EBImage 3.9.2
Gregoire Pau
| Snapshot Date: 2011-05-09 07:20:56 -0700 (Mon, 09 May 2011) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/EBImage | | Last Changed Rev: 55271 / Revision: 55359 | | Last Changed Date: 2011-05-05 09:21:07 -0700 (Thu, 05 May 2011) |
| wilson2 | Linux (openSUSE 11.4) / x86_64 | OK | [ OK ] | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | ERROR | skipped | skipped |
| gewurz | Windows Server 2008 R2 Enterprise (64-bit) / x64 | N O T S U P P O R T E D |
| pelham | Mac OS X Leopard (10.5.8) / i386 | N O T S U P P O R T E D |
* using log directory ‘/loc/home/biocbuild/bbs-2.9-bioc/meat/EBImage.Rcheck’
* using R version 2.14.0 Under development (unstable) (2011-04-18 r55504)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘EBImage/DESCRIPTION’ ... OK
* this is package ‘EBImage’ version ‘3.9.2’
* 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 installed package size ... NOTE
installed size is 5.4Mb
sub-directories of 1Mb or more:
images 1.7Mb
doc 2.8Mb
* 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 name space can be loaded with stated dependencies ... OK
* checking whether the name space 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 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) and $(LAPACK_LIBS) ... OK
* checking examples ... OK
* checking for unstated dependencies in tests ... OK
* checking tests ...
Running ‘test.R’
Comparing ‘test.Rout’ to ‘test.Rout.save’ ...5d4
< Xlib: extension "RANDR" missing on display ":25112.0".
166c165
< checking 'blur' ... OK (hash=49934830)
---
> checking 'blur' ... OK (hash=49934617)
222c221
< checking 'resize' ... OK (hash=214938067)
---
> checking 'resize' ... OK (hash=214938068)
228c227
< checking 'blur' ... OK (hash=37689843)
---
> checking 'blur' ... OK (hash=37689383)
257a257,258
> 3: In approx(x[, 2], x[, 1], xout = xout, n = n) :
> collapsing to unique 'x' values
283c284
< checking 'resize' ... OK (hash=2890111650)
---
> checking 'resize' ... OK (hash=2890111652)
290c291
< checking 'blur' ... OK (hash=521370799)
---
> checking 'blur' ... OK (hash=521369852)
292c293
< checking 'normalize' ... OK (hash=491794302)
---
> checking 'normalize' ... OK (hash=491794301)
306,308c307,309
< checking 'combine' ... OK (hash=5214602768)
< checking 'tile' ... OK (hash=10701043689)
< checking 'untile' ... OK (hash=11514959135)
---
> checking 'combine' ... OK (hash=5214602765)
> checking 'tile' ... OK (hash=10701043688)
> checking 'untile' ... OK (hash=11514959132)
322c323
< new test (hash=2261534013)
---
> new test (hash=2261534012)
340c341
< checking '+' ... OK (hash=4036640155)
---
> checking '+' ... OK (hash=4036640154)
344,348c345,349
< checking 'resize' ... OK (hash=12489520656)
< checking 'rotate' ... OK (hash=3723760786)
< checking 'flip' ... OK (hash=2283205999)
< checking 'flop' ... OK (hash=2261305961)
< checking 'translate' ... OK (hash=2264769851)
---
> checking 'resize' ... OK (hash=12489520632)
> checking 'rotate' ... OK (hash=3723760783)
> checking 'flip' ... OK (hash=2283205998)
> checking 'flop' ... OK (hash=2261305960)
> checking 'translate' ... OK (hash=2264769850)
351,353c352,354
< checking 'blur' ... OK (hash=2254283914)
< checking 'gblur' ... OK (hash=2260575569)
< checking 'normalize' ... OK (hash=2118652725)
---
> checking 'blur' ... OK (hash=2254280360)
> checking 'gblur' ... OK (hash=2260575565)
> checking 'normalize' ... OK (hash=2118652724)
367,369c368,370
< checking 'combine' ... OK (hash=21363016027)
< checking 'tile' ... OK (hash=20144415193)
< checking 'untile' ... OK (hash=21061933761)
---
> checking 'combine' ... OK (hash=21363016015)
> checking 'tile' ... OK (hash=20144415189)
> checking 'untile' ... OK (hash=21061933752)
374c375
< checking 'paintObjects' ... OK (hash=2299205034)
---
> checking 'paintObjects' ... OK (hash=2299205033)
390c391
< checking 'resize' ... OK (hash=1132892631)
---
> checking 'resize' ... OK (hash=1132892630)
397c398
< checking 'blur' ... OK (hash=203673238)
---
> checking 'blur' ... OK (hash=203672584)
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
* installing *source* package ‘EBImage’ ...
checking for Magick-config... yes
* found ImageMagick version 6.6.5 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-2.9-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -pthread -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/gdk-pixbuf-2.0 -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/libpng14 -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-2.9-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -pthread -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/gdk-pixbuf-2.0 -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/libpng14 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c conversions.c -o conversions.o
conversions.c: In function ‘magick2SEXP’:
conversions.c:148:17: warning: ‘DispatchImage’ is deprecated (declared at /usr/include/ImageMagick/magick/deprecate.h:266)
conversions.c:153:17: warning: ‘DispatchImage’ is deprecated (declared at /usr/include/ImageMagick/magick/deprecate.h:266)
conversions.c:155:17: warning: ‘DispatchImage’ is deprecated (declared at /usr/include/ImageMagick/magick/deprecate.h:266)
conversions.c:157:17: warning: ‘DispatchImage’ is deprecated (declared at /usr/include/ImageMagick/magick/deprecate.h:266)
conversions.c:162:17: warning: ‘DispatchImage’ is deprecated (declared at /usr/include/ImageMagick/magick/deprecate.h:266)
gcc -std=gnu99 -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -pthread -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/gdk-pixbuf-2.0 -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/libpng14 -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-2.9-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -pthread -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/gdk-pixbuf-2.0 -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/libpng14 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c distmap.c -o distmap.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -pthread -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/gdk-pixbuf-2.0 -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/libpng14 -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-2.9-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -pthread -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/gdk-pixbuf-2.0 -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/libpng14 -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-2.9-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -pthread -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/gdk-pixbuf-2.0 -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/libpng14 -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-2.9-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -pthread -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/gdk-pixbuf-2.0 -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/libpng14 -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-2.9-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -pthread -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/gdk-pixbuf-2.0 -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/libpng14 -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-2.9-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -pthread -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/gdk-pixbuf-2.0 -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/libpng14 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c filters_magick.c -o filters_magick.o
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c floodFill.cpp -o floodFill.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -pthread -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/gdk-pixbuf-2.0 -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/libpng14 -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-2.9-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -pthread -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/gdk-pixbuf-2.0 -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/libpng14 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c morphology.c -o morphology.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -pthread -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/gdk-pixbuf-2.0 -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/libpng14 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c normalize.c -o normalize.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -pthread -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/gdk-pixbuf-2.0 -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/libpng14 -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-2.9-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -pthread -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/gdk-pixbuf-2.0 -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/libpng14 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c ocontour.c -o ocontour.o
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c propagate.cpp -o propagate.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -pthread -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/gdk-pixbuf-2.0 -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/libpng14 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c thresh.c -o thresh.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -pthread -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/gdk-pixbuf-2.0 -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/libpng14 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c tile.c -o tile.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -pthread -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/gdk-pixbuf-2.0 -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/libpng14 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c tools.c -o tools.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -DUSE_GTK -DGLIB_GETTEXT -pthread -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/gdk-pixbuf-2.0 -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/libpng14 -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c translate.c -o translate.o
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -Wall -I/usr/include/ImageMagick -fopenmp -I/usr/include/ImageMagick -fpic -g -O2 -Wall -c watershed.cpp -o watershed.o
g++ -shared -L/usr/local/lib64 -o EBImage.so EBImage.o conversions.o display.o distmap.o drawable.o features_haralick.o features_hull.o features_moments.o features_zernike.o filters_magick.o floodFill.o io.o morphology.o normalize.o objects.o ocontour.o propagate.o thresh.o tile.o tools.o translate.o watershed.o -pthread -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lm -lcairo -lpng14 -lpango-1.0 -lfreetype -lfontconfig -lgobject-2.0 -lgmodule-2.0 -lgthread-2.0 -lrt -lglib-2.0 -L/usr/lib64 -L/usr/lib64 -L/usr/lib64 -lMagickCore -llcms -ltiff -lfreetype -ljpeg -lfontconfig -lXext -lSM -lICE -lX11 -lXt -lbz2 -lz -lm -lpthread -lltdl -L/usr/lib64 -lMagickWand -lMagickCore -llcms -ltiff -lfreetype -ljpeg -lfontconfig -lXext -lSM -lICE -lX11 -lXt -lbz2 -lz -lm -lpthread -lltdl -L/home/biocbuild/bbs-2.9-bioc/R/lib -lR
installing to /loc/home/biocbuild/bbs-2.9-bioc/meat/EBImage.Rcheck/EBImage/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
‘EBImage-installation.Rnw’
‘EBImage-introduction.Rnw’
** testing if installed package can be loaded
Xlib: extension "RANDR" missing on display ":25112.0".
* DONE (EBImage)