Package: EBImage

Version: 2.0.1

Command: /home/biocbuild/bbs-2.0-bioc/R/bin/R CMD check EBImage_2.0.1.tar.gz

RetCode: 0

Time: 26.5 seconds

Status: OK

CheckDir: EBImage.Rcheck

Warnings: 0

* checking for working latex ... OK
* using log directory '/home/biocbuild/bbs-2.0-bioc/meat/EBImage.Rcheck'
* using R version 2.5.1 (2007-06-27)
* checking for file 'EBImage/DESCRIPTION' ... OK
* this is package 'EBImage' version '2.0.1'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'EBImage' can be installed ... OK
* 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 name space can be loaded with stated dependencies ... 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 cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking for CRLF line endings in C/C++/Fortran sources/headers ... OK
* checking for portable compilation flags in Makevars ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating EBImage-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating EBImage-manual.tex ... OK
* checking EBImage-manual.tex ... OK

* Installing *source* package 'EBImage' ...
checking for Magick-config... yes
ImageMagick version 6.2.5 found
checking for Magick-config... yes
ImageMagick includes located in -I/usr/include
checking for pkg-config... yes
Compiling with GTK+ support
configure: creating ./config.status
config.status: creating src/Makevars
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.0-bioc/R/include -I/home/biocbuild/bbs-2.0-bioc/R/include  -I/usr/local/include   -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/cairo -I/usr/include/freetype2 -I/usr/X11R6/include -I/usr/include/libpng12 -I/opt/gnome/include/gtk-2.0 -I/opt/gnome/lib64/gtk-2.0/include -I/opt/gnome/include/atk-1.0 -I/opt/gnome/include/pango-1.0 -I/opt/gnome/include/glib-2.0 -I/opt/gnome/lib64/glib-2.0/include   -Wall -O2 -fmessage-length=0 -Wall -D_FORTIFY_SOURCE=2 -g -fstack-protector -Wall -pthread -I/usr/include  -fpic  -g -O2 -Wall -c colors.c -o colors.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.0-bioc/R/include -I/home/biocbuild/bbs-2.0-bioc/R/include  -I/usr/local/include   -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/cairo -I/usr/include/freetype2 -I/usr/X11R6/include -I/usr/include/libpng12 -I/opt/gnome/include/gtk-2.0 -I/opt/gnome/lib64/gtk-2.0/include -I/opt/gnome/include/atk-1.0 -I/opt/gnome/include/pango-1.0 -I/opt/gnome/include/glib-2.0 -I/opt/gnome/lib64/glib-2.0/include   -Wall -O2 -fmessage-length=0 -Wall -D_FORTIFY_SOURCE=2 -g -fstack-protector -Wall -pthread -I/usr/include  -fpic  -g -O2 -Wall -c conversions.c -o conversions.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.0-bioc/R/include -I/home/biocbuild/bbs-2.0-bioc/R/include  -I/usr/local/include   -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/cairo -I/usr/include/freetype2 -I/usr/X11R6/include -I/usr/include/libpng12 -I/opt/gnome/include/gtk-2.0 -I/opt/gnome/lib64/gtk-2.0/include -I/opt/gnome/include/atk-1.0 -I/opt/gnome/include/pango-1.0 -I/opt/gnome/include/glib-2.0 -I/opt/gnome/lib64/glib-2.0/include   -Wall -O2 -fmessage-length=0 -Wall -D_FORTIFY_SOURCE=2 -g -fstack-protector -Wall -pthread -I/usr/include  -fpic  -g -O2 -Wall -c display.c -o display.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.0-bioc/R/include -I/home/biocbuild/bbs-2.0-bioc/R/include  -I/usr/local/include   -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/cairo -I/usr/include/freetype2 -I/usr/X11R6/include -I/usr/include/libpng12 -I/opt/gnome/include/gtk-2.0 -I/opt/gnome/lib64/gtk-2.0/include -I/opt/gnome/include/atk-1.0 -I/opt/gnome/include/pango-1.0 -I/opt/gnome/include/glib-2.0 -I/opt/gnome/lib64/glib-2.0/include   -Wall -O2 -fmessage-length=0 -Wall -D_FORTIFY_SOURCE=2 -g -fstack-protector -Wall -pthread -I/usr/include  -fpic  -g -O2 -Wall -c EBImage.c -o EBImage.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.0-bioc/R/include -I/home/biocbuild/bbs-2.0-bioc/R/include  -I/usr/local/include   -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/cairo -I/usr/include/freetype2 -I/usr/X11R6/include -I/usr/include/libpng12 -I/opt/gnome/include/gtk-2.0 -I/opt/gnome/lib64/gtk-2.0/include -I/opt/gnome/include/atk-1.0 -I/opt/gnome/include/pango-1.0 -I/opt/gnome/include/glib-2.0 -I/opt/gnome/lib64/glib-2.0/include   -Wall -O2 -fmessage-length=0 -Wall -D_FORTIFY_SOURCE=2 -g -fstack-protector -Wall -pthread -I/usr/include  -fpic  -g -O2 -Wall -c filters_distmap.c -o filters_distmap.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.0-bioc/R/include -I/home/biocbuild/bbs-2.0-bioc/R/include  -I/usr/local/include   -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/cairo -I/usr/include/freetype2 -I/usr/X11R6/include -I/usr/include/libpng12 -I/opt/gnome/include/gtk-2.0 -I/opt/gnome/lib64/gtk-2.0/include -I/opt/gnome/include/atk-1.0 -I/opt/gnome/include/pango-1.0 -I/opt/gnome/include/glib-2.0 -I/opt/gnome/lib64/glib-2.0/include   -Wall -O2 -fmessage-length=0 -Wall -D_FORTIFY_SOURCE=2 -g -fstack-protector -Wall -pthread -I/usr/include  -fpic  -g -O2 -Wall -c filters_magick.c -o filters_magick.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.0-bioc/R/include -I/home/biocbuild/bbs-2.0-bioc/R/include  -I/usr/local/include   -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/cairo -I/usr/include/freetype2 -I/usr/X11R6/include -I/usr/include/libpng12 -I/opt/gnome/include/gtk-2.0 -I/opt/gnome/lib64/gtk-2.0/include -I/opt/gnome/include/atk-1.0 -I/opt/gnome/include/pango-1.0 -I/opt/gnome/include/glib-2.0 -I/opt/gnome/lib64/glib-2.0/include   -Wall -O2 -fmessage-length=0 -Wall -D_FORTIFY_SOURCE=2 -g -fstack-protector -Wall -pthread -I/usr/include  -fpic  -g -O2 -Wall -c filters_morph.c -o filters_morph.o
g++ -I/home/biocbuild/bbs-2.0-bioc/R/include -I/home/biocbuild/bbs-2.0-bioc/R/include  -I/usr/local/include   -Wall -O2 -fmessage-length=0 -Wall -D_FORTIFY_SOURCE=2 -g -fstack-protector -Wall -pthread -I/usr/include  -fpic  -g -O2 -Wall -c filters_propagate.cpp -o filters_propagate.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.0-bioc/R/include -I/home/biocbuild/bbs-2.0-bioc/R/include  -I/usr/local/include   -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/cairo -I/usr/include/freetype2 -I/usr/X11R6/include -I/usr/include/libpng12 -I/opt/gnome/include/gtk-2.0 -I/opt/gnome/lib64/gtk-2.0/include -I/opt/gnome/include/atk-1.0 -I/opt/gnome/include/pango-1.0 -I/opt/gnome/include/glib-2.0 -I/opt/gnome/lib64/glib-2.0/include   -Wall -O2 -fmessage-length=0 -Wall -D_FORTIFY_SOURCE=2 -g -fstack-protector -Wall -pthread -I/usr/include  -fpic  -g -O2 -Wall -c filters_thresh.c -o filters_thresh.o
g++ -I/home/biocbuild/bbs-2.0-bioc/R/include -I/home/biocbuild/bbs-2.0-bioc/R/include  -I/usr/local/include   -Wall -O2 -fmessage-length=0 -Wall -D_FORTIFY_SOURCE=2 -g -fstack-protector -Wall -pthread -I/usr/include  -fpic  -g -O2 -Wall -c filters_watershed.cpp -o filters_watershed.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.0-bioc/R/include -I/home/biocbuild/bbs-2.0-bioc/R/include  -I/usr/local/include   -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/cairo -I/usr/include/freetype2 -I/usr/X11R6/include -I/usr/include/libpng12 -I/opt/gnome/include/gtk-2.0 -I/opt/gnome/lib64/gtk-2.0/include -I/opt/gnome/include/atk-1.0 -I/opt/gnome/include/pango-1.0 -I/opt/gnome/include/glib-2.0 -I/opt/gnome/lib64/glib-2.0/include   -Wall -O2 -fmessage-length=0 -Wall -D_FORTIFY_SOURCE=2 -g -fstack-protector -Wall -pthread -I/usr/include  -fpic  -g -O2 -Wall -c io.c -o io.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.0-bioc/R/include -I/home/biocbuild/bbs-2.0-bioc/R/include  -I/usr/local/include   -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/cairo -I/usr/include/freetype2 -I/usr/X11R6/include -I/usr/include/libpng12 -I/opt/gnome/include/gtk-2.0 -I/opt/gnome/lib64/gtk-2.0/include -I/opt/gnome/include/atk-1.0 -I/opt/gnome/include/pango-1.0 -I/opt/gnome/include/glib-2.0 -I/opt/gnome/lib64/glib-2.0/include   -Wall -O2 -fmessage-length=0 -Wall -D_FORTIFY_SOURCE=2 -g -fstack-protector -Wall -pthread -I/usr/include  -fpic  -g -O2 -Wall -c object_counting.c -o object_counting.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.0-bioc/R/include -I/home/biocbuild/bbs-2.0-bioc/R/include  -I/usr/local/include   -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/cairo -I/usr/include/freetype2 -I/usr/X11R6/include -I/usr/include/libpng12 -I/opt/gnome/include/gtk-2.0 -I/opt/gnome/lib64/gtk-2.0/include -I/opt/gnome/include/atk-1.0 -I/opt/gnome/include/pango-1.0 -I/opt/gnome/include/glib-2.0 -I/opt/gnome/lib64/glib-2.0/include   -Wall -O2 -fmessage-length=0 -Wall -D_FORTIFY_SOURCE=2 -g -fstack-protector -Wall -pthread -I/usr/include  -fpic  -g -O2 -Wall -c tools.c -o tools.o
g++ -shared -L/usr/local/lib64 -o EBImage.so colors.o conversions.o display.o EBImage.o filters_distmap.o filters_magick.o filters_morph.o filters_propagate.o filters_thresh.o filters_watershed.o io.o object_counting.o tools.o -L/usr/X11R6/lib64 -L/opt/gnome/lib64 -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgdk_pixbuf-2.0 -lpangocairo-1.0 -lpango-1.0 -lcairo -lgobject-2.0 -lgmodule-2.0 -ldl -lglib-2.0 -lfreetype -lfontconfig -lXrender -lX11 -lXext -lpng12 -lz -lglitz -lm   -L/usr/lib64 -L/usr/lib64 -L/usr/X11R6/lib64 -lfreetype -lz -L/usr/lib -lMagick -llcms -ltiff -lfreetype -ljpeg -lXext -lSM -lICE -lX11 -lXt -lbz2 -lz -lpthread -lm -lpthread     -L/home/biocbuild/bbs-2.0-bioc/R/lib -lR
** R
** inst
** save image
** help
 >>> Building/Updating help pages for package 'EBImage'
     Formats: text html latex example 
  EBImage-package                   text    html    latex
  Image.generic.methods             text    html    latex
  channel                           text    html    latex   example
  class.Image                       text    html    latex   example
  constructors                      text    html    latex
  denoising                         text    html    latex
  display                           text    html    latex   example
  distmap                           text    html    latex   example
  enhancing                         text    html    latex
  getObjects                        text    html    latex   example
  input-output                      text    html    latex   example
  internals                         text    html    latex
  matchObjects                      text    html    latex
  morphology                        text    html    latex   example
  normalize                         text    html    latex   example
  paintObjects                      text    html    latex   example
  propagate                         text    html    latex   example
  rmObjects                         text    html    latex   example
  segmenting                        text    html    latex
  thresholding                      text    html    latex   example
  tile                              text    html    latex
  transformations                   text    html    latex
  watershed                         text    html    latex   example
** building package indices ...
* DONE (EBImage)