GROMACS version: 2018.1
GROMACS modification: Yes/No
Here post your question
I’m running the make check command, but when I typed the make check command, I got the following results. I wonder what the cause of the problem is and how I can solve this problem.
[100%] Running all tests except physical validation
Test project /nas/nyjung0322/gromacs-2018.1/build
Start 1: TestUtilsUnitTests
1/39 Test #1: TestUtilsUnitTests … Passed 1.00 sec
Start 2: TestUtilsMpiUnitTests
2/39 Test #2: TestUtilsMpiUnitTests … Passed 0.68 sec
Start 3: MdlibUnitTest
3/39 Test #3: MdlibUnitTest … Passed 0.57 sec
Start 4: AppliedForcesUnitTest
4/39 Test #4: AppliedForcesUnitTest … Passed 0.60 sec
Start 5: ListedForcesTest
5/39 Test #5: ListedForcesTest … Passed 0.54 sec
Start 6: CommandLineUnitTests
6/39 Test #6: CommandLineUnitTests … Passed 0.68 sec
Start 7: EwaldUnitTests
7/39 Test #7: EwaldUnitTests … Passed 11.01 sec
Start 8: FFTUnitTests
8/39 Test #8: FFTUnitTests … Passed 0.57 sec
Start 9: GpuUtilsUnitTests
9/39 Test #9: GpuUtilsUnitTests …***Failed 20.77 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 (533 ms)
[ RUN ] HostAllocatorTest/0.VectorsWithDefaultHostAllocatorAlwaysWorks
[ OK ] HostAllocatorTest/0.VectorsWithDefaultHostAllocatorAlwaysWorks (492 ms)
[ RUN ] HostAllocatorTest/0.TransfersWithoutPinningWork
[ OK ] HostAllocatorTest/0.TransfersWithoutPinningWork (1034 ms)
[ RUN ] HostAllocatorTest/0.FillInputAlsoWorksAfterCallingReserve
[ OK ] HostAllocatorTest/0.FillInputAlsoWorksAfterCallingReserve (588 ms)
[ RUN ] HostAllocatorTest/0.TransfersWithPinningWorkWithCuda
[ OK ] HostAllocatorTest/0.TransfersWithPinningWorkWithCuda (1637 ms)
[ RUN ] HostAllocatorTest/0.ManualPinningOperationsWorkWithCuda
/nas/nyjung0322/gromacs-2018.1/src/gromacs/gpu_utils/tests/hostallocator.cpp:261: Failure
Value of: isPinned(input)
Actual: true
Expected: false
/nas/nyjung0322/gromacs-2018.1/src/gromacs/gpu_utils/tests/hostallocator.cpp:265: Failure
Value of: isPinned(input)
Actual: true
Expected: false
/nas/nyjung0322/gromacs-2018.1/src/gromacs/gpu_utils/tests/hostallocator.cpp:269: Failure
Value of: isPinned(input)
Actual: true
Expected: false
/nas/nyjung0322/gromacs-2018.1/src/gromacs/gpu_utils/tests/hostallocator.cpp:277: Failure
Value of: isPinned(input)
Actual: true
Expected: false
/nas/nyjung0322/gromacs-2018.1/src/gromacs/gpu_utils/tests/hostallocator.cpp:294: Failure
Value of: isPinned(input)
Actual: true
Expected: false
[ FAILED ] HostAllocatorTest/0.ManualPinningOperationsWorkWithCuda, where TypeParam = int (571 ms)
[ RUN ] HostAllocatorTest/0.StatefulAllocatorUsesMemory
[ OK ] HostAllocatorTest/0.StatefulAllocatorUsesMemory (634 ms)
[----------] 7 tests from HostAllocatorTest/0 (5491 ms total)
[----------] 7 tests from HostAllocatorTest/1, where TypeParam = float
[ RUN ] HostAllocatorTest/1.EmptyMemoryAlwaysWorks
[ OK ] HostAllocatorTest/1.EmptyMemoryAlwaysWorks (840 ms)
[ RUN ] HostAllocatorTest/1.VectorsWithDefaultHostAllocatorAlwaysWorks
[ OK ] HostAllocatorTest/1.VectorsWithDefaultHostAllocatorAlwaysWorks (967 ms)
[ RUN ] HostAllocatorTest/1.TransfersWithoutPinningWork
[ OK ] HostAllocatorTest/1.TransfersWithoutPinningWork (1269 ms)
[ RUN ] HostAllocatorTest/1.FillInputAlsoWorksAfterCallingReserve
[ OK ] HostAllocatorTest/1.FillInputAlsoWorksAfterCallingReserve (772 ms)
[ RUN ] HostAllocatorTest/1.TransfersWithPinningWorkWithCuda
[ OK ] HostAllocatorTest/1.TransfersWithPinningWorkWithCuda (1481 ms)
[ RUN ] HostAllocatorTest/1.ManualPinningOperationsWorkWithCuda
/nas/nyjung0322/gromacs-2018.1/src/gromacs/gpu_utils/tests/hostallocator.cpp:261: Failure
Value of: isPinned(input)
Actual: true
Expected: false
/nas/nyjung0322/gromacs-2018.1/src/gromacs/gpu_utils/tests/hostallocator.cpp:265: Failure
Value of: isPinned(input)
Actual: true
Expected: false
/nas/nyjung0322/gromacs-2018.1/src/gromacs/gpu_utils/tests/hostallocator.cpp:269: Failure
Value of: isPinned(input)
Actual: true
Expected: false
/nas/nyjung0322/gromacs-2018.1/src/gromacs/gpu_utils/tests/hostallocator.cpp:277: Failure
Value of: isPinned(input)
Actual: true
Expected: false
/nas/nyjung0322/gromacs-2018.1/src/gromacs/gpu_utils/tests/hostallocator.cpp:294: Failure
Value of: isPinned(input)
Actual: true
Expected: false
[ FAILED ] HostAllocatorTest/1.ManualPinningOperationsWorkWithCuda, where TypeParam = float (692 ms)
[ RUN ] HostAllocatorTest/1.StatefulAllocatorUsesMemory
[ OK ] HostAllocatorTest/1.StatefulAllocatorUsesMemory (549 ms)
[----------] 7 tests from HostAllocatorTest/1 (6572 ms total)
[----------] 7 tests from HostAllocatorTest/2, where TypeParam = gmx::BasicVector
[ RUN ] HostAllocatorTest/2.EmptyMemoryAlwaysWorks
[ OK ] HostAllocatorTest/2.EmptyMemoryAlwaysWorks (789 ms)
[ RUN ] HostAllocatorTest/2.VectorsWithDefaultHostAllocatorAlwaysWorks
[ OK ] HostAllocatorTest/2.VectorsWithDefaultHostAllocatorAlwaysWorks (698 ms)
[ RUN ] HostAllocatorTest/2.TransfersWithoutPinningWork
[ OK ] HostAllocatorTest/2.TransfersWithoutPinningWork (853 ms)
[ RUN ] HostAllocatorTest/2.FillInputAlsoWorksAfterCallingReserve
[ OK ] HostAllocatorTest/2.FillInputAlsoWorksAfterCallingReserve (464 ms)
[ RUN ] HostAllocatorTest/2.TransfersWithPinningWorkWithCuda
[ OK ] HostAllocatorTest/2.TransfersWithPinningWorkWithCuda (1134 ms)
[ RUN ] HostAllocatorTest/2.ManualPinningOperationsWorkWithCuda
/nas/nyjung0322/gromacs-2018.1/src/gromacs/gpu_utils/tests/hostallocator.cpp:261: Failure
Value of: isPinned(input)
Actual: true
Expected: false
/nas/nyjung0322/gromacs-2018.1/src/gromacs/gpu_utils/tests/hostallocator.cpp:265: Failure
Value of: isPinned(input)
Actual: true
Expected: false
/nas/nyjung0322/gromacs-2018.1/src/gromacs/gpu_utils/tests/hostallocator.cpp:269: Failure
Value of: isPinned(input)
Actual: true
Expected: false
/nas/nyjung0322/gromacs-2018.1/src/gromacs/gpu_utils/tests/hostallocator.cpp:277: Failure
Value of: isPinned(input)
Actual: true
Expected: false
/nas/nyjung0322/gromacs-2018.1/src/gromacs/gpu_utils/tests/hostallocator.cpp:294: Failure
Value of: isPinned(input)
Actual: true
Expected: false
[ FAILED ] HostAllocatorTest/2.ManualPinningOperationsWorkWithCuda, where TypeParam = gmx::BasicVector (419 ms)
[ RUN ] HostAllocatorTest/2.StatefulAllocatorUsesMemory
[ OK ] HostAllocatorTest/2.StatefulAllocatorUsesMemory (356 ms)
[----------] 7 tests from HostAllocatorTest/2 (4714 ms total)
[----------] 3 tests from AllocatorTest/0, where TypeParam = gmx::Allocator<float, gmx::HostAllocationPolicy>
[ RUN ] AllocatorTest/0.AllocatorAlignAllocatesWithAlignment
[ OK ] AllocatorTest/0.AllocatorAlignAllocatesWithAlignment (0 ms)
[ RUN ] AllocatorTest/0.VectorAllocatesAndResizesWithAlignment
[ OK ] AllocatorTest/0.VectorAllocatesAndResizesWithAlignment (0 ms)
[ RUN ] AllocatorTest/0.VectorAllocatesAndReservesWithAlignment
[ OK ] AllocatorTest/0.VectorAllocatesAndReservesWithAlignment (0 ms)
[----------] 3 tests from AllocatorTest/0 (0 ms total)
[----------] 3 tests from AllocatorTest/1, where TypeParam = gmx::Allocator<int, gmx::HostAllocationPolicy>
[ RUN ] AllocatorTest/1.AllocatorAlignAllocatesWithAlignment
[ OK ] AllocatorTest/1.AllocatorAlignAllocatesWithAlignment (0 ms)
[ RUN ] AllocatorTest/1.VectorAllocatesAndResizesWithAlignment
[ OK ] AllocatorTest/1.VectorAllocatesAndResizesWithAlignment (1 ms)
[ RUN ] AllocatorTest/1.VectorAllocatesAndReservesWithAlignment
[ OK ] AllocatorTest/1.VectorAllocatesAndReservesWithAlignment (0 ms)
[----------] 3 tests from AllocatorTest/1 (1 ms total)
[----------] 3 tests from AllocatorTest/2, where TypeParam = gmx::Allocator<gmx::BasicVector, gmx::HostAllocationPolicy>
[ RUN ] AllocatorTest/2.AllocatorAlignAllocatesWithAlignment
[ OK ] AllocatorTest/2.AllocatorAlignAllocatesWithAlignment (0 ms)
[ RUN ] AllocatorTest/2.VectorAllocatesAndResizesWithAlignment
[ OK ] AllocatorTest/2.VectorAllocatesAndResizesWithAlignment (0 ms)
[ RUN ] AllocatorTest/2.VectorAllocatesAndReservesWithAlignment
[ OK ] AllocatorTest/2.VectorAllocatesAndReservesWithAlignment (0 ms)
[----------] 3 tests from AllocatorTest/2 (0 ms total)
[----------] 5 tests from PinnedMemoryCheckerTest
[ RUN ] PinnedMemoryCheckerTest.DefaultContainerIsRecognized
/nas/nyjung0322/gromacs-2018.1/src/gromacs/gpu_utils/tests/pinnedmemorychecker.cpp:75: Failure
Value of: isHostMemoryPinned(dummy.data())
Actual: true
Expected: false
[ FAILED ] PinnedMemoryCheckerTest.DefaultContainerIsRecognized (600 ms)
[ RUN ] PinnedMemoryCheckerTest.NonpinnedContainerIsRecognized
/nas/nyjung0322/gromacs-2018.1/src/gromacs/gpu_utils/tests/pinnedmemorychecker.cpp:87: Failure
Value of: isHostMemoryPinned(dummy.data())
Actual: true
Expected: false
[ FAILED ] PinnedMemoryCheckerTest.NonpinnedContainerIsRecognized (639 ms)
[ RUN ] PinnedMemoryCheckerTest.PinnedContainerIsRecognized
[ OK ] PinnedMemoryCheckerTest.PinnedContainerIsRecognized (905 ms)
[ RUN ] PinnedMemoryCheckerTest.DefaultCBufferIsRecognized
/nas/nyjung0322/gromacs-2018.1/src/gromacs/gpu_utils/tests/pinnedmemorychecker.cpp:111: Failure
Value of: isHostMemoryPinned(dummy)
Actual: true
Expected: false
[ FAILED ] PinnedMemoryCheckerTest.DefaultCBufferIsRecognized (317 ms)
[ RUN ] PinnedMemoryCheckerTest.PinnedCBufferIsRecognized
[ OK ] PinnedMemoryCheckerTest.PinnedCBufferIsRecognized (916 ms)
[----------] 5 tests from PinnedMemoryCheckerTest (3377 ms total)
[----------] Global test environment tear-down
[==========] 35 tests from 7 test cases ran. (20155 ms total)
[ PASSED ] 29 tests.
[ FAILED ] 6 tests, listed below:
[ FAILED ] HostAllocatorTest/0.ManualPinningOperationsWorkWithCuda, where TypeParam = int
[ FAILED ] HostAllocatorTest/1.ManualPinningOperationsWorkWithCuda, where TypeParam = float
[ FAILED ] HostAllocatorTest/2.ManualPinningOperationsWorkWithCuda, where TypeParam = gmx::BasicVector
[ FAILED ] PinnedMemoryCheckerTest.DefaultContainerIsRecognized
[ FAILED ] PinnedMemoryCheckerTest.NonpinnedContainerIsRecognized
[ FAILED ] PinnedMemoryCheckerTest.DefaultCBufferIsRecognized
6 FAILED TESTS
Start 10: HardwareUnitTests
10/39 Test #10: HardwareUnitTests … Passed 0.89 sec
Start 11: MathUnitTests
11/39 Test #11: MathUnitTests … Passed 0.56 sec
Start 12: MdrunUtilityUnitTests
12/39 Test #12: MdrunUtilityUnitTests … Passed 0.48 sec
Start 13: MdrunUtilityMpiUnitTests
13/39 Test #13: MdrunUtilityMpiUnitTests … Passed 0.48 sec
Start 14: OnlineHelpUnitTests
14/39 Test #14: OnlineHelpUnitTests … Passed 0.55 sec
Start 15: OptionsUnitTests
15/39 Test #15: OptionsUnitTests … Passed 0.48 sec
Start 16: RandomUnitTests
16/39 Test #16: RandomUnitTests … Passed 0.62 sec
Start 17: TableUnitTests
17/39 Test #17: TableUnitTests … Passed 0.53 sec
Start 18: TaskAssignmentUnitTests
18/39 Test #18: TaskAssignmentUnitTests … Passed 0.57 sec
Start 19: UtilityUnitTests
19/39 Test #19: UtilityUnitTests … Passed 0.60 sec
Start 20: FileIOTests
20/39 Test #20: FileIOTests … Passed 0.57 sec
Start 21: PullTest
21/39 Test #21: PullTest … Passed 0.40 sec
Start 22: AwhTest
22/39 Test #22: AwhTest … Passed 0.62 sec
Start 23: SimdUnitTests
23/39 Test #23: SimdUnitTests … Passed 0.43 sec
Start 24: GmxAnaTest
24/39 Test #24: GmxAnaTest … Passed 0.67 sec
Start 25: GmxPreprocessTests
25/39 Test #25: GmxPreprocessTests … Passed 0.79 sec
Start 26: CorrelationsTest
26/39 Test #26: CorrelationsTest … Passed 1.42 sec
Start 27: AnalysisDataUnitTests
27/39 Test #27: AnalysisDataUnitTests … Passed 0.60 sec
Start 28: SelectionUnitTests
28/39 Test #28: SelectionUnitTests … Passed 1.09 sec
Start 29: TrajectoryAnalysisUnitTests
29/39 Test #29: TrajectoryAnalysisUnitTests … Passed 1.72 sec
Start 30: EnergyAnalysisUnitTests
30/39 Test #30: EnergyAnalysisUnitTests … Passed 0.86 sec
Start 31: CompatibilityHelpersTests
31/39 Test #31: CompatibilityHelpersTests … Passed 0.43 sec
Start 32: MdrunTests
32/39 Test #32: MdrunTests … Passed 49.42 sec
Start 33: MdrunMpiTests
33/39 Test #33: MdrunMpiTests … Passed 12.52 sec
Start 34: regressiontests/simple
34/39 Test #34: regressiontests/simple … Passed 55.01 sec
Start 35: regressiontests/complex
35/39 Test #35: regressiontests/complex … Passed 430.93 sec
Start 36: regressiontests/kernel
36/39 Test #36: regressiontests/kernel … Passed 512.42 sec
Start 37: regressiontests/freeenergy
37/39 Test #37: regressiontests/freeenergy … Passed 95.42 sec
Start 38: regressiontests/pdb2gmx
38/39 Test #38: regressiontests/pdb2gmx … Passed 163.59 sec
Start 39: regressiontests/rotation
39/39 Test #39: regressiontests/rotation … Passed 44.03 sec
97% tests passed, 1 tests failed out of 39
Label Time Summary:
GTest = 113.72 secproc (33 tests)
IntegrationTest = 62.61 secproc (3 tests)
MpiTest = 13.67 secproc (3 tests)
UnitTest = 51.11 secproc (30 tests)
Total Test time (real) = 1415.46 sec
The following tests FAILED:
9 - GpuUtilsUnitTests (Failed)
Errors while running CTest
CMakeFiles/run-ctest-nophys.dir/build.make:70: recipe for target ‘CMakeFiles/run-ctest-nophys’ failed
make[3]: *** [CMakeFiles/run-ctest-nophys] Error 8
CMakeFiles/Makefile2:2472: recipe for target ‘CMakeFiles/run-ctest-nophys.dir/all’ failed
make[2]: *** [CMakeFiles/run-ctest-nophys.dir/all] Error 2
CMakeFiles/Makefile2:2505: recipe for target ‘CMakeFiles/check.dir/rule’ failed
make[1]: *** [CMakeFiles/check.dir/rule] Error 2
Makefile:615: recipe for target ‘check’ failed
make: *** [check] Error 2