Back to Multiple platform build/check report for BioC 3.8
ABCDEFGH[I]JKLMNOPQRSTUVWXYZ

CHECK report for iASeq on tokay1

This page was generated on 2019-04-13 11:22:09 -0400 (Sat, 13 Apr 2019).

Package 743/1649HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
iASeq 1.26.1
Yingying Wei
Snapshot Date: 2019-04-12 17:01:30 -0400 (Fri, 12 Apr 2019)
URL: https://git.bioconductor.org/packages/iASeq
Branch: RELEASE_3_8
Last Commit: 564a4e0
Last Changed Date: 2019-01-04 13:35:43 -0400 (Fri, 04 Jan 2019)
malbec1 Linux (Ubuntu 16.04.6 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  OK  OK [ OK ] OK UNNEEDED, same version exists in internal repository
merida1 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: iASeq
Version: 1.26.1
Command: C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:iASeq.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings iASeq_1.26.1.tar.gz
StartedAt: 2019-04-13 03:06:04 -0400 (Sat, 13 Apr 2019)
EndedAt: 2019-04-13 03:07:33 -0400 (Sat, 13 Apr 2019)
EllapsedTime: 89.1 seconds
RetCode: 0
Status:  OK  
CheckDir: iASeq.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:iASeq.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings iASeq_1.26.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.8-bioc/meat/iASeq.Rcheck'
* using R version 3.5.3 (2019-03-11)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'iASeq/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'iASeq' version '1.26.1'
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
  cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
 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 'iASeq' can be installed ... OK
* 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
* 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
* 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 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
ASErawfit: no visible global function definition for 'var'
fdown.loglike: no visible global function definition for 'pbeta'
fup.loglike: no visible global function definition for 'pbeta'
iASeqmotiffit: no visible global function definition for 'runif'
iASeqmotiffit: no visible global function definition for 'var'
plotBIC: no visible global function definition for 'lines'
plotMotif: no visible global function definition for 'image'
singleEMfit: no visible global function definition for 'var'
Undefined global functions or variables:
  image lines pbeta runif var
Consider adding
  importFrom("graphics", "image", "lines")
  importFrom("stats", "pbeta", "runif", "var")
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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* 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 NOTE
See
  'C:/Users/biocbuild/bbs-3.8-bioc/meat/iASeq.Rcheck/00check.log'
for details.



Installation output

iASeq.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/iASeq_1.26.1.tar.gz && rm -rf iASeq.buildbin-libdir && mkdir iASeq.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=iASeq.buildbin-libdir iASeq_1.26.1.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL iASeq_1.26.1.zip && rm iASeq_1.26.1.tar.gz iASeq_1.26.1.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 34473  100 34473    0     0   765k      0 --:--:-- --:--:-- --:--:--  841k

install for i386

* installing *source* package 'iASeq' ...
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'iASeq'
    finding HTML links ... done
    ASErawfit                               html  
    iASeq-internal                          html  
    iASeq-package                           html  
    iASeqmotif                              html  
    plotBIC                                 html  
    plotMotif                               html  
    sampleASE                               html  
    singleEMfit                             html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'iASeq' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'iASeq' as iASeq_1.26.1.zip
* DONE (iASeq)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'iASeq' successfully unpacked and MD5 sums checked
In R CMD INSTALL

Tests output


Example timings

iASeq.Rcheck/examples_i386/iASeq-Ex.timings

nameusersystemelapsed
ASErawfit0.020.010.03
iASeqmotif0.640.050.69
plotBIC0.690.000.68
plotMotif0.730.010.75
sampleASE0.750.000.75
singleEMfit0.290.020.30

iASeq.Rcheck/examples_x64/iASeq-Ex.timings

nameusersystemelapsed
ASErawfit0.050.000.05
iASeqmotif0.530.020.55
plotBIC0.550.000.54
plotMotif0.590.000.60
sampleASE0.580.000.58
singleEMfit0.20.00.2