
Which function has been applied and generated that error message?
The error message tells you some values a ought to sum up to 0 or 1 but
they don't. I (and perhaps others as well) cannot help when you don't
specify some relevant information.
Uwe Ligges
Any thoughts on what this means and how to correct it would be most appreciated.
Thanks,
Suzanne
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Re: [R] Deciphering an error message
Suzanne E. Blatt wrote:
Hello again,
Below is the code I am using which generates the error message.
Any comments greatly appreciated,
S.
Well, my questions were:
- 'What is a ppp object?'
Still not answered yet, AFAICS.
- 'Which function has been applied and generated that error message?'
Still not answered yet, AFAICS.
You have send us a self written function, but not a reproducible example
that helps to discover the error message. And this function does *not*
generate the error message, but perhaps a function called within your
function. Further on:
- You are using a function ppp() I don't know anything about.
- (At least) The line
spCol - t(trees[spColNam])
should generate a syntax error ...
So, please use the debugging tools to find out which function produces
the error message (e.g. via traceback()) and specify *reproducible*
examples that are as short as possible.
We cannot help as long as you are concealing the relevant information.
Uwe
#
# Function to create a PPP object for all the points in a particular
# include. Mark the points with their species name (or a number
# indicating it)
#
# Usage:
# x - getBigPPP(year, include, species, number=FALSE)
#
# Where:
# x = ppp object with coordinates and bounds for indicated species
# and plots.
# year = year(s) to include data for. Either a single number or a
#vector of numbers
# include = name(s) of plots to include data from. Either a single
# character expression or a vector of characters.
# species = name(s) of species to include data for. Either a single
# species name or a vector of characters.
# number = flag indicating whether species names or numbers are used
# as marks in ppp object. Species names are default. To
# use numbers, set number=TRUE. This argument is not needed
# unless numbers are desired.
#
# Example:
# source(spat1.R) # source file to install functions
# getBigPPP(1992, G1, apple) # print PPP object (summary of)
## for apple in G1 in 1992. Marks
## will be species name 'apple'
# x - getBigPPP(1992, c(P1,P2,P3), c(apple,hawthorn), number=TRUE)
## x is defined as PPP object with
## coordinates and plot information
## for apple and hawthorn species
## in plots P1, P2, and P3, with
## marks set to numbers.
# plot(x)# plot locations of species, with
## different marks for each one, and
## plot boundaries.
#
getBigPPP - function(year=NULL, include=NULL, species=NULL, number=FALSE,
spColNam=Species) {
# message about usage
if(is.null(year) || is.null(include)) {
return(ERROR !)
}
# create species selection if it is now null
spCol - t(trees[spColNam])
# print(spCol)
if(is.null(species)) {
species - as.character(unique(spCol))
}
# create the bounds for this object
bounds - plotBounds(include)
# selection based on include and year
select - (trees$Plot %in% include) (trees$Year %in% year)
(spCol %in% species) (!is.na(trees$Northing))
(!is.na(trees$Easting)) (trees$Present == 1)
# mark with numbers or with species name
if(!number) {
return(ppp(x=trees$Easting[select], y=trees$Northing[select],
marks=as.factor(spCol[select]), poly=bounds))
}
specs - unique(spCol[select])
marks - apply(as.matrix(spCol[select]), 1, function(x) {
which(specs == x)[1]
})
return(ppp(x=trees$Easting[select], y=trees$Northing[select],
marks=as.factor(marks), poly=bounds))
}
--
Uwe Ligges [EMAIL PROTECTED] wrote:
Suzanne E. Blatt wrote:
Hello,
I'm working in spatstat and having difficulty with the ppp objects. I can get a ppp object for one set of data, but with the same code applied to a second data set (all I am changing is the field identifier), I get the following error message:
Error in switch(w$type, rectangle={: internal error: some total scores are neither 0 nor 1
What is a ppp object?
Which function has been applied and generated that error message?
The error message tells you some values a ought to sum up to 0 or 1 but
they don't. I (and perhaps others as well) cannot help when you don't
specify some relevant information.
Uwe Ligges
Any thoughts on what this means and how to correct it would be most appreciated.
Thanks,
Suzanne
__
[EMAIL PROTECTED] mailing list
[R] Deciphering an error message
Hello,
I'm working in spatstat and having difficulty with the ppp objects. I can get a ppp
object for one set of data, but with the same code applied to a second data set (all I
am changing is the field identifier), I get the following error message:
Error in switch(w$type, rectangle={: internal error: some total scores are neither 0
nor 1
Any thoughts on what this means and how to correct it would be most appreciated.
Thanks,
Suzanne
__
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Comprehensive protection for your entire computer. Get your free trial today!
http://channels.netscape.com/ns/computing/mcafee/index.jsp?promo=393397
Get AOL Instant Messenger 5.1 free of charge. Download Now!
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