==348183== Memcheck, a memory error detector ==348183== Copyright (C) 2002-2017, and GNU GPL'd, by Julian Seward et al. ==348183== Using Valgrind-3.18.1 and LibVEX; rerun with -h for copyright info ==348183== Command: /home/gh/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/io/test/TestHdf5DataWriter -malloc_debug -malloc_dump -memory_info ==348183== Parent PID: 347948 ==348183== ==348183== Warning: noted but unhandled ioctl 0x30000001 with no size/direction hints. ==348183== This could cause spurious value errors to appear. ==348183== See README_MISSING_SYSCALL_OR_IOCTL for guidance on writing a proper wrapper. ==348183== Warning: noted but unhandled ioctl 0x27 with no size/direction hints. ==348183== This could cause spurious value errors to appear. ==348183== See README_MISSING_SYSCALL_OR_IOCTL for guidance on writing a proper wrapper. ==348183== Warning: noted but unhandled ioctl 0x25 with no size/direction hints. ==348183== This could cause spurious value errors to appear. ==348183== See README_MISSING_SYSCALL_OR_IOCTL for guidance on writing a proper wrapper. ==348183== Warning: noted but unhandled ioctl 0x17 with no size/direction hints. ==348183== This could cause spurious value errors to appear. ==348183== See README_MISSING_SYSCALL_OR_IOCTL for guidance on writing a proper wrapper. ==348183== Warning: set address range perms: large range [0x200000000, 0x700000000) (noaccess) ==348183== Warning: set address range perms: large range [0x700000000, 0x900000000) (noaccess) ==348183== Warning: set address range perms: large range [0x1031f000, 0x3031e000) (noaccess) ==348183== Warning: invalid file descriptor -1 in syscall close() ==348183== ==348183== FILE DESCRIPTORS: 14 open (3 std) at exit. ==348183== Open file descriptor 23: /dev/nvidia0 ==348183== at 0x6597764: open (open64.c:41) ==348183== by 0xF3CB6D0: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF3CD594: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF466B8D: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF354026: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF35D942: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF3D5BA7: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF45FC86: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF21A722: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF1648D7: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0x84F3023: ??? (in /usr/lib/x86_64-linux-gnu/libOpenCL.so.1.0.0) ==348183== by 0x84F3FEA: clGetPlatformIDs (in /usr/lib/x86_64-linux-gnu/libOpenCL.so.1.0.0) ==348183== by 0xAF2946A: ??? ==348183== by 0x9052F05: ??? (in /usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2) ==348183== by 0x902EB30: hwloc_topology_load (in /usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2) ==348183== by 0x8FDFCB5: opal_hwloc_base_get_topology (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==348183== by 0x8F0CEF6: orte_ess_base_proc_binding (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==348183== by 0xAF17F03: ??? ==348183== by 0x8F414CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==348183== by 0x61E7418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==348183== by 0x6180D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==348183== by 0x4A95D38: PetscInitialize (pinit.c:924) ==348183== by 0x496D153: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==348183== by 0x496D1A1: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==348183== by 0x11BE02: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==348183== by 0x116E2D: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==348183== by 0x119D56: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==348183== by 0x119BF6: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==348183== by 0x11A28D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==348183== by 0x115255: main (TestHdf5DataWriter.cpp:19) ==348183== ==348183== Open file descriptor 22: /dev/nvidia0 ==348183== at 0x6597764: open (open64.c:41) ==348183== by 0xF3CB6D0: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF3CD594: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF35407E: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF35D942: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF3D5831: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF45FC86: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF21A722: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF1648D7: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0x84F3023: ??? (in /usr/lib/x86_64-linux-gnu/libOpenCL.so.1.0.0) ==348183== by 0x84F3FEA: clGetPlatformIDs (in /usr/lib/x86_64-linux-gnu/libOpenCL.so.1.0.0) ==348183== by 0xAF2946A: ??? ==348183== by 0x9052F05: ??? (in /usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2) ==348183== by 0x902EB30: hwloc_topology_load (in /usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2) ==348183== by 0x8FDFCB5: opal_hwloc_base_get_topology (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==348183== by 0x8F0CEF6: orte_ess_base_proc_binding (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==348183== by 0xAF17F03: ??? ==348183== by 0x8F414CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==348183== by 0x61E7418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==348183== by 0x6180D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==348183== by 0x4A95D38: PetscInitialize (pinit.c:924) ==348183== by 0x496D153: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==348183== by 0x496D1A1: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==348183== by 0x11BE02: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==348183== by 0x116E2D: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==348183== by 0x119D56: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==348183== by 0x119BF6: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==348183== by 0x11A28D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==348183== by 0x115255: main (TestHdf5DataWriter.cpp:19) ==348183== ==348183== Open file descriptor 21: /dev/nvidia0 ==348183== at 0x6597764: open (open64.c:41) ==348183== by 0xF3CB6D0: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF3CC51D: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF35DEE3: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF3D54C2: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF45FC86: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF21A722: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF1648D7: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0x84F3023: ??? (in /usr/lib/x86_64-linux-gnu/libOpenCL.so.1.0.0) ==348183== by 0x84F3FEA: clGetPlatformIDs (in /usr/lib/x86_64-linux-gnu/libOpenCL.so.1.0.0) ==348183== by 0xAF2946A: ??? ==348183== by 0x9052F05: ??? (in /usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2) ==348183== by 0x902EB30: hwloc_topology_load (in /usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2) ==348183== by 0x8FDFCB5: opal_hwloc_base_get_topology (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==348183== by 0x8F0CEF6: orte_ess_base_proc_binding (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==348183== by 0xAF17F03: ??? ==348183== by 0x8F414CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==348183== by 0x61E7418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==348183== by 0x6180D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==348183== by 0x4A95D38: PetscInitialize (pinit.c:924) ==348183== by 0x496D153: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==348183== by 0x496D1A1: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==348183== by 0x11BE02: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==348183== by 0x116E2D: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==348183== by 0x119D56: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==348183== by 0x119BF6: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==348183== by 0x11A28D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==348183== by 0x115255: main (TestHdf5DataWriter.cpp:19) ==348183== ==348183== Open file descriptor 20: /dev/nvidia-uvm ==348183== at 0x6597764: open (open64.c:41) ==348183== by 0xF236F20: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF21A705: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF1648D7: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0x84F3023: ??? (in /usr/lib/x86_64-linux-gnu/libOpenCL.so.1.0.0) ==348183== by 0x84F3FEA: clGetPlatformIDs (in /usr/lib/x86_64-linux-gnu/libOpenCL.so.1.0.0) ==348183== by 0xAF2946A: ??? ==348183== by 0x9052F05: ??? (in /usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2) ==348183== by 0x902EB30: hwloc_topology_load (in /usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2) ==348183== by 0x8FDFCB5: opal_hwloc_base_get_topology (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==348183== by 0x8F0CEF6: orte_ess_base_proc_binding (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==348183== by 0xAF17F03: ??? ==348183== by 0x8F414CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==348183== by 0x61E7418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==348183== by 0x6180D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==348183== by 0x4A95D38: PetscInitialize (pinit.c:924) ==348183== by 0x496D153: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==348183== by 0x496D1A1: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==348183== by 0x11BE02: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==348183== by 0x116E2D: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==348183== by 0x119D56: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==348183== by 0x119BF6: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==348183== by 0x11A28D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==348183== by 0x115255: main (TestHdf5DataWriter.cpp:19) ==348183== ==348183== Open file descriptor 19: /dev/nvidiactl ==348183== at 0x6597764: open (open64.c:41) ==348183== by 0xF3CB296: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF3D08A5: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF21A665: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0xF1648D7: ??? (in /usr/lib/x86_64-linux-gnu/libnvidia-opencl.so.470.199.02) ==348183== by 0x84F3023: ??? (in /usr/lib/x86_64-linux-gnu/libOpenCL.so.1.0.0) ==348183== by 0x84F3FEA: clGetPlatformIDs (in /usr/lib/x86_64-linux-gnu/libOpenCL.so.1.0.0) ==348183== by 0xAF2946A: ??? ==348183== by 0x9052F05: ??? (in /usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2) ==348183== by 0x902EB30: hwloc_topology_load (in /usr/lib/x86_64-linux-gnu/libhwloc.so.15.5.2) ==348183== by 0x8FDFCB5: opal_hwloc_base_get_topology (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==348183== by 0x8F0CEF6: orte_ess_base_proc_binding (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==348183== by 0xAF17F03: ??? ==348183== by 0x8F414CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==348183== by 0x61E7418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==348183== by 0x6180D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==348183== by 0x4A95D38: PetscInitialize (pinit.c:924) ==348183== by 0x496D153: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==348183== by 0x496D1A1: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==348183== by 0x11BE02: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==348183== by 0x116E2D: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==348183== by 0x119D56: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==348183== by 0x119BF6: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==348183== by 0x11A28D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==348183== by 0x115255: main (TestHdf5DataWriter.cpp:19) ==348183== ==348183== Open file descriptor 12: ==348183== at 0x659822D: pipe (pipe.c:29) ==348183== by 0xAF1707D: ??? ==348183== by 0x8F414CB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==348183== by 0x61E7418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==348183== by 0x6180D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==348183== by 0x4A95D38: PetscInitialize (pinit.c:924) ==348183== by 0x496D153: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==348183== by 0x496D1A1: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==348183== by 0x11BE02: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==348183== by 0x116E2D: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==348183== by 0x119D56: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==348183== by 0x119BF6: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==348183== by 0x11A28D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==348183== by 0x115255: main (TestHdf5DataWriter.cpp:19) ==348183== ==348183== Open file descriptor 8: /dev/shm/open_mpi.0000 ==348183== at 0x659CBCC: __open_nocancel (open64_nocancel.c:39) ==348183== by 0x6520C4F: shm_open@@GLIBC_2.34 (shm_open.c:40) ==348183== by 0x5D1F822: ??? ==348183== by 0x5D1F96F: ??? ==348183== by 0x8FE66DC: ??? (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==348183== by 0x8FE6938: opal_shmem_base_select (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==348183== by 0x8F9C922: opal_init (in /usr/lib/x86_64-linux-gnu/libopen-pal.so.40.30.2) ==348183== by 0x8F412DB: orte_init (in /usr/lib/x86_64-linux-gnu/libopen-rte.so.40.30.2) ==348183== by 0x61E7418: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==348183== by 0x6180D7A: PMPI_Init_thread (in /usr/lib/x86_64-linux-gnu/libmpi.so.40.30.2) ==348183== by 0x4A95D38: PetscInitialize (pinit.c:924) ==348183== by 0x496D153: PetscSetupUtils::InitialisePetsc() (PetscSetupUtils.cpp:80) ==348183== by 0x496D1A1: PetscSetupUtils::CommonSetup() (PetscSetupUtils.cpp:88) ==348183== by 0x11BE02: PetscSetup::setUpWorld() (PetscSetupAndFinalize.hpp:61) ==348183== by 0x116E2D: CxxTest::RealWorldDescription::setUp() (RealDescriptions.cpp:266) ==348183== by 0x119D56: CxxTest::TestRunner::runWorld() (TestRunner.h:43) ==348183== by 0x119BF6: CxxTest::TestRunner::runAllTests(CxxTest::TestListener&) (TestRunner.h:23) ==348183== by 0x11A28D: CxxTest::ErrorFormatter::run() (ErrorFormatter.h:47) ==348183== by 0x115255: main (TestHdf5DataWriter.cpp:19) ==348183== ==348183== Open file descriptor 116: ==348183== ==348183== ==348183== Open file descriptor 113: ==348183== ==348183== ==348183== Open file descriptor 4: /home/gh/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/memtest/TestHdf5DataWriter_valgrind.txt ==348183== ==348183== ==348183== Open file descriptor 3: /home/gh/actions-runner/_work/Chaste/Chaste/Chaste/chaste-build-dir/Testing/Temporary/LastTest.log.tmp ==348183== ==348183== ==348183== ==348183== HEAP SUMMARY: ==348183== in use at exit: 1,875,747 bytes in 11,748 blocks ==348183== total heap usage: 123,580 allocs, 111,832 frees, 1,607,404,509 bytes allocated ==348183== ==348183== LEAK SUMMARY: ==348183== definitely lost: 0 bytes in 0 blocks ==348183== indirectly lost: 0 bytes in 0 blocks ==348183== possibly lost: 0 bytes in 0 blocks ==348183== still reachable: 24 bytes in 2 blocks ==348183== suppressed: 1,875,723 bytes in 11,746 blocks ==348183== Reachable blocks (those to which a pointer was found) are not shown. ==348183== To see them, rerun with: --leak-check=full --show-leak-kinds=all ==348183== ==348183== For lists of detected and suppressed errors, rerun with: -s ==348183== ERROR SUMMARY: 0 errors from 0 contexts (suppressed: 114 from 51)