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BioC 3.5: CHECK report for sscu on tokay2

This page was generated on 2017-10-18 14:25:51 -0400 (Wed, 18 Oct 2017).

Package 1269/1381HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
sscu 2.6.0
Yu Sun
Snapshot Date: 2017-10-17 17:00:52 -0400 (Tue, 17 Oct 2017)
URL: https://git.bioconductor.org/packages/sscu
Branch: RELEASE_3_5
Last Commit: ff9868f
Last Changed Date: 2017-04-24 15:45:44 -0400 (Mon, 24 Apr 2017)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK  WARNINGS UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  NotNeeded  OK [ WARNINGS ] OK UNNEEDED, same version exists in internal repository
veracruz2 OS X 10.11.6 El Capitan / x86_64  NotNeeded  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: sscu
Version: 2.6.0
Command: rm -rf sscu.buildbin-libdir sscu.Rcheck && mkdir sscu.buildbin-libdir sscu.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=sscu.buildbin-libdir sscu_2.6.0.tar.gz >sscu.Rcheck\00install.out 2>&1 && cp sscu.Rcheck\00install.out sscu-install.out && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=sscu.buildbin-libdir --install="check:sscu-install.out" --force-multiarch --no-vignettes --timings sscu_2.6.0.tar.gz
StartedAt: 2017-10-18 03:14:00 -0400 (Wed, 18 Oct 2017)
EndedAt: 2017-10-18 03:16:41 -0400 (Wed, 18 Oct 2017)
EllapsedTime: 161.0 seconds
RetCode: 0
Status:  WARNINGS  
CheckDir: sscu.Rcheck
Warnings: 1

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf sscu.buildbin-libdir sscu.Rcheck && mkdir sscu.buildbin-libdir sscu.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=sscu.buildbin-libdir sscu_2.6.0.tar.gz >sscu.Rcheck\00install.out 2>&1 && cp sscu.Rcheck\00install.out sscu-install.out  &&  C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=sscu.buildbin-libdir --install="check:sscu-install.out" --force-multiarch --no-vignettes --timings sscu_2.6.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.5-bioc/meat/sscu.Rcheck'
* using R version 3.4.2 Patched (2017-10-07 r73498)
* 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 '2.6.0'
* 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 10.53   0.03   10.56
op_corre_CodonW   9.46   0.05    9.50
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
op_corre_NCprime 13.79      0   13.80
op_corre_CodonW  11.25      0   11.25
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING
See
  'C:/Users/biocbuild/bbs-3.5-bioc/meat/sscu.Rcheck/00check.log'
for details.


sscu.Rcheck/00install.out:


install for i386

* installing *source* package 'sscu' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'sscu' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'sscu' as sscu_2.6.0.zip
* DONE (sscu)

sscu.Rcheck/examples_i386/sscu-Ex.timings:

nameusersystemelapsed
akashi_test0.020.000.02
genomic_gc30.560.000.56
low_frequency_op1.190.031.22
op_corre_CodonW9.460.059.50
op_corre_NCprime10.53 0.0310.56
op_highly0.860.000.86
op_highly_stats0.890.000.89
s_index0.360.020.37

sscu.Rcheck/examples_x64/sscu-Ex.timings:

nameusersystemelapsed
akashi_test000
genomic_gc30.480.000.48
low_frequency_op1.000.061.06
op_corre_CodonW11.25 0.0011.25
op_corre_NCprime13.79 0.0013.80
op_highly0.970.000.96
op_highly_stats1.020.001.02
s_index0.720.000.72