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### Running command:
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###   F:\biocbuild\bbs-3.18-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:clusterSeq.install-out.txt --library=F:\biocbuild\bbs-3.18-bioc\R\library --no-vignettes --timings clusterSeq_1.26.0.tar.gz
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* using log directory 'F:/biocbuild/bbs-3.18-bioc/meat/clusterSeq.Rcheck'
* using R version 4.3.3 (2024-02-29 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* R was compiled by
    gcc.exe (GCC) 12.3.0
    GNU Fortran (GCC) 12.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'clusterSeq/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'clusterSeq' version '1.26.0'
* 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 'clusterSeq' can be installed ... WARNING
Found the following significant warnings:
  Warning: Package 'baySeq' is deprecated and will be removed from Bioconductor
See 'F:/biocbuild/bbs-3.18-bioc/meat/clusterSeq.Rcheck/00install.out' for details.
* 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 R 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 ... NOTE
checkRd: (-1) wallace.Rd:9: Escaped LaTeX specials: \&
* 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking sizes of PDF files under 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                    user system elapsed
makeClustersFF      5.81   0.20   54.36
kCluster            2.58   0.23  101.64
wallace             2.17   0.12   44.11
clusterSeq-package  2.08   0.11   76.04
makeClusters        1.27   0.21   65.35
associatePosteriors 1.20   0.00   10.00
plotCluster         0.81   0.04   11.11
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 1 NOTE
See
  'F:/biocbuild/bbs-3.18-bioc/meat/clusterSeq.Rcheck/00check.log'
for details.

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###
### Running command:
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###   F:\biocbuild\bbs-3.18-bioc\R\bin\R.exe CMD INSTALL clusterSeq
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* installing to library 'F:/biocbuild/bbs-3.18-bioc/R/library'
* installing *source* package 'clusterSeq' ...
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
Warning message:
Package 'baySeq' is deprecated and will be removed from Bioconductor
  version 3.19 
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: Package 'baySeq' is deprecated and will be removed from Bioconductor
  version 3.19
** testing if installed package can be loaded from final location
Warning: Package 'baySeq' is deprecated and will be removed from Bioconductor
  version 3.19
** testing if installed package keeps a record of temporary installation path
* DONE (clusterSeq)