Back to Multiple platform build/check report for BioC 3.8
ABCD[E]FGHIJKLMNOPQRSTUVWXYZ

CHECK report for ELBOW on tokay1

This page was generated on 2019-04-13 11:23:30 -0400 (Sat, 13 Apr 2019).

Package 464/1649HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ELBOW 1.18.1
Graham Alvare , Xiangli Zhang
Snapshot Date: 2019-04-12 17:01:30 -0400 (Fri, 12 Apr 2019)
URL: https://git.bioconductor.org/packages/ELBOW
Branch: RELEASE_3_8
Last Commit: 89932af
Last Changed Date: 2019-01-04 13:30:51 -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: ELBOW
Version: 1.18.1
Command: C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:ELBOW.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings ELBOW_1.18.1.tar.gz
StartedAt: 2019-04-13 02:01:28 -0400 (Sat, 13 Apr 2019)
EndedAt: 2019-04-13 02:03:13 -0400 (Sat, 13 Apr 2019)
EllapsedTime: 105.4 seconds
RetCode: 0
Status:  OK  
CheckDir: ELBOW.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:ELBOW.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings ELBOW_1.18.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.8-bioc/meat/ELBOW.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 'ELBOW/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ELBOW' version '1.18.1'
* 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 'ELBOW' 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 ... 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 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
Examples with CPU or elapsed time > 5s
                user system elapsed
do_elbow_rnaseq 5.41   0.31    5.84
** 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: OK


Installation output

ELBOW.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/ELBOW_1.18.1.tar.gz && rm -rf ELBOW.buildbin-libdir && mkdir ELBOW.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=ELBOW.buildbin-libdir ELBOW_1.18.1.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL ELBOW_1.18.1.zip && rm ELBOW_1.18.1.tar.gz ELBOW_1.18.1.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 1112k  100 1112k    0     0  23.8M      0 --:--:-- --:--:-- --:--:-- 25.8M

install for i386

* installing *source* package 'ELBOW' ...
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'ELBOW'
    finding HTML links ... done
    ELBOW-package                           html  
    EcoliMutMA                              html  
    EcoliWT                                 html  
    GSE20986_design                         html  
    GSE20986_eset_exprs                     html  
    analyze_elbow                           html  
    do_elbow                                html  
    do_elbow_rnaseq                         html  
    elbow_variance                          html  
    extract_working_sets                    html  
    get_elbow_limma                         html  
    get_pvalue                              html  
    null_variance                           html  
    plot_dataset                            html  
    plot_elbow                              html  
    replicates_to_fold                      html  
    yeast_nbinomTest_results                html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'ELBOW' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ELBOW' as ELBOW_1.18.1.zip
* DONE (ELBOW)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'ELBOW' successfully unpacked and MD5 sums checked
In R CMD INSTALL

Tests output


Example timings

ELBOW.Rcheck/examples_i386/ELBOW-Ex.timings

nameusersystemelapsed
ELBOW-package1.250.041.33
analyze_elbow1.050.021.06
do_elbow0.060.000.06
do_elbow_rnaseq5.410.315.84
elbow_variance0.410.000.41
extract_working_sets0.030.000.03
get_elbow_limma0.330.000.37
get_pvalue1.170.031.21
null_variance0.930.000.93
plot_dataset0.610.050.66
plot_elbow0.920.020.93
replicates_to_fold0.060.000.07

ELBOW.Rcheck/examples_x64/ELBOW-Ex.timings

nameusersystemelapsed
ELBOW-package0.730.020.75
analyze_elbow0.720.000.72
do_elbow0.070.000.06
do_elbow_rnaseq3.930.404.34
elbow_variance0.630.020.64
extract_working_sets0.030.000.03
get_elbow_limma0.220.000.22
get_pvalue0.640.050.69
null_variance0.510.000.52
plot_dataset0.50.00.5
plot_elbow0.690.000.68
replicates_to_fold0.050.000.05