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BioC 3.1: CHECK report for DNaseR on moscato2

This page was generated on 2015-03-01 09:01:10 -0800 (Sun, 01 Mar 2015).

Package 259/973HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
DNaseR 1.5.0
Pedro Madrigal
Snapshot Date: 2015-02-28 17:20:31 -0800 (Sat, 28 Feb 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/DNaseR
Last Changed Rev: 95443 / Revision: 100008
Last Changed Date: 2014-10-13 14:47:41 -0700 (Mon, 13 Oct 2014)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ OK ] OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK  OK 
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK 

Summary

Package: DNaseR
Version: 1.5.0
Command: rm -rf DNaseR.buildbin-libdir DNaseR.Rcheck && mkdir DNaseR.buildbin-libdir DNaseR.Rcheck && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=DNaseR.buildbin-libdir DNaseR_1.5.0.tar.gz >DNaseR.Rcheck\00install.out 2>&1 && cp DNaseR.Rcheck\00install.out DNaseR-install.out && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD check --library=DNaseR.buildbin-libdir --install="check:DNaseR-install.out" --force-multiarch --no-vignettes --timings DNaseR_1.5.0.tar.gz
StartedAt: 2015-03-01 01:23:33 -0800 (Sun, 01 Mar 2015)
EndedAt: 2015-03-01 01:27:15 -0800 (Sun, 01 Mar 2015)
EllapsedTime: 222.3 seconds
RetCode: 0
Status:  OK  
CheckDir: DNaseR.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf DNaseR.buildbin-libdir DNaseR.Rcheck && mkdir DNaseR.buildbin-libdir DNaseR.Rcheck && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=DNaseR.buildbin-libdir DNaseR_1.5.0.tar.gz >DNaseR.Rcheck\00install.out 2>&1 && cp DNaseR.Rcheck\00install.out DNaseR-install.out  && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD check --library=DNaseR.buildbin-libdir --install="check:DNaseR-install.out" --force-multiarch --no-vignettes --timings DNaseR_1.5.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbld/bbs-3.1-bioc/meat/DNaseR.Rcheck'
* using R Under development (unstable) (2015-02-23 r67879)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'DNaseR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'DNaseR' version '1.5.0'
* 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 'DNaseR' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
License components with restrictions not permitted:
  GPL-2 + file LICENSE
Package listed in more than one of Depends, Imports, Suggests, Enhances:
  'BiocGenerics'
A package should be listed in only one of these fields.
* 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [22s] OK
Examples with CPU or elapsed time > 5s
               user system elapsed
DNaseR-package 9.77   0.34   10.10
footprints     7.92   0.31    8.24
** running examples for arch 'x64' ... [31s] OK
Examples with CPU or elapsed time > 5s
                user system elapsed
DNaseR-package 14.32   0.47   14.79
footprints     10.81   0.29   11.10
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'runTests.R' [15s]
 [15s] OK
** running tests for arch 'x64' ...
  Running 'runTests.R' [19s]
 [19s] OK
* checking for unstated dependencies in vignettes ... NOTE
'::' or ':::' import not declared from: 'BiocStyle'
* 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: 2 NOTEs
See
  'E:/biocbld/bbs-3.1-bioc/meat/DNaseR.Rcheck/00check.log'
for details.

DNaseR.Rcheck/00install.out:


install for i386

* installing *source* package 'DNaseR' ...
** 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 'DNaseR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'DNaseR' as DNaseR_1.5.0.zip
* DONE (DNaseR)

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

nameusersystemelapsed
DNaseR-package 9.77 0.3410.10
footprints7.920.318.24

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

nameusersystemelapsed
DNaseR-package14.32 0.4714.79
footprints10.81 0.2911.10