* using log directory ‘/data/gannet/ripley/R/packages/tests-Intel/fastglmpca.Rcheck’ * using R Under development (unstable) (2024-06-24 r86824) * using platform: x86_64-pc-linux-gnu * R was compiled by Intel(R) oneAPI DPC++/C++ Compiler 2024.2.0 (2024.2.0.20240602) ifx (IFX) 2024.2.0 20240602 * running under: Fedora Linux 36 (Workstation Edition) * using session charset: UTF-8 * using option ‘--no-stop-on-test-error’ * checking for file ‘fastglmpca/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘fastglmpca’ version ‘0.1-103’ * 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 ‘fastglmpca’ can be installed ... [2m/13m] WARNING Found the following significant warnings: /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_tempbuf.h:263:8: warning: 'get_temporary_buffer>' is deprecated [-Wdeprecated-declarations] See ‘/data/gannet/ripley/R/packages/tests-Intel/fastglmpca.Rcheck/00install.out’ for details. * used C++ compiler: ‘Intel(R) oneAPI DPC++/C++ Compiler 2024.2.0 (2024.2.0.20240602)’ * 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 ... [6s/36s] OK * checking whether the package can be loaded with stated dependencies ... [6s/34s] OK * checking whether the package can be unloaded cleanly ... [6s/39s] OK * checking whether the namespace can be loaded with stated dependencies ... [7s/37s] OK * checking whether the namespace can be unloaded cleanly ... [6s/47s] OK * checking loading without being on the library search path ... [7s/27s] 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 ... [33s/229s] 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... [7s/43s] 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 ... NOTE GNU make is a SystemRequirements. * checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK * checking use of PKG_*FLAGS in Makefiles ... OK * checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK * checking pragmas in C/C++ headers and code ... OK * checking compilation flags used ... OK * checking compiled code ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... [30s/88s] ERROR Running examples in ‘fastglmpca-Ex.R’ failed The error most likely occurred in: > ### Name: pbmc_facs > ### Title: Mixture of 10 FACS-purified PBMC Single-Cell RNA-seq data > ### Aliases: pbmc_facs > ### Keywords: data > > ### ** Examples > > library(Matrix) > data(pbmc_facs) > cat(sprintf("Number of genes: %d\n",nrow(pbmc_facs$counts))) Number of genes: 16791 > cat(sprintf("Number of cells: %d\n",ncol(pbmc_facs$counts))) Number of cells: 3774 > cat(sprintf("Proportion of counts that are non-zero: %0.1f%%.\n", + 100*mean(pbmc_facs$counts > 0))) Proportion of counts that are non-zero: 4.3%. > > > > > ### *