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BioC 2.12: CHECK report for flowTrans on moscato2

This page was generated on 2013-10-09 09:38:48 -0700 (Wed, 09 Oct 2013).

Package 232/671HostnameOS / ArchBUILDCHECKBUILD BIN
flowTrans 1.12.0
Greg Finak
Snapshot Date: 2013-10-08 17:00:48 -0700 (Tue, 08 Oct 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_12/madman/Rpacks/flowTrans
Last Changed Rev: 75263 / Revision: 81334
Last Changed Date: 2013-04-03 14:32:27 -0700 (Wed, 03 Apr 2013)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK [ OK ] OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK 

Summary

Package: flowTrans
Version: 1.12.0
Command: rm -rf flowTrans.buildbin-libdir && mkdir flowTrans.buildbin-libdir && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=flowTrans.buildbin-libdir flowTrans_1.12.0.tar.gz >flowTrans-install.out 2>&1 && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD check --library=flowTrans.buildbin-libdir --install="check:flowTrans-install.out" --force-multiarch --no-vignettes --timings flowTrans_1.12.0.tar.gz && mv flowTrans.buildbin-libdir/* flowTrans.Rcheck/ && rmdir flowTrans.buildbin-libdir
StartedAt: 2013-10-09 02:08:11 -0700 (Wed, 09 Oct 2013)
EndedAt: 2013-10-09 02:11:04 -0700 (Wed, 09 Oct 2013)
EllapsedTime: 172.3 seconds
RetCode: 0
Status:  OK  
CheckDir: flowTrans.Rcheck
Warnings: 0

Command output

* using log directory 'E:/biocbld/bbs-2.12-bioc/meat/flowTrans.Rcheck'
* using R version 3.0.1 (2013-05-16)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'flowTrans/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'flowTrans' version '1.12.0'
* 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 'flowTrans' can be installed ... OK
* checking installed package size ... OK
* checking package 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 for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... NOTE
Foreign function call with 'PACKAGE' argument in a different package:
  .Call("biexponential_transform", ..., PACKAGE = "flowCore")
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 ... NOTE
S3 methods shown with full name in documentation object 'summary.flowTransResult':
  'summary.flowTransResult'

The \usage entries for S3 methods should use the \method markup and not
their full name.
See the chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ...
** running examples for arch 'i386' ... [17s] OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
flowTrans-package 7.12   0.09    7.71
** running examples for arch 'x64' ... [17s] OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
flowTrans-package 7.32   0.05    7.36
* 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There were 2 notes.
See
  'E:/biocbld/bbs-2.12-bioc/meat/flowTrans.Rcheck/00check.log'
for details.

flowTrans.Rcheck/00install.out:


install for i386

* installing *source* package 'flowTrans' ...
** R
** inst
** preparing package for lazy loading
Warning: replacing previous import 'plot' when loading 'graphics'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Warning: replacing previous import 'plot' when loading 'graphics'

install for x64

* installing *source* package 'flowTrans' ...
** testing if installed package can be loaded
Warning: replacing previous import 'plot' when loading 'graphics'
* MD5 sums
packaged installation of 'flowTrans' as flowTrans_1.12.0.zip
* DONE (flowTrans)