On 3/28/12 10:40 AM, Alexander Hansen wrote:
> On 3/28/12 10:10 AM, Roy Mendelssohn wrote:
>> Hi All:
>>
>> In trying to build mayavi, I ran into problems with building vtk58.
>> I tried installing vtk58 separately, and it just hangs - I can't
>> really give you the error message, just the point where it hangs -
>> and doesn't budge.
>>
>> Basic info - OS X 10.7.3. Have the latest XCode that was just released.
>>
>> cc --version
>> Apple clang version 3.1 (tags/Apple/clang-318.0.54) (based on LLVM
>> 3.1svn)
>> Target: x86_64-apple-darwin11.3.0
>> Thread model: posix
>>
>> gcc --version
>> i686-apple-darwin11-llvm-gcc-4.2 (GCC) 4.2.1 (Based on Apple Inc.
>> build 5658) (LLVM build 2336.9.00)
>> Copyright (C) 2007 Free Software Foundation, Inc.
>> This is free software; see the source for copying conditions. There
>> is NO
>> warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR
>> PURPOSE.
>>
>> fink --version
>> Package manager version: 0.32.4.1
>> Distribution version: selfupdate-rsync Wed Mar 28 10:05:54 2012,
>> 10.7, x86_64
>> Trees: local/main stable/main
>>
>> Copyright (c) 2001 Christoph Pfisterer
>> Copyright (c) 2001-2012 The Fink Package Manager Team
>> This program is distributed in the hope that it will be useful,
>> but WITHOUT ANY WARRANTY; without even the implied warranty of
>> MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
>> GNU General Public License for more details.
>>
>> Below is the output leading up to where it hangs - the last line is
>> where (it doesn't move from 84%).
>>
>> Thanks for any help.
>>
>> -Roy M.
>>
>>
>> 1 warning generated.
>> Linking CXX shared library ../bin/libvtkChartsTCL.dylib
>> cd /sw/src/fink.build/vtk58-5.8.0-1/VTKBuild/Charts&& /sw/bin/cmake
>> -E cmake_link_script CMakeFiles/vtkChartsTCL.dir/link.txt --verbose=1
>> /sw/var/lib/fink/path-prefix-clang/c++ -g -dynamiclib
>> -Wl,-headerpad_max_install_names -L/sw/lib -compatibility_version
>> 5.8.0 -current_version 5.8.0 -o ../bin/libvtkChartsTCL.5.8.0.dylib
>> -install_name /sw/lib/vtk58/libvtkChartsTCL.5.8.dylib
>> CMakeFiles/vtkChartsTCL.dir/vtkAbstractContextItemTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkAxisTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkBlockItemTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkBrushTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkChartTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkChartLegendTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkChartHistogram2DTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkChartParallelCoordinatesTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkChartXYTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkChartPieTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkColorLegendTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkPlotPieTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkColorSeriesTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkColorTransferFunctionItemTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkColorTransferControlPointsItemTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkCompositeControlPointsItemTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkCompositeTransferFunctionItemTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkContext2DTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkContextActorTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkContextClipTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkContextDevice2DTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkContextInteractorStyleTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkContextItemTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkContextMapper2DTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkContextSceneTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkContextTransformTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkContextViewTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkControlPointsItemTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkImageItemTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkLookupTableItemTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkPenTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkPiecewiseControlPointsItemTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkPiecewiseFunctionItemTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkPlotTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkPlotBarTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkPlotGridTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkPlotHistogram2DTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkPlotLineTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkPlotStackedTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkPlotParallelCoordinatesTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkPlotPointsTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkScalarsToColorsItemTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkTooltipItemTcl.cxx.o
>> CMakeFiles/vtkChartsTCL.dir/vtkChartsTCLInit.cxx.o
>> ../bin/libvtkCharts.5.8.0.dylib ../bin/libvtkViewsTCL.5.8.0.dylib
>> /sw/lib/libtk.dylib /sw/lib/libtcl.dylib -lm
>> ../bin/libvtkViews.5.8.0.dylib ../bin/libvtkInfovisTCL.5.8.0.dylib
>> ../bin/libvtkInfovis.5.8.0.dylib ../bin/libvtkWidgetsTCL.5.8.0.dylib
>> ../bin/libvtkWidgets.5.8.0.dylib
>> ../bin/libvtkVolumeRendering.5.8.0.dylib
>> ../bin/libvtkHybridTCL.5.8.0.dylib
>> ../bin/libvtkRenderingTCL.5.8.0.dylib /sw/lib/libtk.dylib
>> ../bin/libvtkGraphicsTCL.5.8.0.dylib
>> ../bin/libvtkImagingTCL.5.8.0.dylib /usr/X11R6/lib/libSM.dylib
>> /usr/X11R6/lib/libICE.dylib /usr/X11R6/lib/libX11.dylib
>> /usr/X11R6/lib/libXext.dylib ../bin/libvtkHybrid.5.8.0.dylib
>> ../bin/libvtkParallel.5.8.0.dylib ../bin/libvtkRendering.5.8.0.dylib
>> ../bin/libvtkGraphics.5.8.0.dylib ../bin/libvtkImaging.5.8.0.dylib
>> ../bin/libvtkIOTCL.5.8.0.dylib ../bin/libvtkIO.5.8.0.dylib
>> ../bin/libvtkFilteringTCL.5.8.0.dylib
>> ../bin/libvtkFiltering.5.8.0.dylib ../bin/libvtkCommonTCL.5.8.0.dylib
>> /sw/lib/libtcl.dylib -lm ../bin/libvtkCommon.5.8.0.dylib
>> ../bin/libvtksys.5.8.0.dylib -lm
>> cd /sw/src/fink.build/vtk58-5.8.0-1/VTKBuild/Charts&& /sw/bin/cmake
>> -E cmake_symlink_library ../bin/libvtkChartsTCL.5.8.0.dylib
>> ../bin/libvtkChartsTCL.5.8.dylib ../bin/libvtkChartsTCL.dylib
>> /sw/bin/cmake -E cmake_progress_report
>> /sw/src/fink.build/vtk58-5.8.0-1/VTKBuild/CMakeFiles 6
>> [ 84%] Built target vtkChartsTCL
>>
>>
>>
> Unfortunately, I didn't reproduce the error--it failed at 7% rather
> than 84% for me, without getting tuck:
>
> cd /sw/src/fink.build/vtk58-5.8.0-1/VTKBuild/Common && /sw/bin/cmake
> -E touch
> /sw/src/fink.build/vtk58-5.8.0-1/VTKBuild/Common/vtkCommonHierarchy.target
> /sw/bin/cmake -E cmake_progress_report
> /sw/src/fink.build/vtk58-5.8.0-1/VTKBuild/CMakeFiles 7
> [ 7%] Built target vtkCommon
> make: *** [all] Error 2
> <snip>
> Package manager version: 0.32.4.1
> Distribution version: selfupdate-cvs Tue Mar 27 10:56:28 2012, 10.7,
> x86_64
> Trees: local/main stable/main local/injected
> Xcode: 4.3.2
> Max. Fink build jobs: 4
>
> $ sysctl hw.model
> hw.model: MacBookPro8,1
>
> I'll try my own advice and change the number of build jobs next :-) .
> I'll also cc the maintainer.
>
I found the following in the setup stage for the build:
perl -pi.bak -e 's|/usr/local|/sw|g' Wrapping/Tcl/vtkbase/vtkbase.tcl
Can't open Wrapping/Tcl/vtkbase/vtkbase.tcl: No such file or directory.
tar -tvf /sw/src/vtk-5.8.0.tar.gz | grep vtkbase.tcl
-rw-r--r-- kitware/kitware 3486 2011-08-24 06:37
VTK/Wrapping/Tcl/vtkbase/vtkbase.tcl.in
I also found the _real_ error in my case, which is the same regardless
of the number of build jobs (and much easier to find when setting the
number of jobs to 1):
Linking CXX shared library ../../../bin/libMapReduceMPI.dylib
cd /sw/src/fink.build/vtk58-5.8.0-1/VTKBuild/Utilities/mrmpi/src &&
/sw/bin/cmake -E cmake_link_script CMakeFiles/MapReduceMPI.dir/link.txt
--verbose=1
/sw/var/lib/fink/path-prefix-clang/c++ -g -dynamiclib
-Wl,-headerpad_max_install_names -L/sw/lib -compatibility_version
5.8.0 -current_version 5.8.0 -o ../../../bin/libMapReduceMPI.5.8.0.dylib
-install_name /sw/lib/vtk58/libMapReduceMPI.5.8.dylib
CMakeFiles/MapReduceMPI.dir/mapreduce.cpp.o
CMakeFiles/MapReduceMPI.dir/keyvalue.cpp.o
CMakeFiles/MapReduceMPI.dir/keymultivalue.cpp.o
CMakeFiles/MapReduceMPI.dir/irregular.cpp.o
CMakeFiles/MapReduceMPI.dir/hash.cpp.o
CMakeFiles/MapReduceMPI.dir/memory.cpp.o
CMakeFiles/MapReduceMPI.dir/error.cpp.o
../../../bin/libmpistubs.5.8.0.dylib ../../../bin/libvtksys.5.8.0.dylib
/sw/bin/cmake -E cmake_progress_report
/sw/src/fink.build/vtk58-5.8.0-1/VTKBuild/CMakeFiles
[ 5%] Undefined symbols for architecture x86_64:
"_MPI_Type_contiguous", referenced from:
MPI::Datatype::Create_contiguous(int) const in mapreduce.cpp.o
...
I do have openmpi installed:
$ fink list -it openmpi | cut -f1-3
i openmpi 1.5.4-1
i openmpi-ext-oct361 1.0.2-102
i openmpi-shlibs 1.5.4-1
vtk58 carries a BuildConflicts: openmpi-dev, but there's no openmpi-dev
on Lion due to the use of a newer and differently-factored package
scheme there:
$ fink list openmpi-dev
Information about 4592 packages read in 1 seconds.
I'll try removing openmpi to see if I reproduce Roy's error at that
point, and I'll follow up.
--
Alexander Hansen, Ph.D.
Fink User Liaison
http://finkakh.wordpress.com/2012/02/21/got-job/
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