* using log directory ‘/srv/hornik/tmp/CRAN_pretest/RStanTVA.Rcheck’
* using R Under development (unstable) (2025-04-24 r88177)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 19.1.7 (3)
    Debian flang-new version 19.1.7 (3)
* running under: Debian GNU/Linux trixie/sid
* using session charset: UTF-8
* checking for file ‘RStanTVA/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RStanTVA’ version ‘0.3.0’
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [5s/7s] NOTE
Maintainer: ‘Maximilian M. Rabe <maximilian.rabe@uni-potsdam.de>’

Days since last update: 2

Suggests or Enhances not in mainstream repositories:
  cmdstanr
Availability using Additional_repositories specification:
  cmdstanr   yes   https://stan-dev.r-universe.dev
* checking package namespace information ... OK
* checking package dependencies ... INFO
Package suggested but not available for checking: ‘cmdstanr’
* 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 ‘RStanTVA’ can be installed ... [17s/17s] OK
* checking package directory ... OK
* checking for future file timestamps ... 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 code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... [4s/3s] OK
* checking whether the package can be loaded with stated dependencies ... [3s/3s] OK
* checking whether the package can be unloaded cleanly ... [3s/3s] OK
* checking whether the namespace can be loaded with stated dependencies ... [3s/3s] OK
* checking whether the namespace can be unloaded cleanly ... [4s/3s] OK
* checking loading without being on the library search path ... [4s/4s] OK
* checking use of S3 registration ... OK
* checking 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 ... [18s/16s] OK
* checking Rd files ... [0s/0s] 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 ... WARNING
Codoc mismatches from Rd file 'stantva_code.Rd':
stantva_code
  Code: function(formula = NULL, locations, task = c("wr", "pr"),
                 regions = list(), C_mode = c("equal", "locations",
                 "regions"), w_mode = c("locations", "regions",
                 "equal"), t0_mode = c("constant", "gaussian",
                 "exponential", "shifted_exponential"), K_mode =
                 c("bernoulli", "free", "binomial", "betabinomial",
                 "hypergeometric", "probit"), max_K = locations,
                 parallel = isTRUE(rstan_options("threads_per_chain") >
                 1L), save_log_lik = FALSE, priors = NULL,
                 sanity_checks = TRUE, debug_neginf_loglik = FALSE)
  Docs: function(formula = NULL, locations, task = c("wr", "pr"),
                 regions = list(), C_mode = c("equal", "locations",
                 "regions"), w_mode = c("locations", "regions",
                 "equal"), t0_mode = c("constant", "gaussian",
                 "exponential", "shifted_exponential"), K_mode =
                 c("bernoulli", "free", "binomial", "betabinomial"),
                 max_K = locations, allow_guessing = FALSE, parallel =
                 isTRUE(rstan_options("threads_per_chain") > 1L),
                 save_log_lik = FALSE, priors = NULL, sanity_checks =
                 TRUE, debug_neginf_loglik = FALSE)
  Argument names in docs not in code:
    allow_guessing
  Mismatches in argument names (first 3):
    Position: 10 Code: parallel Docs: allow_guessing
    Position: 11 Code: save_log_lik Docs: parallel
    Position: 12 Code: priors Docs: save_log_lik
  Mismatches in argument default values:
    Name: 'K_mode'
    Code: c("bernoulli", "free", "binomial", "betabinomial", "hypergeometric", 
          "probit")
    Docs: c("bernoulli", "free", "binomial", "betabinomial")

* 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 ... [0s/0s] OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... [9s/9s] OK
* checking PDF version of manual ... [3s/3s] OK
* checking HTML version of manual ... [0s/0s] OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE
Status: 1 WARNING, 1 NOTE