* using log directory ‘/srv/hornik/tmp/CRAN/serocalculator.Rcheck’
* using R Under development (unstable) (2024-03-12 r86099)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 17.0.6 (5)
    Debian flang-new version 17.0.6 (5)
* running under: Debian GNU/Linux trixie/sid
* using session charset: UTF-8
* checking for file ‘serocalculator/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘serocalculator’ version ‘1.0.0’
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [4s/4s] NOTE
Maintainer: ‘Kristina Lai <kwlai@ucdavis.edu>’

New submission

Possibly misspelled words in DESCRIPTION:
  Serological (3:40)
  seroconversions (11:54)
  seroincidence (12:60)

Package has a VignetteBuilder field but no prebuilt vignette index.

Found the following (possibly) invalid URLs:
  URL: http://www.rstudio.com/products/RStudio/ (moved to https://posit.co/products/open-source/rstudio/)
    From: README.md
    Status: 301
    Message: Moved Permanently
  For content that is 'Moved Permanently', please change http to https,
  add trailing slashes, or replace the old by the new URL.
* 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 ‘serocalculator’ can be installed ... [7s/7s] OK
* used C compiler: ‘Debian clang version 17.0.6 (5)’
* 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 R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... [2s/2s] OK
* checking whether the package can be loaded with stated dependencies ... [2s/2s] OK
* checking whether the package can be unloaded cleanly ... [2s/2s] OK
* checking whether the namespace can be loaded with stated dependencies ... [2s/2s] OK
* checking whether the namespace can be unloaded cleanly ... [2s/2s] OK
* checking loading without being on the library search path ... [2s/2s] 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 ... [10s/10s] 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 ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking R/sysdata.rda ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking pragmas in C/C++ headers and code ... OK
* checking compilation flags used ... OK
* checking compiled code ... OK
* checking examples ... [257s/335s] NOTE
Examples with CPU (user + system) or elapsed time > 5s
                                    user system elapsed
autoplot.seroincidence.by         56.251  0.148  63.060
autoplot.seroincidence            55.540  0.112  61.368
graph.loglik                      30.399  0.041  35.849
est.incidence.by                  18.371  0.116  27.305
autoplot.summary.seroincidence.by 18.383  0.064  24.269
summary.seroincidence.by          18.322  0.064  24.040
summary.seroincidence             17.701  0.040  23.561
est.incidence                     17.701  0.032  24.685
autoplot.curve_params             10.349  0.180  12.772
llik                               2.322  0.051   6.807
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [2s/2s] OK
  Running ‘testthat.R’ [2s/2s]
* checking PDF version of manual ... [3s/3s] OK
* checking HTML version of manual ... [1s/1s] OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE
Status: 2 NOTEs