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 CGHcall on moscato2

This page was generated on 2014-10-08 08:52:13 -0700 (Wed, 08 Oct 2014).

Package 131/824HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
CGHcall 2.26.0
Mark van de Wiel
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/CGHcall
Last Changed Rev: 88838 / Revision: 95116
Last Changed Date: 2014-04-11 14:07:21 -0700 (Fri, 11 Apr 2014)
zin2 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK [ OK ] OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK  OK 
morelia Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK  OK 

Summary

Package: CGHcall
Version: 2.26.0
Command: rm -rf CGHcall.buildbin-libdir && mkdir CGHcall.buildbin-libdir && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=CGHcall.buildbin-libdir CGHcall_2.26.0.tar.gz >CGHcall-install.out 2>&1 && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD check --library=CGHcall.buildbin-libdir --install="check:CGHcall-install.out" --force-multiarch --no-vignettes --timings CGHcall_2.26.0.tar.gz
StartedAt: 2014-10-07 23:32:46 -0700 (Tue, 07 Oct 2014)
EndedAt: 2014-10-07 23:33:59 -0700 (Tue, 07 Oct 2014)
EllapsedTime: 73.3 seconds
RetCode: 0
Status:  OK  
CheckDir: CGHcall.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf CGHcall.buildbin-libdir && mkdir CGHcall.buildbin-libdir && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=CGHcall.buildbin-libdir CGHcall_2.26.0.tar.gz >CGHcall-install.out 2>&1 && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD check --library=CGHcall.buildbin-libdir --install="check:CGHcall-install.out" --force-multiarch --no-vignettes --timings CGHcall_2.26.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbld/bbs-2.14-bioc/meat/CGHcall.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 'CGHcall/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'CGHcall' version '2.26.0'
* 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 'CGHcall' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Non-standard license specification:
  GPL (http://www.gnu.org/copyleft/gpl.html)
Standardizable: TRUE
Standardized license specification:
  GPL
* 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 'snowfall' which was already attached by Depends.
  Please remove these calls from your code.
Packages in Depends field not imported from:
  'DNAcopy' 'methods' 'snowfall'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
':::' call which should be '::': 'DNAcopy:::getbdry'
  See the note in ?`:::` about the use of this operator.
Unexported objects imported by ':::' calls:
  'Biobase:::assayDataDims' 'DNAcopy:::trimmed.variance'
  See the note in ?`:::` about the use of this operator.
There are ::: calls to the package's namespace in its code. A package
  almost never needs to use ::: for its own objects:
  '.MakeData' '.alpha0all' '.assignNames' '.callFromSeg' '.countcl'
  '.posteriorp' '.reallik4' '.segFromRaw' '.sumreg' '.sumsqreg'
  '.totallik' '.varproffun' '.varregtimescount'
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:
  .Fortran("fndcpt", ..., PACKAGE = "DNAcopy")
See the chapter 'System and foreign language interfaces' of the
'Writing R Extensions' manual.
* checking R code for possible problems ... NOTE
.changepoints2: no visible global function definition for
  'changepoints.prune'
* 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 ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [4s] OK
** running examples for arch 'x64' ... [4s] 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 4 notes.
See
  'E:/biocbld/bbs-2.14-bioc/meat/CGHcall.Rcheck/00check.log'
for details.

CGHcall.Rcheck/00install.out:


install for i386

* installing *source* package 'CGHcall' ...
** 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 'CGHcall' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'CGHcall' as CGHcall_2.26.0.zip
* DONE (CGHcall)

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

nameusersystemelapsed
CGHcall0.410.000.40
ExpandCGHcall0.280.000.28
normalize0.300.030.33
postsegnormalize0.340.000.34
preprocess0.080.000.21
segmentData0.030.000.20

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

nameusersystemelapsed
CGHcall0.420.000.43
ExpandCGHcall0.340.000.34
normalize0.330.000.33
postsegnormalize0.340.000.34
preprocess0.060.000.06
segmentData0.020.000.02