Something is wrong with the wrappers. A number of libraries (-lxpmem, -lugni, etc) are missing from libs_static. Might be a similar issue with eh missing -llustreapi. Going to create a critical bug to track this issue.
Works in 1.7 :-/ ... If you add -lnuma to libs_static in mpicc-wrapper-data.txt. -Nathan HPC-3, LANL On Fri, Jan 25, 2013 at 02:13:41PM -0800, Paul Hargrove wrote: > Still having problems on the Cray XC30, but now they are when linking an > MPI app: > > $ ./INSTALL/bin/mpicc -o ring_c examples/ring_c.c > > fs_lustre_file_open.c:(.text+0x130): undefined reference to > > `llapi_file_create' > > fs_lustre_file_open.c:(.text+0x17e): undefined reference to > > `llapi_file_get_stripe' > > /usr/bin/ld: link errors found, deleting executable `ring_c' > > collect2: error: ld returned 1 exit status > > > It appears that lustre support was found at configure time using a test > that used "-llustre -llusterapi": > > > configure:157666: checking if possible to link LUSTRE > > configure:157680: cc -std=gnu99 -o conftest -O3 -DNDEBUG > > -finline-functions -fno-strict-aliasing -fexceptions -D_REENTRANT > > -I/global/homes/h/hargrove/GSCRATCH/OMPI/openmpi-1.9a1r27905/opal/mca/hwloc/hwloc151/hwloc/include > > -I/global/homes/h/hargrove/GSCRATCH/OMPI/openmpi-1.9a1r27905/BUILD-edison/opal/mca/hwloc/hwloc151/hwloc/include > > -I/global/homes/h/hargrove/GSCRATCH/OMPI/openmpi-1.9a1r27905/opal/mca/event/libevent2019/libevent > > -I/global/homes/h/hargrove/GSCRATCH/OMPI/openmpi-1.9a1r27905/opal/mca/event/libevent2019/libevent/include > > -I/global/homes/h/hargrove/GSCRATCH/OMPI/openmpi-1.9a1r27905/BUILD-edison/opal/mca/event/libevent2019/libevent/include > > -I/opt/cray/pmi/default/include -I/opt/cray/pmi/default/include > > -I/opt/cray/pmi/default/include -I/opt/cray/pmi/default/include > > -I/usr//include/lustre/ -fexceptions -L/usr//lib64 conftest.c -lnsl > > -lutil -lnsl -lutil -llustre -llustreapi > > > However, those two libs are NOT included when linking an MPI application: > > > $ ./INSTALL/bin/mpicc -o ring_c examples/ring_c.c -v 2>&1 | grep collect > > /opt/gcc/4.7.2/snos/libexec/gcc/x86_64-suse-linux/4.7.2/collect2 > > --sysroot= -m elf_x86_64 -static -o ring_c -u pthread_mutex_trylock -u > > pthread_mutex_destroy -u pthread_create /usr/lib/../lib64/crt1.o > > /usr/lib/../lib64/crti.o > > /opt/gcc/4.7.2/snos/lib/gcc/x86_64-suse-linux/4.7.2/crtbeginT.o > > -L/opt/cray/pmi/default/lib64 -L/opt/cray/alps/default/lib64 > > -L/global/homes/h/hargrove/GSCRATCH/OMPI/openmpi-1.9a1r27905/INSTALL/lib > > -L/opt/cray/udreg/2.3.2-1.0500.5931.3.1.ari/lib64 > > -L/opt/cray/ugni/4.0-1.0500.5836.7.58.ari/lib64 > > -L/opt/cray/pmi/4.0.0-1.0000.9282.69.4.ari/lib64 > > -L/opt/cray/dmapp/4.0.1-1.0500.5932.6.5.ari/lib64 > > -L/opt/cray/xpmem/0.1-2.0500.36799.3.6.ari/lib64 > > -L/opt/cray/alps/5.0.1-2.0500.7663.1.1.ari/lib64 > > -L/opt/cray/rca/1.0.0-2.0500.37705.3.12.ari/lib64 > > -L/opt/cray/mpt/5.6.0/gni/mpich2-gnu/47/lib > > -L/opt/cray/mpt/5.6.0/gni/sma/lib64 > > -L/opt/cray/libsci/12.0.00/gnu/47/sandybridge/lib > > -L/opt/cray/alps/5.0.1-2.0500.7663.1.1.ari/lib64 > > -L/opt/gcc/4.7.2/snos/lib/gcc/x86_64-suse-linux/4.7.2 > > -L/opt/gcc/4.7.2/snos/lib/gcc/x86_64-suse-linux/4.7.2/../../../../lib64 > > -L/lib/../lib64 -L/usr/lib/../lib64 > > -L/opt/gcc/4.7.2/snos/lib/gcc/x86_64-suse-linux/4.7.2/../../.. > > /scratch1/scratchdirs/hargrove/cceRJNtp.o -lmpi -lpmi -lalpslli -lalpsutil > > -lnsl -lutil -lnsl -lutil -lopen-rte -lpmi -lalpslli -lalpsutil -lnsl > > -lutil -lnsl -lutil -lopen-pal -lpmi -lalpslli -lalpsutil -lnsl -lutil > > -lnsl -lutil -lrca -L/opt/cray/atp/1.6.0/lib/ --undefined=_ATP_Data_Globals > > --undefined=__atpHandlerInstall -lAtpSigHCommData -lAtpSigHandler > > --start-group -lgfortran -lscicpp_gnu -lsci_gnu_mp -lstdc++ -lgfortran > > -lmpich_gnu_47 -lmpl -lrt -lsma -lxpmem -ldmapp -lugni -lpmi -lalpslli > > -lalpsutil -lalps -ludreg -lpthread -lm --end-group -lgomp -lpthread > > --start-group -lgcc -lgcc_eh -lc --end-group > > /opt/gcc/4.7.2/snos/lib/gcc/x86_64-suse-linux/4.7.2/crtend.o > > /usr/lib/../lib64/crtn.o > > collect2: error: ld returned 1 exit status > > > Of course the obvious work-around to try is adding "-llustre -llustreapi" > to my command line. However, that doesn't work because mpicc places my > "-l" args BEFORE its own "-lmpi". Since "-static" is also among the > arguments, no symbols are picked up from the luster libs when they appear > on the command line before "-lmpi", from which lustre symbols are > referenced. > > Best guess(es): > EITHER config/ompi_check_lustre.m4 is failing to add "-llustre -llustreapi" > to some variable > OR the variable set by config/ompi_check_lustre.m4 isn't making its way > into the application link command for some reason > > Note that this is a --disable-shared/--enable-static build which may differ > from other systems where LUSTRE support gets used/tested. > > -Paul > > > On Fri, Jan 25, 2013 at 12:01 PM, Ralph Castain <r...@open-mpi.org> wrote: > > > Thanks Paul > > > > I'm currently tracking down a problem on the Cray XE6 - it appears that > > recent OS release changed the way alps stores allocation info :-( > > > > Will hopefully have it running soon. > > > > On Jan 25, 2013, at 10:50 AM, Paul Hargrove <phhargr...@lbl.gov> wrote: > > > > I was able to compile with openmpi-1.9a1r27905.tar.bz > > > > I'll report again when I've had an opportunity to run something like > > ring_c. > > > > Thanks, > > -Paul > > > > > > On Tue, Jan 22, 2013 at 6:08 PM, Ralph Castain <r...@open-mpi.org> wrote: > > > >> I went ahead and removed the duplicate code, so this should work now. The > >> problem is that we re-factored the ompi_info/orte-info code, but didn't > >> complete the job - specifically, the orte-info tool didn't get updated. > >> It's about to get revamped yet again when the ompi-rte branch gets > >> committed to the trunk, so I'd rather not do any more with it now. > >> > >> Hopefully, this will be the minimum required. > >> > >> > >> On Jan 22, 2013, at 4:20 PM, Paul Hargrove <phhargr...@lbl.gov> wrote: > >> > >> I am using the openmpi-1.9a1r27886 tarball and I still see an error for > >> one of the two duplicate symbols: > >> > >> CCLD orte-info > >> ../../../orte/.libs/libopen-rte.a(orte_info_support.o): In function > >> `orte_info_show_orte_version': > >> ../../orte/runtime/orte_info_support.c:(.text+0xe10): multiple definition > >> of `orte_info_show_orte_version' > >> version.o:../../../../orte/tools/orte-info/version.c:(.text+0x2370): > >> first defined here > >> > >> -Paul > >> > >> > >> On Fri, Jan 18, 2013 at 3:52 AM, George Bosilca <bosi...@icl.utk.edu>wrote: > >> > >>> Luckily for us all the definitions contain the same constant (orte). > >>> r27864 should fix this. > >>> > >>> George. > >>> > >>> > >>> On Jan 18, 2013, at 06:21 , Paul Hargrove <phhargr...@lbl.gov> wrote: > >>> > >>> My employer has a nice new Cray XC30 (aka Cascade), and I thought I'd > >>> give Open MPI a quick test. > >>> > >>> Given that it is INTENDED to be API-compatible with the XE series, I > >>> began configuring with > >>> CC=cc CXX=CC FC=ftn --with-platform=lanl/cray_xe6/optimized-nopanasas > >>> However, since this is Intel h/w, I commented-out the following 2 lines > >>> in the platform file: > >>> with_wrapper_cflags="-march=amdfam10" > >>> CFLAGS=-march=amdfam10 > >>> > >>> I am using PrgEnv-gnu/5.0.15, though PrgEnv-intel is the default on our > >>> system > >>> > >>> As far as I know, use of 1.6.x is out - no ugni at all, right? > >>> So, I didn't even try. > >>> > >>> I gave openmpi-1.7rc6 a try, but the ALPS headers and libs have moved > >>> (as mentioned in ompi-trunk/config/orte_check_alps.m4). > >>> Perhaps one should CMR the updated-for-CLE-5 configure logic to the 1.7 > >>> branch? > >>> > >>> Next, I tried a trunk nightly tarball: openmpi-1.9a1r27862.tar.bz2 > >>> As I mentioned above, the trunk has the right logic for locating ALPS. > >>> However, it looks like there is some untested code, protected by "#if > >>> WANT_CRAY_PMI2_EXT", that needs work: > >>> > >>> make[2]: Entering directory > >>> `/global/scratch/sd/hargrove/OMPI/openmpi-1.9a1r27862/BUILD/orte/mca/db/pmi' > >>> CC db_pmi_component.lo > >>> CC db_pmi.lo > >>> ../../../../../orte/mca/db/pmi/db_pmi.c: In function 'store': > >>> ../../../../../orte/mca/db/pmi/db_pmi.c:202: error: 'ptr' undeclared > >>> (first use in this function) > >>> ../../../../../orte/mca/db/pmi/db_pmi.c:202: error: (Each undeclared > >>> identifier is reported only once > >>> ../../../../../orte/mca/db/pmi/db_pmi.c:202: error: for each function it > >>> appears in.) > >>> make[2]: *** [db_pmi.lo] Error 1 > >>> make[2]: Leaving directory > >>> `/global/scratch/sd/hargrove/OMPI/openmpi-1.9a1r27862/BUILD/orte/mca/db/pmi' > >>> make[1]: *** [all-recursive] Error 1 > >>> make[1]: Leaving directory > >>> `/global/scratch/sd/hargrove/OMPI/openmpi-1.9a1r27862/BUILD/orte' > >>> make: *** [all-recursive] Error 1 > >>> > >>> I added the missing "char *ptr" declaration a few lines before it's > >>> first use, and resumed the build. > >>> This time the build terminated at > >>> > >>> make[2]: Entering directory > >>> `/global/scratch/sd/hargrove/OMPI/openmpi-1.9a1r27862/BUILD/opal/tools/wrappers' > >>> CC opal_wrapper.o > >>> CCLD opal_wrapper > >>> /usr/bin/ld: attempted static link of dynamic object > >>> `../../../opal/.libs/libopen-pal.so' > >>> collect2: error: ld returned 1 exit status > >>> > >>> So I went back to the platform file and changed > >>> enable_shared=yes > >>> to > >>> enable_shared=no > >>> No big deal there - I had to make the same change for our XE6. > >>> > >>> And so I started back at configure (after a "make distclean", to be > >>> safe), and here is the next error: > >>> > >>> Making all in tools/orte-info > >>> make[2]: Entering directory > >>> `/global/scratch/sd/hargrove/OMPI/openmpi-1.9a1r27862/BUILD/orte/tools/orte-info' > >>> CCLD orte-info > >>> ../../../orte/.libs/libopen-rte.a(orte_info_support.o): In function > >>> `orte_info_show_orte_version': > >>> orte_info_support.c:(.text+0xd70): multiple definition of > >>> `orte_info_show_orte_version' > >>> version.o:version.c:(.text+0x4b0): first defined here > >>> ../../../orte/.libs/libopen-rte.a(orte_info_support.o):(.data+0x0): > >>> multiple definition of `orte_info_type_orte' > >>> orte-info.o:(.data+0x10): first defined here > >>> /usr/bin/ld: link errors found, deleting executable `orte-info' > >>> collect2: error: ld returned 1 exit status > >>> make[2]: *** [orte-info] Error 1 > >>> > >>> I am not sure how to fix this, but I would guess this is probably a > >>> simple fix for somebody who knows OMPI's build infrastructure better than > >>> I. > >>> > >>> -Paul > >>> > >>> -- > >>> Paul H. Hargrove phhargr...@lbl.gov > >>> Future Technologies Group > >>> Computer and Data Sciences Department Tel: +1-510-495-2352 > >>> Lawrence Berkeley National Laboratory Fax: +1-510-486-6900 > >>> _______________________________________________ > >>> devel mailing list > >>> de...@open-mpi.org > >>> http://www.open-mpi.org/mailman/listinfo.cgi/devel > >>> > >>> > >>> > >>> _______________________________________________ > >>> devel mailing list > >>> de...@open-mpi.org > >>> http://www.open-mpi.org/mailman/listinfo.cgi/devel > >>> > >> > >> > >> > >> -- > >> Paul H. Hargrove phhargr...@lbl.gov > >> Future Technologies Group > >> Computer and Data Sciences Department Tel: +1-510-495-2352 > >> Lawrence Berkeley National Laboratory Fax: +1-510-486-6900 > >> _______________________________________________ > >> devel mailing list > >> de...@open-mpi.org > >> http://www.open-mpi.org/mailman/listinfo.cgi/devel > >> > >> > >> > >> _______________________________________________ > >> devel mailing list > >> de...@open-mpi.org > >> http://www.open-mpi.org/mailman/listinfo.cgi/devel > >> > > > > > > > > -- > > Paul H. Hargrove phhargr...@lbl.gov > > Future Technologies Group > > Computer and Data Sciences Department Tel: +1-510-495-2352 > > Lawrence Berkeley National Laboratory Fax: +1-510-486-6900 > > _______________________________________________ > > devel mailing list > > de...@open-mpi.org > > http://www.open-mpi.org/mailman/listinfo.cgi/devel > > > > > > > > _______________________________________________ > > devel mailing list > > de...@open-mpi.org > > http://www.open-mpi.org/mailman/listinfo.cgi/devel > > > > > > -- > Paul H. Hargrove phhargr...@lbl.gov > Future Technologies Group > Computer and Data Sciences Department Tel: +1-510-495-2352 > Lawrence Berkeley National Laboratory Fax: +1-510-486-6900 > _______________________________________________ > devel mailing list > de...@open-mpi.org > http://www.open-mpi.org/mailman/listinfo.cgi/devel
