[mpich-discuss] issues when writing a simple makefile to build MPI programs

clara clarazhang at gmail.com
Sat Jun 25 11:39:38 CDT 2011 

Are -lopa -lmpl necessory for building programs with mpich2 using gforker
process manager? Thanks.

- Clara



On Sat, Jun 25, 2011 at 12:36 PM, clara <clarazhang at gmail.com> wrote:

> Thanks. Figured it out by installing "gfortran-multilib" package first.
>
> On Sat, Jun 25, 2011 at 11:51 AM, Anthony Chan <chan at mcs.anl.gov> wrote:
>
>> Clara,
>>
>> Pavan is right.  You should send us all the log files as stated in the
>> README
>> as it will generally speed up our response time.  Reading config.log takes
>> longer..., in your case, the config.log alone suggests your gfortran fails
>> to link with -m32.
>>
>> configure:10277: checking whether Fortran 77 compiler accepts option -O2
>> configure:10326: gfortran -o conftest -m32    conftest.f   > pac_test1.log
>> 2>&1
>> configure:10326: $? = 1
>> configure: failed program was:
>> |       program main
>> |
>> |       end
>> configure:10476: result: no
>> ........
>> ........
>> configure:10755: gfortran -o conftest -m32 -v conftest.f
>> Using built-in specs.
>> Target: x86_64-linux-gnu
>> Thread model: posix
>> gcc version 4.5.2 (Ubuntu/Linaro 4.5.2-8ubuntu4)
>> ........
>> GNU assembler version 2.21.0 (x86_64-linux-gnu) using BFD version (GNU
>> Binutils for Ubuntu) 2.21.0.20110327
>>  /usr/lib/x86_64-linux-gnu/gcc/x86_64-linux-gnu/4.5.2/collect2 --build-id
>> --eh-frame-hdr -m elf_i386 --hash-style=gnu -dynamic-linker
>> /lib/ld-linux.so.2 -z relro -o conftest
>> /usr/lib/x86_64-linux-gnu/gcc/x86_64-linux-gnu/4.5.2/../../../../../lib32/crt1.o
>> /usr/lib/x86_64-linux-gnu/gcc/x86_64-linux-gnu/4.5.2/../../../../../lib32/crti.o
>> /usr/lib/x86_64-linux-gnu/gcc/x86_64-linux-gnu/4.5.2/32/crtbegin.o
>> -L/usr/lib/x86_64-linux-gnu/gcc/x86_64-linux-gnu/4.5.2/32
>> -L/usr/lib/x86_64-linux-gnu/gcc/x86_64-linux-gnu/4.5.2/../../../../../lib32
>> -L/lib/../../lib32 -L/usr/lib/../../lib32
>> -L/usr/lib/x86_64-linux-gnu/../../lib32
>> -L/usr/lib/x86_64-linux-gnu/gcc/x86_64-linux-gnu/4.5.2
>> -L/usr/lib/x86_64-linux-gnu/gcc/x86_64-linux-gnu/4.5.2/../../..
>> -L/usr/lib/x86_64-linux-gnu /tmp/ccgx7uRn.o -lgfortran -lm -lgcc_s -lgcc -lc
>> -lgcc_s -lgcc
>> /usr/lib/x86_64-linux-gnu/gcc/x86_64-linux-gnu/4.5.2/32/crtend.o
>> /usr/lib/x86_64-linux-gnu/gcc/x86_64-linux-gnu/4.5.2/../../../../../lib32/crtn.o
>> /usr/bin/ld: skipping incompatible
>> /usr/lib/x86_64-linux-gnu/gcc/x86_64-linux-gnu/4.5.2/libgfortran.so when
>> searching for -lgfortran
>> /usr/bin/ld: skipping incompatible
>> /usr/lib/x86_64-linux-gnu/gcc/x86_64-linux-gnu/4.5.2/libgfortran.a when
>> searching for -lgfortran
>> /usr/bin/ld: cannot find -lgfortran
>> collect2: ld returned 1 exit status
>>
>> The linker can't find 32bit gfortran library, possibly because you don't
>> have 32bit gfortran support.
>>
>> A.Chan
>> ----- Original Message -----
>> > See attached please.
>> >
>> > On Sat, Jun 25, 2011 at 11:03 AM, Pavan Balaji <balaji at mcs.anl.gov>
>> > wrote:
>> >
>> > >
>> > > Can you please send all the log files requested in the README? It's
>> > > very
>> > > hard to help you otherwise.
>> > >
>> > >
>> > > On 06/25/2011 10:01 AM, clara wrote:
>> > >
>> > >> Please see attached, thanks.
>> > >> Btw, can you tell me which options need be set (the process manager
>> > >> is
>> > >> selected gforker) if I don't want the generated mpicc to use "-lopa
>> > >> -lmpl -lrt"?
>> > >> About the above libraries, opa means "OpenPA", which is to provide
>> > >> atomics library. mpl means what? Is it "message passing library"?
>> > >> If so,
>> > >> why can I only see C files about env, string and mem operations in
>> > >> src/mpl/src?
>> > >>
>> > >> - Clara
>> > >>
>> > >> On Sat, Jun 25, 2011 at 10:44 AM, Pavan Balaji <balaji at mcs.anl.gov
>> > >> <mailto:balaji at mcs.anl.gov>> wrote:
>> > >>
>> > >>
>> > >>    I don't see the error in the log you sent. Please send us the
>> > >>    log
>> > >>    files as described in the README.
>> > >>
>> > >>      -- Pavan
>> > >>
>> > >>
>> > >>    On 06/25/2011 09:40 AM, clara wrote:
>> > >>
>> > >>        Attached please find the output info when I ran configure
>> > >>        with -m32
>> > >>        option. Because I am building 64-bit libraries, the log
>> > >>        files
>> > >>        cannot be
>> > >>        obtained now.
>> > >>
>> > >>        - Clara
>> > >>
>> > >>        On Sat, Jun 25, 2011 at 10:28 AM, Pavan Balaji
>> > >>        <balaji at mcs.anl.gov <mailto:balaji at mcs.anl.gov>
>> > >>        <mailto:balaji at mcs.anl.gov <mailto:balaji at mcs.anl.gov>>>
>> > >>        wrote:
>> > >>
>> > >>
>> > >>            Can you send us the log files are described in the
>> > >>            README?
>> > >>        Please
>> > >>            compress them as they can be huge.
>> > >>
>> > >>              -- Pavan
>> > >>
>> > >>
>> > >>            On 06/25/2011 09:12 AM, clara wrote:
>> > >>
>> > >>                Thanks, but now I get the below error:
>> > >>                configure: error: Could not determine a way to link
>> > >>                a
>> > >>        Fortran
>> > >>                test program!
>> > >>
>> > >>
>> > >>                On Sat, Jun 25, 2011 at 9:59 AM, Pavan Balaji
>> > >>        <balaji at mcs.anl.gov <mailto:balaji at mcs.anl.gov>
>> > >>        <mailto:balaji at mcs.anl.gov <mailto:balaji at mcs.anl.gov>>
>> > >>        <mailto:balaji at mcs.anl.gov <mailto:balaji at mcs.anl.gov>
>> > >>        <mailto:balaji at mcs.anl.gov <mailto:balaji at mcs.anl.gov>>>>
>> > >>        wrote:
>> > >>
>> > >>
>> > >>                    It's "CFLAGS", not "CFLAG".
>> > >>
>> > >>                      -- Pavan
>> > >>
>> > >>
>> > >>                    On 06/25/2011 08:42 AM, clara wrote:
>> > >>
>> > >>                        I executed the following command:
>> > >>                        ./configure
>> > >>        --prefix=/mnt/lux/git/pios/xc/**______mpich2-32
>> > >>                        --with-pm=gforker
>> > >>                        --disable-faster CFLAG=-m32 CXXFLAGS=-m32
>> > >>        FFLAGS=-m32
>> > >>                FCFLAGS=-m32
>> > >>
>> > >>                        and got the below errors:
>> > >>                        configure: error: **** Incompatible Fortran
>> > >>                        and C
>> > >>                Object File
>> > >>                        Types! ****
>> > >>                        F77 Object File Type produced by "gfortran
>> > >>                        -m32
>> > >>        " is : : ELF
>> > >>                        32-bit LSB
>> > >>                        relocatable, Intel 80386, version 1 (SYSV),
>> > >>                        not
>> > >>        stripped.
>> > >>                          C Object File Type produced by "gcc -O2"
>> > >>        is : :
>> > >>                ELF 64-bit LSB
>> > >>                        relocatable, x86-64, version 1 (SYSV), not
>> > >> stripped.
>> > >>
>> > >>                        Is there any simple way setting -m32 in
>> > >>                        order to
>> > >>        build
>> > >>                32-bit
>> > >>                        libraries
>> > >>                        on 64-bit system?
>> > >>
>> > >>                        - Clara
>> > >>
>> > >>                        On Fri, Jun 24, 2011 at 11:53 AM, Anthony
>> > >>                        Chan
>> > >>        <chan at mcs.anl.gov <mailto:chan at mcs.anl.gov>
>> > >>        <mailto:chan at mcs.anl.gov <mailto:chan at mcs.anl.gov>>
>> > >>        <mailto:chan at mcs.anl.gov <mailto:chan at mcs.anl.gov>
>> > >>        <mailto:chan at mcs.anl.gov <mailto:chan at mcs.anl.gov>>>
>> > >>        <mailto:chan at mcs.anl.gov <mailto:chan at mcs.anl.gov>
>> > >>        <mailto:chan at mcs.anl.gov <mailto:chan at mcs.anl.gov>>
>> > >>        <mailto:chan at mcs.anl.gov <mailto:chan at mcs.anl.gov>
>> > >>        <mailto:chan at mcs.anl.gov <mailto:chan at mcs.anl.gov>>>>>
>> > >>        wrote:
>> > >>
>> > >>
>> > >>                            You need to rebuild mpich2 for 32bit.
>> > >>                            Set
>> > >>                            CFLAGS/CXXFLAGS/FFLAGS/FCFLAGS
>> > >>                            to -m32 (assume your system has the
>> > >>                            32bit
>> > >>        support).
>> > >>
>> > >>                            BTW, your install of 1.2.1p1 mpich2 is
>> > >>                            old,
>> > >>        please
>> > >>                upgrade
>> > >>                        if possible
>> > >>                            (the latest stable release is 1.4)
>> > >>
>> > >>                            A.Chan
>> > >>
>> > >>                            ----- Original Message -----
>> > >>         > I think the default installed mpich2 in 64-bit ubuntu is
>> > >>         > in
>> > >>                        x86_64
>> > >>         > mode.
>> > >>         > When I try to compile/link an MPI program in 32-bit mode,
>> > >>                        there is an
>> > >>         > error
>> > >>         > below:
>> > >>         > /usr/lib/libmpich.so: file not recognized: File format
>> > >>         > not
>> > >>                        recognized
>> > >>         >
>> > >>         > How can I configure the compile/link flags? Do I need to
>> > >>         > rebuild
>> > >>         > mpich2 to
>> > >>         > get a 32-bit libraries? Or is there any 32-bit libraries
>> > >>                        coexisted
>> > >>         > with
>> > >>         > 64-bit libraries? Thanks.
>> > >>         >
>> > >>         > Below is the output version information of the default
>> > >>         > installed
>> > >>         > MPICH2:
>> > >>         > MPICH2 Version: 1.2.1p1
>> > >>         > MPICH2 Release date: Unknown, built on Tue Apr 27
>> > >>         > 15:06:31
>> > >>                        UTC 2010
>> > >>         > MPICH2 Device: ch3:nemesis
>> > >>         > MPICH2 configure: --build=x86_64-linux-gnu --prefix=/usr
>> > >>         > --includedir=${prefix}/include
>> > >>         > --mandir=${prefix}/share/man
>> > >>         > --infodir=${prefix}/share/info --sysconfdir=/etc
>> > >>                        --localstatedir=/var
>> > >>         > --libexecdir=${prefix}/lib/___**___mpich2
>> > >> --disable-maintainer-mode
>> > >>         > --disable-dependency-tracking --disable-silent-rules
>> > >>         > --srcdir=.
>> > >>         > --enable-sharedlibs=gcc --prefix=/usr --enable-f90
>> > >>         > --sysconfdir=/etc/mpich2
>> > >>         > --includedir=/usr/include/____**__mpich2
>> > >>                --docdir=/usr/share/doc/mpich2
>> > >>         > MPICH2 CC: gcc -g -O2 -g -Wall -O2 -O2
>> > >>         > MPICH2 CXX: c++ -g -O2 -g -Wall -O2 -O2
>> > >>         > MPICH2 F77: gfortran -g -O2 -O2
>> > >>         > MPICH2 F90: f95 -O2
>> > >>         >
>> > >>         > - Clara
>> > >>         >
>> > >>         > On Fri, Jun 24, 2011 at 12:08 AM, Pavan Balaji
>> > >>        <balaji at mcs.anl.gov <mailto:balaji at mcs.anl.gov>
>> > >>        <mailto:balaji at mcs.anl.gov <mailto:balaji at mcs.anl.gov>>
>> > >>        <mailto:balaji at mcs.anl.gov <mailto:balaji at mcs.anl.gov>
>> > >>        <mailto:balaji at mcs.anl.gov <mailto:balaji at mcs.anl.gov>>>
>> > >>        <mailto:balaji at mcs.anl.gov <mailto:balaji at mcs.anl.gov>
>> > >>        <mailto:balaji at mcs.anl.gov <mailto:balaji at mcs.anl.gov>>
>> > >>        <mailto:balaji at mcs.anl.gov <mailto:balaji at mcs.anl.gov>
>> > >>        <mailto:balaji at mcs.anl.gov <mailto:balaji at mcs.anl.gov>>>>**>
>> > >>
>> > >>
>> > >>         > wrote:
>> > >>         >
>> > >>         > > Clara,
>> > >>         > >
>> > >>         > >
>> > >>         > > On 06/23/2011 10:53 PM, clara wrote:
>> > >>         > >
>> > >>         > >> If I only use shared memory communication among
>> > >>         > >> processes on
>> > >> a
>> > >>         > >> single
>> > >>         > >> node, how can I configure the mpich2.1.4 (except
>> > >>                            --with-pm=gforker)
>> > >>         > >> in
>> > >>         > >> order to link libraries as little as possible?
>> > >>         > >>
>> > >>         > >
>> > >>         > > Shared memory communication support comes by default in
>> > >>                        MPICH2. You
>> > >>         > > don't
>> > >>         > > need to pass any special configure options; not even
>> > >>         > > --with-pm=gforker.
>> > >>         > > Unfortunately, all libraries are still required to be
>> > >>                        linked with
>> > >>         > > even when
>> > >>         > > only shared memory support is needed.
>> > >>         > >
>> > >>         > >  -- Pavan
>> > >>         > >
>> > >>         > >
>> > >>         > > --
>> > >>         > > Pavan Balaji
>> > >>         > > http://www.mcs.anl.gov/~balaji
>> > >>         > >
>> > >>         >
>> > >>         > ______________________________**_______________________
>> > >>         > mpich-discuss mailing list
>> > >>         > mpich-discuss at mcs.anl.gov
>> > >>         > <mailto:mpich-discuss at mcs.anl.**gov<
>> mpich-discuss at mcs.anl.gov>
>> > >> >
>> > >>        <mailto:mpich-discuss at mcs.anl.**__gov
>> > >>        <mailto:mpich-discuss at mcs.anl.**gov
>> > >>        <mpich-discuss at mcs.anl.gov>>>
>> > >>        <mailto:mpich-discuss at mcs.anl.
>> > >>        <mailto:mpich-discuss at mcs.anl.**>____gov
>> > >>        <mailto:mpich-discuss at mcs.anl.**__gov
>> > >>        <mailto:mpich-discuss at mcs.anl.**gov
>> > >>        <mpich-discuss at mcs.anl.gov>>>>
>> > >>        <mailto:mpich-discuss at mcs.anl
>> > >>        <mailto:mpich-discuss at mcs.anl>**.
>> > >>        <mailto:mpich-discuss at mcs.anl
>> > >>        <mailto:mpich-discuss at mcs.anl>**.__>____gov
>> > >>        <mailto:mpich-discuss at mcs.anl.
>> > >>        <mailto:mpich-discuss at mcs.anl.**>____gov
>> > >>        <mailto:mpich-discuss at mcs.anl.**__gov
>> > >>        <mailto:mpich-discuss at mcs.anl.**gov
>> > >>        <mpich-discuss at mcs.anl.gov>
>> > >> >>>>
>> > >>
>> > >>         >
>> > >>
>> https://lists.mcs.anl.gov/____**__mailman/listinfo/mpich-**discuss<
>> https://lists.mcs.anl.gov/______mailman/listinfo/mpich-discuss>
>> > >>        <
>> https://lists.mcs.anl.gov/___**_mailman/listinfo/mpich-**discuss<
>> https://lists.mcs.anl.gov/____mailman/listinfo/mpich-discuss>
>> > >> >
>> > >>        <
>> https://lists.mcs.anl.gov/___**_mailman/listinfo/mpich-**discuss<
>> https://lists.mcs.anl.gov/____mailman/listinfo/mpich-discuss>
>> > >>        <https://lists.mcs.anl.gov/__**mailman/listinfo/mpich-discuss
>> <https://lists.mcs.anl.gov/__mailman/listinfo/mpich-discuss>
>> > >> **>__>
>> > >>        <
>> https://lists.mcs.anl.gov/___**_mailman/listinfo/mpich-**discuss<
>> https://lists.mcs.anl.gov/____mailman/listinfo/mpich-discuss>
>> > >>        <https://lists.mcs.anl.gov/__**mailman/listinfo/mpich-discuss
>> <https://lists.mcs.anl.gov/__mailman/listinfo/mpich-discuss>
>> > >> **>
>> > >>        <https://lists.mcs.anl.gov/__**mailman/listinfo/mpich-discuss
>> <https://lists.mcs.anl.gov/__mailman/listinfo/mpich-discuss>
>> > >>        <https://lists.mcs.anl.gov/**mailman/listinfo/mpich-discuss<
>> https://lists.mcs.anl.gov/mailman/listinfo/mpich-discuss>
>> > >> **>__>__>
>> > >>
>> > >>          ______________________________**_______________________
>> > >>                            mpich-discuss mailing list
>> > >>        mpich-discuss at mcs.anl.gov
>> > >>        <mailto:mpich-discuss at mcs.anl.**gov<mpich-discuss at mcs.anl.gov
>> >
>> > >> >
>> > >>        <mailto:mpich-discuss at mcs.anl.**__gov
>> > >>        <mailto:mpich-discuss at mcs.anl.**gov
>> > >>        <mpich-discuss at mcs.anl.gov>>>
>> > >>        <mailto:mpich-discuss at mcs.anl.
>> > >>        <mailto:mpich-discuss at mcs.anl.**>____gov
>> > >>        <mailto:mpich-discuss at mcs.anl.**__gov
>> > >>        <mailto:mpich-discuss at mcs.anl.**gov
>> > >>        <mpich-discuss at mcs.anl.gov>>>>
>> > >>        <mailto:mpich-discuss at mcs.anl
>> > >>        <mailto:mpich-discuss at mcs.anl>**.
>> > >>        <mailto:mpich-discuss at mcs.anl
>> > >>        <mailto:mpich-discuss at mcs.anl>**.__>____gov
>> > >>        <mailto:mpich-discuss at mcs.anl.
>> > >>        <mailto:mpich-discuss at mcs.anl.**>____gov
>> > >>        <mailto:mpich-discuss at mcs.anl.**__gov
>> > >>        <mailto:mpich-discuss at mcs.anl.**gov
>> > >>        <mpich-discuss at mcs.anl.gov>
>> > >> >>>>
>> > >>
>> > >>
>> https://lists.mcs.anl.gov/____**__mailman/listinfo/mpich-**discuss<
>> https://lists.mcs.anl.gov/______mailman/listinfo/mpich-discuss>
>> > >>        <
>> https://lists.mcs.anl.gov/___**_mailman/listinfo/mpich-**discuss<
>> https://lists.mcs.anl.gov/____mailman/listinfo/mpich-discuss>
>> > >> >
>> > >>        <
>> https://lists.mcs.anl.gov/___**_mailman/listinfo/mpich-**discuss<
>> https://lists.mcs.anl.gov/____mailman/listinfo/mpich-discuss>
>> > >>        <https://lists.mcs.anl.gov/__**mailman/listinfo/mpich-discuss
>> <https://lists.mcs.anl.gov/__mailman/listinfo/mpich-discuss>
>> > >> **>__>
>> > >>        <
>> https://lists.mcs.anl.gov/___**_mailman/listinfo/mpich-**discuss<
>> https://lists.mcs.anl.gov/____mailman/listinfo/mpich-discuss>
>> > >>        <https://lists.mcs.anl.gov/__**mailman/listinfo/mpich-discuss
>> <https://lists.mcs.anl.gov/__mailman/listinfo/mpich-discuss>
>> > >> **>
>> > >>        <https://lists.mcs.anl.gov/__**mailman/listinfo/mpich-discuss
>> <https://lists.mcs.anl.gov/__mailman/listinfo/mpich-discuss>
>> > >>        <https://lists.mcs.anl.gov/**mailman/listinfo/mpich-discuss<
>> https://lists.mcs.anl.gov/mailman/listinfo/mpich-discuss>
>> > >> **>__>__>
>> > >>
>> > >>
>> > >>
>> > >>
>> > >>
>> > >>          ______________________________**_______________________
>> > >>                        mpich-discuss mailing list
>> > >>        mpich-discuss at mcs.anl.gov
>> > >>        <mailto:mpich-discuss at mcs.anl.**gov<mpich-discuss at mcs.anl.gov
>> >
>> > >> >
>> > >>        <mailto:mpich-discuss at mcs.anl.**__gov
>> > >>        <mailto:mpich-discuss at mcs.anl.**gov
>> > >>        <mpich-discuss at mcs.anl.gov>>>
>> > >>        <mailto:mpich-discuss at mcs.anl.
>> > >>        <mailto:mpich-discuss at mcs.anl.**>____gov
>> > >>        <mailto:mpich-discuss at mcs.anl.**__gov
>> > >>        <mailto:mpich-discuss at mcs.anl.**gov
>> > >>        <mpich-discuss at mcs.anl.gov>>>>
>> > >>
>> https://lists.mcs.anl.gov/____**__mailman/listinfo/mpich-**discuss<
>> https://lists.mcs.anl.gov/______mailman/listinfo/mpich-discuss>
>> > >>        <
>> https://lists.mcs.anl.gov/___**_mailman/listinfo/mpich-**discuss<
>> https://lists.mcs.anl.gov/____mailman/listinfo/mpich-discuss>
>> > >> >
>> > >>        <
>> https://lists.mcs.anl.gov/___**_mailman/listinfo/mpich-**discuss<
>> https://lists.mcs.anl.gov/____mailman/listinfo/mpich-discuss>
>> > >>        <https://lists.mcs.anl.gov/__**mailman/listinfo/mpich-discuss
>> <https://lists.mcs.anl.gov/__mailman/listinfo/mpich-discuss>
>> > >> **>__>
>> > >>        <
>> https://lists.mcs.anl.gov/___**_mailman/listinfo/mpich-**discuss<
>> https://lists.mcs.anl.gov/____mailman/listinfo/mpich-discuss>
>> > >>        <https://lists.mcs.anl.gov/__**mailman/listinfo/mpich-discuss
>> <https://lists.mcs.anl.gov/__mailman/listinfo/mpich-discuss>
>> > >> **>
>> > >>        <https://lists.mcs.anl.gov/__**mailman/listinfo/mpich-discuss
>> <https://lists.mcs.anl.gov/__mailman/listinfo/mpich-discuss>
>> > >>        <https://lists.mcs.anl.gov/**mailman/listinfo/mpich-discuss<
>> https://lists.mcs.anl.gov/mailman/listinfo/mpich-discuss>
>> > >> **>__>__>
>> > >>
>> > >>
>> > >>                    --
>> > >>                    Pavan Balaji
>> > >>        http://www.mcs.anl.gov/~balaji
>> > >>
>> > >>
>> > >>
>> > >>            --
>> > >>            Pavan Balaji
>> > >>        http://www.mcs.anl.gov/~balaji
>> > >>
>> > >>
>> > >>
>> > >>    --
>> > >>    Pavan Balaji
>> > >>    http://www.mcs.anl.gov/~balaji
>> > >>
>> > >>
>> > >>
>> > > --
>> > > Pavan Balaji
>> > > http://www.mcs.anl.gov/~balaji
>> > >
>> >
>> > _______________________________________________
>> > mpich-discuss mailing list
>> > mpich-discuss at mcs.anl.gov
>> > https://lists.mcs.anl.gov/mailman/listinfo/mpich-discuss
>> _______________________________________________
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