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### Running command:
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###   F:\biocbuild\bbs-3.22-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:CoSIA.install-out.txt --library=F:\biocbuild\bbs-3.22-bioc\R\library --no-vignettes --timings CoSIA_1.9.0.tar.gz
###
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* using log directory 'F:/biocbuild/bbs-3.22-bioc/meat/CoSIA.Rcheck'
* using R version 4.5.1 (2025-06-13 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'CoSIA/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'CoSIA' version '1.9.0'
* 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 hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'CoSIA' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
License stub is invalid DCF.
* 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 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 ... OK
* checking Rd files ... 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 files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                               user system elapsed
plotCVGEx-CoSIAn-method      384.23  37.30  561.84
plotCVGEx                    341.48  27.28  368.39
getTissues                   114.41   5.42  129.24
plotSpeciesGEx               108.69   4.08  112.91
plotSpeciesGEx-CoSIAn-method 104.81   3.79  108.95
plotDSGEx                    101.00   4.00  105.15
plotTissueGEx                101.67   2.75  104.83
plotTissueGEx-CoSIAn-method   91.53   2.38   97.75
plotDSGEx-CoSIAn-method       82.34   3.99   99.48
getGEx-CoSIAn-method          26.85   4.01   99.25
getGExMetrics-CoSIAn-method   22.36   0.98   23.48
getGEx                        21.17   0.69   22.08
getGExMetrics                 19.14   0.83   20.25
getConversion-CoSIAn-method    5.87   0.24    6.24
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  'F:/biocbuild/bbs-3.22-bioc/meat/CoSIA.Rcheck/00check.log'
for details.

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### Running command:
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###   F:\biocbuild\bbs-3.22-bioc\R\bin\R.exe CMD INSTALL CoSIA
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* installing to library 'F:/biocbuild/bbs-3.22-bioc/R/library'
* installing *source* package 'CoSIA' ...
** this is package 'CoSIA' version '1.9.0'
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (CoSIA)