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CHECK report for sscu on tokay1

This page was generated on 2018-04-12 13:27:49 -0400 (Thu, 12 Apr 2018).

Package 1348/1472HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
sscu 2.8.0
Yu Sun
Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018)
URL: https://git.bioconductor.org/packages/sscu
Branch: RELEASE_3_6
Last Commit: 938eee6
Last Changed Date: 2017-10-30 12:41:15 -0400 (Mon, 30 Oct 2017)
malbec1 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK  WARNINGS UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  NotNeeded  OK [ WARNINGS ] OK UNNEEDED, same version exists in internal repository
veracruz1 OS X 10.11.6 El Capitan / x86_64  NotNeeded  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: sscu
Version: 2.8.0
Command: rm -rf sscu.buildbin-libdir sscu.Rcheck && mkdir sscu.buildbin-libdir sscu.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=sscu.buildbin-libdir sscu_2.8.0.tar.gz >sscu.Rcheck\00install.out 2>&1 && cp sscu.Rcheck\00install.out sscu-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=sscu.buildbin-libdir --install="check:sscu-install.out" --force-multiarch --no-vignettes --timings sscu_2.8.0.tar.gz
StartedAt: 2018-04-12 03:24:16 -0400 (Thu, 12 Apr 2018)
EndedAt: 2018-04-12 03:26:51 -0400 (Thu, 12 Apr 2018)
EllapsedTime: 155.4 seconds
RetCode: 0
Status:  WARNINGS  
CheckDir: sscu.Rcheck
Warnings: 1

Command output

##############################################################################
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###
### Running command:
###
###   rm -rf sscu.buildbin-libdir sscu.Rcheck && mkdir sscu.buildbin-libdir sscu.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=sscu.buildbin-libdir sscu_2.8.0.tar.gz >sscu.Rcheck\00install.out 2>&1 && cp sscu.Rcheck\00install.out sscu-install.out  &&  C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=sscu.buildbin-libdir --install="check:sscu-install.out" --force-multiarch --no-vignettes --timings sscu_2.8.0.tar.gz
###
##############################################################################
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* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/sscu.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 'sscu/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'sscu' version '2.8.0'
* 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 'sscu' can be installed ... OK
* checking installed package size ... OK
* checking package 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
* 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 ... 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' ... WARNING
Files in the 'vignettes' directory but no files in 'inst/doc':
  'sscu.Rmd'
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
op_corre_NCprime 10.47   0.03   10.50
op_corre_CodonW   9.03   0.03    9.06
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
op_corre_NCprime 14.09   0.02   14.11
op_corre_CodonW  11.77   0.01   11.79
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING
See
  'C:/Users/biocbuild/bbs-3.6-bioc/meat/sscu.Rcheck/00check.log'
for details.



Installation output

sscu.Rcheck/00install.out


install for i386

* installing *source* package 'sscu' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'sscu'
    finding HTML links ... done
    akashi_test                             html  
    genomic_gc3                             html  
    finding level-2 HTML links ... done

    low_frequency_op                        html  
    op_corre_CodonW                         html  
    op_corre_NCprime                        html  
    op_highly                               html  
    op_highly_stats                         html  
    s_index                                 html  
    sscu-package                            html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'sscu' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'sscu' as sscu_2.8.0.zip
* DONE (sscu)
In R CMD INSTALL
In R CMD INSTALL

Tests output


Example timings

sscu.Rcheck/examples_i386/sscu-Ex.timings

nameusersystemelapsed
akashi_test0.000.020.01
genomic_gc30.470.030.50
low_frequency_op0.920.020.94
op_corre_CodonW9.030.039.06
op_corre_NCprime10.47 0.0310.50
op_highly0.880.000.88
op_highly_stats1.030.021.04
s_index0.390.010.41

sscu.Rcheck/examples_x64/sscu-Ex.timings

nameusersystemelapsed
akashi_test0.030.000.03
genomic_gc30.560.000.56
low_frequency_op1.190.001.18
op_corre_CodonW11.77 0.0111.79
op_corre_NCprime14.09 0.0214.11
op_highly1.240.001.23
op_highly_stats101
s_index0.50.00.5