Back to the "Multiple platform build/check report" A  B  C  D  E  F  G  H  I  J  K  L  M  N  O  P  Q  R [S] T  U  V  W  X  Y  Z 

BioC 2.14: CHECK report for sRAP on moscato2

This page was generated on 2014-10-08 08:56:11 -0700 (Wed, 08 Oct 2014).

Package 756/824HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
sRAP 1.4.2
Charles Warden
Snapshot Date: 2014-10-07 17:20:37 -0700 (Tue, 07 Oct 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/sRAP
Last Changed Rev: 92886 / Revision: 95116
Last Changed Date: 2014-07-26 11:42:49 -0700 (Sat, 26 Jul 2014)
zin2 Linux (Ubuntu 12.04.4 LTS) / x86_64  NotNeeded  OK  WARNINGS 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ WARNINGS ] OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  WARNINGS  OK 
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  WARNINGS  OK 

Summary

Package: sRAP
Version: 1.4.2
Command: rm -rf sRAP.buildbin-libdir && mkdir sRAP.buildbin-libdir && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=sRAP.buildbin-libdir sRAP_1.4.2.tar.gz >sRAP-install.out 2>&1 && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD check --library=sRAP.buildbin-libdir --install="check:sRAP-install.out" --force-multiarch --no-vignettes --timings sRAP_1.4.2.tar.gz
StartedAt: 2014-10-08 05:26:17 -0700 (Wed, 08 Oct 2014)
EndedAt: 2014-10-08 05:33:02 -0700 (Wed, 08 Oct 2014)
EllapsedTime: 404.4 seconds
RetCode: 0
Status:  WARNINGS  
CheckDir: sRAP.Rcheck
Warnings: 1

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf sRAP.buildbin-libdir && mkdir sRAP.buildbin-libdir && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=sRAP.buildbin-libdir sRAP_1.4.2.tar.gz >sRAP-install.out 2>&1 && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD check --library=sRAP.buildbin-libdir --install="check:sRAP-install.out" --force-multiarch --no-vignettes --timings sRAP_1.4.2.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbld/bbs-2.14-bioc/meat/sRAP.Rcheck'
* using R version 3.1.1 (2014-07-10)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'sRAP/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'sRAP' version '1.4.2'
* 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 'sRAP' 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 ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
RNA.bdfunc.fc: no visible binding for global variable
  'bdfunc.enrichment.human'
RNA.bdfunc.fc: no visible binding for global variable
  'bdfunc.enrichment.mouse'
RNA.bdfunc.signal: no visible binding for global variable
  'bdfunc.enrichment.human'
RNA.bdfunc.signal: no visible binding for global variable
  'bdfunc.enrichment.mouse'
* 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 ... WARNING
  
  Note: significantly better compression could be obtained
        by using R CMD build --resave-data
                              old_size new_size compress
  bdfunc.enrichment.human.rda    1.3Mb    951Kb    bzip2
  bdfunc.enrichment.mouse.rda     31Kb     26Kb       xz
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... NOTE
The following files look like leftovers/mistakes:
  'sRAP.bbl'
Please remove them from your package.
* checking examples ...
** running examples for arch 'i386' ... [171s] OK
Examples with CPU or elapsed time > 5s
                    user system elapsed
RNA.bdfunc.signal 113.01   0.25  118.73
RNA.bdfunc.fc      14.91   0.05   23.99
RNA.deg            12.45   0.03   17.66
** running examples for arch 'x64' ... [198s] OK
Examples with CPU or elapsed time > 5s
                    user system elapsed
RNA.bdfunc.signal 140.23   0.17  146.67
RNA.bdfunc.fc      15.27   0.02   22.08
RNA.deg            13.21   0.05   20.01
* 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

WARNING: There was 1 warning.
NOTE: There were 2 notes.
See
  'E:/biocbld/bbs-2.14-bioc/meat/sRAP.Rcheck/00check.log'
for details.

sRAP.Rcheck/00install.out:


install for i386

* installing *source* package 'sRAP' ...
** R
** data
** 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 'sRAP' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'sRAP' as sRAP_1.4.2.zip
* DONE (sRAP)

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

nameusersystemelapsed
RNA.bdfunc.fc14.91 0.0523.99
RNA.bdfunc.signal113.01 0.25118.73
RNA.deg12.45 0.0317.66
RNA.norm2.770.004.61
RNA.prepare.input0.010.000.21
RNA.qc2.790.004.87

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

nameusersystemelapsed
RNA.bdfunc.fc15.27 0.0222.08
RNA.bdfunc.signal140.23 0.17146.67
RNA.deg13.21 0.0520.01
RNA.norm2.220.004.68
RNA.prepare.input0.020.000.21
RNA.qc2.280.004.09