Package: NuPoP

Version: 1.7.0

Command: /Library/Frameworks/R.framework/Versions/2.15/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch NuPoP_1.7.0.tar.gz

StartedAt: 2012-06-21 02:10:14 -0700 (Thu, 21 Jun 2012)

EndedAt: 2012-06-21 02:11:43 -0700 (Thu, 21 Jun 2012)

EllapsedTime: 88.6 seconds

RetCode: 0

Status:  OK

CheckDir: NuPoP.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.11-bioc/meat/NuPoP.Rcheck'
* using R version 2.15.0 Patched (2012-04-26 r59216)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'NuPoP/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'NuPoP' version '1.7.0'
* 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 whether package 'NuPoP' can be installed ... OK
* checking installed package size ... NOTE
  installed size is  6.3Mb
  sub-directories of 1Mb or more:
    extdata   4.9Mb
* 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 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 R/sysdata.rda ... 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 '/Users/biocbuild/bbs-2.11-bioc/meat/NuPoP.Rcheck/NuPoP/libs/i386/NuPoP.so':
  Found '__gfortran_st_write', possibly from 'write' (Fortran), 'print'
    (Fortran)
    Objects: 'vtbfb.o', 'vtbfbNL4.o'

Compiled code should not call functions 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 sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... OK
* 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-2.11-bioc/meat/NuPoP.Rcheck/00check.log'
for details.

* installing *source* package 'NuPoP' ...
** libs
*** arch - i386
gfortran -arch i386  -fno-common -g -O2  -c  vtbfb.f90 -o vtbfb.o
gfortran -arch i386  -fno-common -g -O2  -c  vtbfbNL4.f90 -o vtbfbNL4.o
gfortran -arch i386 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o NuPoP.so vtbfb.o vtbfbNL4.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.11-bioc/meat/NuPoP.Rcheck/NuPoP/libs/i386
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'NuPoP-intro.Rnw' 
** testing if installed package can be loaded

* DONE (NuPoP)

name	user	system	elapsed
NuPoP-package	19.718	0.333	21.353
plotNuPoP	0.114	0.012	0.174
predNuPoP	19.609	0.302	21.002
readNuPoP	19.660	0.305	20.304