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BioC 3.1: CHECK report for pandaR on moscato2

This page was generated on 2015-10-09 09:32:19 -0700 (Fri, 09 Oct 2015).

Package 691/1024HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
pandaR 1.0.0
Dan Schlauch
Snapshot Date: 2015-10-08 17:20:21 -0700 (Thu, 08 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_1/madman/Rpacks/pandaR
Last Changed Rev: 102591 / Revision: 109384
Last Changed Date: 2015-04-16 12:42:01 -0700 (Thu, 16 Apr 2015)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ OK ] OK UNNEEDED, same version exists in internal repository
petty Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: pandaR
Version: 1.0.0
Command: rm -rf pandaR.buildbin-libdir pandaR.Rcheck && mkdir pandaR.buildbin-libdir pandaR.Rcheck && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=pandaR.buildbin-libdir pandaR_1.0.0.tar.gz >pandaR.Rcheck\00install.out 2>&1 && cp pandaR.Rcheck\00install.out pandaR-install.out && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD check --library=pandaR.buildbin-libdir --install="check:pandaR-install.out" --force-multiarch --no-vignettes --timings pandaR_1.0.0.tar.gz
StartedAt: 2015-10-09 04:37:20 -0700 (Fri, 09 Oct 2015)
EndedAt: 2015-10-09 04:38:31 -0700 (Fri, 09 Oct 2015)
EllapsedTime: 70.7 seconds
RetCode: 0
Status:  OK  
CheckDir: pandaR.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf pandaR.buildbin-libdir pandaR.Rcheck && mkdir pandaR.buildbin-libdir pandaR.Rcheck && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=pandaR.buildbin-libdir pandaR_1.0.0.tar.gz >pandaR.Rcheck\00install.out 2>&1 && cp pandaR.Rcheck\00install.out pandaR-install.out  && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD check --library=pandaR.buildbin-libdir --install="check:pandaR-install.out" --force-multiarch --no-vignettes --timings pandaR_1.0.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbld/bbs-3.1-bioc/meat/pandaR.Rcheck'
* using R version 3.2.2 (2015-08-14)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'pandaR/DESCRIPTION' ... OK
* this is package 'pandaR' version '1.0.0'
* 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 'pandaR' can be installed ... OK
* checking installed package size ... NOTE
  installed size is  7.1Mb
  sub-directories of 1Mb or more:
    data   7.0Mb
* 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' call to 'igraph' in package code.
  Please use :: or requireNamespace() instead.
  See section 'Suggested packages' in the 'Writing R Extensions' manual.
package 'methods' is used but not declared
* 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 ... NOTE
prepare_Rd: pandaResult.Rd:13: Dropping empty section \source
prepare_Rd: pandaToyData.Rd:11: Dropping empty section \source
* 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' ... [18s] OK
Examples with CPU or elapsed time > 5s
       user system elapsed
panda 16.05   0.59   16.64
** running examples for arch 'x64' ... [18s] OK
Examples with CPU or elapsed time > 5s
       user system elapsed
panda 15.24   0.64    15.9
* 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: 3 NOTEs
See
  'E:/biocbld/bbs-3.1-bioc/meat/pandaR.Rcheck/00check.log'
for details.


pandaR.Rcheck/00install.out:


install for i386

* installing *source* package 'pandaR' ...
** R
** data
*** moving datasets to lazyload DB
** 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 'pandaR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'pandaR' as pandaR_1.0.0.zip
* DONE (pandaR)

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

nameusersystemelapsed
panda16.05 0.5916.64
plot.panda0.070.000.08
plotGraph0.330.020.39
print.panda0.070.000.08
subnetwork0.160.030.19
summary.panda0.080.000.08
targetedGenes0.190.020.20
topedges0.140.030.17

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

nameusersystemelapsed
panda15.24 0.6415.90
plot.panda0.050.030.08
plotGraph0.330.030.45
print.panda0.060.030.10
subnetwork0.190.000.18
summary.panda0.090.020.11
targetedGenes0.140.030.18
topedges0.170.000.17