EBImage 2.6.0
Gregoire Pau
| Bioconductor Changelog | | Snapshot Date: 2009-04-18 11:27:48 -0700 (Sat, 18 Apr 2009) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_3/madman/Rpacks/EBImage | | Last Changed Rev: 34811 / Revision: 38965 | | Last Changed Date: 2008-10-21 15:32:58 -0700 (Tue, 21 Oct 2008) |
| wilson2 | Linux (openSUSE 11.1) / x86_64 | OK | [ WARNINGS ] | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | OK | OK |
| pitt | Mac OS X Tiger (10.4.11) / i386 | OK | OK | OK |
| pelham | Mac OS X Leopard (10.5.6) / i386 | OK | OK | OK |
* checking for working pdflatex ... OK
* using log directory '/loc/home/biocbuild/bbs-2.3-bioc/meat/EBImage.Rcheck'
* using R version 2.8.1 (2008-12-22)
* using session charset: UTF-8
* checking for file 'EBImage/DESCRIPTION' ... OK
* this is package 'EBImage' version '2.6.0'
* checking package name space information ... OK
* 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 ... WARNING
Xlib: extension "RANDR" missing on display ":4363.0".
See the information on DESCRIPTION files in the chapter 'Creating R
packages' of the 'Writing R Extensions' manual.
* checking S3 generic/method consistency ... WARNING
Xlib: extension "RANDR" missing on display ":4363.0".
See section 'Generic functions and methods' of the 'Writing R Extensions'
manual.
* checking replacement functions ... WARNING
Xlib: extension "RANDR" missing on display ":4363.0".
In R, the argument of a replacement function which corresponds to the right
hand side must be named 'value'.
* checking foreign function calls ... WARNING
Xlib: extension "RANDR" missing on display ":4363.0".
See the chapter 'System and foreign language interfaces' of the 'Writing R
Extensions' manual.
* checking R code for possible problems ... NOTE
Xlib: extension "RANDR" missing on display ":4363.0".
* checking Rd files ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... WARNING
Xlib: extension "RANDR" missing on display ":4363.0".
All user-level objects in a package should have documentation entries.
See the chapter 'Writing R documentation files' in manual 'Writing R
Extensions'.
* checking for code/documentation mismatches ... WARNING
Xlib: extension "RANDR" missing on display ":4363.0".
Xlib: extension "RANDR" missing on display ":4363.0".
Xlib: extension "RANDR" missing on display ":4363.0".
* checking Rd \usage sections ... NOTE
Xlib: extension "RANDR" missing on display ":4363.0".
The \usage entries for S3 methods should use the \method markup and not
their full name.
See the chapter 'Writing R documentation files' in manual 'Writing R
Extensions'.
* checking data for non-ASCII characters ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... 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 using pdflatex ... OK
WARNING: There were 6 warnings, see
/loc/home/biocbuild/bbs-2.3-bioc/meat/EBImage.Rcheck/00check.log
for details
* Installing *source* package 'EBImage' ...
checking for Magick-config... yes
* found ImageMagick version 6.4.3 Q16
* found ImageMagick includes in -I/usr/include/ImageMagick
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-2.3-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c colors.c -o colors.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c conversions.c -o conversions.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c display.c -o display.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c drawable.c -o drawable.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c EBImage.c -o EBImage.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c features_haralick.c -o features_haralick.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c features_hull.c -o features_hull.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c features_moments.c -o features_moments.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c features_zernike.c -o features_zernike.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c filters_distmap.c -o filters_distmap.o
g++ -I/home/biocbuild/bbs-2.3-bioc/R/include -I/usr/local/include -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c filters_floodfill.cpp -o filters_floodfill.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c filters_magick.c -o filters_magick.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c filters_morph.c -o filters_morph.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c filters_normalize.c -o filters_normalize.o
g++ -I/home/biocbuild/bbs-2.3-bioc/R/include -I/usr/local/include -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c filters_propagate.cpp -o filters_propagate.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c filters_thresh.c -o filters_thresh.o
g++ -I/home/biocbuild/bbs-2.3-bioc/R/include -I/usr/local/include -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c filters_watershed.cpp -o filters_watershed.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c frameDist.c -o frameDist.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c io.c -o io.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c objects.c -o objects.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -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 drawable.o EBImage.o features_haralick.o features_hull.o features_moments.o features_zernike.o filters_distmap.o filters_floodfill.o filters_magick.o filters_morph.o filters_normalize.o filters_propagate.o filters_thresh.o filters_watershed.o frameDist.o io.o objects.o tools.o -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lgdk_pixbuf-2.0 -lpangocairo-1.0 -lcairo -lpango-1.0 -lfreetype -lz -lfontconfig -lgobject-2.0 -lgmodule-2.0 -lglib-2.0 -L/usr/lib64 -L/usr/lib64 -lfreetype -lz -L/usr/lib64 -lMagickCore -L/usr/lib64 -lMagickWand -lMagickCore -L/home/biocbuild/bbs-2.3-bioc/R/lib -lR
** R
** data
** inst
** preparing package for lazy loading
** help
>>> Building/Updating help pages for package 'EBImage'
Formats: text html latex example
EBImage-deprecated text html latex
EBImage-package text html latex
Image.generic.methods text html latex
channel text html latex example
class.Image text html latex example
class.IndexedImage text html latex example
constructors text html latex example
denoising text html latex example
display text html latex example
distmap text html latex example
drawable text html latex example
enhancing text html latex
features-edge text html latex example
features-haralick text html latex example
features-hull text html latex example
features-moments text html latex example
features-zernike text html latex example
filter2 text html latex
floodfill text html latex example
frameDist text html latex
getFeatures 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
stackObjects text html latex example
thresholding text html latex example
tile text html latex example
transformations text html latex
watershed text html latex example
** building package indices ...
* DONE (EBImage)