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BioC 3.4: CHECK report for clusterProfiler on tokay1

This page was generated on 2017-04-15 16:16:34 -0400 (Sat, 15 Apr 2017).

Package 221/1296HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
clusterProfiler 3.2.14
Guangchuang Yu
Snapshot Date: 2017-04-14 17:17:13 -0400 (Fri, 14 Apr 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_4/madman/Rpacks/clusterProfiler
Last Changed Rev: 127237 / Revision: 128728
Last Changed Date: 2017-03-08 03:21:09 -0500 (Wed, 08 Mar 2017)
malbec1 Linux (Ubuntu 16.04.1 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
morelia Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: clusterProfiler
Version: 3.2.14
Command: rm -rf clusterProfiler.buildbin-libdir clusterProfiler.Rcheck && mkdir clusterProfiler.buildbin-libdir clusterProfiler.Rcheck && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=clusterProfiler.buildbin-libdir clusterProfiler_3.2.14.tar.gz >clusterProfiler.Rcheck\00install.out 2>&1 && cp clusterProfiler.Rcheck\00install.out clusterProfiler-install.out && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD check --library=clusterProfiler.buildbin-libdir --install="check:clusterProfiler-install.out" --force-multiarch --no-vignettes --timings clusterProfiler_3.2.14.tar.gz
StartedAt: 2017-04-14 21:34:06 -0400 (Fri, 14 Apr 2017)
EndedAt: 2017-04-14 21:38:29 -0400 (Fri, 14 Apr 2017)
EllapsedTime: 262.9 seconds
RetCode: 0
Status:  OK  
CheckDir: clusterProfiler.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf clusterProfiler.buildbin-libdir clusterProfiler.Rcheck && mkdir clusterProfiler.buildbin-libdir clusterProfiler.Rcheck && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=clusterProfiler.buildbin-libdir clusterProfiler_3.2.14.tar.gz >clusterProfiler.Rcheck\00install.out 2>&1 && cp clusterProfiler.Rcheck\00install.out clusterProfiler-install.out  && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD check --library=clusterProfiler.buildbin-libdir --install="check:clusterProfiler-install.out" --force-multiarch --no-vignettes --timings clusterProfiler_3.2.14.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.4-bioc/meat/clusterProfiler.Rcheck'
* using R version 3.3.3 (2017-03-06)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'clusterProfiler/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'clusterProfiler' version '3.2.14'
* 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 'clusterProfiler' 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
            user system elapsed
groupGO    47.08   3.26   50.35
enrichKEGG  2.64   0.72    5.34
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
         user system elapsed
groupGO 42.98    2.7   45.68
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'testthat.R'
 OK
** running tests for arch 'x64' ...
  Running 'testthat.R'
 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

clusterProfiler.Rcheck/00install.out:


install for i386

* installing *source* package 'clusterProfiler' ...
** R
** data
** inst
** byte-compile and prepare 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 'clusterProfiler' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'clusterProfiler' as clusterProfiler_3.2.14.zip
* DONE (clusterProfiler)

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

nameusersystemelapsed
compareCluster000
enrichGO000
enrichKEGG2.640.725.34
groupGO47.08 3.2650.35

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

nameusersystemelapsed
compareCluster0.020.000.01
enrichGO000
enrichKEGG1.890.444.88
groupGO42.98 2.7045.68