It seems that the issues stem from not setting the include directories
properly. Even with CPATH, C_INCLUDE_PATH, and CPLUS_INCLUDE_PATH set as I
mentioned in my previous response, I am running into errors. The
compilation proceeds for a while, but then at some point when cmath is
included, it fails to find math.h,
[ 42%] Building CXX object
source/sundials/CMakeFiles/obj_sundials_release.dir/arkode.cc.o
In file included from
/home/ipausers/cumberworth/src/dealii-9.2.0/include/deal.II/base/numbers.h:28,
from
/home/ipausers/cumberworth/src/dealii-9.2.0/build/include/deal.II/base/config.h:449,
from
/home/ipausers/cumberworth/src/dealii-9.2.0/source/sundials/arkode.cc:17:
/opt/ohpc/pub/compiler/gcc/9.3.0/include/c++/9.3.0/cmath:45:15: fatal
error: math.h: No such file or directory
45 | #include_next <math.h>
| ^~~~~~~~
compilation terminated.
If I use make VERBOSE=1, I can manually modify the command to include
-isystem /opt/ohpc/pub/compiler/gcc/9.3.0/include/c++/9.3.0
which solves that issue, but I don't know how to add this during
configuration. I tried setting
CMAKE_CXX_FLAGS_DEBUGRELEASE -isystem
/opt/ohpc/pub/compiler/gcc/9.3.0/include/c++/9.3.0
But it seems to put the flag in the wrong order, as it still is unable to
find math.h.
In compiling a later file, it is unable to find the sacado header file,
although it exists on the system and cmake seemed to indicate it had found
the headers. I have set
SACADO_CONFIG_H
/opt/ohpc/pub/libs/gnu9/mpich/trilinos/13.0.0/include
SACADO_TRAD_HPP
/opt/ohpc/pub/libs/gnu9/mpich/trilinos/13.0.0/include
but this doesn't work.
In file included from
/home/ipausers/cumberworth/src/dealii-9.2.0/build/include/deal.II/base/config.h:449,
from
/home/ipausers/cumberworth/src/dealii-9.2.0/include/deal.II/base/exceptions.h:19,
from
/home/ipausers/cumberworth/src/dealii-9.2.0/source/dofs/dof_objects.cc:16:
/home/ipausers/cumberworth/src/dealii-9.2.0/include/deal.II/base/numbers.h:151:12:
fatal error: Sacado.hpp: No such file or directory
151 | # include <Sacado.hpp>
| ^~~~~~~~~~~~
compilation terminated.
Again, I can set
-I/opt/ohpc/pub/libs/gnu9/mpich/trilinos/13.0.0/include
to compile, but then there are still further issues with other headers not
being found.
Best,
Alex
On Monday, May 24, 2021 at 5:22:57 p.m. UTC+2 Wolfgang Bangerth wrote:
> On 5/21/21 11:03 AM, Alex Cumberworth wrote:
> >
> > I don't really see how this can be, as this version of the compiler
> fully
> > supports C++11. I also tried setting the flag DEAL_II_CXX_VERSION_FLAG,
> but
> > using valid standard specifiers just results in errors like "The
> supplied flag
> > "c++11" was not recognized by the compiler." To be clear, I ran
> >
> > cmake .. -DDEAL_II_CXX_VERSION_FLAG=c++11
>
> Try
> cmake .. -DDEAL_II_CXX_VERSION_FLAG="-std=c++11"
> or
> cmake .. -DDEAL_II_CXX_VERSION_FLAG=-std=c++11
> and see whether that works.
>
> GCC 9.2 is new enough so that it should work. There is probably something
> else
> that doesn't work, and you can find out what that is by looking at
> CMakeFiles/CMakeOutput.log
> CMakeFiles/CMakeError.log
>
> These files are lengthy, so it may take a bit of searching for the place
> where
> the C++11 flags are set.
>
> Best
> W.
>
> --
> ------------------------------------------------------------------------
> Wolfgang Bangerth email: bang...@colostate.edu
> www: http://www.math.colostate.edu/~bangerth/
>
>
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