Package: PSEA

Version: 1.12.0

Command: rm -rf PSEA.buildbin-libdir PSEA.Rcheck && mkdir PSEA.buildbin-libdir PSEA.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=PSEA.buildbin-libdir PSEA_1.12.0.tar.gz >PSEA.Rcheck\00install.out 2>&1 && cp PSEA.Rcheck\00install.out PSEA-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=PSEA.buildbin-libdir --install="check:PSEA-install.out" --force-multiarch --no-vignettes --timings PSEA_1.12.0.tar.gz

StartedAt: 2018-04-12 02:18:45 -0400 (Thu, 12 Apr 2018)

EndedAt: 2018-04-12 02:19:34 -0400 (Thu, 12 Apr 2018)

EllapsedTime: 48.8 seconds

RetCode: 0

Status:  OK

CheckDir: PSEA.Rcheck

Warnings: 0

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### Running command:
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###   rm -rf PSEA.buildbin-libdir PSEA.Rcheck && mkdir PSEA.buildbin-libdir PSEA.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=PSEA.buildbin-libdir PSEA_1.12.0.tar.gz >PSEA.Rcheck\00install.out 2>&1 && cp PSEA.Rcheck\00install.out PSEA-install.out  &&  C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=PSEA.buildbin-libdir --install="check:PSEA-install.out" --force-multiarch --no-vignettes --timings PSEA_1.12.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/PSEA.Rcheck'
* using R version 3.4.4 (2018-03-15)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'PSEA/DESCRIPTION' ... OK
* this is package 'PSEA' version '1.12.0'
* 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 'PSEA' can be installed ... OK
* checking installed package size ... NOTE
  installed size is  6.4Mb
  sub-directories of 1Mb or more:
    data   5.7Mb
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Title field: should not end in a period.
* 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 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 ... NOTE
crplot: no visible global function definition for 'residuals'
crplot: no visible global function definition for 'dev.new'
crplot: no visible global function definition for 'plot'
crplot: no visible global function definition for 'abline'
crplot: no visible global function definition for 'points'
lmfitst : <anonymous>: no visible global function definition for
  'lm.fit'
swlm: no visible global function definition for 'formula'
swlm: no visible global function definition for 'lm'
Undefined global functions or variables:
  abline dev.new formula lm lm.fit plot points residuals
Consider adding
  importFrom("grDevices", "dev.new")
  importFrom("graphics", "abline", "plot", "points")
  importFrom("stats", "formula", "lm", "lm.fit", "residuals")
to your NAMESPACE file.
* 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in vignettes ... NOTE
'library' or 'require' calls not declared from:
  'GEOquery' 'affy'
* 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: 4 NOTEs
See
  'C:/Users/biocbuild/bbs-3.6-bioc/meat/PSEA.Rcheck/00check.log'
for details.

install for i386

* installing *source* package 'PSEA' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'PSEA'
    finding HTML links ... done
    coefmat                                 html  
    crplot                                  html  
    em_quantvg                              html  
    expression                              html  
    expression_GSE19380                     html  
    fmm                                     html  
    groups                                  html  
    information                             html  
    lmfitst                                 html  
    marker                                  html  
    pvalmat                                 html  
    slt                                     html  
    swlm                                    html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'PSEA' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'PSEA' as PSEA_1.12.0.zip
* DONE (PSEA)
In R CMD INSTALL
In R CMD INSTALL