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Package 42/389HostnameOS / ArchBUILDCHECKBUILD BIN
bgafun 1.10.0
Iain Wallace
Snapshot Date: 2010-10-04 11:22:20 -0700 (Mon, 04 Oct 2010)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_6/madman/Rpacks/bgafun
Last Changed Rev: 46401 / Revision: 49923
Last Changed Date: 2010-04-22 11:21:23 -0700 (Thu, 22 Apr 2010)
wilson1 Linux (openSUSE 11.1) / x86_64  OK [ OK ]
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
gewurz Windows Server 2008 R2 Enterprise (64-bit) / x64  OK  OK  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: bgafun
Version: 1.10.0
Command: /home/biocbuild/bbs-2.6-bioc/R/bin/R CMD check --no-vignettes --timings bgafun_1.10.0.tar.gz
StartedAt: 2010-10-04 16:10:49 -0700 (Mon, 04 Oct 2010)
EndedAt: 2010-10-04 16:12:08 -0700 (Mon, 04 Oct 2010)
EllapsedTime: 79.6 seconds
RetCode: 0
Status:  OK 
CheckDir: bgafun.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/loc/home/biocbuild/bbs-2.6-bioc/meat/bgafun.Rcheck'
* using R version 2.11.1 (2010-05-31)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'bgafun/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'bgafun' version '1.10.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'bgafun' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... 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
* 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 name space can be loaded with stated dependencies ... OK
* checking whether the name space 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 data for non-ASCII characters ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

bgafun.Rcheck/00install.out:

* install options are ' --no-html'

* installing *source* package 'bgafun' ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: ade4

Attaching package: 'ade4'

The following object(s) are masked from 'package:base':

    within

Loading required package: RColorBrewer
Loading required package: gplots
Loading required package: gtools
Loading required package: gdata
gdata: read.xls support for 'XLS' (Excel 97-2004) files ENABLED.

gdata: read.xls support for 'XLSX' (Excel 2007+) files ENABLED.

Attaching package: 'gdata'

The following object(s) are masked from 'package:utils':

    object.size

Loading required package: caTools
Loading required package: bitops
Loading required package: grid

Attaching package: 'gplots'

The following object(s) are masked from 'package:stats':

    lowess

Loading required package: scatterplot3d
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (bgafun)

bgafun.Rcheck/bgafun-Ex.timings:

nameusersystemelapsed
Calculate_Row_Weights0.2440.0120.257
add_pseudo_counts27.401 0.32829.022
average_cols_aap1.2320.0001.232
bgafun7.4490.0407.506
convert_aln_AAP1.2200.0001.217
convert_aln_amino1.1080.0001.124
create_profile_strings5.4720.0445.607
remove_gaps_groups1.2640.0921.705
run_between_pca1.2560.0841.567
top_residues_2_groups5.6410.4608.164