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BioC 3.0: CHECK report for regionReport on moscato1

This page was generated on 2015-04-10 09:51:20 -0700 (Fri, 10 Apr 2015).

Package 739/933HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
regionReport 1.0.5
Leonardo Collado-Torres
Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/regionReport
Last Changed Rev: 99915 / Revision: 102249
Last Changed Date: 2015-02-26 20:31:56 -0800 (Thu, 26 Feb 2015)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  NotNeeded  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ OK ] OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK  OK 
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK 

Summary

Package: regionReport
Version: 1.0.5
Command: rm -rf regionReport.buildbin-libdir regionReport.Rcheck && mkdir regionReport.buildbin-libdir regionReport.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=regionReport.buildbin-libdir regionReport_1.0.5.tar.gz >regionReport.Rcheck\00install.out 2>&1 && cp regionReport.Rcheck\00install.out regionReport-install.out && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=regionReport.buildbin-libdir --install="check:regionReport-install.out" --force-multiarch --no-vignettes --timings regionReport_1.0.5.tar.gz
StartedAt: 2015-04-10 04:51:34 -0700 (Fri, 10 Apr 2015)
EndedAt: 2015-04-10 05:03:23 -0700 (Fri, 10 Apr 2015)
EllapsedTime: 708.6 seconds
RetCode: 0
Status:  OK  
CheckDir: regionReport.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf regionReport.buildbin-libdir regionReport.Rcheck && mkdir regionReport.buildbin-libdir regionReport.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=regionReport.buildbin-libdir regionReport_1.0.5.tar.gz >regionReport.Rcheck\00install.out 2>&1 && cp regionReport.Rcheck\00install.out regionReport-install.out  && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=regionReport.buildbin-libdir --install="check:regionReport-install.out" --force-multiarch --no-vignettes --timings regionReport_1.0.5.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbld/bbs-3.0-bioc/meat/regionReport.Rcheck'
* using R version 3.1.3 (2015-03-09)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'regionReport/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'regionReport' version '1.0.5'
* 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 'regionReport' 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
** 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 ... NOTE
'library' or 'require' calls in package code:
  'TxDb.Hsapiens.UCSC.hg19.knownGene' 'biovizBase'
  Please use :: or requireNamespace() instead.
  See section 'Suggested packages' in the 'Writing R Extensions' manual.
* 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 line endings in Makefiles ... OK
* checking for GNU extensions in Makefiles ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [51s] OK
Examples with CPU or elapsed time > 5s
                 user system elapsed
derfinderReport 25.56   0.45   27.44
** running examples for arch 'x64' ... [59s] OK
Examples with CPU or elapsed time > 5s
                user system elapsed
derfinderReport 31.7   0.51   33.08
* 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

NOTE: There was 1 note.
See
  'D:/biocbld/bbs-3.0-bioc/meat/regionReport.Rcheck/00check.log'
for details.

regionReport.Rcheck/00install.out:


install for i386

* installing *source* package 'regionReport' ...
** R
** inst
** preparing package for lazy loading
Note: the specification for S3 class "AsIs" in package 'RJSONIO' seems equivalent to one from package 'BiocGenerics': not turning on duplicate class definitions for this class.
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Note: the specification for S3 class "AsIs" in package 'RJSONIO' seems equivalent to one from package 'BiocGenerics': not turning on duplicate class definitions for this class.

install for x64

* installing *source* package 'regionReport' ...
** testing if installed package can be loaded
Note: the specification for S3 class "AsIs" in package 'RJSONIO' seems equivalent to one from package 'BiocGenerics': not turning on duplicate class definitions for this class.
* MD5 sums
packaged installation of 'regionReport' as regionReport_1.0.5.zip
* DONE (regionReport)

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

nameusersystemelapsed
derfinderReport25.56 0.4527.44

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

nameusersystemelapsed
derfinderReport31.70 0.5133.08