Package: ASEB

Version: 1.3.0

Command: /home/biocbuild/bbs-2.12-bioc/R/bin/R CMD check --no-vignettes --timings ASEB_1.3.0.tar.gz

StartedAt: 2013-03-25 00:09:09 -0700 (Mon, 25 Mar 2013)

EndedAt: 2013-03-25 00:10:20 -0700 (Mon, 25 Mar 2013)

EllapsedTime: 71.0 seconds

RetCode: 0

Status:  OK

CheckDir: ASEB.Rcheck

Warnings: 0

* using log directory ‘/home/biocbuild/bbs-2.12-bioc/meat/ASEB.Rcheck’
* using R version 3.0.0 beta (2013-03-19 r62328)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ASEB/DESCRIPTION’ ... OK
* this is package ‘ASEB’ version ‘1.3.0’
* 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 ‘ASEB’ can be installed ... [8s/8s] 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
drawEScurve,data.frame: warning in rgb(0, 0, 200, max = 255): partial
  argument match of 'max' to 'maxColorValue'
drawEScurve,data.frame: warning in rgb(160, 160, 255, max = 255):
  partial argument match of 'max' to 'maxColorValue'
* 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 line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... NOTE
File ‘/home/biocbuild/bbs-2.12-bioc/meat/ASEB.Rcheck/ASEB/libs/ASEB.so’:
  Found ‘_ZSt4cerr’, possibly from ‘std::cerr’ (C++)
    Object: ‘asebC.o’

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
* checking installed files from ‘inst/doc’ ... OK
* checking examples ... [37s/37s] OK
Examples with CPU or elapsed time > 5s
              user system elapsed
asebProteins 8.336  0.032   8.793
drawEScurve  7.885  0.020   7.913
drawStat     7.884  0.020   8.244
readSequence 5.933  0.008   6.030
asebSites    5.388  0.032   5.464
* 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

NOTE: There were 2 notes.
See
  ‘/home/biocbuild/bbs-2.12-bioc/meat/ASEB.Rcheck/00check.log’
for details.

* installing *source* package ‘ASEB’ ...
** libs
g++ -I/home/biocbuild/bbs-2.12-bioc/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -Wall -c asebC.cpp -o asebC.o
g++ -shared -L/usr/local/lib -o ASEB.so asebC.o -L/home/biocbuild/bbs-2.12-bioc/R/lib -lR
installing to /home/biocbuild/bbs-2.12-bioc/meat/ASEB.Rcheck/ASEB/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘ASEB.Rnw’ 
** testing if installed package can be loaded
* DONE (ASEB)

name	user	system	elapsed
SequenceInfo	0.012	0.000	0.013
asebProteins	8.336	0.032	8.793
asebSites	5.388	0.032	5.464
drawEScurve	7.885	0.020	7.913
drawStat	7.884	0.020	8.244
readSequence	5.933	0.008	6.030