Last updated on 2021-07-01 01:49:17 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.1.2 | 415.06 | 759.70 | 1174.76 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.1.2 | 267.98 | 786.84 | 1054.82 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.1.2 | 1396.53 | NOTE | |||
| r-devel-linux-x86_64-fedora-gcc | 0.1.2 | 1434.91 | OK | |||
| r-devel-windows-x86_64 | 0.1.2 | 343.00 | 484.00 | 827.00 | OK | |
| r-devel-windows-x86_64-gcc10-UCRT | 0.1.2 | OK | ||||
| r-patched-linux-x86_64 | 0.1.2 | 315.41 | 769.82 | 1085.23 | OK | |
| r-patched-solaris-x86 | 0.1.2 | 495.50 | ERROR | |||
| r-release-linux-x86_64 | 0.1.2 | 322.17 | 738.78 | 1060.95 | OK | |
| r-release-macos-arm64 | 0.1.2 | NOTE | ||||
| r-release-macos-x86_64 | 0.1.2 | NOTE | ||||
| r-release-windows-ix86+x86_64 | 0.1.2 | 593.00 | 404.00 | 997.00 | NOTE | |
| r-oldrel-macos-x86_64 | 0.1.2 | NOTE | ||||
| r-oldrel-windows-ix86+x86_64 | 0.1.2 | 615.00 | 407.00 | 1022.00 | NOTE |
Version: 0.1.2
Check: installed package size
Result: NOTE
installed size is 20.3Mb
sub-directories of 1Mb or more:
doc 1.0Mb
libs 19.1Mb
Flavors: r-devel-linux-x86_64-fedora-clang, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-ix86+x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64
Version: 0.1.2
Check: examples
Result: ERROR
Running examples in ‘meshed-Ex.R’ failed
The error most likely occurred in:
> ### Name: predict.spmeshed
> ### Title: Posterior predictive sampling for models based on MGPs
> ### Aliases: predict.spmeshed
>
> ### ** Examples
>
>
> # toy example with tiny dataset and short MCMC
> # on a univariate outcome
> library(magrittr)
> library(dplyr)
Attaching package: ‘dplyr’
The following objects are masked from ‘package:stats’:
filter, lag
The following objects are masked from ‘package:base’:
intersect, setdiff, setequal, union
> library(meshed)
>
> set.seed(2021)
>
> SS <- 12
> n <- SS^2 # total n. locations, including missing ones
>
> coords <- data.frame(Var1=runif(n), Var2=runif(n)) %>%
+ as.matrix()
>
> # generate data
> sigmasq <- 2.3
> phi <- 6
> tausq <- .1
> B <- c(-1,.5,1)
>
> CC <- sigmasq * exp(-phi * as.matrix(dist(coords)))
> LC <- t(chol(CC))
> w <- LC %*% rnorm(n)
> p <- length(B)
> X <- rnorm(n * p) %>% matrix(ncol=p)
> y_full <- X %*% B + w + tausq^.5 * rnorm(n)
>
> set_missing <- rbinom(n, 1, 0.1)
>
> simdata <- data.frame(coords,
+ y_full = y_full,
+ w_latent = w) %>%
+ mutate(y_observed = ifelse(set_missing==1, NA, y_full))
>
> # MCMC setup
> mcmc_keep <- 500
> mcmc_burn <- 100
> mcmc_thin <- 2
>
> y <- simdata$y_observed
> ybar <- mean(y, na.rm=TRUE)
>
> # training set
> y_in <- (y-ybar)[!is.na(y)]
> X_in <- X[!is.na(y),]
> coords_in <- coords[!is.na(y),]
>
> # suppose we dont want to have gridded knots
> # i.e. we are fixing the MGP reference set at the observed locations
> # (this may be inefficient in big data settings)
> meshout <- spmeshed(y_in, X_in, coords_in,
+ axis_partition=c(4,4),
+ n_samples = mcmc_keep,
+ n_burn = mcmc_burn,
+ n_thin = mcmc_thin,
+ settings = list(forced_grid=FALSE, cache=FALSE),
+ prior=list(phi=c(1,15)),
+ verbose = 0,
+ n_threads = 1)
Warning in spmeshed(y_in, X_in, coords_in, axis_partition = c(4, 4), n_samples = mcmc_keep, :
Data look not gridded: force a grid with settings$forced_grid=T.
*** caught segfault ***
address 39494d6b, cause 'memory not mapped'
Flavor: r-patched-solaris-x86
Version: 0.1.2
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
...
Abort - core dumped
--- re-building ‘multivariate_irregular.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
terminate called recursively
terminate called after throwing an instance of 'std::logic_error'
what(): Mat::init(): requested size is too large; suggest to enable ARMA_64BIT_WORD
Abort - core dumped
Warning in readLines(tf) :
incomplete final line found on '/tmp/Rtmpera4th/working_dir/Rtmpcea4aE/file3c0720a22e15'
--- re-building ‘univariate_gridded.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
terminate called recursively
terminate called after throwing an instance of '
Abort - core dumped
--- re-building ‘univariate_irregular.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
terminate called recursively
terminate called after throwing an instance of 'std::logic_error'
Segmentation Fault - core dumped
--- re-building ‘univariate_irregular_poisson.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
*** caught segfault ***
address 88, cause 'memory not mapped'
*** caught segfault ***
address 88, cause 'memory not mapped'
SUMMARY: processing the following files failed:
‘multivariate_irregular.Rmd’ ‘univariate_gridded.Rmd’
‘univariate_irregular.Rmd’ ‘univariate_irregular_poisson.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-patched-solaris-x86