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BioC 2.13: CHECK report for siggenes on moscato1

This page was generated on 2014-04-05 09:48:59 -0700 (Sat, 05 Apr 2014).

Package 658/750HostnameOS / ArchBUILDCHECKBUILD BIN
siggenes 1.36.0
Holger Schwender
Snapshot Date: 2014-04-04 16:20:29 -0700 (Fri, 04 Apr 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_13/madman/Rpacks/siggenes
Last Changed Rev: 81642 / Revision: 88450
Last Changed Date: 2013-10-14 14:29:21 -0700 (Mon, 14 Oct 2013)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK [ OK ] OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK 

Summary

Package: siggenes
Version: 1.36.0
Command: rm -rf siggenes.buildbin-libdir && mkdir siggenes.buildbin-libdir && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=siggenes.buildbin-libdir siggenes_1.36.0.tar.gz >siggenes-install.out 2>&1 && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD check --library=siggenes.buildbin-libdir --install="check:siggenes-install.out" --force-multiarch --no-vignettes --timings siggenes_1.36.0.tar.gz && mv siggenes.buildbin-libdir/* siggenes.Rcheck/ && rmdir siggenes.buildbin-libdir
StartedAt: 2014-04-05 06:44:12 -0700 (Sat, 05 Apr 2014)
EndedAt: 2014-04-05 06:45:49 -0700 (Sat, 05 Apr 2014)
EllapsedTime: 96.4 seconds
RetCode: 0
Status:  OK  
CheckDir: siggenes.Rcheck
Warnings: 0

Command output

* using log directory 'D:/biocbld/bbs-2.13-bioc/meat/siggenes.Rcheck'
* using R version 3.0.3 (2014-03-06)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'siggenes/DESCRIPTION' ... OK
* this is package 'siggenes' version '1.36.0'
* 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 'siggenes' 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 ... NOTE
'library' or 'require' call to 'splines' which was already attached by Depends.
  Please remove these calls from your code.
Unexported object imported by a ':::' call: 'annotate:::getTDRows'
  See the note in ?`:::` about the use of this operator.
See the information on DESCRIPTION files in the chapter 'Creating R
packages' of the 'Writing R Extensions' manual.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... NOTE
Foreign function call to a different package:
  .C("get_stat_num_denum", ..., PACKAGE = "multtest")
See the chapter 'System and foreign language interfaces' of the
'Writing R Extensions' manual.
* 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 for old-style vignette sources ... NOTE
Vignette sources only in 'inst/doc':
  'siggenes.Rnw'
A 'vignettes' directory will be required as from R 3.1.0
* checking examples ...
** running examples for arch 'i386' ... [2s] OK
** running examples for arch 'x64' ... [2s] 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

NOTE: There were 3 notes.
See
  'D:/biocbld/bbs-2.13-bioc/meat/siggenes.Rcheck/00check.log'
for details.

siggenes.Rcheck/00install.out:


install for i386

* installing *source* package 'siggenes' ...
** R
** inst
** preparing package for lazy loading
Creating a generic function for 'print' from package 'base' in package 'siggenes'
Creating a generic function for 'identify' from package 'graphics' in package 'siggenes'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'siggenes' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'siggenes' as siggenes_1.36.0.zip
* DONE (siggenes)

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

nameusersystemelapsed
EBAM-class0.020.000.02
SAM-class0.040.000.05
chisq.ebam0.020.000.01
chisq.stat0.020.000.02
delta.plot000
denspr000
ebam0.020.000.02
find.a0000
help.ebam0.020.000.02
help.finda0000
help.sam0.020.000.02
list.siggenes000
md.plot0.010.000.01
pi0.est000
qvalue.cal0.020.000.02
sam0.010.000.01
sam.plot20.020.000.02
trend.ebam0.010.000.01
trend.stat0.020.000.02

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

nameusersystemelapsed
EBAM-class0.020.000.02
SAM-class0.060.000.06
chisq.ebam000
chisq.stat0.010.000.02
delta.plot000
denspr000
ebam000
find.a00.060.000.07
help.ebam000
help.finda0000
help.sam000
list.siggenes000
md.plot000
pi0.est000
qvalue.cal0.010.000.01
sam000
sam.plot2000
trend.ebam000
trend.stat000