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From building gromacs-2019.6 on epel8: 26/27 Test #26: SimdUnitTests ....................***Exception: SegFault 0.58 sec [buildvm-03:3011859:0:3011859] Caught signal 11 (Segmentation fault: invalid permissions for mapped object at address 0x7fd431277768) ==== backtrace ==== 0 /lib64/libucs.so.0(+0x18bb0) [0x7fd430c0abb0] 1 /lib64/libucs.so.0(+0x18d8a) [0x7fd430c0ad8a] 2 /lib64/libuct.so.0(+0x1655b) [0x7fd431b0055b] 3 /lib64/ld-linux-x86-64.so.2(+0xfd0a) [0x7fd44329dd0a] 4 /lib64/ld-linux-x86-64.so.2(+0xfe0a) [0x7fd44329de0a] 5 /lib64/ld-linux-x86-64.so.2(+0x13def) [0x7fd4432a1def] 6 /lib64/libc.so.6(_dl_catch_exception+0x77) [0x7fd43f1e2ab7] 7 /lib64/ld-linux-x86-64.so.2(+0x1365e) [0x7fd4432a165e] 8 /lib64/libdl.so.2(+0x11ba) [0x7fd442b401ba] 9 /lib64/libc.so.6(_dl_catch_exception+0x77) [0x7fd43f1e2ab7] 10 /lib64/libc.so.6(_dl_catch_error+0x33) [0x7fd43f1e2b53] 11 /lib64/libdl.so.2(+0x1939) [0x7fd442b40939] 12 /lib64/libdl.so.2(dlopen+0x4a) [0x7fd442b4025a] 13 /usr/lib64/openmpi/lib/libopen-pal.so.40(+0x6df05) [0x7fd43ebacf05] 14 /usr/lib64/openmpi/lib/libopen-pal.so.40(mca_base_component_repository_open+0x206) [0x7fd43eb8ab16] 15 /usr/lib64/openmpi/lib/libopen-pal.so.40(mca_base_component_find+0x35a) [0x7fd43eb89a5a] 16 /usr/lib64/openmpi/lib/libopen-pal.so.40(mca_base_framework_components_register+0x2e) [0x7fd43eb953ce] 17 /usr/lib64/openmpi/lib/libopen-pal.so.40(mca_base_framework_register+0x252) [0x7fd43eb958b2] 18 /usr/lib64/openmpi/lib/libopen-pal.so.40(mca_base_framework_open+0x15) [0x7fd43eb95915] 19 /usr/lib64/openmpi/lib/libmpi.so.40(ompi_mpi_init+0x674) [0x7fd442d94494] 20 /usr/lib64/openmpi/lib/libmpi.so.40(PMPI_Init_thread+0x55) [0x7fd442dc4805] 21 /builddir/build/BUILD/gromacs-2019.6/openmpi/bin/simd-test(+0x112d35) [0x5639771a3d35] 22 /builddir/build/BUILD/gromacs-2019.6/openmpi/bin/simd-test(+0xf01cd) [0x5639771811cd] 23 /builddir/build/BUILD/gromacs-2019.6/openmpi/bin/simd-test(+0xcfe6a) [0x563977160e6a] 24 /builddir/build/BUILD/gromacs-2019.6/openmpi/bin/simd-test(+0x62fd0) [0x5639770f3fd0] 25 /lib64/libc.so.6(__libc_start_main+0xf3) [0x7fd43f0cd873] 26 /builddir/build/BUILD/gromacs-2019.6/openmpi/bin/simd-test(+0x6390e) [0x5639770f490e] =================== (see https://koji.fedoraproject.org/koji/taskinfo?taskID=41996718) We had this on rawhide a while back as well, so we need to update openmpi. This might be bug#1744780.
https://access.redhat.com/solutions/3592 Please provide the sosreport. Thanks
(In reply to Christoph Junghans from comment #0) > (see https://koji.fedoraproject.org/koji/taskinfo?taskID=41996718) https://kojipkgs.fedoraproject.org//work/tasks/6793/41996793/root.log DEBUG util.py:598: ucx x86_64 1.4.0-3.el8 build 416 k DEBUG util.py:598: openmpi x86_64 4.0.1-3.el8 build 2.8 M It seems you are using the old release/build of ucx and openmpi. Could you please try latest build for ucx-1.6.1-1.el8 and openmpi-4.0.2-2.el8 ? > We had this on rawhide a while back as well, so we need to update openmpi. We are likely need to update ucx, not openmpi.
(In reply to Honggang LI from comment #2) > (In reply to Christoph Junghans from comment #0) > > > (see https://koji.fedoraproject.org/koji/taskinfo?taskID=41996718) > > > https://kojipkgs.fedoraproject.org//work/tasks/6793/41996793/root.log > > DEBUG util.py:598: ucx x86_64 1.4.0-3.el8 > build 416 k > DEBUG util.py:598: openmpi x86_64 4.0.1-3.el8 > build 2.8 M > > It seems you are using the old release/build of ucx and openmpi. Could you > please try latest > build for ucx-1.6.1-1.el8 and openmpi-4.0.2-2.el8 ? How do I get these in epel8/ mock?
(In reply to Christoph Junghans from comment #3) > (In reply to Honggang LI from comment #2) > > (In reply to Christoph Junghans from comment #0) > > > > > (see https://koji.fedoraproject.org/koji/taskinfo?taskID=41996718) > > > > > > https://kojipkgs.fedoraproject.org//work/tasks/6793/41996793/root.log > > > > DEBUG util.py:598: ucx x86_64 1.4.0-3.el8 > > build 416 k > > DEBUG util.py:598: openmpi x86_64 4.0.1-3.el8 > > build 2.8 M > > > > It seems you are using the old release/build of ucx and openmpi. Could you > > please try latest > > build for ucx-1.6.1-1.el8 and openmpi-4.0.2-2.el8 ? > > How do I get these in epel8/ mock? ucx & openmpi are part of the RHEL release, and thus, not available in epel.
As this is an EPEL8 not an RHEL8 issue, this can be closed.
(In reply to Christoph Junghans from comment #3) > > DEBUG util.py:598: ucx x86_64 1.4.0-3.el8 > > build 416 k > > DEBUG util.py:598: openmpi x86_64 4.0.1-3.el8 > > build 2.8 M ucx-1.4.0-3.el8 and openmpi-4.0.1-3.el8 are available for epel8, because they had been released in RHEL-8.1 distro. That means they are available for CENTOS-8. That is why they are used when you build package with mock epel8 configuration. > > It seems you are using the old release/build of ucx and openmpi. Could you > > please try latest > > build for ucx-1.6.1-1.el8 and openmpi-4.0.2-2.el8 ? > > How do I get these in epel8/ mock? ucx-1.6.1-1.el8 and openmpi-4.0.2-2.el8 are not public released yet. They had been built for RHEL-8.2. When RHEL-8.2 released, they will be available for CENTOS-8.2 too. So, please wait.
(In reply to Christoph Junghans from comment #5) > As this is an EPEL8 not an RHEL8 issue, this can be closed. Close this bug. Please reopen it or file a new bug, if issue persist with ucx-1.6.1-1.el8 and openmpi-4.0.2-2.el8 when centos-8.2 released.