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 

Package 222/553HostnameOS / ArchBUILDCHECKBUILD BIN
genomes 2.2.0
Chris Stubben
Snapshot Date: 2012-09-23 17:01:39 -0700 (Sun, 23 Sep 2012)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_10/madman/Rpacks/genomes
Last Changed Rev: 64678 / Revision: 69725
Last Changed Date: 2012-03-30 15:05:02 -0700 (Fri, 30 Mar 2012)
lamb2 Linux (openSUSE 11.4) / x86_64  OK  ERROR 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK [ ERROR ] OK 
petty Mac OS X Leopard (10.5.8) / i386  OK  ERROR  OK 

Summary

Package: genomes
Version: 2.2.0
Command: rm -rf genomes.buildbin-libdir && mkdir genomes.buildbin-libdir && E:\biocbld\bbs-2.10-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=genomes.buildbin-libdir genomes_2.2.0.tar.gz >genomes-install.out 2>&1 && E:\biocbld\bbs-2.10-bioc\R\bin\R.exe CMD check --library=genomes.buildbin-libdir --install="check:genomes-install.out" --force-multiarch --no-vignettes --timings genomes_2.2.0.tar.gz && mv genomes.buildbin-libdir/* genomes.Rcheck/ && rmdir genomes.buildbin-libdir
StartedAt: 2012-09-24 00:49:00 -0700 (Mon, 24 Sep 2012)
EndedAt: 2012-09-24 00:51:19 -0700 (Mon, 24 Sep 2012)
EllapsedTime: 139.4 seconds
RetCode: 1
Status:  ERROR  
CheckDir: genomes.Rcheck
Warnings: NA

Command output

* using log directory 'E:/biocbld/bbs-2.10-bioc/meat/genomes.Rcheck'
* using R version 2.15.1 (2012-06-22)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'genomes/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'genomes' version '2.2.0'
* 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 whether package 'genomes' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level 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 ... 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 ... 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 examples ...
** running examples for arch 'i386' ... ERROR
Running examples in 'genomes-Ex.R' failed
The error most likely occurred in:

> assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: ncbiTaxonomy
> ### Title: NCBI taxonomy database
> ### Aliases: ncbiTaxonomy
> ### Keywords: methods
> 
> ### ** Examples
> 
> 
> ncbiTaxonomy(c("Bacillus anthracis", "Yersinia pestis"))
[1] "WARNING: please set your email using Sys.setenv(email='name@email.com')"
[1] "WARNING: please set your email using Sys.setenv(email='name@email.com')"
[1] "2 results found"
Error in names(x) <- c("id", "rank", "division", "name", "common", "taxid",  : 
  'names' attribute [14] must be the same length as the vector [12]
Calls: ncbiTaxonomy
Execution halted
** running examples for arch 'x64' ... ERROR
Running examples in 'genomes-Ex.R' failed
The error most likely occurred in:

> assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: ncbiTaxonomy
> ### Title: NCBI taxonomy database
> ### Aliases: ncbiTaxonomy
> ### Keywords: methods
> 
> ### ** Examples
> 
> 
> ncbiTaxonomy(c("Bacillus anthracis", "Yersinia pestis"))
[1] "WARNING: please set your email using Sys.setenv(email='name@email.com')"
[1] "WARNING: please set your email using Sys.setenv(email='name@email.com')"
[1] "2 results found"
Error in names(x) <- c("id", "rank", "division", "name", "common", "taxid",  : 
  'names' attribute [14] must be the same length as the vector [12]
Calls: ncbiTaxonomy
Execution halted

genomes.Rcheck/00install.out:


install for i386

* installing *source* package 'genomes' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'genome-tables.Rnw' 
** testing if installed package can be loaded

install for x64

* installing *source* package 'genomes' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'genomes' as genomes_2.2.0.zip

* DONE (genomes)