[gmx-users] GMX 2018 regression tests: cufftPlanMany R2C plan failure (error code 5)
Szilárd Páll
pall.szilard at gmail.com
Thu Feb 8 18:50:55 CET 2018
On Thu, Feb 8, 2018 at 6:46 PM, Alex <nedomacho at gmail.com> wrote:
> Are you suggesting that i should accept these results and install the 2018
> version?
>
Yes, your GROMACS build seems fine.
make check simply runs the test that I suggested you to run manually (and
which successfully finished). The 30 s timeout on CMake tests interrupts
this set of unit tests given your unusually long execution time which is
the reason for the failure.
>
> Thanks,
>
> Alex
>
> On Thu, Feb 8, 2018 at 10:43 AM, Mark Abraham <mark.j.abraham at gmail.com>
> wrote:
>
> > Hi,
> >
> > PATH doesn't matter, only what ldd thinks matters.
> >
> > I have opened https://redmine.gromacs.org/issues/2405 to address that
> the
> > implementation of these tests are perhaps proving more pain than
> usefulness
> > (from this thread and others I have seen).
> >
> > Mark
> >
> > On Thu, Feb 8, 2018 at 6:41 PM Alex <nedomacho at gmail.com> wrote:
> >
> > > That is quite weird. We found that I have PATH values pointing to the
> old
> > > gmx installation while running these tests. Do you think that could
> cause
> > > issues?
> > >
> > > Alex
> > >
> > > On Thu, Feb 8, 2018 at 10:36 AM, Mark Abraham <
> mark.j.abraham at gmail.com>
> > > wrote:
> > >
> > > > Hi,
> > > >
> > > > Great. The manual run took 74.5 seconds, failing the 30 second
> timeout.
> > > So
> > > > the code is fine.
> > > >
> > > > But you have some crazy large overhead going on - gpu_utils-test runs
> > in
> > > 7s
> > > > on my 2013 desktop with CUDA 9.1.
> > > >
> > > > Mark
> > > >
> > > > On Thu, Feb 8, 2018 at 6:29 PM Alex <nedomacho at gmail.com> wrote:
> > > >
> > > > > uh, no sir.
> > > > >
> > > > > > 9/39 Test #9: GpuUtilsUnitTests ................***Timeout
> 30.43
> > > sec
> > > > >
> > > > >
> > > > > On Thu, Feb 8, 2018 at 10:25 AM, Mark Abraham <
> > > mark.j.abraham at gmail.com>
> > > > > wrote:
> > > > >
> > > > > > Hi,
> > > > > >
> > > > > > Those all succeeded. Does make check now also succeed?
> > > > > >
> > > > > > Mark
> > > > > >
> > > > > > On Thu, Feb 8, 2018 at 6:24 PM Alex <nedomacho at gmail.com> wrote:
> > > > > >
> > > > > > > Here you are:
> > > > > > >
> > > > > > > [==========] 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 (5457
> > ms)
> > > > > > > [ RUN ] HostAllocatorTest/0.
> VectorsWithDefaultHostAllocato
> > > > > > rAlwaysWorks
> > > > > > > [ OK ] HostAllocatorTest/0.
> VectorsWithDefaultHostAllocato
> > > > > > rAlwaysWorks
> > > > > > > (2861 ms)
> > > > > > > [ RUN ] HostAllocatorTest/0.TransfersWithoutPinningWork
> > > > > > > [ OK ] HostAllocatorTest/0.TransfersWithoutPinningWork
> > (3254
> > > > ms)
> > > > > > > [ RUN ] HostAllocatorTest/0.
> FillInputAlsoWorksAfterCalling
> > > > Reserve
> > > > > > > [ OK ] HostAllocatorTest/0.
> FillInputAlsoWorksAfterCalling
> > > > Reserve
> > > > > > > (2221 ms)
> > > > > > > [ RUN ] HostAllocatorTest/0.
> TransfersWithPinningWorkWithCu
> > da
> > > > > > > [ OK ] HostAllocatorTest/0.
> TransfersWithPinningWorkWithCu
> > da
> > > > (3801
> > > > > > ms)
> > > > > > > [ RUN ]
> > > HostAllocatorTest/0.ManualPinningOperationsWorkWithCuda
> > > > > > > [ OK ]
> > > HostAllocatorTest/0.ManualPinningOperationsWorkWithCuda
> > > > > > (2157
> > > > > > > ms)
> > > > > > > [ RUN ] HostAllocatorTest/0.StatefulAllocatorUsesMemory
> > > > > > > [ OK ] HostAllocatorTest/0.StatefulAllocatorUsesMemory
> > (2179
> > > > ms)
> > > > > > > [----------] 7 tests from HostAllocatorTest/0 (21930 ms total)
> > > > > > >
> > > > > > > [----------] 7 tests from HostAllocatorTest/1, where TypeParam
> =
> > > > float
> > > > > > > [ RUN ] HostAllocatorTest/1.EmptyMemoryAlwaysWorks
> > > > > > > [ OK ] HostAllocatorTest/1.EmptyMemoryAlwaysWorks (2739
> > ms)
> > > > > > > [ RUN ] HostAllocatorTest/1.
> VectorsWithDefaultHostAllocato
> > > > > > rAlwaysWorks
> > > > > > > [ OK ] HostAllocatorTest/1.
> VectorsWithDefaultHostAllocato
> > > > > > rAlwaysWorks
> > > > > > > (2731 ms)
> > > > > > > [ RUN ] HostAllocatorTest/1.TransfersWithoutPinningWork
> > > > > > > [ OK ] HostAllocatorTest/1.TransfersWithoutPinningWork
> > (3281
> > > > ms)
> > > > > > > [ RUN ] HostAllocatorTest/1.
> FillInputAlsoWorksAfterCalling
> > > > Reserve
> > > > > > > [ OK ] HostAllocatorTest/1.
> FillInputAlsoWorksAfterCalling
> > > > Reserve
> > > > > > > (2164 ms)
> > > > > > > [ RUN ] HostAllocatorTest/1.
> TransfersWithPinningWorkWithCu
> > da
> > > > > > > [ OK ] HostAllocatorTest/1.
> TransfersWithPinningWorkWithCu
> > da
> > > > (3908
> > > > > > ms)
> > > > > > > [ RUN ]
> > > HostAllocatorTest/1.ManualPinningOperationsWorkWithCuda
> > > > > > > [ OK ]
> > > HostAllocatorTest/1.ManualPinningOperationsWorkWithCuda
> > > > > > (2202
> > > > > > > ms)
> > > > > > > [ RUN ] HostAllocatorTest/1.StatefulAllocatorUsesMemory
> > > > > > > [ OK ] HostAllocatorTest/1.StatefulAllocatorUsesMemory
> > (2261
> > > > ms)
> > > > > > > [----------] 7 tests from HostAllocatorTest/1 (19287 ms total)
> > > > > > >
> > > > > > > [----------] 7 tests from HostAllocatorTest/2, where TypeParam
> =
> > > > > > > gmx::BasicVector<float>
> > > > > > > [ RUN ] HostAllocatorTest/2.EmptyMemoryAlwaysWorks
> > > > > > > [ OK ] HostAllocatorTest/2.EmptyMemoryAlwaysWorks (2771
> > ms)
> > > > > > > [ RUN ] HostAllocatorTest/2.
> VectorsWithDefaultHostAllocato
> > > > > > rAlwaysWorks
> > > > > > > [ OK ] HostAllocatorTest/2.
> VectorsWithDefaultHostAllocato
> > > > > > rAlwaysWorks
> > > > > > > (2846 ms)
> > > > > > > [ RUN ] HostAllocatorTest/2.TransfersWithoutPinningWork
> > > > > > > [ OK ] HostAllocatorTest/2.TransfersWithoutPinningWork
> > (3283
> > > > ms)
> > > > > > > [ RUN ] HostAllocatorTest/2.
> FillInputAlsoWorksAfterCalling
> > > > Reserve
> > > > > > > [ OK ] HostAllocatorTest/2.
> FillInputAlsoWorksAfterCalling
> > > > Reserve
> > > > > > > (2131 ms)
> > > > > > > [ RUN ] HostAllocatorTest/2.
> TransfersWithPinningWorkWithCu
> > da
> > > > > > > [ OK ] HostAllocatorTest/2.
> TransfersWithPinningWorkWithCu
> > da
> > > > (3833
> > > > > > ms)
> > > > > > > [ RUN ]
> > > HostAllocatorTest/2.ManualPinningOperationsWorkWithCuda
> > > > > > > [ OK ]
> > > HostAllocatorTest/2.ManualPinningOperationsWorkWithCuda
> > > > > > (2232
> > > > > > > ms)
> > > > > > > [ RUN ] HostAllocatorTest/2.StatefulAllocatorUsesMemory
> > > > > > > [ OK ] HostAllocatorTest/2.StatefulAllocatorUsesMemory
> > (2164
> > > > ms)
> > > > > > > [----------] 7 tests from HostAllocatorTest/2 (19261 ms total)
> > > > > > >
> > > > > > > [----------] 3 tests from AllocatorTest/0, where TypeParam =
> > > > > > > gmx::Allocator<float, gmx::HostAllocationPolicy>
> > > > > > > [ RUN ] AllocatorTest/0.AllocatorAlignAllocatesWithAli
> > gnment
> > > > > > > [ OK ] AllocatorTest/0.AllocatorAlignAllocatesWithAli
> > gnment
> > > (0
> > > > > ms)
> > > > > > > [ RUN ] AllocatorTest/0.VectorAllocatesAndResizesWithA
> > lignment
> > > > > > > [ OK ] AllocatorTest/0.VectorAllocatesAndResizesWithA
> > lignment
> > > > (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.AllocatorAlignAllocatesWithAli
> > gnment
> > > > > > > [ OK ] AllocatorTest/1.AllocatorAlignAllocatesWithAli
> > gnment
> > > (0
> > > > > ms)
> > > > > > > [ RUN ] AllocatorTest/1.VectorAllocatesAndResizesWithA
> > lignment
> > > > > > > [ OK ] AllocatorTest/1.VectorAllocatesAndResizesWithA
> > lignment
> > > > (0
> > > > > > ms)
> > > > > > > [ RUN ]
> > > AllocatorTest/1.VectorAllocatesAndReservesWithAlignment
> > > > > > > [ OK ]
> > > AllocatorTest/1.VectorAllocatesAndReservesWithAlignment
> > > > (0
> > > > > > ms)
> > > > > > > [----------] 3 tests from AllocatorTest/1 (0 ms total)
> > > > > > >
> > > > > > > [----------] 3 tests from AllocatorTest/2, where TypeParam =
> > > > > > > gmx::Allocator<gmx::BasicVector<float>,
> > gmx::HostAllocationPolicy>
> > > > > > > [ RUN ] AllocatorTest/2.AllocatorAlignAllocatesWithAli
> > gnment
> > > > > > > [ OK ] AllocatorTest/2.AllocatorAlignAllocatesWithAli
> > gnment
> > > (0
> > > > > ms)
> > > > > > > [ RUN ] AllocatorTest/2.VectorAllocatesAndResizesWithA
> > lignment
> > > > > > > [ OK ] AllocatorTest/2.VectorAllocatesAndResizesWithA
> > lignment
> > > > (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
> > > > > > > [ OK ] PinnedMemoryCheckerTest.
> > DefaultContainerIsRecognized
> > > > (3248
> > > > > > ms)
> > > > > > > [ RUN ] PinnedMemoryCheckerTest.
> > NonpinnedContainerIsRecognized
> > > > > > > [ OK ] PinnedMemoryCheckerTest.
> > NonpinnedContainerIsRecognized
> > > > > > (2752
> > > > > > > ms)
> > > > > > > [ RUN ] PinnedMemoryCheckerTest.
> PinnedContainerIsRecognized
> > > > > > > [ OK ] PinnedMemoryCheckerTest.
> PinnedContainerIsRecognized
> > > > (2709
> > > > > > ms)
> > > > > > > [ RUN ] PinnedMemoryCheckerTest.
> DefaultCBufferIsRecognized
> > > > > > > [ OK ] PinnedMemoryCheckerTest.
> DefaultCBufferIsRecognized
> > > > (2675
> > > > > > ms)
> > > > > > > [ RUN ] PinnedMemoryCheckerTest.PinnedCBufferIsRecognized
> > > > > > > [ OK ] PinnedMemoryCheckerTest.PinnedCBufferIsRecognized
> > > (2686
> > > > > ms)
> > > > > > > [----------] 5 tests from PinnedMemoryCheckerTest (14071 ms
> > total)
> > > > > > >
> > > > > > > [----------] Global test environment tear-down
> > > > > > > [==========] 35 tests from 7 test cases ran. (74549 ms total)
> > > > > > > [ PASSED ] 35 tests.
> > > > > > >
> > > > > > >
> > > > > > > On Thu, Feb 8, 2018 at 10:00 AM, Szilárd Páll <
> > > > pall.szilard at gmail.com>
> > > > > > > wrote:
> > > > > > >
> > > > > > > > It might help to know which of the unit test(s) in that group
> > > > stall?
> > > > > > Can
> > > > > > > > you run it manually (bin/gpu_utils-test) and report back the
> > > > standard
> > > > > > > > output?
> > > > > > > >
> > > > > > > >
> > > > > > > > --
> > > > > > > > Szilárd
> > > > > > > >
> > > > > > > > On Thu, Feb 8, 2018 at 3:56 PM, Alex <nedomacho at gmail.com>
> > > wrote:
> > > > > > > >
> > > > > > > > > Nope, still persists after reboot and no other jobs
> running:
> > > > > > > > > 9/39 Test #9: GpuUtilsUnitTests
> ................***Timeout
> > > > 30.59
> > > > > > sec
> > > > > > > > >
> > > > > > > > > Any additional suggestions?
> > > > > > > > >
> > > > > > > > > --
> > > > > > > > > Gromacs Users mailing list
> > > > > > > > >
> > > > > > > > > * Please search the archive at
> > http://www.gromacs.org/Support
> > > > > > > > > /Mailing_Lists/GMX-Users_List before posting!
> > > > > > > > >
> > > > > > > > > * Can't post? Read
> > > http://www.gromacs.org/Support/Mailing_Lists
> > > > > > > > >
> > > > > > > > > * For (un)subscribe requests visit
> > > > > > > > > https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_
> > > > gmx-users
> > > > > > or
> > > > > > > > > send a mail to gmx-users-request at gromacs.org.
> > > > > > > > >
> > > > > > > > --
> > > > > > > > Gromacs Users mailing list
> > > > > > > >
> > > > > > > > * Please search the archive at http://www.gromacs.org/
> > > > > > > > Support/Mailing_Lists/GMX-Users_List before posting!
> > > > > > > >
> > > > > > > > * Can't post? Read http://www.gromacs.org/
> > Support/Mailing_Lists
> > > > > > > >
> > > > > > > > * For (un)subscribe requests visit
> > > > > > > >
> > > https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users
> > > > > or
> > > > > > > > send a mail to gmx-users-request at gromacs.org.
> > > > > > > >
> > > > > > > --
> > > > > > > Gromacs Users mailing list
> > > > > > >
> > > > > > > * Please search the archive at
> > > > > > > http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List
> > before
> > > > > > > posting!
> > > > > > >
> > > > > > > * Can't post? Read http://www.gromacs.org/
> Support/Mailing_Lists
> > > > > > >
> > > > > > > * For (un)subscribe requests visit
> > > > > > > https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_
> > gmx-users
> > > > or
> > > > > > > send a mail to gmx-users-request at gromacs.org.
> > > > > > --
> > > > > > Gromacs Users mailing list
> > > > > >
> > > > > > * Please search the archive at http://www.gromacs.org/
> > > > > > Support/Mailing_Lists/GMX-Users_List before posting!
> > > > > >
> > > > > > * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
> > > > > >
> > > > > > * For (un)subscribe requests visit
> > > > > > https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_
> gmx-users
> > > or
> > > > > > send a mail to gmx-users-request at gromacs.org.
> > > > > >
> > > > > --
> > > > > Gromacs Users mailing list
> > > > >
> > > > > * Please search the archive at
> > > > > http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before
> > > > > posting!
> > > > >
> > > > > * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
> > > > >
> > > > > * For (un)subscribe requests visit
> > > > > https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users
> > or
> > > > > send a mail to gmx-users-request at gromacs.org.
> > > > --
> > > > Gromacs Users mailing list
> > > >
> > > > * Please search the archive at http://www.gromacs.org/
> > > > Support/Mailing_Lists/GMX-Users_List before posting!
> > > >
> > > > * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
> > > >
> > > > * For (un)subscribe requests visit
> > > > https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users
> or
> > > > send a mail to gmx-users-request at gromacs.org.
> > > >
> > > --
> > > Gromacs Users mailing list
> > >
> > > * Please search the archive at
> > > http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before
> > > posting!
> > >
> > > * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
> > >
> > > * For (un)subscribe requests visit
> > > https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or
> > > send a mail to gmx-users-request at gromacs.org.
> > --
> > Gromacs Users mailing list
> >
> > * Please search the archive at http://www.gromacs.org/
> > Support/Mailing_Lists/GMX-Users_List before posting!
> >
> > * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
> >
> > * For (un)subscribe requests visit
> > https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or
> > send a mail to gmx-users-request at gromacs.org.
> >
> --
> Gromacs Users mailing list
>
> * Please search the archive at http://www.gromacs.org/
> Support/Mailing_Lists/GMX-Users_List before posting!
>
> * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
>
> * For (un)subscribe requests visit
> https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or
> send a mail to gmx-users-request at gromacs.org.
>
More information about the gromacs.org_gmx-users
mailing list