Package: iPAC

Version: 1.2.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch iPAC_1.2.0.tar.gz

StartedAt: 2013-05-01 07:07:39 -0700 (Wed, 01 May 2013)

EndedAt: 2013-05-01 07:30:35 -0700 (Wed, 01 May 2013)

EllapsedTime: 1376.2 seconds

RetCode: 0

Status:  OK

CheckDir: iPAC.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/iPAC.Rcheck'
* using R version 3.0.0 Patched (2013-04-08 r62531)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'iPAC/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'iPAC' version '1.2.0'
* 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 for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package 'iPAC' can be installed ... [15s/16s] 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
* 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 ... [20m/21m] OK
Examples with CPU or elapsed time > 5s
                        user system elapsed
get.Positions        646.345 32.317 700.155
ClusterFind          329.461  3.782 343.413
Plot.Protein.Linear   68.662  2.485  75.862
nmc                   60.475  0.384  63.376
get.AlignedPositions  20.810  1.589  24.688
get.Remapped.Order    18.718  1.968  22.462
* 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

* installing *source* package 'iPAC' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (iPAC)

name	user	system	elapsed
ClusterFind	329.461	3.782	343.413
KRAS.Mutations	0.076	0.018	0.095
PIK3CA.Mutations	0.402	0.063	0.467
Plot.Protein.Linear	68.662	2.485	75.862
get.AASeq	0.004	0.005	0.549
get.AlignedPositions	20.810	1.589	24.688
get.Positions	646.345	32.317	700.155
get.Remapped.Order	18.718	1.968	22.462
get.SingleLetterCode	0.007	0.006	0.015
iPAC-package	0.012	0.007	0.022
nmc	60.475	0.384	63.376