[Paraview] MILI reader still broken for me
Cook, Rich
cook47 at llnl.gov
Tue Jul 12 17:52:11 EDT 2011
I tried building this again with absolutely clean directory and got the same error.
On Jul 7, 2011, at 12:16 PM, Cook, Rich wrote:
> I got this error. Does it look familiar?
>
> make[2]: Entering directory `/nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView-3.11-build'
> /usr/gapps/visit/cmake/2.8.3/linux-x86_64_gcc-4.1/bin/cmake -E cmake_progress_report /nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView-3.11-build/CMakeFiles
> [ 27%] Building C object Utilities/IceT/src/communication/CMakeFiles/IceTMPI.dir/mpi.c.o
> cd /nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView-3.11-build/Utilities/IceT/src/communication && /usr/local/bin/mpicc -DIceTMPI_EXPORTS -DVTK_PYTHON_BUILD -DDEBUG -I/usr/global/tools/Kitware/Paraview/3.11/chaos_4_x86_64_ib/include -I/usr/gapps/visit/mili/1.10.0/linux-x86_64_gcc-4.1/include -g -fPIC -I/nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView/Utilities/IceT/src/communication -I/nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView-3.11-build -I/nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView-3.11-build/VTK/Utilities -I/usr/local/tools/mvapich-gnu/include -I/nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView/Utilities/IceT/src/include -I/nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView-3.11-build/Utilities/IceT/src/include -ansi -Wall -Wno-long-long -Wcast-align -Wextra -Wformat-security -Wshadow -Wunused -Wreturn-type -Wpointer-arith -Wdeclaration-after-statement -o CMakeFiles/IceTMPI.dir/mpi.c.o -c /nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView/Utilities/IceT/src/communication/mpi.c
> /nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView/Utilities/IceT/src/communication/mpi.c: In function 'Gather':
> /nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView/Utilities/IceT/src/communication/mpi.c:327: error: 'MPI_IN_PLACE' undeclared (first use in this function)
> /nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView/Utilities/IceT/src/communication/mpi.c:327: error: (Each undeclared identifier is reported only once
> /nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView/Utilities/IceT/src/communication/mpi.c:327: error: for each function it appears in.)
> /nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView/Utilities/IceT/src/communication/mpi.c: In function 'Gatherv':
> /nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView/Utilities/IceT/src/communication/mpi.c:348: error: 'MPI_IN_PLACE' undeclared (first use in this function)
> /nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView/Utilities/IceT/src/communication/mpi.c: In function 'Allgather':
> /nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView/Utilities/IceT/src/communication/mpi.c:366: error: 'MPI_IN_PLACE' undeclared (first use in this function)
> make[2]: *** [Utilities/IceT/src/communication/CMakeFiles/IceTMPI.dir/mpi.c.o] Error 1
> make[2]: Leaving directory `/nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView-3.11-build'
> make[1]: *** [Utilities/IceT/src/communication/CMakeFiles/IceTMPI.dir/all] Error 2
> make[1]: Leaving directory `/nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView-3.11-build'
> make: *** [all] Error 2
>
> On Jul 7, 2011, at 11:18 AM, Cook, Rich wrote:
>
>> I typed "make" to see what would happen and it seems to start over at square one. That's good. We'll see what happens
>>
>> On Jul 7, 2011, at 11:14 AM, Robert Maynard wrote:
>>
>>> Personally I would reconfigure and build in a new build directory.
>>>
>>> On Thu, Jul 7, 2011 at 2:14 PM, Cook, Rich <cook47 at llnl.gov> wrote:
>>>> Do I need to reconfigure or just type "make"? Sorry for my ignorance. CMake is really a mystery to me, although I'm starting to learn about it. Autoconf is so much easier for me to dig into when there is a problem.
>>>>
>>>> On Jul 7, 2011, at 11:07 AM, Robert Maynard wrote:
>>>>
>>>>> Hi Rich,
>>>>>
>>>>> By the output your VisItBridge submodule was out of date and didn't
>>>>> have all the fixes for Mili. If you rebuild you won't get that
>>>>> compilation error.
>>>>>
>>>>> On Thu, Jul 7, 2011 at 2:04 PM, Cook, Rich <cook47 at llnl.gov> wrote:
>>>>>> Hello, here you go...
>>>>>>
>>>>>> rcook at rzthriller1 (ParaView): git fetch origin --prune
>>>>>> error: unknown option `prune'
>>>>>> usage: git-fetch [options] [<repository> <refspec>...]
>>>>>>
>>>>>> -q, --quiet be quiet
>>>>>> -v, --verbose be verbose
>>>>>> -a, --append append to .git/FETCH_HEAD instead of overwriting
>>>>>> --upload-pack <PATH> path to upload pack on remote end
>>>>>> -f, --force force overwrite of local branch
>>>>>> -t, --tags fetch all tags and associated objects
>>>>>> -n do not fetch all tags (--no-tags)
>>>>>> -k, --keep keep downloaded pack
>>>>>> -u, --update-head-ok allow updating of HEAD ref
>>>>>> --depth <DEPTH> deepen history of shallow clone
>>>>>>
>>>>>> rcook at rzthriller1 (ParaView): git checkout master
>>>>>> Already on branch "master"
>>>>>> rcook at rzthriller1 (ParaView): git pull --rebase
>>>>>> remote: Counting objects: 885, done.
>>>>>> remote: Compressing objects: 100% (540/540), done.
>>>>>> remote: Total 770 (delta 364), reused 588 (delta 219)
>>>>>> Receiving objects: 100% (770/770), 678.31 KiB | 461 KiB/s, done.
>>>>>> Resolving deltas: 100% (364/364), completed with 77 local objects.
>>>>>> From git://paraview.org/ParaView
>>>>>> 1b43d51..ec28b2f next -> origin/next
>>>>>> 1b43d51..af500f9 nightly-next -> origin/nightly-next
>>>>>> First, rewinding head to replay your work on top of it...
>>>>>> HEAD is now at c01fb17... Merge topic '12117-eye-dome-lighting-without-qt'
>>>>>> Fast-forwarded master to c01fb174becd7d134c1ab9936022d6d03ce4962e.
>>>>>> rcook at rzthriller1 (ParaView): git submodule update
>>>>>> remote: Counting objects: 50, done.
>>>>>> remote: Compressing objects: 100% (21/21), done.
>>>>>> remote: Total 40 (delta 21), reused 36 (delta 19)
>>>>>> Unpacking objects: 100% (40/40), done.
>>>>>> From git://paraview.org/QtTesting
>>>>>> c85cca3..943b05d master -> origin/master
>>>>>> Submodule path 'Qt/Testing': checked out '50c491298f6a769416e151d65b1d92960decac72'
>>>>>> remote: Counting objects: 409, done.
>>>>>> remote: Compressing objects: 100% (109/109), done.
>>>>>> remote: Total 333 (delta 228), reused 329 (delta 224)
>>>>>> Receiving objects: 100% (333/333), 142.63 KiB, done.
>>>>>> Resolving deltas: 100% (228/228), completed with 19 local objects.
>>>>>> From git://paraview.org/IceT
>>>>>> 9b6039e..f69997c master -> origin/master
>>>>>> 9a4daa8..3279f16 release -> origin/release
>>>>>> From git://paraview.org/IceT
>>>>>> * [new tag] IceT-2.0.1 -> IceT-2.0.1
>>>>>> * [new tag] IceT-2.1-Root -> IceT-2.1-Root
>>>>>> Submodule path 'Utilities/IceT': checked out '3279f16774597d4dbf55bfc3aef4ecff3aba77b0'
>>>>>> remote: Counting objects: 71, done.
>>>>>> remote: Compressing objects: 100% (29/29), done.
>>>>>> remote: Total 45 (delta 18), reused 43 (delta 16)
>>>>>> Unpacking objects: 100% (45/45), done.
>>>>>> From git://paraview.org/VisItBridge
>>>>>> 37e94d7..db2dfbd master -> origin/master
>>>>>> Submodule path 'Utilities/VisItBridge': checked out 'db2dfbd0b6c3fcb36e57dfcdeca486d1f5191e71'
>>>>>> remote: Counting objects: 7, done.
>>>>>> remote: Compressing objects: 100% (4/4), done.
>>>>>> remote: Total 4 (delta 2), reused 2 (delta 0)
>>>>>> Unpacking objects: 100% (4/4), done.
>>>>>> From git://public.kitware.com/protobuf
>>>>>> 0628967..342ac94 master -> origin/master
>>>>>> Submodule path 'Utilities/protobuf': checked out '342ac94fcf248d65212426c311aa2bd53f390121'
>>>>>> remote: Counting objects: 5971, done.
>>>>>> remote: Compressing objects: 100% (2059/2059), done.
>>>>>> remote: Total 5256 (delta 3601), reused 4743 (delta 3194)
>>>>>> Receiving objects: 100% (5256/5256), 3.04 MiB | 1955 KiB/s, done.
>>>>>> Resolving deltas: 100% (3601/3601), completed with 254 local objects.
>>>>>> From git://vtk.org/VTK
>>>>>> 04dd589..1a9b159 master -> origin/master
>>>>>> da5e931..0b5e21a nightly-master -> origin/nightly-master
>>>>>> d8d75fe..acf133c release -> origin/release
>>>>>> Submodule path 'VTK': checked out '03fe5d12b29b2e0c21f58001266beff06d3aa51e'
>>>>>> rcook at rzthriller1 (ParaView): git status
>>>>>> # On branch master
>>>>>> # Untracked files:
>>>>>> # (use "git add <file>..." to include in what will be committed)
>>>>>> #
>>>>>> # build/
>>>>>> nothing added to commit but untracked files present (use "git add" to track)
>>>>>>
>>>>>>
>>>>>>
>>>>>> On Jul 7, 2011, at 7:06 AM, Robert Maynard wrote:
>>>>>>
>>>>>>> Hi Rich,
>>>>>>>
>>>>>>> It looks like your VisItBridge submodule is not up to date, so could
>>>>>>> you run the following commands in the root of your source directory
>>>>>>> for me and return me the results?
>>>>>>>
>>>>>>> git fetch origin --prune
>>>>>>> git checkout master
>>>>>>> git pull --rebase
>>>>>>> git submodule update
>>>>>>> git status
>>>>>>>
>>>>>>>
>>>>>>> On Tue, Jul 5, 2011 at 9:17 PM, Cook, Rich <cook47 at llnl.gov> wrote:
>>>>>>>> Hi, regarding bug 12292 http://paraview.org/Bug/view.php?id=12292
>>>>>>>>
>>>>>>>> I tried building the latest from git and got an error. I included the CMakeCache.txt file online.
>>>>>>>>
>>>>>>>>
>>>>>>>> ======================================================================
>>>>>>>> The essential bits are:
>>>>>>>>
>>>>>>>> CMAKE_CXX_COMPILER:FILEPATH=/usr/local/bin/mpiCC
>>>>>>>> CMAKE_C_COMPILER:FILEPATH=/usr/local/bin/mpicc
>>>>>>>> CMAKE_INSTALL_PREFIX:PATH=/usr/global/tools/Kitware/Paraview/3.11/chaos_4_x86_64_ib
>>>>>>>>
>>>>>>>> PARAVIEW_USE_MPI:BOOL=ON
>>>>>>>> PARAVIEW_USE_BOOST:BOOL=ON
>>>>>>>> PARAVIEW_USE_VISITBRIDGE:BOOL=ON
>>>>>>>> VISIT_BUILD_READER_CGNS:BOOL=ON
>>>>>>>> VISIT_BUILD_READER_Mili:BOOL=ON
>>>>>>>> VISIT_BUILD_READER_Silo:BOOL=ON
>>>>>>>>
>>>>>>>> CGNS_INCLUDE_DIR:PATH=/usr/gapps/visit/cgns/3.0.8/linux-x86_64_gcc-4.1/include
>>>>>>>> CGNS_LIBRARY:FILEPATH=/usr/gapps/visit/cgns/3.0.8/linux-x86_64_gcc-4.1/lib/libcgns.a;/usr/gapps/visit/szip/2.1/linux-x86_64_gcc-4.1/lib/libsz.a;/usr/lib64/libz.so
>>>>>>>>
>>>>>>>> MILI_INCLUDE_DIR:PATH=/usr/gapps/visit/mili/1.10.0/linux-x86_64_gcc-4.1/include
>>>>>>>> MILI_LIBRARY:FILEPATH=/usr/gapps/visit/mili/1.10.0/linux-x86_64_gcc-4.1/lib/libmili.a;/usr/gapps/visit/szip/2.1/linux-x86_64_gcc-4.1/lib/libsz.a;/usr/lib64/libz.so
>>>>>>>>
>>>>>>>> SILO_INCLUDE_DIR:PATH=/usr/gapps/visit/silo/4.8/linux-x86_64_gcc-4.1/include;/usr/gapps/visit/mili/1.10.0/linux-x86_64_gcc-4.1/include
>>>>>>>> SILO_LIBRARY:FILEPATH=/usr/gapps/visit/silo/4.8/linux-x86_64_gcc-4.1/lib/libsiloh5.a;/usr/gapps/visit/szip/2.1/linux-x86_64_gcc-4.1/lib/libsz.a;/usr/lib64/libz.so
>>>>>>>>
>>>>>>>> Boost_INCLUDE_DIR:PATH=/nfs/tmp2/rcook/ParaView/3.11/build/boost_1_46_1
>>>>>>>> Boost_LIBRARY_DIRS:FILEPATH=/nfs/tmp2/rcook/ParaView/3.11/build/boost_1_46_1/stage/lib
>>>>>>>>
>>>>>>>> CMAKE_VERBOSE_MAKEFILE:BOOL=TRUE
>>>>>>>>
>>>>>>>> CMAKE_CXX_FLAGS:STRING=' -I/usr/global/tools/Kitware/Paraview/3.11/chaos_4_x86_64_ib/include -I/usr/gapps/visit/mili/1.10.0/linux-x86_64_gcc-4.1/include '
>>>>>>>> CMAKE_C_FLAGS:STRING=' -I/usr/global/tools/Kitware/Paraview/3.11/chaos_4_x86_64_ib/include -I/usr/gapps/visit/mili/1.10.0/linux-x86_64_gcc-4.1/include '
>>>>>>>>
>>>>>>>> VTK_USE_SYSTEM_HDF5:BOOL=ON
>>>>>>>> HDF5_C_INCLUDE_DIR:PATH=/usr/gapps/visit/hdf5/1.8.4/linux-x86_64_gcc-4.1/include
>>>>>>>> HDF5_INCLUDE_DIR:PATH=/usr/gapps/visit/hdf5/1.8.4/linux-x86_64_gcc-4.1/include
>>>>>>>> HDF5_LIBRARY:FILEPATH=/usr/gapps/visit/hdf5/1.8.4/linux-x86_64_gcc-4.1/lib/libhdf5.a;/usr/gapps/visit/szip/2.1/linux-x86_64_gcc-4.1/lib/libsz.a;/usr/lib64/libz.so
>>>>>>>> HDF5_hdf5_LIBRARY:FILEPATH=/usr/gapps/visit/hdf5/1.8.4/linux-x86_64_gcc-4.1/lib/libhdf5.a;/usr/gapps/visit/szip/2.1/linux-x86_64_gcc-4.1/lib/libsz.a;/usr/lib64/libz.so
>>>>>>>> HDF5_hdf5_LIBRARY:FILEPATH=/usr/gapps/visit/hdf5/1.8.4/linux-x86_64_gcc-4.1/lib/libhdf5.a;/usr/gapps/visit/szip/2.1/linux-x86_64_gcc-4.1/lib/libsz.a;/usr/lib64/libz.so
>>>>>>>> HDF5_hdf5_LIBRARY_DEBUG:FILEPATH=/usr/gapps/visit/hdf5/1.8.4/linux-x86_64_gcc-4.1/lib/libhdf5.a;/usr/gapps/visit/szip/2.1/linux-x86_64_gcc-4.1/lib/libsz.a;/usr/lib64/libz.so
>>>>>>>> HDF5_hdf5_LIBRARY_RELEASE:FILEPATH=/usr/gapps/visit/hdf5/1.8.4/linux-x86_64_gcc-4.1/lib/libhdf5.a;/usr/gapps/visit/szip/2.1/linux-x86_64_gcc-4.1/lib/libsz.a;/usr/lib64/libz.so
>>>>>>>> HDF5_ENABLE_SZIP_SUPPORT:BOOL=ON
>>>>>>>>
>>>>>>>>
>>>>>>>> BUILD_SHARED_LIBS:BOOL=ON
>>>>>>>> CMAKE_INSTALL_RPATH_USE_LINK_PATH:BOOL=ON
>>>>>>>>
>>>>>>>>
>>>>>>>> ======================================================================
>>>>>>>> RESULTING ERROR:
>>>>>>>>
>>>>>>>> [ 36%] Building CXX object [ 33%] Building CXX object Utilities/VisItBridge/databases/CMakeFiles/vtkVisItDatabases.dir/Mili/avtMiliFileFormat.C.o
>>>>>>>> /nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView/Utilities/VisItBridge/databases/Mili/avtMiliFileFormat.C: In member function 'void avtMiliFileFormat::ReadMesh(int)':
>>>>>>>> /nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView/Utilities/VisItBridge/databases/Mili/avtMiliFileFormat.C:1296: error: no matching function for call to 'avtMiliFileFormat::ConstructMaterials(std::vector<std::vector<vtkIdType*, std::allocator<vtkIdType*> >, std::allocator<std::vector<vtkIdType*, std::allocator<vtkIdType*> > > >&, std::vector<std::vector<int, std::allocator<int> >, std::allocator<std::vector<int, std::allocator<int> > > >&, int&)'
>>>>>>>> /nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView/Utilities/VisItBridge/databases/Mili/avtMiliFileFormat.h:183: note: candidates are: avtMaterial* avtMiliFileFormat::ConstructMaterials(std::vector<std::vector<int*, std::allocator<int*> >, std::allocator<std::vector<int*, std::allocator<int*> > > >&, std::vector<std::vector<int, std::allocator<int> >, std::allocator<std::vector<int, std::allocator<int> > > >&, int)
>>>>>>>> gmake[2]: *** [Utilities/VisItBridge/databases/CMakeFiles/vtkVisItDatabases.dir/Mili/avtMiliFileFormat.C.o] Error 1
>>>>>>>> gmake[2]: Leaving directory `/nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView-3.11-build'
>>>>>>>> gmake[1]: *** [Utilities/VisItBridge/databases/CMakeFiles/vtkVisItDatabases.dir/all] Error 2
>>>>>>>> gmake[1]: Leaving directory `/nfs/tmp2/rcook/ParaView/3.11/build/ParaView-311-clone/ParaView-3.11-build'
>>>>>>>> gmake: *** [all] Error 2
>>>>>>>>
>>>>>>>> --
>>>>>>>> ✐Richard Cook
>>>>>>>> ✇ Lawrence Livermore National Laboratory
>>>>>>>> Bldg-453 Rm-4024, Mail Stop L-557
>>>>>>>> 7000 East Avenue, Livermore, CA, 94550, USA
>>>>>>>> ☎ (office) (925) 423-9605
>>>>>>>> ☎ (fax) (925) 423-6961
>>>>>>>> ---
>>>>>>>> Information Management & Graphics Grp., Services & Development Div., Integrated Computing & Communications Dept.
>>>>>>>> (opinions expressed herein are mine and not those of LLNL)
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> _______________________________________________
>>>>>>>> Powered by www.kitware.com
>>>>>>>>
>>>>>>>> Visit other Kitware open-source projects at http://www.kitware.com/opensource/opensource.html
>>>>>>>>
>>>>>>>> Please keep messages on-topic and check the ParaView Wiki at: http://paraview.org/Wiki/ParaView
>>>>>>>>
>>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>>> http://www.paraview.org/mailman/listinfo/paraview
>>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> --
>>>>>>> Robert Maynard
>>>>>>
>>>>>> --
>>>>>> ✐Richard Cook
>>>>>> ✇ Lawrence Livermore National Laboratory
>>>>>> Bldg-453 Rm-4024, Mail Stop L-557
>>>>>> 7000 East Avenue, Livermore, CA, 94550, USA
>>>>>> ☎ (office) (925) 423-9605
>>>>>> ☎ (fax) (925) 423-6961
>>>>>> ---
>>>>>> Information Management & Graphics Grp., Services & Development Div., Integrated Computing & Communications Dept.
>>>>>> (opinions expressed herein are mine and not those of LLNL)
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>
>>>>>
>>>>>
>>>>> --
>>>>> Robert Maynard
>>>>
>>>> --
>>>> ✐Richard Cook
>>>> ✇ Lawrence Livermore National Laboratory
>>>> Bldg-453 Rm-4024, Mail Stop L-557
>>>> 7000 East Avenue, Livermore, CA, 94550, USA
>>>> ☎ (office) (925) 423-9605
>>>> ☎ (fax) (925) 423-6961
>>>> ---
>>>> Information Management & Graphics Grp., Services & Development Div., Integrated Computing & Communications Dept.
>>>> (opinions expressed herein are mine and not those of LLNL)
>>>>
>>>>
>>>>
>>>>
>>>
>>>
>>>
>>> --
>>> Robert Maynard
>>
>> --
>> ✐Richard Cook
>> ✇ Lawrence Livermore National Laboratory
>> Bldg-453 Rm-4024, Mail Stop L-557
>> 7000 East Avenue, Livermore, CA, 94550, USA
>> ☎ (office) (925) 423-9605
>> ☎ (fax) (925) 423-6961
>> ---
>> Information Management & Graphics Grp., Services & Development Div., Integrated Computing & Communications Dept.
>> (opinions expressed herein are mine and not those of LLNL)
>>
>>
>>
>
> --
> ✐Richard Cook
> ✇ Lawrence Livermore National Laboratory
> Bldg-453 Rm-4024, Mail Stop L-557
> 7000 East Avenue, Livermore, CA, 94550, USA
> ☎ (office) (925) 423-9605
> ☎ (fax) (925) 423-6961
> ---
> Information Management & Graphics Grp., Services & Development Div., Integrated Computing & Communications Dept.
> (opinions expressed herein are mine and not those of LLNL)
>
>
>
--
✐Richard Cook
✇ Lawrence Livermore National Laboratory
Bldg-453 Rm-4024, Mail Stop L-557
7000 East Avenue, Livermore, CA, 94550, USA
☎ (office) (925) 423-9605
☎ (fax) (925) 423-6961
---
Information Management & Graphics Grp., Services & Development Div., Integrated Computing & Communications Dept.
(opinions expressed herein are mine and not those of LLNL)
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