[gmx-users] Three Regression tests were failed while Installing GROMACS 2018 on Dell EMC T640(Xeon Gold 6152) with Tesla K880 GPU (RHEL 7.4)
신동규
thebiosdk at gmail.com
Wed Mar 14 17:06:44 CET 2018
Hi,
I am trying to install the latest GROMACS on Dell EMC T640(Xeon Gold 6152)
with Tesla K880 GPU (RHEL 7.4)
AVX-512F related cmake error was fixed after install devtoolset-6.
cmake command was:
[root at xxx build] cmake .. -DGMX_GPU=on -DGMX_BUILD_OWN_FFTW=ON
-DREGRESSIONTEST_DOWNLOAD=ON
3 regression tests(8 - FFTUnitTests (SEGFAULT), 9 - GpuUtilsUnitTests
(Timeout), 26 - CorrelationsTest (SEGFAULT)) were failed but I don't know
how to fix it... actually I don't know It should be fix or not.
Any comment or help would be appreciated.
Dongkyu
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Output is here..
.....
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Start 1: TestUtilsUnitTests
1/39 Test #1: TestUtilsUnitTests ............... Passed 0.02 sec
Start 2: TestUtilsMpiUnitTests
2/39 Test #2: TestUtilsMpiUnitTests ............ Passed 0.01 sec
Start 3: MdlibUnitTest
3/39 Test #3: MdlibUnitTest .................... Passed 0.01 sec
Start 4: AppliedForcesUnitTest
4/39 Test #4: AppliedForcesUnitTest ............ Passed 0.01 sec
Start 5: ListedForcesTest
5/39 Test #5: ListedForcesTest ................. Passed 0.01 sec
Start 6: CommandLineUnitTests
6/39 Test #6: CommandLineUnitTests ............. Passed 0.01 sec
Start 7: EwaldUnitTests
7/39 Test #7: EwaldUnitTests ................... Passed 13.32 sec
Start 8: FFTUnitTests
8/39 Test #8: FFTUnitTests .....................***Exception: SegFault
0.06 sec
[==========] Running 14 tests from 4 test cases.
[----------] Global test environment set-up.
[----------] 2 tests from ManyFFTTest
[ RUN ] ManyFFTTest.Complex1DLength48Multi5Test
Start 9: GpuUtilsUnitTests
9/39 Test #9: GpuUtilsUnitTests ................***Timeout 30.70 sec
[==========] Running 35 tests from 7 test cases.
[----------] Global test environment set-up.
[----------] 7 tests from HostAllocatorTest/0, where TypeParam = int
[ RUN ] HostAllocatorTest/0.EmptyMemoryAlwaysWorks
[ OK ] HostAllocatorTest/0.EmptyMemoryAlwaysWorks (7472 ms)
[ RUN ] HostAllocatorTest/0.VectorsWithDefaultHostAllocatorAlwaysWorks
[ OK ] HostAllocatorTest/0.VectorsWithDefaultHostAllocatorAlwaysWorks
(1673 ms)
[ RUN ] HostAllocatorTest/0.TransfersWithoutPinningWork
[ OK ] HostAllocatorTest/0.TransfersWithoutPinningWork (2192 ms)
[ RUN ] HostAllocatorTest/0.FillInputAlsoWorksAfterCallingReserve
[ OK ] HostAllocatorTest/0.FillInputAlsoWorksAfterCallingReserve
(1217 ms)
[ RUN ] HostAllocatorTest/0.TransfersWithPinningWorkWithCuda
[ OK ] HostAllocatorTest/0.TransfersWithPinningWorkWithCuda (2736 ms)
[ RUN ] HostAllocatorTest/0.ManualPinningOperationsWorkWithCuda
[ OK ] HostAllocatorTest/0.ManualPinningOperationsWorkWithCuda (1211
ms)
[ RUN ] HostAllocatorTest/0.StatefulAllocatorUsesMemory
[ OK ] HostAllocatorTest/0.StatefulAllocatorUsesMemory (1182 ms)
[----------] 7 tests from HostAllocatorTest/0 (17683 ms total)
[----------] 7 tests from HostAllocatorTest/1, where TypeParam = float
[ RUN ] HostAllocatorTest/1.EmptyMemoryAlwaysWorks
[ OK ] HostAllocatorTest/1.EmptyMemoryAlwaysWorks (1730 ms)
[ RUN ] HostAllocatorTest/1.VectorsWithDefaultHostAllocatorAlwaysWorks
[ OK ] HostAllocatorTest/1.VectorsWithDefaultHostAllocatorAlwaysWorks
(1681 ms)
[ RUN ] HostAllocatorTest/1.TransfersWithoutPinningWork
[ OK ] HostAllocatorTest/1.TransfersWithoutPinningWork (2223 ms)
[ RUN ] HostAllocatorTest/1.FillInputAlsoWorksAfterCallingReserve
[ OK ] HostAllocatorTest/1.FillInputAlsoWorksAfterCallingReserve
(1198 ms)
[ RUN ] HostAllocatorTest/1.TransfersWithPinningWorkWithCuda
[ OK ] HostAllocatorTest/1.TransfersWithPinningWorkWithCuda (2669 ms)
[ RUN ] HostAllocatorTest/1.ManualPinningOperationsWorkWithCuda
[ OK ] HostAllocatorTest/1.ManualPinningOperationsWorkWithCuda (1223
ms)
[ RUN ] HostAllocatorTest/1.StatefulAllocatorUsesMemory
[ OK ] HostAllocatorTest/1.StatefulAllocatorUsesMemory (1194 ms)
[----------] 7 tests from HostAllocatorTest/1 (11918 ms total)
[----------] 7 tests from HostAllocatorTest/2, where TypeParam =
gmx::BasicVector<float>
[ RUN ] HostAllocatorTest/2.EmptyMemoryAlwaysWorks
Start 10: HardwareUnitTests
10/39 Test #10: HardwareUnitTests ................ Passed 0.04 sec
Start 11: MathUnitTests
11/39 Test #11: MathUnitTests .................... Passed 0.02 sec
Start 12: MdrunUtilityUnitTests
12/39 Test #12: MdrunUtilityUnitTests ............ Passed 0.01 sec
Start 13: MdrunUtilityMpiUnitTests
13/39 Test #13: MdrunUtilityMpiUnitTests ......... Passed 0.02 sec
Start 14: OnlineHelpUnitTests
14/39 Test #14: OnlineHelpUnitTests .............. Passed 0.01 sec
Start 15: OptionsUnitTests
15/39 Test #15: OptionsUnitTests ................. Passed 0.01 sec
Start 16: RandomUnitTests
16/39 Test #16: RandomUnitTests .................. Passed 0.02 sec
Start 17: TableUnitTests
17/39 Test #17: TableUnitTests ................... Passed 0.22 sec
Start 18: TaskAssignmentUnitTests
18/39 Test #18: TaskAssignmentUnitTests .......... Passed 0.01 sec
Start 19: UtilityUnitTests
19/39 Test #19: UtilityUnitTests ................. Passed 0.02 sec
Start 20: FileIOTests
20/39 Test #20: FileIOTests ...................... Passed 0.01 sec
Start 21: PullTest
21/39 Test #21: PullTest ......................... Passed 0.01 sec
Start 22: AwhTest
22/39 Test #22: AwhTest .......................... Passed 0.01 sec
Start 23: SimdUnitTests
23/39 Test #23: SimdUnitTests .................... Passed 0.06 sec
Start 24: GmxAnaTest
24/39 Test #24: GmxAnaTest ....................... Passed 0.04 sec
Start 25: GmxPreprocessTests
25/39 Test #25: GmxPreprocessTests ............... Passed 0.16 sec
Start 26: CorrelationsTest
26/39 Test #26: CorrelationsTest .................***Exception: SegFault
0.95 sec
[==========] Running 21 tests from 3 test cases.
[----------] Global test environment set-up.
[----------] 10 tests from AutocorrTest
[ RUN ] AutocorrTest.EacNormal
[ OK ] AutocorrTest.EacNormal (117 ms)
[ RUN ] AutocorrTest.EacNoNormalize
Start 27: AnalysisDataUnitTests
27/39 Test #27: AnalysisDataUnitTests ............ Passed 0.04 sec
Start 28: SelectionUnitTests
28/39 Test #28: SelectionUnitTests ............... Passed 0.11 sec
Start 29: TrajectoryAnalysisUnitTests
29/39 Test #29: TrajectoryAnalysisUnitTests ...... Passed 0.25 sec
Start 30: EnergyAnalysisUnitTests
30/39 Test #30: EnergyAnalysisUnitTests .......... Passed 0.34 sec
Start 31: CompatibilityHelpersTests
31/39 Test #31: CompatibilityHelpersTests ........ Passed 0.01 sec
Start 32: MdrunTests
32/39 Test #32: MdrunTests ....................... Passed 97.24 sec
Start 33: MdrunMpiTests
33/39 Test #33: MdrunMpiTests .................... Passed 9.60 sec
Start 34: regressiontests/simple
34/39 Test #34: regressiontests/simple ........... Passed 134.02 sec
Start 35: regressiontests/complex
35/39 Test #35: regressiontests/complex .......... Passed 529.91 sec
Start 36: regressiontests/kernel
36/39 Test #36: regressiontests/kernel ........... Passed 1158.78 sec
Start 37: regressiontests/freeenergy
37/39 Test #37: regressiontests/freeenergy ....... Passed 130.76 sec
Start 38: regressiontests/pdb2gmx
38/39 Test #38: regressiontests/pdb2gmx .......... Passed 383.37 sec
Start 39: regressiontests/rotation
39/39 Test #39: regressiontests/rotation ......... Passed 95.30 sec
92% tests passed, 3 tests failed out of 39
Label Time Summary:
GTest = 153.32 sec*proc (33 tests)
IntegrationTest = 106.88 sec*proc (3 tests)
MpiTest = 9.63 sec*proc (3 tests)
UnitTest = 46.44 sec*proc (30 tests)
Total Test time (real) = 2585.53 sec
The following tests FAILED:
8 - FFTUnitTests (SEGFAULT)
9 - GpuUtilsUnitTests (Timeout)
26 - CorrelationsTest (SEGFAULT)
Errors while running CTest
CMakeFiles/run-ctest-nophys.dir/build.make:57: recipe for target
'CMakeFiles/run-ctest-nophys' failed
make[3]: *** [CMakeFiles/run-ctest-nophys] Error 8
CMakeFiles/Makefile2:1224: recipe for target
'CMakeFiles/run-ctest-nophys.dir/all' failed
make[2]: *** [CMakeFiles/run-ctest-nophys.dir/all] Error 2
CMakeFiles/Makefile2:1035: recipe for target 'CMakeFiles/check.dir/rule'
failed
make[1]: *** [CMakeFiles/check.dir/rule] Error 2
Makefile:574: recipe for target 'check' failed
make: *** [check] Error 2
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