[Dune] ALUGrid-1.14 as a prerequisite on the Cray XT5

Oliver Sander sander at mi.fu-berlin.de
Wed Aug 5 15:55:25 CEST 2009 

Hi Benedikt!
This error usually means that alugrid_parallel.h uses stuff from headers
that it doesn't include directly.  This is a (minor) bug, as future 
AutoTools
versions may decide to treat the header as 'not found'.  Your current 
installation
should be okay, though.

--
Oliver

Benedikt Oswald schrieb:
> Dear Dune & ALUGrid developers, I just started to install ALUGrid-1.14,
> as a prequisite for Dune, on the Cray XT 5 sytem at the Swiss Supercocomputing Center (www.cscs.ch).
>
> Now, on the XT5, one uses compiler wrapper scripts that then select the appropriate
> compilers (gnu, pgi, pathscale etc.).
>
> When I configure ALUGrid on the Cray, then the following configure output results
> (cf. below). It appears to be ok, except, the message w.r.t alugrid_parallel.h
>
> The compilation and installation stage then works ok.
>
> Could one of the ALUGrid developers comment on this ?
>
> May we just ignore this message ?
>
> The compiler wrapper thing on the XT5 is also described at:
> http://www.cscs.ch/215.0.html
>
>
> Have a great day, Benedikt
>
>
>
>
>
>
>
> ==============================================================================================================================
>
> downloads/ALUGrid-1.14> ./configure --prefix=$HOME/extlib/ALUGrid-1.14 --with-metis=$HOME/extlib/metis-4.0 MPICXX=CC CXX=CC CC=cc
> checking for a BSD-compatible install... /usr/bin/install -c
> checking whether build environment is sane... yes
> checking for a thread-safe mkdir -p... /bin/mkdir -p
> checking for gawk... gawk
> checking whether make sets $(MAKE)... yes
> checking for style of include used by make... GNU
> checking for C++ compiler default output file name... a.out
> checking whether the C++ compiler works... yes
> checking whether we are cross compiling... no
> checking for suffix of executables...
> checking for suffix of object files... o
> checking whether we are using the GNU C++ compiler... yes
> checking whether CC accepts -g... yes
> checking dependency style of CC... gcc3
> checking how to run the C++ preprocessor... CC -E
> checking whether ln -s works... yes
> checking for ranlib... ranlib
> checking build system type... x86_64-unknown-linux-gnu
> checking host system type... x86_64-unknown-linux-gnu
> checking for gcc... cc
> checking whether we are using the GNU C compiler... yes
> checking whether cc accepts -g... yes
> checking for cc option to accept ISO C89... none needed
> checking dependency style of cc... gcc3
> checking for a sed that does not truncate output... /usr/bin/sed
> checking for grep that handles long lines and -e... /usr/bin/grep
> checking for egrep... /usr/bin/grep -E
> checking for ld used by cc... /usr/bin/ld
> checking if the linker (/usr/bin/ld) is GNU ld... yes
> checking for /usr/bin/ld option to reload object files... -r
> checking for BSD-compatible nm... /usr/bin/nm -B
> checking how to recognize dependent libraries... pass_all
> checking how to run the C preprocessor... cc -E
> checking for ANSI C header files... yes
> checking for sys/types.h... yes
> checking for sys/stat.h... yes
> checking for stdlib.h... yes
> checking for string.h... yes
> checking for memory.h... yes
> checking for strings.h... yes
> checking for inttypes.h... yes
> checking for stdint.h... yes
> checking for unistd.h... yes
> checking dlfcn.h usability... yesdownloads/ALUGrid-1.14> ./configure --prefix=$HOME/extlib/ALUGrid-1.14 --with-metis=$HOME/extlib/metis-4.0 MPICXX=CC CXX=CC CC=cc
> checking for a BSD-compatible install... /usr/bin/install -c
> checking whether build environment is sane... yes
> checking for a thread-safe mkdir -p... /bin/mkdir -p
> checking for gawk... gawk
> checking whether make sets $(MAKE)... yes
> checking for style of include used by make... GNU
> checking for C++ compiler default output file name... a.out
> checking whether the C++ compiler works... yes
> checking whether we are cross compiling... no
> checking for suffix of executables...
> checking for suffix of object files... o
> checking whether we are using the GNU C++ compiler... yes
> checking whether CC accepts -g... yes
> checking dependency style of CC... gcc3
> checking how to run the C++ preprocessor... CC -E
> checking whether ln -s works... yes
> checking for ranlib... ranlib
> checking build system type... x86_64-unknown-linux-gnu
> checking host system type... x86_64-unknown-linux-gnu
> checking for gcc... cc
> checking whether we are using the GNU C compiler... yes
> checking whether cc accepts -g... yes
> checking for cc option to accept ISO C89... none needed
> checking dependency style of cc... gcc3
> checking for a sed that does not truncate output... /usr/bin/sed
> checking for grep that handles long lines and -e... /usr/bin/grep
> checking for egrep... /usr/bin/grep -E
> checking for ld used by cc... /usr/bin/ld
> checking if the linker (/usr/bin/ld) is GNU ld... yes
> checking for /usr/bin/ld option to reload object files... -r
> checking for BSD-compatible nm... /usr/bin/nm -B
> checking how to recognize dependent libraries... pass_all
> checking how to run the C preprocessor... cc -E
> checking for ANSI C header files... yes
> checking for sys/types.h... yes
> checking for sys/stat.h... yes
> checking for stdlib.h... yes
> checking for string.h... yes
> checking for memory.h... yes
> checking for strings.h... yes
> checking for inttypes.h... yes
> checking for stdint.h... yes
> checking for unistd.h... yes
> checking dlfcn.h usability... yes
> checking dlfcn.h presence... yes
> checking for dlfcn.h... yes
> checking how to run the C++ preprocessor... CC -E
> checking the maximum length of command line arguments... 98304
> checking command to parse /usr/bin/nm -B output from cc object... ok
> checking for objdir... .libs
> checking for ar... ar
> checking for ranlib... (cached) ranlib
> checking for strip... strip
> checking for correct ltmain.sh version... yes
> checking if cc supports -fno-rtti -fno-exceptions... no
> checking for cc option to produce PIC... -fPIC
> checking if cc PIC flag -fPIC works... yes
> checking if cc static flag -static works... yes
> checking if cc supports -c -o file.o... yes
> checking whether the cc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
> checking dynamic linker characteristics... /opt/cray/xt-asyncpe/3.1/bin/cc: INFO: linux target is being used
> GNU/Linux ld.so
> checking how to hardcode library paths into programs... immediate
> checking whether stripping libraries is possible... yes
> checking if libtool supports shared libraries... yes
> checking whether to build shared libraries... no
> checking whether to build static libraries... yes
> configure: creating libtool
> appending configuration tag "CXX" to libtool
> checking for ld used by CC... /usr/bin/ld -m elf_x86_64
> checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes
> /opt/cray/xt-asyncpe/3.1/bin/CC: INFO: linux target is being used
> checking whether the CC linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
> checking for CC option to produce PIC... -fPIC
> checking if CC PIC flag -fPIC works... yes
> checking if CC static flag -static works... yes
> checking if CC supports -c -o file.o... yes
> checking whether the CC linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
> checking dynamic linker characteristics... GNU/Linux ld.so
> (cached) (cached) checking how to hardcode library paths into programs... immediate
> checking for size_t... yes
> checking whether struct tm is in sys/time.h or time.h... time.h
> checking for stdlib.h... (cached) yes
> checking for GNU libc compatible malloc... yes
> checking for mpic++... CC
> checking for MPI_Finalize... no
> checking for MPI_Finalize in -lmpi... no
> checking for MPI_Finalize in -lmpich... yes
> checking for mpi.h... yes
> checking alugrid_serial.h usability... yes
> checking alugrid_serial.h presence... yes
> checking for alugrid_serial.h... yes
> checking alugrid_parallel.h usability... no
> checking alugrid_parallel.h presence... yes
> configure: WARNING: alugrid_parallel.h: present but cannot be compiled
> configure: WARNING: alugrid_parallel.h:     check for missing prerequisite headers?
> configure: WARNING: alugrid_parallel.h: see the Autoconf documentation
> configure: WARNING: alugrid_parallel.h:     section "Present But Cannot Be Compiled"
> configure: WARNING: alugrid_parallel.h: proceeding with the preprocessor's result
> configure: WARNING: alugrid_parallel.h: in the future, the compiler will take precedence
> configure: WARNING:     ## ------------------------------------------------- ##
> configure: WARNING:     ## Report this to alugrid at mathematik.uni-freiburg.de ##
> configure: WARNING:     ## ------------------------------------------------- ##
> checking for alugrid_parallel.h... yes
> checking for which type of run mode ALUGrid can be used... parallel
> checking metis.h usability... yes
> checking metis.h presence... yes
> checking for metis.h... yes
> checking for METIS_PartGraphKway in -lmetis... yes
> checking iostream usability... yes
> checking iostream presence... yes
> checking for iostream... yes
> checking stack usability... yes
> checking stack presence... yes
> checking for stack... yes
> checking map usability... yes
> checking map presence... yes
> checking for map... yes
> checking for pow in -lm... yes
> checking for sqrt... yes
> checking for strchr... yes
> configure: creating ./config.status
> config.status: creating Makefile
> config.status: creating src/serial/Makefile
> config.status: creating src/parallel/Makefile
> config.status: creating src/duneinterface/Makefile
> config.status: creating src/alu2d/Makefile
> config.status: creating src/Makefile
> config.status: creating misc/Makefile
> config.status: creating misc/macrogrids/Makefile
> config.status: creating misc/versioncheck/Makefile
> config.status: creating alugrid.pc
> config.status: creating config.h
> config.status: config.h is unchanged
> config.status: executing depfiles commands
>
> ALUGrid is ready to compile for parallel computations!
>
> The following components where found:
> ------------------------------------
>
> METIS............: yes (Version 4.0)
> PARTY............: no
> MPI..............: yes
>
> ------------------------------------
>
> See ./configure --help and config.log for reasons why a component wasn't found
>
> checking dlfcn.h presence... yes
> checking for dlfcn.h... yes
> checking how to run the C++ preprocessor... CC -E
> checking the maximum length of command line arguments... 98304
> checking command to parse /usr/bin/nm -B output from cc object... ok
> checking for objdir... .libs
> checking for ar... ar
> checking for ranlib... (cached) ranlib
> checking for strip... strip
> checking for correct ltmain.sh version... yes
> checking if cc supports -fno-rtti -fno-exceptions... no
> checking for cc option to produce PIC... -fPIC
> checking if cc PIC flag -fPIC works... yes
> checking if cc static flag -static works... yes
> checking if cc supports -c -o file.o... yes
> checking whether the cc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
> checking dynamic linker characteristics... /opt/cray/xt-asyncpe/3.1/bin/cc: INFO: linux target is being used
> GNU/Linux ld.so
> checking how to hardcode library paths into programs... immediate
> checking whether stripping libraries is possible... yes
> checking if libtool supports shared libraries... yes
> checking whether to build shared libraries... no
> checking whether to build static libraries... yes
> configure: creating libtool
> appending configuration tag "CXX" to libtool
> checking for ld used by CC... /usr/bin/ld -m elf_x86_64
> checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes
> /opt/cray/xt-asyncpe/3.1/bin/CC: INFO: linux target is being used
> checking whether the CC linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
> checking for CC option to produce PIC... -fPIC
> checking if CC PIC flag -fPIC works... yes
> checking if CC static flag -static works... yes
> checking if CC supports -c -o file.o... yes
> checking whether the CC linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
> checking dynamic linker characteristics... GNU/Linux ld.so
> (cached) (cached) checking how to hardcode library paths into programs... immediate
> checking for size_t... yes
> checking whether struct tm is in sys/time.h or time.h... time.h
> checking for stdlib.h... (cached) yes
> checking for GNU libc compatible malloc... yes
> checking for mpic++... CC
> checking for MPI_Finalize... no
> checking for MPI_Finalize in -lmpi... no
> checking for MPI_Finalize in -lmpich... yes
> checking for mpi.h... yes
> checking alugrid_serial.h usability... yes
> checking alugrid_serial.h presence... yes
> checking for alugrid_serial.h... yes
> checking alugrid_parallel.h usability... no
> checking alugrid_parallel.h presence... yes
> configure: WARNING: alugrid_parallel.h: present but cannot be compiled
> configure: WARNING: alugrid_parallel.h:     check for missing prerequisite headers?
> configure: WARNING: alugrid_parallel.h: see the Autoconf documentation
> configure: WARNING: alugrid_parallel.h:     section "Present But Cannot Be Compiled"
> configure: WARNING: alugrid_parallel.h: proceeding with the preprocessor's result
> configure: WARNING: alugrid_parallel.h: in the future, the compiler will take precedence
> configure: WARNING:     ## ------------------------------------------------- ##
> configure: WARNING:     ## Report this to alugrid at mathematik.uni-freiburg.de ##
> configure: WARNING:     ## ------------------------------------------------- ##
> checking for alugrid_parallel.h... yes
> checking for which type of run mode ALUGrid can be used... parallel
> checking metis.h usability... yes
> checking metis.h presence... yes
> checking for metis.h... yes
> checking for METIS_PartGraphKway in -lmetis... yes
> checking iostream usability... yes
> checking iostream presence... yes
> checking for iostream... yes
> checking stack usability... yes
> checking stack presence... yes
> checking for stack... yes
> checking map usability... yes
> checking map presence... yes
> checking for map... yes
> checking for pow in -lm... yes
> checking for sqrt... yes
> checking for strchr... yes
> configure: creating ./config.status
> config.status: creating Makefile
> config.status: creating src/serial/Makefile
> config.status: creating src/parallel/Makefile
> config.status: creating src/duneinterface/Makefile
> config.status: creating src/alu2d/Makefile
> config.status: creating src/Makefile
> config.status: creating misc/Makefile
> config.status: creating misc/macrogrids/Makefile
> config.status: creating misc/versioncheck/Makefile
> config.status: creating alugrid.pc
> config.status: creating config.h
> config.status: config.h is unchanged
> config.status: executing depfiles commands
>
> ALUGrid is ready to compile for parallel computations!
>
> The following components where found:
> ------------------------------------
>
> METIS............: yes (Version 4.0)
> PARTY............: no
> MPI..............: yes
>
> ------------------------------------
>
> See ./configure --help and config.log for reasons why a component wasn't found
>
>   


-- 
************************************************************************
* Oliver Sander                ** email: sander at mi.fu-berlin.de        *
* Freie Universität Berlin     ** phone: + 49 (30) 838 75348           *
* Institut für Mathematik      ** URL  : page.mi.fu-berlin.de/~sander  *
* Arnimallee 6                 ** -------------------------------------*
* 14195 Berlin, Germany        ** Member of MATHEON (www.matheon.de)   *
************************************************************************

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