Dear all,
I'm encountering a segmentation fault (return code 139) when running the
`quick_tests/adolc.release` test in deal.II. The test builds successfully
but fails during execution. Below are the details:
Environment:
- OS: Ubuntu 22.04
- deal.II version: v.9.7.1
- Compiler: g++ 11.4.0
- ADOL-C version: 2.7.2
- NetCDF version: libnetcdf.so.19
- Build type: Release
Error Details:
#0 __strlen_avx2 () at ../sysdeps/x86_64/multiarch/strlen-avx2.S:74
#1 0x00007fffea0e8583 in __GI___strdup (s=0x1 <error: Cannot access memory
at address 0x1>) at ./string/strdup.c:41
#2 0x00007fffeb4370a8 in function () from
/lib/x86_64-linux-gnu/libnetcdf.so.19
#3 0x000055555557350e in main ()
- The crash occurs in __strdup with an invalid pointer (s=0x1), called from
libnetcdf.so.19. The executable is at
/home/grasvistds/dealii/build/tests/quick_tests/adolc.release/adolc.release.
The file
/dealii/build/tests/quick_tests/adolc.release/serial/failing_output is
empty.
Attachments:
- quick_tests.log
- Testing/Temporary/LastTest.log
Questions:
1. Is this a known issue with NetCDF or ADOL-C in deal.II?
2. Any suggestions for debugging (e.g., enabling debug symbols or checking
NetCDF inputs)?
3. Could this be related to my NetCDF/ADOL-C configuration?
Any guidance or pointers to similar issues would be appreciated. I can
provide additional logs or test outputs if needed.
Thank you,
Thanh Phuong Diep
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Start testing: Sep 25 07:40 CEST
----------------------------------------------------------
End testing: Sep 25 07:40 CEST
Test project /home/grasvistds/dealii/build
Start 10: test_dependency/quick_tests.mpi.release.executable
Start 12: test_dependency/quick_tests.p4est.release.executable
Start 15: test_dependency/quick_tests.step-metis.release.executable
Start 1: quick_tests/adolc.release
Start 2: quick_tests/affinity.release
Start 3: quick_tests/assimp.release
Start 4: quick_tests/boost_zlib.release
Start 5: quick_tests/gmsh.release
1/25 Test #5: quick_tests/gmsh.release .................................... Passed 23.51 sec
Start 6: quick_tests/gsl.release
2/25 Test #1: quick_tests/adolc.release ...................................***Failed 72.69 sec
/home/grasvistds/dealii/build/share/deal.II/scripts/run_test.sh: line 34: 505219 Segmentation fault (core dumped) "$@" > stdout 2>&1
gmake[7]: *** [CMakeFiles/quick_tests.adolc.release.test.dir/build.make:78: adolc.release/serial/output] Error 1
gmake[6]: *** [CMakeFiles/Makefile2:230: CMakeFiles/quick_tests.adolc.release.test.dir/all] Error 2
gmake[5]: *** [CMakeFiles/Makefile2:237: CMakeFiles/quick_tests.adolc.release.test.dir/rule] Error 2
gmake[4]: *** [Makefile:173: quick_tests.adolc.release.test] Error 2
[0mTest quick_tests/adolc.release: RUN[0m
[0m=============================== OUTPUT BEGIN ===============================[0m
[0m[200%] [32mBuilding CXX object CMakeFiles/quick_tests.adolc.release.dir/adolc.cc.o[0m
[300%] [32m[1mLinking CXX executable adolc.release/adolc.release[0m
[200%] Built target quick_tests.adolc.release
[233%] [34m[1mNormalizing test output file /home/grasvistds/dealii/build/tests/quick_tests/adolc.release/serial/output[0m
quick_tests/adolc.release: BUILD successful.
quick_tests/adolc.release: RUN failed. ------ Return code 139
quick_tests/adolc.release: RUN failed. ------ Result: /home/grasvistds/dealii/build/tests/quick_tests/adolc.release/serial/failing_output
quick_tests/adolc.release: RUN failed. ------ Partial output:
[0m
[0m[0m
[0mquick_tests/adolc.release: ****** RUN failed *******[0m
[0m[0m
[0m=============================== OUTPUT END ===============================[0m
[0mExpected stage PASSED - aborting[0m
[31mCMake Error at /home/grasvistds/dealii/build/share/deal.II/scripts/run_test.cmake:115 (message):
*** abort
[0m
Start 7: quick_tests/hdf5.release
3/25 Test #4: quick_tests/boost_zlib.release .............................. Passed 90.01 sec
Start 8: quick_tests/kokkos.release
4/25 Test #2: quick_tests/affinity.release ................................ Passed 90.35 sec
Start 9: quick_tests/lapack.release
5/25 Test #10: test_dependency/quick_tests.mpi.release.executable .......... Passed 91.05 sec
Start 14: quick_tests/scalapack.release
6/25 Test #3: quick_tests/assimp.release .................................. Passed 96.06 sec
Start 17: quick_tests/step-petsc.release
7/25 Test #15: test_dependency/quick_tests.step-metis.release.executable ... Passed 99.99 sec
Start 18: quick_tests/step-slepc.release
8/25 Test #6: quick_tests/gsl.release ..................................... Passed 79.20 sec
Start 19: quick_tests/step-trilinos.release
9/25 Test #8: quick_tests/kokkos.release .................................. Passed 13.72 sec
Start 20: quick_tests/step.release
10/25 Test #12: test_dependency/quick_tests.p4est.release.executable ........ Passed 104.44 sec
Start 21: quick_tests/sundials-ida.release
11/25 Test #7: quick_tests/hdf5.release .................................... Passed 71.00 sec
Start 22: quick_tests/symengine.release
12/25 Test #9: quick_tests/lapack.release .................................. Passed 98.93 sec
Start 23: quick_tests/taskflow.release
13/25 Test #14: quick_tests/scalapack.release ............................... Passed 100.32 sec
Start 24: quick_tests/tbb.release
14/25 Test #21: quick_tests/sundials-ida.release ............................ Passed 104.01 sec
Start 25: quick_tests/umfpack.release
15/25 Test #17: quick_tests/step-petsc.release .............................. Passed 115.39 sec
16/25 Test #18: quick_tests/step-slepc.release .............................. Passed 119.36 sec
Start 11: quick_tests/mpi.mpirun=2.release
17/25 Test #19: quick_tests/step-trilinos.release ........................... Passed 117.18 sec
18/25 Test #11: quick_tests/mpi.mpirun=2.release ............................ Passed 2.26 sec
Start 16: quick_tests/step-metis.mpirun=2.release
19/25 Test #16: quick_tests/step-metis.mpirun=2.release ..................... Passed 2.14 sec
20/25 Test #22: quick_tests/symengine.release ............................... Passed 82.06 sec
21/25 Test #20: quick_tests/step.release .................................... Passed 122.86 sec
22/25 Test #23: quick_tests/taskflow.release ................................ Passed 60.38 sec
23/25 Test #24: quick_tests/tbb.release ..................................... Passed 61.79 sec
24/25 Test #25: quick_tests/umfpack.release ................................. Passed 58.58 sec
Start 13: quick_tests/p4est.mpirun=10.release
25/25 Test #13: quick_tests/p4est.mpirun=10.release ......................... Passed 2.06 sec
96% tests passed, 1 tests failed out of 25
Total Test time (real) = 269.10 sec
The following tests FAILED:
1 - quick_tests/adolc.release (Failed)
Errors while running CTest
