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BioC 3.2: CHECK report for a4Reporting on moscato1

This page was generated on 2016-04-23 10:17:52 -0700 (Sat, 23 Apr 2016).

Package 6/1103HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
a4Reporting 1.18.0
Tobias Verbeke , Willem Ligtenberg
Snapshot Date: 2016-04-22 16:20:12 -0700 (Fri, 22 Apr 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/a4Reporting
Last Changed Rev: 109589 / Revision: 116712
Last Changed Date: 2015-10-13 12:36:05 -0700 (Tue, 13 Oct 2015)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Standard (64-bit) / x64  OK  OK [ OK ] OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: a4Reporting
Version: 1.18.0
Command: rm -rf a4Reporting.buildbin-libdir a4Reporting.Rcheck && mkdir a4Reporting.buildbin-libdir a4Reporting.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=a4Reporting.buildbin-libdir a4Reporting_1.18.0.tar.gz >a4Reporting.Rcheck\00install.out 2>&1 && cp a4Reporting.Rcheck\00install.out a4Reporting-install.out && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=a4Reporting.buildbin-libdir --install="check:a4Reporting-install.out" --force-multiarch --no-vignettes --timings a4Reporting_1.18.0.tar.gz
StartedAt: 2016-04-22 23:16:02 -0700 (Fri, 22 Apr 2016)
EndedAt: 2016-04-22 23:20:02 -0700 (Fri, 22 Apr 2016)
EllapsedTime: 240.5 seconds
RetCode: 0
Status:  OK  
CheckDir: a4Reporting.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf a4Reporting.buildbin-libdir a4Reporting.Rcheck && mkdir a4Reporting.buildbin-libdir a4Reporting.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=a4Reporting.buildbin-libdir a4Reporting_1.18.0.tar.gz >a4Reporting.Rcheck\00install.out 2>&1 && cp a4Reporting.Rcheck\00install.out a4Reporting-install.out  && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=a4Reporting.buildbin-libdir --install="check:a4Reporting-install.out" --force-multiarch --no-vignettes --timings a4Reporting_1.18.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbld/bbs-3.2-bioc/meat/a4Reporting.Rcheck'
* using R version 3.2.4 (2016-03-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'a4Reporting/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'a4Reporting' version '1.18.0'
* 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 'a4Reporting' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* 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
Packages in Depends field not imported from:
  'annaffy' 'methods'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
Unexported objects imported by ':::' calls:
  'xtable:::xtable.data.frame' 'xtable:::xtable.matrix'
  See the note in ?`:::` about the use of this operator.
* 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 ... 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 'print.xtableAnnotationTable':
  'print.xtableAnnotationTable'

The \usage entries for S3 methods should use the \method markup and not
their full name.
See chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking examples ...
** running examples for arch 'i386' ... [4s] OK
** running examples for arch 'x64' ... [5s] OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'test.annotationTable.R' [6s]
 [8s] OK
** running tests for arch 'x64' ...
  Running 'test.annotationTable.R' [5s]
 [6s] OK
* checking PDF version of manual ... OK
* DONE

Status: 3 NOTEs
See
  'D:/biocbld/bbs-3.2-bioc/meat/a4Reporting.Rcheck/00check.log'
for details.


a4Reporting.Rcheck/00install.out:


install for i386

* installing *source* package 'a4Reporting' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded

install for x64

* installing *source* package 'a4Reporting' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'a4Reporting' as a4Reporting_1.18.0.zip
* DONE (a4Reporting)

a4Reporting.Rcheck/examples_i386/a4Reporting-Ex.timings:

nameusersystemelapsed
annotationTable-class000
annotationTable0.020.000.02
xtable-methods0.020.000.01

a4Reporting.Rcheck/examples_x64/a4Reporting-Ex.timings:

nameusersystemelapsed
annotationTable-class000
annotationTable000
xtable-methods0.010.000.01