BioC 2.12: CHECK report for Icens on petty

Package: Icens

Version: 1.32.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch Icens_1.32.0.tar.gz

StartedAt: 2013-10-08 22:48:44 -0700 (Tue, 08 Oct 2013)

EndedAt: 2013-10-08 22:49:42 -0700 (Tue, 08 Oct 2013)

EllapsedTime: 57.4 seconds

RetCode: 0

Status:  OK

CheckDir: Icens.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/Icens.Rcheck'
* using R version 3.0.1 (2013-05-16)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'Icens/DESCRIPTION' ... OK
* this is package 'Icens' version '1.32.0'
* 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 'Icens' can be installed ... [2s/2s] 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 ... NOTE
VEMICMmac: no visible binding for global variable 'EMstep'
* 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 examples ... [24s/24s] OK
Examples with CPU or elapsed time > 5s
       user system elapsed
ISDM 12.328  0.122  12.602
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running 'testbv.R' [1s/1s]
  Comparing 'testbv.Rout' to 'testbv.Rout.save' ...117c117
<  [6]  1.461001e+00  1.207129e+00  1.000000e+00  4.748624e-01 -2.640501e-16
---
>  [6]  1.461001e+00  1.207129e+00  1.000000e+00  4.748624e-01 -2.480201e-16
 [2s/2s] OK
* checking PDF version of manual ... OK

NOTE: There was 1 note.
See
  '/Users/biocbuild/bbs-2.12-bioc/meat/Icens.Rcheck/00check.log'
for details.

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

name	user	system	elapsed
BVcliques	0.654	0.016	0.671
BVclmat	3.947	0.024	3.985
BVsupport	3.895	0.022	3.978
EM	0.163	0.007	0.170
EMICM	0.175	0.003	0.178
ISDM	12.328	0.122	12.602
MLEintvl	0.068	0.001	0.069
Maclist	0.048	0.001	0.050
Macmat	0.040	0.001	0.043
PGM	0.297	0.018	0.316
Plotboxes	0.131	0.012	0.143
VEM	0.270	0.002	0.273
cmv	0.012	0.002	0.015
cosmesis	0.009	0.000	0.012
hiv	0.022	0.003	0.026
plot.icsurv	0.677	0.013	0.707
pruitt	0.009	0.000	0.010