* using log directory ‘/data/blackswan/ripley/R/packages/tests-devel/BayesSPsurv.Rcheck’
* using R Under development (unstable) (2023-05-27 r84465)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)
    GNU Fortran (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)
* running under: Fedora 34 (Workstation Edition)
* using session charset: UTF-8
* checking for file ‘BayesSPsurv/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘BayesSPsurv’ version ‘0.1.4’
* package encoding: UTF-8
* 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 for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘BayesSPsurv’ can be installed ... [36s/37s] OK
* used C++ compiler: ‘g++ (GCC) 11.3.1 20220421 (Red Hat 11.3.1-2)’
* checking C++ specification ... NOTE
  Specified C++11: please drop specification unless essential
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over 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 loading without being on the library search path ... OK
* checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘Rcpp’
  All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [17s/17s] OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
* checking compilation flags used ... OK
* checking compiled code ... OK
* checking examples ... OK
* checking examples with --run-donttest ... [132s/99s] ERROR
Running examples in ‘BayesSPsurv-Ex.R’ failed
The error most likely occurred in:

> ### Name: bsps_map
> ### Title: bsps_map
> ### Aliases: bsps_map
> 
> ### ** Examples
> 
> ## No test: 
> library(BayesSPsurv)
> 
> walter <- spduration::add_duration(Walter_2015_JCR,"renewed_war",
+                                    unitID = "id", tID = "year",
+                                    freq = "year", ongoing = FALSE)
Warning in attempt_date(data[, tID], freq) :
  Converting to 'Date' class with yyyy-06-30
> 
> walter <- BayesSPsurv::spatial_SA(data = walter, var_ccode = "ccode", threshold = 800L)
> 
> set.seed(123456)
> 
> model <- spatialSPsurv(
+    duration  = duration ~ victory + comprehensive + lgdpl + unpko,
+    immune    = atrisk ~ lgdpl,
+    Y0        = 't.0',
+    LY        = 'lastyear',
+    S         = 'sp_id' ,
+    data      = walter[[1]],
+    N         = 1500,
+    burn      = 300,
+    thin      = 15,
+    w         = c(1,1,1),
+    m         = 10,
+    form      = "Weibull",
+    prop.varV = 1e-05,
+    prop.varW = 1e-03,
+    A         = walter[[2]]
+ )
> 
> bsps_map(data = model$W)
Error: To convert a `gwn` code, `sourcevar` must be numeric.
Execution halted
* checking PDF version of manual ... OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* checking for new files in some other directories ... OK
* DONE

Status: 1 ERROR, 2 NOTEs
See
  ‘/data/blackswan/ripley/R/packages/tests-devel/BayesSPsurv.Rcheck/00check.log’
for details.

Command exited with non-zero status 1
Time 3:25.10, 225.91 + 10.82