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BioC 2.14: BUILD report for HilbertVisGUI on morelia

This page was generated on 2014-10-08 09:03:48 -0700 (Wed, 08 Oct 2014).

Package 386/824HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
HilbertVisGUI 1.22.0
Simon Anders
Snapshot Date: 2014-10-07 17:20:37 -0700 (Tue, 07 Oct 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/HilbertVisGUI
Last Changed Rev: 88838 / Revision: 95116
Last Changed Date: 2014-04-11 14:07:21 -0700 (Fri, 11 Apr 2014)
zin2 Linux (Ubuntu 12.04.4 LTS) / x86_64  NotNeeded  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK  WARNINGS  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK  OK 
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded [ ERROR ] skipped  skipped 

Summary

Package: HilbertVisGUI
Version: 1.22.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data HilbertVisGUI
StartedAt: 2014-10-07 18:55:00 -0700 (Tue, 07 Oct 2014)
EndedAt: 2014-10-07 18:55:20 -0700 (Tue, 07 Oct 2014)
EllapsedTime: 20.3 seconds
RetCode: 1
Status:  ERROR 
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data HilbertVisGUI
###
##############################################################################
##############################################################################


* checking for file ‘HilbertVisGUI/DESCRIPTION’ ... OK
* preparing ‘HilbertVisGUI’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
      -----------------------------------
* installing *source* package ‘HilbertVisGUI’ ...
-n Checking for pkg-config... 
/usr/local/bin/pkg-config
-n Checking for gtkmm-2.4... 
found: version 2.24.2
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG `pkg-config gtkmm-2.4 --cflags` -DSO_NAME=HilbertVisGUI -DSO_NAME=HilbertVisGUI -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include   `pkg-config gtkmm-2.4 --cflags` -DSO_NAME=HilbertVisGUI -DSO_NAME=HilbertVisGUI -fPIC  -Wall -mtune=core2 -g -O2  -c R_env_prot.c -o R_env_prot.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG `pkg-config gtkmm-2.4 --cflags` -DSO_NAME=HilbertVisGUI -DSO_NAME=HilbertVisGUI -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c R_interface.cc -o R_interface.o
In file included from R_interface.cc:8:
In file included from ./display.h:7:
In file included from /Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/include/gtkmm-2.4/gtkmm.h:177:
In file included from /Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/include/gtkmm-2.4/gtkmm/pagesetup.h:28:
/Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/include/gtkmm-2.4/gtkmm/papersize.h:290:1: warning: 'PaperSizeTraits' defined as a struct here but previously declared as a class [-Wmismatched-tags]
struct PaperSizeTraits
^
/Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/include/gtkmm-2.4/gtkmm/papersize.h:35:1: note: did you mean struct here?
class PaperSizeTraits;
^˜˜˜˜
struct
R_interface.cc:509:11: warning: unused variable 'palette_level' [-Wunused-variable]
   double palette_level = log( REAL( max_palette_valueR )[ 0 ] ) / log( 10. ) * 4;
          ^
2 warnings generated.
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG `pkg-config gtkmm-2.4 --cflags` -DSO_NAME=HilbertVisGUI -DSO_NAME=HilbertVisGUI -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c colorizers.cc -o colorizers.o
In file included from colorizers.cc:1:
In file included from ./colorizers.h:6:
In file included from /Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/include/gtkmm-2.4/gtkmm.h:177:
In file included from /Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/include/gtkmm-2.4/gtkmm/pagesetup.h:28:
/Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/include/gtkmm-2.4/gtkmm/papersize.h:290:1: warning: 'PaperSizeTraits' defined as a struct here but previously declared as a class [-Wmismatched-tags]
struct PaperSizeTraits
^
/Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/include/gtkmm-2.4/gtkmm/papersize.h:35:1: note: did you mean struct here?
class PaperSizeTraits;
^˜˜˜˜
struct
1 warning generated.
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG `pkg-config gtkmm-2.4 --cflags` -DSO_NAME=HilbertVisGUI -DSO_NAME=HilbertVisGUI -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c display.cc -o display.o
In file included from display.cc:1:
In file included from ./display.h:7:
In file included from /Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/include/gtkmm-2.4/gtkmm.h:177:
In file included from /Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/include/gtkmm-2.4/gtkmm/pagesetup.h:28:
/Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/include/gtkmm-2.4/gtkmm/papersize.h:290:1: warning: 'PaperSizeTraits' defined as a struct here but previously declared as a class [-Wmismatched-tags]
struct PaperSizeTraits
^
/Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/include/gtkmm-2.4/gtkmm/papersize.h:35:1: note: did you mean struct here?
class PaperSizeTraits;
^˜˜˜˜
struct
1 warning generated.
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG `pkg-config gtkmm-2.4 --cflags` -DSO_NAME=HilbertVisGUI -DSO_NAME=HilbertVisGUI -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c ruler.cc -o ruler.o
In file included from ruler.cc:6:
In file included from ./ruler.h:4:
In file included from /Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/include/gtkmm-2.4/gtkmm.h:177:
In file included from /Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/include/gtkmm-2.4/gtkmm/pagesetup.h:28:
/Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/include/gtkmm-2.4/gtkmm/papersize.h:290:1: warning: 'PaperSizeTraits' defined as a struct here but previously declared as a class [-Wmismatched-tags]
struct PaperSizeTraits
^
/Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/include/gtkmm-2.4/gtkmm/papersize.h:35:1: note: did you mean struct here?
class PaperSizeTraits;
^˜˜˜˜
struct
1 warning generated.
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG `pkg-config gtkmm-2.4 --cflags` -DSO_NAME=HilbertVisGUI -DSO_NAME=HilbertVisGUI -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c window.cc -o window.o
In file included from window.cc:4:
In file included from ./window.h:5:
In file included from /Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/include/gtkmm-2.4/gtkmm.h:177:
In file included from /Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/include/gtkmm-2.4/gtkmm/pagesetup.h:28:
/Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/include/gtkmm-2.4/gtkmm/papersize.h:290:1: warning: 'PaperSizeTraits' defined as a struct here but previously declared as a class [-Wmismatched-tags]
struct PaperSizeTraits
^
/Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/include/gtkmm-2.4/gtkmm/papersize.h:35:1: note: did you mean struct here?
class PaperSizeTraits;
^˜˜˜˜
struct
1 warning generated.
clang++ -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o HilbertVisGUI.so R_env_prot.o R_interface.o colorizers.o display.o ruler.o window.o /usr/local/lib/libfontconfig.a -L/usr/local/lib -L/Library/Frameworks/GTK+.framework/Versions/2.24.X11/Resources/lib -lgtkmm-2.4 -latkmm-1.6 -lgdkmm-2.4 -lgiomm-2.4 -lpangomm-1.4 -lgtk-x11-2.0 -lglibmm-2.4 -lcairomm-1.0 -lsigc-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lcairo -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lintl -lfreetype -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /private/tmp/RtmpdJugWF/Rinst167ab36b4f5b2/HilbertVisGUI/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Error in dyn.load(file, DLLpath = DLLpath, ...) : 
  unable to load shared object '/private/tmp/RtmpdJugWF/Rinst167ab36b4f5b2/HilbertVisGUI/libs/HilbertVisGUI.so':
  dlopen(/private/tmp/RtmpdJugWF/Rinst167ab36b4f5b2/HilbertVisGUI/libs/HilbertVisGUI.so, 6): Symbol not found: __ZN3Gdk6Pixbuf4saveERKNSt3__112basic_stringIcNS1_11char_traitsIcEENS1_9allocatorIcEEEERKN4Glib7ustringE
  Referenced from: /private/tmp/RtmpdJugWF/Rinst167ab36b4f5b2/HilbertVisGUI/libs/HilbertVisGUI.so
  Expected in: flat namespace
 in /private/tmp/RtmpdJugWF/Rinst167ab36b4f5b2/HilbertVisGUI/libs/HilbertVisGUI.so

 | The package's DLL could not be loaded. Most likely this is
 | because you do not have 'gtkmm' installed on your system,
 | which is required by the package.
Error : .onLoad failed in loadNamespace() for 'HilbertVisGUI', details:
  call: failedToLoadDLL()
  error: Unknown value in .Platform$pkgType
Error: loading failed
Execution halted
ERROR: loading failed
* removing ‘/private/tmp/RtmpdJugWF/Rinst167ab36b4f5b2/HilbertVisGUI’
      -----------------------------------
ERROR: package installation failed