[Trilinos-Users] [EXTERNAL] Re: Trilinos Compilation Error on Linux
Sai P Uppati
uppatis at utexas.edu
Tue Jun 7 13:57:50 EDT 2016
Hello everyone,
I feel somewhat stupid for not trying this earlier on, but I just didn't
think to do it. But Andrew's suggestion to add the c99 flag to the c
compiler seems to have done the trick.
I'm not getting an error any longer, and the compilation process is at 94%
now. WOOHOO! I appreciate all the help and input everyone has offered here.
Thank you.
Sai
On Tue, Jun 7, 2016 at 12:43 PM, Bradley, Andrew Michael <ambradl at sandia.gov
> wrote:
> I might be wrong, but I think the warning/error difference is a red
> herring; it really is just a matter of accepting C99-style comments.
>
>
> The warnings have to do with text following a preprocessor directive,
> i.e., a #. The error is for a line of code (not preprocessor directive). To
> illustrate:
>
>
> #include <stdio.h> /* no warning; this style of comment is accepted after
> a preproc directive */
> #include <stdio.h> stuff /* warning: extra tokens */
> #include <stdio.h> // warning: extra tokens; nothing to do with // in
> particular; see above line
>
> // int i = 3; /* error: wrong style of comment */
>
>
> The above compiles with cc -std=c99 but not with cc -std=c89.
>
>
> ------------------------------
> *From:* Sjaardema, Gregory D
> *Sent:* Tuesday, June 7, 2016 11:34 AM
> *To:* Sai P Uppati; Bradley, Andrew Michael
> *Cc:* trilinos-users at trilinos.org; Bartlett, Roscoe A; John T. Foster;
> Heroux, Michael A
> *Subject:* Re: [Trilinos-Users] [EXTERNAL] Re: Trilinos Compilation Error
> on Linux
>
>
> Although an non-optimal solution, it should get you working --- edit /home/de566876/projects/netcdf/include/netcdf.h
> and delete line 1951 which should b “//EXTERNL int nc_finalize()”. This
> line is not needed and is causing the compilation to fail. I’m not sure
> which compiler option is causing the error, but the rest of the complaints
> about ‘//’ style comments are only warnings; this one is causing an error
> (due to the missing space between the ‘//’ and the ‘E’). Deleting the line
> should get you going.
>
>
>
> ..Greg
>
>
>
>
>
> --
>
> "A supercomputer is a device for turning compute-bound problems into
> I/O-bound problems”
>
>
>
> *From: *Trilinos-Users <trilinos-users-bounces at trilinos.org> on behalf of
> Sai P Uppati <uppatis at utexas.edu>
> *Date: *Tuesday, June 7, 2016 at 12:43 PM
> *To: *"Bradley, Andrew Michael" <ambradl at sandia.gov>
> *Cc: *"trilinos-users at trilinos.org" <trilinos-users at trilinos.org>,
> "Bartlett, Roscoe A" <rabartl at sandia.gov>, "John T. Foster" <
> jfoster at austin.utexas.edu>, "Heroux, Michael A" <maherou at sandia.gov>
> *Subject: *Re: [Trilinos-Users] [EXTERNAL] Re: Trilinos Compilation Error
> on Linux
>
>
>
> Andrew,
>
>
>
> There were newer versions of gcc available, and I loaded version 4.7.3. So icpc
> -v returns:
>
>
>
> icpc version 16.0.2 (gcc version 4.7.3 compatibility)
>
>
>
> But I'm still getting the error during compilation:
>
>
>
> [ 1%] Building C object
> packages/zoltan/src/CMakeFiles/zoltan.dir/lb/lb_eval.c.o
>
> /home/de566876/source_codes/Trilinos/packages/seacas/libraries/exodus/src/ex_add_attr.c(35):
> warning #14: extra text after expected end of preprocessing directive
>
> #include "exodusII.h" // for ex_err, exerrval, etc
>
> ^
>
>
>
> In file included from
> /home/de566876/source_codes/Trilinos/packages/seacas/libraries/exodus/include/exodusII.h(46),
>
> from
> /home/de566876/source_codes/Trilinos/packages/seacas/libraries/exodus/src/ex_add_attr.c(35):
>
> /home/de566876/projects/netcdf/include/netcdf.h(1951): error: expected a
> declaration
>
> //EXTERNL int nc_finalize();
>
> ^
>
>
>
> /home/de566876/source_codes/Trilinos/packages/seacas/libraries/exodus/src/ex_add_attr.c(36):
> warning #14: extra text after expected end of preprocessing directive
>
> #include "exodusII_int.h" // for EX_FATAL, EX_NOERR, EX_WARN, etc
>
> ^
>
>
>
> /home/de566876/source_codes/Trilinos/packages/seacas/libraries/exodus/src/ex_add_attr.c(37):
> warning #14: extra text after expected end of preprocessing directive
>
> #include "netcdf.h" // for NC_NOERR, nc_def_var, etc
>
> ^
>
>
>
> /home/de566876/source_codes/Trilinos/packages/seacas/libraries/exodus/src/ex_add_attr.c(38):
> warning #14: extra text after expected end of preprocessing directive
>
> #include <inttypes.h> // for PRId64
>
> ^
>
>
>
> /home/de566876/source_codes/Trilinos/packages/seacas/libraries/exodus/src/ex_add_attr.c(39):
> warning #14: extra text after expected end of preprocessing directive
>
> #include <stddef.h> // for size_t
>
> ^
>
>
>
> /home/de566876/source_codes/Trilinos/packages/seacas/libraries/exodus/src/ex_add_attr.c(41):
> warning #14: extra text after expected end of preprocessing directive
>
> #include <string.h> // for strlen
>
> ^
>
>
>
> /home/de566876/source_codes/Trilinos/packages/seacas/libraries/exodus/src/ex_add_attr.c(42):
> warning #14: extra text after expected end of preprocessing directive
>
> #include <sys/types.h> // for int64_t
>
> ^
>
>
>
> compilation aborted for
> /home/de566876/source_codes/Trilinos/packages/seacas/libraries/exodus/src/ex_add_attr.c
> (code 2)
>
> make[2]: ***
> [packages/seacas/libraries/exodus/CMakeFiles/exodus.dir/src/ex_add_attr.c.o]
> Error 2
>
> make[1]: *** [packages/seacas/libraries/exodus/CMakeFiles/exodus.dir/all]
> Error 2
>
> make[1]: *** Waiting for unfinished jobs....
>
>
>
> There is a newer version of gcc/4.9.3 also, but I doubt that would help;
> 4.7.3 should be sufficient, right?
>
>
>
> Sai
>
>
>
> On Tue, Jun 7, 2016 at 11:27 AM, Bradley, Andrew Michael <
> ambradl at sandia.gov> wrote:
>
> Hi Sai,
>
>
>
> Thanks.
>
>
>
> At least one problem is evident. This line:
>
>
>
> icpc version 16.0.2 (gcc version 4.4.7 compatibility)
>
>
> indicates that the headers that icpc is using correspond to gcc version
> 4.4.7. Trilinos requires version >= 4.7.2. As your sys admin how to load
> the right gcc. If you use module, you might do something like:
>
> $ module clear; module load compiler/intel/16.0.2 compiler/gcc/4.7.2
>
>
>
> Here I've just guessed at what the intel and gcc modules are called. When
> you've succeeded, icpc -v should show something like
>
>
>
> icpc version 16.0.2 (gcc version 4.7.2 compatibility)
>
>
>
> Cheers,
>
> Andrew
>
>
> ------------------------------
>
> *From:* Sai P Uppati <uppatis at utexas.edu>
> *Sent:* Tuesday, June 7, 2016 10:16 AM
> *To:* Bradley, Andrew Michael
> *Cc:* Heroux, Michael A; Bartlett, Roscoe A; John T. Foster;
> trilinos-users at trilinos.org
> *Subject:* Re: [EXTERNAL] Re: [Trilinos-Users] Trilinos Compilation Error
> on Linux
>
>
>
> Andrew,
>
>
>
> Here is the output:
>
>
>
> icpc
>
> icpc -I/software/openmpi/PBS/1.10.2/intel_16/include -pthread
> -L/software/PBSpro/default//lib -Wl,-rpath
> -Wl,/software/PBSpro/default//lib -Wl,-rpath
> -Wl,/software/openmpi/PBS/1.10.2/intel_16/lib -Wl,--enable-new-dtags
> -L/software/openmpi/PBS/1.10.2/intel_16/lib -lmpi_cxx -lmpi
>
> icpc version 16.0.2 (gcc version 4.4.7 compatibility)
>
>
>
> From this output, it seems to me that the intel compilers are not too
> outdated and that mpicxx is correctly wrapping icpc.
>
>
>
> Sai
>
>
>
>
>
> On Tue, Jun 7, 2016 at 10:38 AM, Bradley, Andrew Michael <
> ambradl at sandia.gov> wrote:
>
> Hi Sai,
>
>
>
> I got lost in the details. Let's make sure that the current setup is
> correct. Can you run these three commands and report the output?
>
>
>
> echo $OMPI_CXX; mpicxx -show; icpc -v
>
>
>
> Andrew
>
>
>
>
> ------------------------------
>
> *From:* Trilinos-Users <trilinos-users-bounces at trilinos.org> on behalf of
> Sai P Uppati <uppatis at utexas.edu>
> *Sent:* Tuesday, June 7, 2016 7:25 AM
> *To:* Heroux, Michael A
> *Cc:* Bartlett, Roscoe A; John T. Foster; trilinos-users at trilinos.org
>
>
> *Subject:* [EXTERNAL] Re: [Trilinos-Users] Trilinos Compilation Error on
> Linux
>
>
>
> Mike, John and Ross,
>
>
>
> I don't believe the problem in this case is mixing up the c and c++
> compilers. I used the verbose option during the compilation of trilinos. I
> see that mpicc is being used for .c files and mpicxx is being used for .cpp
> appropriately during the compilation. I also know, as I have checked, that
> mpicc and mpicxx are correctly wrapping icc and icpc, respectively. But I
> still end up getting these errors:
>
>
>
> [ 0%] Building CXX object
> packages/kokkos/core/src/CMakeFiles/kokkoscore.dir/impl/KokkosExp_SharedAlloc.cpp.o
>
> cd /home/de566876/source_codes/Trilinos/build/packages/kokkos/core/src &&
> /home/de566876/projects/openmpi-1.10.2/bin/mpicxx -Dkokkoscore_EXPORTS
> -I/home/de566876/source_codes/Trilinos/build
> -I/home/de566876/source_codes/Trilinos/build/packages/kokkos/core/src
> -I/home/de566876/source_codes/Trilinos/packages/kokkos/core/src -std=c++11
> -O2 -Wall -ansi -Wno-long-long -fp-model precise -fp-model source -ip
> -xHost
> -I/software/comp_intel/parallel_studio_xe_2016_update2/compilers_and_libraries_2016.2.181/linux/mkl/include
> -I/home/de566876/projects/netcdf/include -std=c++11 -O3 -DNDEBUG -fPIC -o
> CMakeFiles/kokkoscore.dir/impl/KokkosExp_SharedAlloc.cpp.o -c
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_SharedAlloc.cpp
>
> In file included from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/KokkosExp_View.hpp(53),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_View.hpp(2104),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Parallel.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Serial.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Core.hpp(53),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_SharedAlloc.cpp(44):
>
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_HostSpace.hpp(160):
> error: invalid type for defaulted constructor
>
> HostSpace( HostSpace && rhs ) = default ;
>
> ^
>
>
>
> In file included from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/KokkosExp_View.hpp(53),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_View.hpp(2104),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Parallel.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Serial.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Core.hpp(53),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_SharedAlloc.cpp(44):
>
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_HostSpace.hpp(162):
> error: invalid type for defaulted assignment operator
>
> HostSpace & operator = ( HostSpace && ) = default ;
>
> ^
>
>
>
> In file included from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/KokkosExp_View.hpp(55),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_View.hpp(2104),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Parallel.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Serial.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Core.hpp(53),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_SharedAlloc.cpp(44):
>
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_ExecPolicy.hpp(259):
> error: invalid type for defaulted constructor
>
> RangePolicy(RangePolicy&&) = default;
>
> ^
>
>
>
> In file included from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_ViewMapping.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/KokkosExp_View.hpp(385),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_View.hpp(2104),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Parallel.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Serial.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Core.hpp(53),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_SharedAlloc.cpp(44):
>
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Layout.hpp(80):
> error: invalid type for defaulted constructor
>
> LayoutLeft( LayoutLeft && ) = default ;
>
> ^
>
>
>
> In file included from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_ViewMapping.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/KokkosExp_View.hpp(385),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_View.hpp(2104),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Parallel.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Serial.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Core.hpp(53),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_SharedAlloc.cpp(44):
>
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Layout.hpp(82):
> error: invalid type for defaulted assignment operator
>
> LayoutLeft & operator = ( LayoutLeft && ) = default ;
>
> ^
>
>
>
> In file included from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_ViewMapping.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/KokkosExp_View.hpp(385),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_View.hpp(2104),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Parallel.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Serial.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Core.hpp(53),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_SharedAlloc.cpp(44):
>
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Layout.hpp(112):
> error: invalid type for defaulted constructor
>
> LayoutRight( LayoutRight && ) = default ;
>
> ^
>
>
>
> In file included from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_ViewMapping.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/KokkosExp_View.hpp(385),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_View.hpp(2104),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Parallel.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Serial.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Core.hpp(53),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_SharedAlloc.cpp(44):
>
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Layout.hpp(114):
> error: invalid type for defaulted assignment operator
>
> LayoutRight & operator = ( LayoutRight && ) = default ;
>
> ^
>
>
>
> In file included from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_ViewMapping.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/KokkosExp_View.hpp(385),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_View.hpp(2104),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Parallel.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Serial.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Core.hpp(53),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_SharedAlloc.cpp(44):
>
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Layout.hpp(218):
> error: invalid type for defaulted constructor
>
> LayoutTileLeft( LayoutTileLeft && ) = default ;
>
> ^
>
>
>
> In file included from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_ViewMapping.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/KokkosExp_View.hpp(385),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_View.hpp(2104),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Parallel.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Serial.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Core.hpp(53),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_SharedAlloc.cpp(44):
>
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Layout.hpp(220):
> error: invalid type for defaulted assignment operator
>
> LayoutTileLeft & operator = ( LayoutTileLeft && ) = default ;
>
> ^
>
>
>
> In file included from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Core.hpp(68),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_SharedAlloc.cpp(44):
>
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_MemoryPool.hpp(164):
> error: invalid type for defaulted constructor
>
> Bitset( Bitset && ) = default;
>
> ^
>
>
>
> In file included from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Core.hpp(68),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_SharedAlloc.cpp(44):
>
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_MemoryPool.hpp(166):
> error: invalid type for defaulted assignment operator
>
> Bitset & operator = ( Bitset && ) = default;
>
> ^
>
>
>
> In file included from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Core.hpp(68),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_SharedAlloc.cpp(44):
>
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_MemoryPool.hpp(657):
> error: invalid type for defaulted constructor
>
> MemoryPool( MemoryPool && ) = default;
>
> ^
>
>
>
> In file included from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Core.hpp(68),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_SharedAlloc.cpp(44):
>
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_MemoryPool.hpp(659):
> error: invalid type for defaulted assignment operator
>
> MemoryPool & operator = ( MemoryPool && ) = default;
>
> ^
>
>
>
> compilation aborted for
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_SharedAlloc.cpp
> (code 2)
>
>
>
> I don't think this is an incorrect wrapping problem. What do you guys
> think?
>
>
>
> Sai
>
>
>
> On Mon, Jun 6, 2016 at 5:26 PM, Heroux, Michael A <maherou at sandia.gov>
> wrote:
>
> You should be able to use which ever C++ compiler you want (as long as it
> is compatible with the C or Fortran compiler you are using, if any) by
> defining OMPI_CXX=icpc. To see what is going on in detail when you
> compiler, use the following make command:
>
>
>
> make VERBOSE=1
>
>
>
> This will give you the details of what is going on, in particular which
> compiler is being used.
>
>
>
> *From: *Sai P Uppati <uppatis at utexas.edu>
> *Date: *Monday, June 6, 2016 at 5:10 PM
> *To: *Michael A Heroux <maherou at sandia.gov>
> *Cc: *"John T. Foster" <jfoster at austin.utexas.edu>, Roscoe Bartlett <
> rabartl at sandia.gov>, Trilinos Users <trilinos-users at trilinos.org>
>
>
> *Subject: *[EXTERNAL] Re: [Trilinos-Users] Trilinos Compilation Error on
> Linux
>
>
>
> I built my own version of OpenMPI 1.10.2 with CXX=icpc in the
> configuration, and even using that, I'm still getting the same compilation
> error regarding the //.
>
>
>
> Sai
>
>
>
> On Mon, Jun 6, 2016 at 1:59 PM, Heroux, Michael A <maherou at sandia.gov>
> wrote:
>
> You can override the default definition of the C++ compiler for OpenMPI by
> using the variable OMPI_CXX. See this page for details:
>
>
>
> https://www.open-mpi.org/doc/v1.8/man1/mpicxx.1.php
>
>
>
> Also, building your own installation of OpenMPI is not too hard, if you
> want to go down that path.
>
>
>
> Mike
>
>
>
> *From: *Trilinos-Users <trilinos-users-bounces at trilinos.org> on behalf of
> Sai P Uppati <uppatis at utexas.edu>
> *Date: *Monday, June 6, 2016 at 1:43 PM
> *To: *"John T. Foster" <jfoster at austin.utexas.edu>
> *Cc: *Roscoe Bartlett <rabartl at sandia.gov>, Trilinos Users <
> trilinos-users at trilinos.org>
> *Subject: *[EXTERNAL] Re: [Trilinos-Users] Trilinos Compilation Error on
> Linux
>
>
>
> I've never tried building OpenMPI myself I think. Is it a big undertaking?
> If so, I can request it to be correctly built this time by the system
> admins.
>
>
>
> If not, I can give it a shot myself.
>
>
>
> Sai
>
>
>
> On Mon, Jun 6, 2016 at 1:35 PM, John T. Foster <jfoster at austin.utexas.edu>
> wrote:
>
> Some of those flags are specific to Intel compilers. Again, my advice
> would be to compile openmpi against the correct Intel compilers.
>
>
>
> JTF
>
>
>
> On Mon, Jun 6, 2016 at 1:29 PM, Sai P Uppati <uppatis at utexas.edu> wrote:
>
> John,
>
>
>
> There is another OpenMPI module version 1.10.2 that is based on GNU
> compilers version 4.7.3. When I load this module, the mpicc and mpicxx wrap
> gcc and g++ compilers, respectively, which is correct. However, when I
> try and configure the Trilinos build with the a very similar cmake script
> as your stampede one on GitHub Gists, I have problems with some of the
> CMAKE C and CXX flags:
>
>
>
> Building C object CMakeFiles/cmTC_a870f.dir/testCCompiler.c.o
>
>
>
> /software/openmpi/PBS/1.10.2/gcc_47/bin/mpicc -O2 -Wall -ansi
>
> -Wno-long-long -fp-model precise -fp-model source -ip -xHost -I/include
>
> -I/home/de566876/projects/netcdf/include -o
>
> CMakeFiles/cmTC_a870f.dir/testCCompiler.c.o -c
>
>
> /home/de566876/source_codes/Trilinos/build/CMakeFiles/CMakeTmp/testCCompiler.c
>
>
>
>
>
> gcc: error: unrecognized command line option ‘-fp-model’
>
>
>
> gcc: error: precise: No such file or directory
>
>
>
> gcc: error: unrecognized command line option ‘-fp-model’
>
>
>
> gcc: error: source: No such file or directory
>
>
>
> gcc: error: unrecognized command line option ‘-ip’
>
>
>
> gmake[1]: *** [CMakeFiles/cmTC_a870f.dir/testCCompiler.c.o] Error 1
>
>
>
> gmake[1]: Leaving directory
>
> `/home/de566876/source_codes/Trilinos/build/CMakeFiles/CMakeTmp'
>
>
>
> gmake: *** [cmTC_a870f/fast] Error 2
>
>
>
> I wonder if these flags are essential. If they are, what could be causing
> these errors in the configuration?
>
>
>
> Sai
>
>
>
> On Mon, Jun 6, 2016 at 1:13 PM, John T. Foster <jfoster at austin.utexas.edu>
> wrote:
>
> You probably need to rebuild openmpi setting the variable CXX=icpc at
> configuration.
>
> JTF
>
>
>
>
>
> On Mon, Jun 6, 2016 at 1:07 PM, Sai P Uppati <uppatis at utexas.edu> wrote:
>
> It looks like the mpicxx wrapper wraps icc again, NOT icpc.
>
>
>
> mpicc -show returns:
>
>
>
> icc -I/software/openmpi/PBS/1.10.2/intel_16/include -pthread
> -L/software/PBSpro/default//lib -Wl,-rpath
> -Wl,/software/PBSpro/default//lib -Wl,-rpath
> -Wl,/software/openmpi/PBS/1.10.2/intel_16/lib -Wl,--enable-new-dtags
> -L/software/openmpi/PBS/1.10.2/intel_16/lib -lmpi
>
>
>
> mpicxx -show returns:
>
>
>
> icc -I/software/openmpi/PBS/1.10.2/intel_16/include -pthread
> -L/software/PBSpro/default//lib -Wl,-rpath
> -Wl,/software/PBSpro/default//lib -Wl,-rpath
> -Wl,/software/openmpi/PBS/1.10.2/intel_16/lib -Wl,--enable-new-dtags
> -L/software/openmpi/PBS/1.10.2/intel_16/lib -lmpi_cxx -lmpi
>
>
>
> If I type in ic and hit TAB, in the results, both icc and icpc are found.
> It just looks like icpc is unused. Is this something I can do a simple
> workaround for? Or do I need to ask the system admins to fix the wrappers?
>
>
>
> Sai
>
>
>
> On Mon, Jun 6, 2016 at 12:55 PM, John T. Foster <jfoster at austin.utexas.edu>
> wrote:
>
> Sai,
>
> What does mpicxx -show return? It should be wrapping icpc.
>
> JTF
>
>
>
>
>
> On Mon, Jun 6, 2016 at 12:47 PM, Heroux, Mike <MHeroux at csbsju.edu> wrote:
>
> It looks like you are compiling C++ with a C compiler. This will not work.
>
>
>
> Mike
>
>
>
> *From: *Trilinos-Users <trilinos-users-bounces at trilinos.org> on behalf of
> Sai P Uppati <uppatis at utexas.edu>
> *Date: *Monday, June 6, 2016 at 10:26 AM
> *To: *"John T. Foster" <jfoster at austin.utexas.edu>
> *Cc: *Roscoe Bartlett <rabartl at sandia.gov>, Trilinos Users <
> trilinos-users at trilinos.org>
> *Subject: *Re: [Trilinos-Users] [EXTERNAL] Trilinos Compilation Error on
> Linux
>
>
>
> I didn't notice before I think, but I'm getting other errors as well,
> besides the one I showed. Examples include:
>
>
>
> [ 0%] Building C object
> packages/seacas/libraries/chaco/CMakeFiles/chaco.dir/assign/assign_out.c.o
>
> In file included from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/KokkosExp_View.hpp(53),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_View.hpp(2104),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Parallel.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Serial.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Core.hpp(53),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_SharedAlloc.cpp(44):
>
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_HostSpace.hpp(160):
> *error*: invalid type for defaulted constructor
>
> HostSpace( HostSpace && rhs ) = default ;
>
> ^
>
>
>
> In file included from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/KokkosExp_View.hpp(53),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_View.hpp(2104),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Parallel.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Serial.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Core.hpp(53),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_SharedAlloc.cpp(44):
>
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_HostSpace.hpp(162):
> *error*: invalid type for defaulted assignment operator
>
> HostSpace & operator = ( HostSpace && ) = default ;
>
> ^
>
>
>
> In file included from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/KokkosExp_View.hpp(55),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_View.hpp(2104),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Parallel.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Serial.hpp(52),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_Core.hpp(53),
>
> from
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/impl/KokkosExp_SharedAlloc.cpp(44):
>
> /home/de566876/source_codes/Trilinos/packages/kokkos/core/src/Kokkos_ExecPolicy.hpp(259):
> *error*: invalid type for defaulted constructor
>
> RangePolicy(RangePolicy&&) = default;
>
> ^
>
>
>
> Is this also a compiler issue? The error with the netcdf.h with the
> comment beginning with "//" is still there as well. Any idea what the
> problem could be?
>
>
>
> Sai
>
>
>
>
>
> On Mon, Jun 6, 2016 at 9:25 AM, Sai P Uppati <uppatis at utexas.edu> wrote:
>
> Ross, sorry I misunderstood. John, thanks for that clarification. It looks
> like I was using
>
>
>
> icc version 15.0.1 (gcc version 4.7.3 compatibility)
>
>
>
> And I changed to
>
>
>
> icc version 16.0.2 (gcc version 4.4.7 compatibility)
>
>
>
> Both of them are having the same issue.
>
>
>
> Sai
>
>
>
>
>
>
>
> On Mon, Jun 6, 2016 at 8:48 AM, John T. Foster <jfoster at austin.utexas.edu>
> wrote:
>
> Sai,
>
> mpicc and mpicxx are just wrappers on the underlying compilers which are
> most likely some version of gcc. You can see the full compiler and linker
> command with mpicc -show. If the underlying compiler is in fact gcc, you
> can see the version with gcc -v.
>
> JTF
>
>
>
>
>
> On Mon, Jun 6, 2016 at 8:20 AM, Sai P Uppati <uppatis at utexas.edu> wrote:
>
> Hi Ross,
>
>
>
> It looks like I'm using mpicc, mpicxx compilers from the OpemMPI 1.6.5
> version. Are these too old for compiling the latest version of Trilinos?
>
>
>
> Sai
>
>
>
> On Sat, Jun 4, 2016 at 9:15 PM, Bartlett, Roscoe A <rabartl at sandia.gov>
> wrote:
>
> Looks like your C compiler is not accepting C99 code. C89 does not accept
> // as a comment. What C compiler are you using?
>
> -Ross
> ------------------------------
>
> *From:* Trilinos-Users <trilinos-users-bounces at trilinos.org> on behalf of
> Sai P Uppati <uppatis at utexas.edu>
> *Sent:* Saturday, June 4, 2016 5:37:29 PM
> *To:* trilinos-users at trilinos.org; trilinos-users at software.sandia.gov
> *Subject:* [EXTERNAL] [Trilinos-Users] Trilinos Compilation Error on Linux
>
>
>
> Hi,
>
>
>
> I'm trying to compile Trilinos (latest version: GitHub version) on a Linux
> Red Hat distribution, and I'm getting a compilation error regarding
> netcdf.h:
>
>
>
> Building C object
> packages/seacas/libraries/supes/CMakeFiles/supes.dir/ext_lib/exmemy.c.o
>
> /home/de566876/source_codes/Trilinos/packages/seacas/libraries/exodus/src/ex_close.c(50):
> warning #14: extra text after expected end of preprocessing directive
>
> #include "exodusII.h" // for ex_err, exerrval, etc
>
> ^
>
>
>
> In file included from
> /home/de566876/source_codes/Trilinos/packages/seacas/libraries/exodus/include/exodusII.h(46),
>
> from
> /home/de566876/source_codes/Trilinos/packages/seacas/libraries/exodus/src/ex_add_attr.c(35):
>
> /home/de566876/projects/netcdf/include/netcdf.h(1951): error: expected a
> declaration
>
> //EXTERNL int nc_finalize();
>
> ^
>
>
>
> [ 5%] In file included from
> /home/de566876/source_codes/Trilinos/packages/seacas/libraries/exodus/include/exodusII.h(46),
>
> from
> /home/de566876/source_codes/Trilinos/packages/seacas/libraries/exodus/src/ex_close.c(50):
>
> /home/de566876/projects/netcdf/include/netcdf.h(1951): error: expected a
> declaration
>
> //EXTERNL int nc_finalize();
>
> ^
>
>
>
> Does this error have to do with the netcdf build (version 4.4.0, which
> passed all the tests in the test suite by the way)?
>
>
>
> Sincerely,
>
> Sai Uppati
>
>
>
>
>
> *Error! Filename not specified.*ᐧ
>
>
>
>
>
> _______________________________________________
> Trilinos-Users mailing list
> Trilinos-Users at trilinos.org
> https://trilinos.org/mailman/listinfo/trilinos-users
>
>
>
>
>
>
>
>
> _______________________________________________
> Trilinos-Users mailing list
> Trilinos-Users at trilinos.org
> https://trilinos.org/mailman/listinfo/trilinos-users
>
>
>
>
>
>
> _______________________________________________
> Trilinos-Users mailing list
> Trilinos-Users at trilinos.org
> https://trilinos.org/mailman/listinfo/trilinos-users
>
>
>
>
>
>
> _______________________________________________
> Trilinos-Users mailing list
> Trilinos-Users at trilinos.org
> https://trilinos.org/mailman/listinfo/trilinos-users
>
>
>
>
>
>
>
>
>
>
>
>
>
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