BioC 2.12: CHECK report for ROC on petty

Package: ROC

Version: 1.36.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch ROC_1.36.0.tar.gz

StartedAt: 2013-10-08 23:45:58 -0700 (Tue, 08 Oct 2013)

EndedAt: 2013-10-08 23:47:08 -0700 (Tue, 08 Oct 2013)

EllapsedTime: 69.9 seconds

RetCode: 0

Status:  OK

CheckDir: ROC.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/ROC.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 'ROC/DESCRIPTION' ... OK
* this is package 'ROC' version '1.36.0'
* 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 'ROC' can be installed ... [4s/4s] 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
File 'ROC/R/zzz.R':
  .onLoad calls:
    require("methods")
  .onAttach calls:
    require("Biobase")

Package startup functions should not change the search path.
See section 'Good practice' in '?.onAttach'.
* checking Rd files ... NOTE
prepare_Rd: AUC.Rd:38-39: Dropping empty section \value
prepare_Rd: AUC.Rd:48: Dropping empty section \note
prepare_Rd: rocdemo.sca.Rd:38: Dropping empty section \note
prepare_Rd: rocdemo.sca.Rd:36: Dropping empty section \references
prepare_Rd: trapezint.Rd:23: Dropping empty section \note
prepare_Rd: trapezint.Rd:22: Dropping empty section \author
prepare_Rd: trapezint.Rd:21: Dropping empty section \references
prepare_Rd: trapezint.Rd:24: Dropping empty section \seealso
* 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 ... OK
* checking sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... [7s/10s] OK
Examples with CPU or elapsed time > 5s
             user system elapsed
rocdemo.sca 4.786  0.065   6.356
* 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
  '/Users/biocbuild/bbs-2.12-bioc/meat/ROC.Rcheck/00check.log'
for details.

* installing *source* package 'ROC' ...
** libs
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c ROC.cc -o ROC.o
llvm-g++-4.2 -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -L/usr/local/lib -o ROC.so ROC.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.12-bioc/meat/ROC.Rcheck/ROC/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (ROC)

name	user	system	elapsed
AUC	0.036	0.002	0.061
plot-methods	0.029	0.002	0.051
rocc-class	0.013	0.001	0.018
rocdemo.sca	4.786	0.065	6.356
trapezint	0.013	0.000	0.018