* using log directory ‘/data/localhost/ripley/R/packages/tests-donttest/OpEnCAMeO.Rcheck’
* using R Under development (unstable) (2026-08-22 r90441)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2)
    GNU Fortran (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2)
* running under: Fedora Linux 44 (Server Edition)
* using session charset: UTF-8
* current time: 2026-08-22 22:48:27 UTC
* checking for file ‘OpEnCAMeO/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘OpEnCAMeO’ version ‘0.1.1’
* 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 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 ‘OpEnCAMeO’ can be installed ... [11s/12s] OK
* 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 code 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 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 ... [16s/19s] 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 examples ... OK
* checking examples with --run-donttest ... [12s/15s] ERROR
Running examples in ‘OpEnCAMeO-Ex.R’ failed
The error most likely occurred in:

> ### Name: Bacteria_MethPred
> ### Title: DNA Methylation Prediction in Bacteria
> ### Aliases: Bacteria_MethPred
> 
> ### ** Examples
> 
> ## No test: 
> library(OpEnCAMeO)
> data<-system.file("exdata/test.fasta", package = "OpEnCAMeO")
> pred<-Bacteria_MethPred(fasta_file_path=data, Reference="E.Coli")
Warning in readLines(file) :
  incomplete final line found on '/data/localhost/ripley/R/packages/tests-donttest/OpEnCAMeO.Rcheck/OpEnCAMeO/exdata/test.fasta'
Warning in readLines(filename) :
  incomplete final line found on '/data/localhost/ripley/R/packages/tests-donttest/OpEnCAMeO.Rcheck/OpEnCAMeO/exdata/test.fasta'
Warning in readLines(file) :
  incomplete final line found on '/data/localhost/ripley/R/packages/tests-donttest/OpEnCAMeO.Rcheck/OpEnCAMeO/exdata/test.fasta'
Warning in readLines(filename) :
  incomplete final line found on '/data/localhost/ripley/R/packages/tests-donttest/OpEnCAMeO.Rcheck/OpEnCAMeO/exdata/test.fasta'
Error in xgb.get.handle(object) : 
  'xgb.Booster' object is corrupted or is from an incompatible XGBoost version.
Calls: Bacteria_MethPred ... predict.xgb.Booster -> xgb.best_iteration -> xgb.attr -> xgb.get.handle
Execution halted
* checking PDF version of manual ... OK
* checking HTML 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
See
  ‘/data/localhost/ripley/R/packages/tests-donttest/OpEnCAMeO.Rcheck/00check.log’
for details.

Command exited with non-zero status 1
Time 2:05.74, 96.26 + 13.32