* using log directory ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/AntMAN.Rcheck’
* using R Under development (unstable) (2024-04-29 r86495)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc-13 (Debian 13.2.0-23) 13.2.0
    GNU Fortran (Debian 13.2.0-23) 13.2.0
* running under: Debian GNU/Linux trixie/sid
* using session charset: UTF-8
* checking for file ‘AntMAN/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘AntMAN’ version ‘1.1.0’
* 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 serialization versions ... OK
* checking whether package ‘AntMAN’ can be installed ... OK
See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-debian-gcc/AntMAN-00install.html' for details.
* used C++ compiler: ‘g++-13 (Debian 13.2.0-23) 13.2.0’
* checking C++ specification ... NOTE
  Specified C++11: please drop specification unless essential
* 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 ... [1s/2s] OK
* checking whether the package can be loaded with stated dependencies ... [1s/2s] OK
* checking whether the package can be unloaded cleanly ... [1s/2s] OK
* checking whether the namespace can be loaded with stated dependencies ... [1s/2s] OK
* checking whether the namespace can be unloaded cleanly ... [1s/2s] OK
* checking loading without being on the library search path ... [1s/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/17s] OK
* checking Rd files ... [1s/1s] 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... [0s/1s] OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
* checking pragmas in C/C++ headers and code ... OK
* checking compilation flags used ... OK
* checking compiled code ... OK
* checking examples ... [11s/16s] OK
Examples with CPU (user + system) or elapsed time > 5s
                    user system elapsed
AM_find_gamma_Pois 5.216  0.044   7.894
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [275s/324s] OK
  Running ‘UnitTest_AM_binder.R’ [8s/9s]
  Running ‘UnitTest_AM_coclustering.R’ [4s/7s]
  Running ‘UnitTest_AM_demo.R’ [12s/13s]
  Running ‘UnitTest_AM_extract.R’ [17s/18s]
  Running ‘UnitTest_AM_mcmc.R’ [7s/10s]
  Running ‘UnitTest_AM_mix_components_prior.R’ [1s/2s]
  Running ‘UnitTest_AM_mix_hyperparams.R’ [2s/3s]
  Running ‘UnitTest_AM_mix_weights_prior.R’ [2s/3s]
  Running ‘UnitTest_AM_plot.R’ [54s/72s]
  Running ‘UnitTest_AM_prior.R’ [1s/3s]
  Running ‘UnitTest_AM_sample.R’ [1s/2s]
  Running ‘UnitTest_AntMANDatasets.R’ [1s/2s]
  Running ‘UnitTest_AntMANPackage.R’ [1s/3s]
  Running ‘UnitTest_INTERNAL_functions_antman_uninorm.R’ [1s/2s]
  Running ‘UnitTest_INTERNAL_utilities.R’ [1s/2s]
  Running ‘UseCaseCarcinoma.R’ [0s/1s]
  Running ‘UseCaseGalaxy.R’ [0s/1s]
  Running ‘UseCaseSegmentation.R’ [0s/1s]
  Running ‘UseCaseWordCount.R’ [5s/9s]
  Running ‘UserCaseIris.R’ [48s/45s]
  Running ‘template.R’ [1s/3s]
  Running ‘testBasicMultiBer.R’ [11s/14s]
  Running ‘testBasicMultiNorm.R’ [0s/1s]
  Running ‘testBasicUniNormNegBin.R’ [70s/68s]
  Running ‘testBasicUniNormPois.R’ [10s/12s]
  Running ‘testBasicUniPoisDirac.R’ [6s/10s]
  Running ‘testBasicUniPoisGamma.R’ [6s/9s]
* checking PDF version of manual ... [6s/13s] OK
* checking HTML version of manual ... [2s/5s] OK
* checking for non-standard things in the check directory ... OK
* DONE
Status: 1 NOTE