* using log directory 'd:/Rcompile/CRANpkg/local/4.5/SeroTrackR.Rcheck'
* using R version 4.5.3 (2026-03-11 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 14.3.0
    GNU Fortran (GCC) 14.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'SeroTrackR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'SeroTrackR' version '1.1.1'
* 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 hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'SeroTrackR' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' 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 code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... [5s] OK
* checking whether the package can be loaded with stated dependencies ... [4s] OK
* checking whether the package can be unloaded cleanly ... [4s] OK
* checking whether the namespace can be loaded with stated dependencies ... [5s] OK
* checking whether the namespace can be unloaded cleanly ... [5s] OK
* checking loading without being on the library search path ... [5s] 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 ... [17s] OK
* checking Rd files ... [1s] OK
* checking Rd metadata ... 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... [23s] OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [60s] ERROR
Error(s) in re-building vignettes:
--- re-building 'FAQs.Rmd' using rmarkdown
--- finished re-building 'FAQs.Rmd'

--- re-building 'Pk_Pv_Pf_Serology_Tutorial.Rmd' using rmarkdown

Quitting from Pk_Pv_Pf_Serology_Tutorial.Rmd:63-72 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `readRDS()`:
! cannot open the connection to 'https://raw.githubusercontent.com/dionnecargy/SeroTrackR/master/inst/extdata/PvSeroTaTmodel.rds'
---
Backtrace:
    ▆
 1. └─SeroTrackR::runPlasmoPipeline(...)
 2.   └─SeroTrackR::classifyResults(...)
 3.     └─base::readRDS(url("https://raw.githubusercontent.com/dionnecargy/SeroTrackR/master/inst/extdata/PvSeroTaTmodel.rds"))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'Pk_Pv_Pf_Serology_Tutorial.Rmd' failed with diagnostics:
cannot open the connection to 'https://raw.githubusercontent.com/dionnecargy/SeroTrackR/master/inst/extdata/PvSeroTaTmodel.rds'
--- failed re-building 'Pk_Pv_Pf_Serology_Tutorial.Rmd'

--- re-building 'PvLDH_Tutorial.Rmd' using rmarkdown
--- finished re-building 'PvLDH_Tutorial.Rmd'

--- re-building 'PvSeroApp_R_Tutorial.Rmd' using rmarkdown

Quitting from PvSeroApp_R_Tutorial.Rmd:75-86 [runPvSeroPipeline with classification]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `readRDS()`:
! cannot open the connection to 'https://raw.githubusercontent.com/dionnecargy/SeroTrackR/master/inst/extdata/PvSeroTaTmodel.rds'
---
Backtrace:
    ▆
 1. └─SeroTrackR::runPvSeroPipeline(...)
 2.   └─SeroTrackR::classifyResults(...)
 3.     └─base::readRDS(url("https://raw.githubusercontent.com/dionnecargy/SeroTrackR/master/inst/extdata/PvSeroTaTmodel.rds"))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'PvSeroApp_R_Tutorial.Rmd' failed with diagnostics:
cannot open the connection to 'https://raw.githubusercontent.com/dionnecargy/SeroTrackR/master/inst/extdata/PvSeroTaTmodel.rds'
--- failed re-building 'PvSeroApp_R_Tutorial.Rmd'

--- re-building 'setup.Rmd' using rmarkdown
[WARNING] Could not fetch resource ../man/figures/magpix_raw.jpeg
[WARNING] Could not fetch resource ../man/figures/bioplex_raw.jpeg
[WARNING] Could not fetch resource ../man/figures/plate_layout_1.jpeg
--- finished re-building 'setup.Rmd'

SUMMARY: processing the following files failed:
  'Pk_Pv_Pf_Serology_Tutorial.Rmd' 'PvSeroApp_R_Tutorial.Rmd'

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... [18s] OK
* checking HTML version of manual ... [11s] OK
* DONE
Status: 1 ERROR