Bug 1356207
| Summary: | SuperLUMT FTBFS on aarch64 epel7 | ||
|---|---|---|---|
| Product: | [Fedora] Fedora EPEL | Reporter: | D. Marlin <dmarlin> |
| Component: | SuperLUMT | Assignee: | Antonio T. (sagitter) <anto.trande> |
| Status: | CLOSED RAWHIDE | QA Contact: | Fedora Extras Quality Assurance <extras-qa> |
| Severity: | unspecified | Docs Contact: | |
| Priority: | unspecified | ||
| Version: | epel7 | CC: | anto.trande, nonamedotc, pbrobinson |
| Target Milestone: | --- | ||
| Target Release: | --- | ||
| Hardware: | aarch64 | ||
| OS: | Linux | ||
| Whiteboard: | |||
| Fixed In Version: | Doc Type: | If docs needed, set a value | |
| Doc Text: | Story Points: | --- | |
| Clone Of: | Environment: | ||
| Last Closed: | 2018-08-23 12:54:28 UTC | Type: | Bug |
| Regression: | --- | Mount Type: | --- |
| Documentation: | --- | CRM: | |
| Verified Versions: | Category: | --- | |
| oVirt Team: | --- | RHEL 7.3 requirements from Atomic Host: | |
| Cloudforms Team: | --- | Target Upstream Version: | |
| Embargoed: | |||
| Bug Depends On: | |||
| Bug Blocks: | 1285484 | ||
(In reply to D. Marlin from comment #0) > Description of problem: > > SuperLUMT fails to build from source for Fedora EPEL7 on RHELSA-7.2. > > > Version-Release number of selected component (if applicable): > > SuperLUMT-3.1.0-6.el7 > > > How reproducible: > > consistently > > > Steps to Reproduce: > 1. On a RHELSA-7.2 host: > mock rebuild SuperLUMT-3.1.0-6.el7.src.rpm > 2. > 3. > > Actual results: > > : > ~/build/BUILD/SuperLU_MT_3.1/EXAMPLE ~/build/BUILD/SuperLU_MT_3.1 > + cd /builddir/build/BUILD > + cd SuperLU_MT_3.1 > + pushd EXAMPLE > + export > LD_LIBRARY_PATH=/builddir/build/BUILDROOT/SuperLUMT-3.1.0-6.aabs.1.el7. > aarch64/usr/lib64:/usr/lib64 > + > LD_LIBRARY_PATH=/builddir/build/BUILDROOT/SuperLUMT-3.1.0-6.aabs.1.el7. > aarch64/usr/lib64:/usr/lib64 > + ./pslinsol -p 2 > Title: 32-bit adder, from Steve Hamm (Motorola) hamm.mot.com > Key: add32 > Dimension 4960x 4960; # nonzeros 23884 > Use minimum degree ordering on A'*A. > Factor time = 0.01 > Factor flops = 1.480820e+05 Mflops = 25.97 > Solve time = 0.00 > Solve flops = 7.297400e+04 Mflops = 165.09 > ||X - Xtrue||/||X|| = 1.609323e-06 > #NZ in factor L = 21442 > #NZ in factor U = 20005 > #NZ in L+U = 36487 > L\U MB 0.482 total MB needed 3.396 expansions 0 > RPM build errors: > error: Bad exit status from /var/tmp/rpm-tmp.GNQvkU (%check) > Bad exit status from /var/tmp/rpm-tmp.GNQvkU (%check) > Child return code was: 1 > EXCEPTION: [Error()] > Traceback (most recent call last): > File "/usr/lib/python2.7/site-packages/mockbuild/trace_decorator.py", line > 88, in trace > result = func(*args, **kw) > File "/usr/lib/python2.7/site-packages/mockbuild/util.py", line 547, in do > raise exception.Error("Command failed. See logs for output.\n # %s" % > (command,), child.returncode) > Error: Command failed. See logs for output. > # bash --login -c /usr/bin/rpmbuild -bb --target aarch64 --nodeps > /builddir/build/SPECS/SuperLUMT.spec > > It's a strange behavior, like a missed exit of test. It happens also on ppc64le. (In reply to Antonio Trande from comment #1) > (In reply to D. Marlin from comment #0) > > Description of problem: > > > > SuperLUMT fails to build from source for Fedora EPEL7 on RHELSA-7.2. > > > > > > Version-Release number of selected component (if applicable): > > > > SuperLUMT-3.1.0-6.el7 > > > > > > How reproducible: > > > > consistently > > > > > > Steps to Reproduce: > > 1. On a RHELSA-7.2 host: > > mock rebuild SuperLUMT-3.1.0-6.el7.src.rpm > > 2. > > 3. > > > > Actual results: > > > > : > > ~/build/BUILD/SuperLU_MT_3.1/EXAMPLE ~/build/BUILD/SuperLU_MT_3.1 > > + cd /builddir/build/BUILD > > + cd SuperLU_MT_3.1 > > + pushd EXAMPLE > > + export > > LD_LIBRARY_PATH=/builddir/build/BUILDROOT/SuperLUMT-3.1.0-6.aabs.1.el7. > > aarch64/usr/lib64:/usr/lib64 > > + > > LD_LIBRARY_PATH=/builddir/build/BUILDROOT/SuperLUMT-3.1.0-6.aabs.1.el7. > > aarch64/usr/lib64:/usr/lib64 > > + ./pslinsol -p 2 > > Title: 32-bit adder, from Steve Hamm (Motorola) hamm.mot.com > > Key: add32 > > Dimension 4960x 4960; # nonzeros 23884 > > Use minimum degree ordering on A'*A. > > Factor time = 0.01 > > Factor flops = 1.480820e+05 Mflops = 25.97 > > Solve time = 0.00 > > Solve flops = 7.297400e+04 Mflops = 165.09 > > ||X - Xtrue||/||X|| = 1.609323e-06 > > #NZ in factor L = 21442 > > #NZ in factor U = 20005 > > #NZ in L+U = 36487 > > L\U MB 0.482 total MB needed 3.396 expansions 0 > > RPM build errors: > > error: Bad exit status from /var/tmp/rpm-tmp.GNQvkU (%check) > > Bad exit status from /var/tmp/rpm-tmp.GNQvkU (%check) > > Child return code was: 1 > > EXCEPTION: [Error()] > > Traceback (most recent call last): > > File "/usr/lib/python2.7/site-packages/mockbuild/trace_decorator.py", line > > 88, in trace > > result = func(*args, **kw) > > File "/usr/lib/python2.7/site-packages/mockbuild/util.py", line 547, in do > > raise exception.Error("Command failed. See logs for output.\n # %s" % > > (command,), child.returncode) > > Error: Command failed. See logs for output. > > # bash --login -c /usr/bin/rpmbuild -bb --target aarch64 --nodeps > > /builddir/build/SPECS/SuperLUMT.spec > > > > > > It's a strange behavior, like a missed exit of test. It happens also on > ppc64le. It looks a memory issue but I fear that upstream does not support PPC64 and ARM64 architectures. If you have a patch feel free to post. + cd SuperLU_MT_3.1 + pushd EXAMPLE + export LD_LIBRARY_PATH=/builddir/build/BUILDROOT/SuperLUMT-3.1.0-7.el7.ppc64le/usr/lib64:/usr/lib64 + LD_LIBRARY_PATH=/builddir/build/BUILDROOT/SuperLUMT-3.1.0-7.el7.ppc64le/usr/lib64:/usr/lib64 + valgrind --leak-check=full -v ./pslinsol ==6257== Memcheck, a memory error detector ==6257== Copyright (C) 2002-2013, and GNU GPL'd, by Julian Seward et al. ==6257== Using Valgrind-3.10.0 and LibVEX; rerun with -h for copyright info ==6257== Command: ./pslinsol ==6257== --6257-- Valgrind options: --6257-- --leak-check=full --6257-- -v --6257-- Contents of /proc/version: --6257-- Linux version 4.4.6-300.fc23.ppc64le (mockbuild.fedoraproject.org) (gcc version 5.3.1 20151207 (Red Hat 5.3.1-2) (GCC) ) #1 SMP Wed Mar 23 19:27:26 UTC 2016 --6257-- Arch and hwcaps: PPC64, LittleEndian, ppc64-int-flt-vmx-FX-GX-VX-DFP-ISA2_07 --6257-- Page sizes: currently 65536, max supported 65536 --6257-- Valgrind library directory: /usr/lib64/valgrind --6257-- Reading syms from /usr/lib64/ld-2.17.so --6257-- Reading syms from /builddir/build/BUILD/SuperLU_MT_3.1/EXAMPLE/pslinsol --6257-- Reading syms from /usr/lib64/valgrind/memcheck-ppc64le-linux --6257-- object doesn't have a symbol table --6257-- object doesn't have a dynamic symbol table --6257-- Scheduler: using generic scheduler lock implementation. --6257-- Reading suppressions file: /usr/lib64/valgrind/default.supp ==6257== embedded gdbserver: reading from /tmp/vgdb-pipe-from-vgdb-to-6257-by-mockbuild-on- ==6257== embedded gdbserver: writing to /tmp/vgdb-pipe-to-vgdb-from-6257-by-mockbuild-on- ==6257== embedded gdbserver: shared mem /tmp/vgdb-pipe-shared-mem-vgdb-6257-by-mockbuild-on- ==6257== ==6257== TO CONTROL THIS PROCESS USING vgdb (which you probably ==6257== don't want to do, unless you know exactly what you're doing, ==6257== or are doing some strange experiment): ==6257== /usr/lib64/valgrind/../../bin/vgdb --pid=6257 ...command... ==6257== ==6257== TO DEBUG THIS PROCESS USING GDB: start GDB like this ==6257== /path/to/gdb ./pslinsol ==6257== and then give GDB the following command ==6257== target remote | /usr/lib64/valgrind/../../bin/vgdb --pid=6257 ==6257== --pid is optional if only one valgrind process is running ==6257== --6257-- REDIR: 0x4024e9c (ld64.so.2:strlen+8) redirected to 0x380a0164 (???) --6257-- REDIR: 0x4023380 (ld64.so.2:index+8) redirected to 0x380a01a8 (???) --6257-- Reading syms from /usr/lib64/valgrind/vgpreload_core-ppc64le-linux.so --6257-- object doesn't have a symbol table --6257-- Reading syms from /usr/lib64/valgrind/vgpreload_memcheck-ppc64le-linux.so --6257-- object doesn't have a symbol table --6257-- Reading syms from /builddir/build/BUILDROOT/SuperLUMT-3.1.0-7.el7.ppc64le/usr/lib64/libsuperlumt_s.so.3.1 --6257-- object doesn't have a symbol table --6257-- Reading syms from /usr/lib64/libopenblaso-r0.2.18.so --6257-- object doesn't have a symbol table --6257-- Reading syms from /usr/lib64/libopenblasp-r0.2.18.so --6257-- object doesn't have a symbol table --6257-- Reading syms from /usr/lib64/power8/libm-2.17.so --6257-- Reading syms from /usr/lib64/power8/libpthread-2.17.so --6257-- Reading syms from /usr/lib64/libgomp.so.1.0.0 --6257-- ELF section outside all mapped regions --6257-- Reading syms from /usr/lib64/libgomp.so.1.0.0 --6257-- object doesn't have a symbol table --6257-- Reading syms from /usr/lib64/power8/libc-2.17.so --6257-- Reading syms from /usr/lib64/libgcc_s-4.8.5-20150702.so.1 --6257-- ELF section outside all mapped regions --6257-- Reading syms from /usr/lib64/libgcc_s-4.8.5-20150702.so.1 --6257-- object doesn't have a symbol table --6257-- Reading syms from /usr/lib64/libgfortran.so.3.0.0 --6257-- ELF section outside all mapped regions --6257-- Reading syms from /usr/lib64/libgfortran.so.3.0.0 --6257-- object doesn't have a symbol table --6257-- REDIR: 0x6261cd0 (libc.so.6:strchrnul) redirected to 0x4050808 (_vgnU_ifunc_wrapper) --6257-- REDIR: 0x6266650 (libc.so.6:memrchr) redirected to 0x4050808 (_vgnU_ifunc_wrapper) --6257-- REDIR: 0x625c890 (libc.so.6:strlen) redirected to 0x4050808 (_vgnU_ifunc_wrapper) --6257-- REDIR: 0x625f930 (libc.so.6:memcpy) redirected to 0x4050808 (_vgnU_ifunc_wrapper) --6257-- REDIR: 0x625e930 (libc.so.6:memset) redirected to 0x4050808 (_vgnU_ifunc_wrapper) --6257-- REDIR: 0x625c940 (libc.so.6:strnlen) redirected to 0x4050808 (_vgnU_ifunc_wrapper) --6257-- REDIR: 0x626aa60 (libc.so.6:__memset_power7) redirected to 0x408ca10 (memset) --6257-- REDIR: 0x62669e0 (libc.so.6:__memcpy_power7) redirected to 0x408a720 (memcpy) --6257-- REDIR: 0x626c7e0 (libc.so.6:__strlen_power7) redirected to 0x4088050 (strlen) --6257-- REDIR: 0x625ce28 (libc.so.6:rindex+8) redirected to 0x40874b0 (rindex) --6257-- REDIR: 0x6255e60 (libc.so.6:calloc) redirected to 0x4086424 (calloc) --6257-- REDIR: 0x6253fe0 (libc.so.6:malloc) redirected to 0x4083d24 (malloc) --6257-- REDIR: 0x6253fe8 (libc.so.6:malloc+8) redirected to 0x4083d24 (malloc) --6257-- REDIR: 0x625e4a8 (libc.so.6:memmove+8) redirected to 0x408caf0 (memmove) --6257-- REDIR: 0x626d708 (libc.so.6:__GI_strncmp+8) redirected to 0x4088bd0 (__GI_strncmp) --6257-- REDIR: 0x6254428 (libc.so.6:free+8) redirected to 0x4085314 (free) --6257-- REDIR: 0x626c040 (libc.so.6:__GI_memchr) redirected to 0x4089fa0 (__GI_memchr) --6257-- REDIR: 0x626dba0 (libc.so.6:__strchrnul_power7) redirected to 0x408d210 (strchrnul) --6257-- REDIR: 0x626bd48 (libc.so.6:__GI_mempcpy+8) redirected to 0x408d5a0 (__GI_mempcpy) --6257-- REDIR: 0x6254420 (libc.so.6:free) redirected to 0x4085314 (free) --6257-- REDIR: 0x6255190 (libc.so.6:realloc) redirected to 0x408665c (realloc) Title: 32-bit adder, from Steve Hamm (Motorola) hamm.mot.com Key: add32 Dimension 4960x 4960; # nonzeros 23884 Use minimum degree ordering on A'*A. Factor time = 0.28 Factor flops = 1.477690e+05 Mflops = 0.54 Solve time = 0.02 Solve flops = 7.269000e+04 Mflops = 3.50 ||X - Xtrue||/||X|| = 1.609323e-06 #NZ in factor L = 21365 #NZ in factor U = 19940 #NZ in L+U = 36345 L\U MB 0.482 total MB needed 2.071 expansions 0 ==6257== ==6257== HEAP SUMMARY: ==6257== in use at exit: 4,048 bytes in 7 blocks ==6257== total heap usage: 112 allocs, 105 frees, 16,545,281 bytes allocated ==6257== ==6257== Searching for pointers to 7 not-freed blocks ==6257== Checked 26,085,784 bytes ==6257== ==6257== 1,728 bytes in 3 blocks are possibly lost in loss record 4 of 5 ==6257== at 0x40864E4: calloc (in /usr/lib64/valgrind/vgpreload_memcheck-ppc64le-linux.so) ==6257== by 0x4019F5B: _dl_allocate_tls (in /usr/lib64/ld-2.17.so) ==6257== by 0x614976F: pthread_create@@GLIBC_2.17 (in /usr/lib64/power8/libpthread-2.17.so) ==6257== by 0x6193953: ??? (in /usr/lib64/libgomp.so.1.0.0) ==6257== by 0x618DEF7: GOMP_parallel_start (in /usr/lib64/libgomp.so.1.0.0) ==6257== by 0x40C0247: psgstrf (in /builddir/build/BUILDROOT/SuperLUMT-3.1.0-7.el7.ppc64le/usr/lib64/libsuperlumt_s.so.3.1) ==6257== by 0x40B6BE7: psgssv (in /builddir/build/BUILDROOT/SuperLUMT-3.1.0-7.el7.ppc64le/usr/lib64/libsuperlumt_s.so.3.1) ==6257== by 0x1000100F: main (pslinsol.c:105) ==6257== ==6257== LEAK SUMMARY: ==6257== definitely lost: 0 bytes in 0 blocks ==6257== indirectly lost: 0 bytes in 0 blocks ==6257== possibly lost: 1,728 bytes in 3 blocks ==6257== still reachable: 2,320 bytes in 4 blocks ==6257== suppressed: 0 bytes in 0 blocks ==6257== Reachable blocks (those to which a pointer was found) are not shown. ==6257== To see them, rerun with: --leak-check=full --show-leak-kinds=all ==6257== ==6257== ERROR SUMMARY: 1 errors from 1 contexts (suppressed: 0 from 0) ==6257== ERROR SUMMARY: 1 errors from 1 contexts (suppressed: 0 from 0) error: Bad exit status from /var/tmp/rpm-tmp.v7H3UB (%check) |
Description of problem: SuperLUMT fails to build from source for Fedora EPEL7 on RHELSA-7.2. Version-Release number of selected component (if applicable): SuperLUMT-3.1.0-6.el7 How reproducible: consistently Steps to Reproduce: 1. On a RHELSA-7.2 host: mock rebuild SuperLUMT-3.1.0-6.el7.src.rpm 2. 3. Actual results: : ~/build/BUILD/SuperLU_MT_3.1/EXAMPLE ~/build/BUILD/SuperLU_MT_3.1 + cd /builddir/build/BUILD + cd SuperLU_MT_3.1 + pushd EXAMPLE + export LD_LIBRARY_PATH=/builddir/build/BUILDROOT/SuperLUMT-3.1.0-6.aabs.1.el7.aarch64/usr/lib64:/usr/lib64 + LD_LIBRARY_PATH=/builddir/build/BUILDROOT/SuperLUMT-3.1.0-6.aabs.1.el7.aarch64/usr/lib64:/usr/lib64 + ./pslinsol -p 2 Title: 32-bit adder, from Steve Hamm (Motorola) hamm.mot.com Key: add32 Dimension 4960x 4960; # nonzeros 23884 Use minimum degree ordering on A'*A. Factor time = 0.01 Factor flops = 1.480820e+05 Mflops = 25.97 Solve time = 0.00 Solve flops = 7.297400e+04 Mflops = 165.09 ||X - Xtrue||/||X|| = 1.609323e-06 #NZ in factor L = 21442 #NZ in factor U = 20005 #NZ in L+U = 36487 L\U MB 0.482 total MB needed 3.396 expansions 0 RPM build errors: error: Bad exit status from /var/tmp/rpm-tmp.GNQvkU (%check) Bad exit status from /var/tmp/rpm-tmp.GNQvkU (%check) Child return code was: 1 EXCEPTION: [Error()] Traceback (most recent call last): File "/usr/lib/python2.7/site-packages/mockbuild/trace_decorator.py", line 88, in trace result = func(*args, **kw) File "/usr/lib/python2.7/site-packages/mockbuild/util.py", line 547, in do raise exception.Error("Command failed. See logs for output.\n # %s" % (command,), child.returncode) Error: Command failed. See logs for output. # bash --login -c /usr/bin/rpmbuild -bb --target aarch64 --nodeps /builddir/build/SPECS/SuperLUMT.spec Expected results: builds without errors. Additional info: This package is ExclusiveArch: x86_64 %{ix86} armv7hl, according to the changelog: - Set ExclusiveArch because of openblas but openblas now builds for ppc64le: http://koji.fedoraproject.org/koji/buildinfo?buildID=753900 and a patch has been submitted so it builds for AArch64 as well. Using a test build of openblas to meet the dependency, I tried building SuperLUMT for AArch64. Everything seemed to go well until the EXAMPLE (above). I'm not sure what the actual error is, but I have a test setup where I can collect additional information or try patches, if that would be helpful.