- using R version 2.14.1 Patched (2012-02-05 r58287)
- using platform: i686-pc-linux-gnu (32-bit)
- using session charset: UTF-8
- checking for file ‘spectralGP/DESCRIPTION’ ... OK
- this is package ‘spectralGP’ version ‘1.3’
- checking package namespace information ... OK
- checking package dependencies ... OK
- checking if this is a source package ... OK
- checking if there is a namespace ... OK
- checking for executable files ... OK
- checking whether package ‘spectralGP’ can be installed ... OK
- checking installed package size ... OK
- checking package directory ... OK
- checking for portable file names ... OK
- checking for sufficient/correct file permissions ... OK
- checking DESCRIPTION meta-information ... OK
- checking top-level files ... OK
- checking index information ... OK
- checking package subdirectories ... OK
- checking R files for non-ASCII characters ... OK
- checking R files for syntax errors ... OK
- checking whether the package can be loaded ... OK
- checking whether the package can be loaded with stated dependencies ... OK
- checking whether the package can be unloaded cleanly ... OK
- checking whether the namespace can be loaded with stated dependencies ... OK
- checking whether the namespace can be unloaded cleanly ... OK
- checking for unstated dependencies in R code ... OK
- checking S3 generic/method consistency ... OK
- checking replacement functions ... OK
- checking foreign function calls ... OK
- checking R code for possible problems ... NOTE
File ‘spectralGP/R/onLoad.R’:
.onLoad calls:
cat("Package spectralGP (1.3) is loaded.\n===============================================================\n WARNING: spectralGP uses objects in the form of environments,\n thereby passing by reference. Various method functions make\n changes to the input gp object as a side effect, thereby\n changing the object in the calling environment, and\n returning NULL.\n===============================================================", fill = FALSE)
Package startup functions should use ‘packageStartupMessage’ to
generate messages.
See section ‘Good practice’ in ?.onAttach.
Gibbs.sample.coeff.gp: warning in matrix(2 * sdVal * sdVal/sig2e, nr =
m1, nc = m2): partial argument match of 'nr' to 'nrow'
Gibbs.sample.coeff.gp: warning in matrix(2 * sdVal * sdVal/sig2e, nr =
m1, nc = m2): partial argument match of 'nc' to 'ncol'
Gibbs.sample.coeff.gp: warning in fft(matrix((z - meanVal)/sdVal, nr =
m1, nc = m2, byrow = FALSE), inv = FALSE): partial argument match of
'inv' to 'inverse'
Gibbs.sample.coeff.gp: warning in matrix((z - meanVal)/sdVal, nr = m1,
nc = m2, byrow = FALSE): partial argument match of 'nr' to 'nrow'
Gibbs.sample.coeff.gp: warning in matrix((z - meanVal)/sdVal, nr = m1,
nc = m2, byrow = FALSE): partial argument match of 'nc' to 'ncol'
Gibbs.sample.coeff.gp: warning in matrix(rnorm(m1 * m2, Re(coeff.mean),
sqrt(c(coeff.var))), nr = m1, nc = m2): partial argument match of
'nr' to 'nrow'
Gibbs.sample.coeff.gp: warning in matrix(rnorm(m1 * m2, Re(coeff.mean),
sqrt(c(coeff.var))), nr = m1, nc = m2): partial argument match of
'nc' to 'ncol'
Gibbs.sample.coeff.gp: warning in matrix(rnorm(m1 * m2, Im(coeff.mean),
sqrt(c(coeff.var))), nr = m1, nc = m2): partial argument match of
'nr' to 'nrow'
Gibbs.sample.coeff.gp: warning in matrix(rnorm(m1 * m2, Im(coeff.mean),
sqrt(c(coeff.var))), nr = m1, nc = m2): partial argument match of
'nc' to 'ncol'
Gibbs.sample.coeff.gp: warning in matrix(1, nr = m1, nc = m2): partial
argument match of 'nr' to 'nrow'
Gibbs.sample.coeff.gp: warning in matrix(1, nr = m1, nc = m2): partial
argument match of 'nc' to 'ncol'
Hastings.coeff.gp: warning in matrix(2 * sdVal * sdVal/sig2e, nr = m1,
nc = m2): partial argument match of 'nr' to 'nrow'
Hastings.coeff.gp: warning in matrix(2 * sdVal * sdVal/sig2e, nr = m1,
nc = m2): partial argument match of 'nc' to 'ncol'
Hastings.coeff.gp: warning in fft(matrix((z - meanVal)/sdVal, nr = m1,
nc = m2, byrow = FALSE), inv = FALSE): partial argument match of
'inv' to 'inverse'
Hastings.coeff.gp: warning in matrix((z - meanVal)/sdVal, nr = m1, nc =
m2, byrow = FALSE): partial argument match of 'nr' to 'nrow'
Hastings.coeff.gp: warning in matrix((z - meanVal)/sdVal, nr = m1, nc =
m2, byrow = FALSE): partial argument match of 'nc' to 'ncol'
Hastings.coeff.gp: warning in matrix(1, nr = m1, nc = m2): partial
argument match of 'nr' to 'nrow'
Hastings.coeff.gp: warning in matrix(1, nr = m1, nc = m2): partial
argument match of 'nc' to 'ncol'
add.blocks.gp: warning in matrix(1:object$gridsize[1], nc = 1): partial
argument match of 'nc' to 'ncol'
add.blocks.gp: warning in matrix(object$blocks[[1]], nc = 2): partial
argument match of 'nc' to 'ncol'
add.blocks.gp: warning in matrix(object$blocks[[b]], nc = 2): partial
argument match of 'nc' to 'ncol'
calc.variances.gp: warning in matrix(object$specdens(object$omega,
object$specdens.param, d = object$d), nr = object$gridsize[1], nc =
object$gridsize[2], byrow = FALSE): partial argument match of 'nr' to
'nrow'
calc.variances.gp: warning in matrix(object$specdens(object$omega,
object$specdens.param, d = object$d), nr = object$gridsize[1], nc =
object$gridsize[2], byrow = FALSE): partial argument match of 'nc' to
'ncol'
copy.gp: warning in assign(elements[index], get(elements[index], env =
object, inherits = FALSE), env = object2): partial argument match of
'env' to 'envir'
copy.gp: warning in get(elements[index], env = object, inherits =
FALSE): partial argument match of 'env' to 'envir'
gp: warning in matrix(0, nr = gridsize[1], nc = gridsize[2]): partial
argument match of 'nr' to 'nrow'
gp: warning in matrix(0, nr = gridsize[1], nc = gridsize[2]): partial
argument match of 'nc' to 'ncol'
gp: warning in matrix(omega1, nc = 1): partial argument match of 'nc'
to 'ncol'
matern.specdens: warning in matrix(c(omega), nc = 1): partial argument
match of 'nc' to 'ncol'
matern.specdens: warning in matrix(omega, nr = 1, nc = d): partial
argument match of 'nr' to 'nrow'
matern.specdens: warning in matrix(omega, nr = 1, nc = d): partial
argument match of 'nc' to 'ncol'
names.gp: warning in ls(env = x): partial argument match of 'env' to
'envir'
updateprocess.gp: warning in fft(object$coeff, inv = TRUE): partial
argument match of 'inv' to 'inverse'
xy2unit: warning in matrix(locations.scale, nc = 1): partial argument
match of 'nc' to 'ncol'
xy2unit: warning in matrix(locations, nc = 1): partial argument match
of 'nc' to 'ncol'
zero.coeff.gp: warning in matrix(0, nr = object$gridsize[1], nc =
object$gridsize[2]): partial argument match of 'nr' to 'nrow'
zero.coeff.gp: warning in matrix(0, nr = object$gridsize[1], nc =
object$gridsize[2]): partial argument match of 'nc' to 'ncol'
- checking Rd files ... OK
- checking Rd metadata ... OK
- checking Rd cross-references ... OK
- checking for missing documentation entries ... OK
- checking for code/documentation mismatches ... OK
- checking Rd \usage sections ... NOTE
S3 methods shown with full name in documentation object 'image.plot':
‘image.plot’
The \usage entries for S3 methods should use the \method markup and not
their full name.
See the chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
- checking Rd contents ... OK
- checking for unstated dependencies in examples ... OK
- checking examples ... OK
- checking PDF version of manual ... OK