Error in match.arg(option, several.ok = FALSE)

[ggrittz]

Hello,

While running the vignette example I encountered the following error message:

Error in match.arg(option, several.ok = FALSE) : 
  'arg' should be one of “inla.call”, “inla.arg”, “fmesher.call”, “fmesher.arg”, “num.threads”, “smtp”, “safe”, “pardiso.license”, “keep”, “verbose”, “save.memory”, “working.directory”, “silent”, “debug”, “show.warning.graph.file”, “scale.model.default”, “short.summary”, “inla.timeout”, “fmesher.timeout”, “inla.mode”, “fmesher.evolution”

Here's my sessionInfo()

R version 4.3.0 (2023-04-21 ucrt)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 11 x64 (build 22621)

Matrix products: default


locale:
[1] LC_COLLATE=Portuguese_Brazil.utf8  LC_CTYPE=Portuguese_Brazil.utf8   
[3] LC_MONETARY=Portuguese_Brazil.utf8 LC_NUMERIC=C                      
[5] LC_TIME=Portuguese_Brazil.utf8    

time zone: America/Sao_Paulo
tzcode source: internal

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] assertthat_0.2.1 uuid_1.1-0       terra_1.7-29     xgboost_1.7.5.1  inlabru_2.8.0   
[6] sp_2.0-0         ibis.iSDM_0.0.5 

loaded via a namespace (and not attached):
 [1] tensorA_0.36.2       utf8_1.2.3           generics_0.1.3       class_7.3-22        
 [5] KernSmooth_2.23-22   lattice_0.21-8       magrittr_2.0.3       grid_4.3.0          
 [9] iterators_1.0.14     foreach_1.5.2        jsonlite_1.8.7       Matrix_1.6-0        
[13] e1071_1.7-13         backports_1.4.1      DBI_1.1.3            fansi_1.0.4         
[17] scales_1.2.1.9000    codetools_0.2-19     abind_1.4-5          cli_3.6.1           
[21] rlang_1.1.1          units_0.8-2          INLA_23.06.29        splines_4.3.0       
[25] munsell_0.5.0        withr_2.5.0          tools_4.3.0          proto_1.0.0         
[29] parallel_4.3.0       checkmate_2.2.0      dplyr_1.1.2          colorspace_2.1-0    
[33] ggplot2_3.4.2        vctrs_0.6.3          posterior_1.4.1      R6_2.5.1            
[37] proxy_0.4-27         lifecycle_1.0.3      classInt_0.4-9       pkgconfig_2.0.3     
[41] pillar_1.9.0         gtable_0.3.3         glue_1.6.2           data.table_1.14.8   
[45] Rcpp_1.0.11          sf_1.0-14            tibble_3.2.1         tidyselect_1.2.0    
[49] rstudioapi_0.15.0    farver_2.1.1         compiler_4.3.0       distributional_0.3.2

Any idea what could be happening?

Thanks!

[Martin-Jung]

Hi,
the vignette is updated and rerun every time a patch is been made (such as a few minutes ago). Thus the most likely cause is that your packages are outdated in some way. I also note that you seem to use the development version of INLA rather than the stable one. Could you please run these commands in the following order and report if that fixes things?

• remove.packages("INLA")
• install.packages("INLA",repos=c(getOption("repos"),INLA="https://inla.r-inla-download.org/R/stable"), dep=TRUE)
• remotes::install_github("IIASA/ibis.iSDM")
• library(ibis.iSDM)
• ibis_dependencies()

[ggrittz]

Hello, sorry for the delay

I'll give it a try, thanks! I think I was using the test version of INLA because install.packages("INLA",repos=c(getOption("repos"),INLA="https://inla.r-inla-download.org/R/stable"), dep=TRUE)was returning non-zero status for me.

Now I'm testing devtools::install_github(repo = "https://github.com/hrue/r-inla", ref = "stable", subdir = "rinla", build = FALSE), so I hope it works properly.

Edit: yep...didn't work. I'll have to fix INLA first.

[Martin-Jung]

I assume it is dependency and local setup issue. Reopen if not.