!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!! !!!!! !!!!! !!!!! VERIFICATION CHECK: vc-memory-leak !!!!! !!!!! !!!!! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!! Description: Check that the model has no memory leaks. This is tested using the Valgrind memory debugging tool (http://valgrind.org) by performing a series of energy and force calculations on a randomly distorted face-centered cubic (FCC) cube base structure for both non-periodic and periodic boundary conditions. Separate configurations are tested for each species supported by the model, as well as one containing a random distribution of all species. Configurations used for testing are provided as auxiliary files. Author: Ellad Tadmor and Daniel S. Karls ----------------------------------------------------------------------------------------------------- Results for KIM Model : Sim_LAMMPS_AIREBO_Morse_OConnorAndzelmRobbins_2015_CH__SM_460187474631_000 Supported species : C H random seed = 13 lattice constant (orig) = 3.000 perturbation amplitude = 0.300 number unit cells per side = 2 ----------------------------------------------------------------------------------------------------- MONOATOMIC STRUCTURE (pbc=False)-- Species = C (Configuration in file "config-F-C.xyz") ----------------------------------------------------------------------------------------------------- Energy = 639.3215077573501 Forces: 1 -6.90533259e+01 -9.10787463e+00 -6.90023658e+01 2 7.61497638e+00 2.08127935e+00 -4.06187970e+01 3 5.69809644e+01 -6.29216291e+01 6.76215269e+01 4 -8.54085401e+01 -2.54885176e+01 2.15641152e+01 5 4.43053060e+01 -3.95576913e+01 8.84357310e-01 6 5.41375346e+00 -2.27261410e+00 -6.87484678e+00 7 -1.65700554e+01 -1.47012302e+02 -2.03951887e+02 8 -1.12036882e+02 -3.72620957e+01 -2.49042199e+01 9 -7.27759127e+01 1.73474230e+01 -1.61743623e+02 10 -6.60127070e+01 1.62154258e+02 -2.36909458e+02 11 -2.44750619e+01 -1.82580547e+02 2.71042906e+01 12 -9.34708233e+01 1.08613073e+02 3.04814397e-01 13 -3.54728126e+01 -2.28131552e+01 -3.02699512e+02 14 3.86763908e+01 3.30865107e+01 -2.15529469e+01 15 2.43494218e+02 3.15729135e+01 1.12563532e+02 16 1.57359315e+02 2.08248246e+02 1.41676961e+02 17 -5.13825727e+01 -3.74870516e+01 -5.74755548e+01 18 -4.31563876e+01 -1.25616139e+01 -3.12191829e+01 19 2.52187769e+01 -9.35866082e+01 2.35662229e+01 20 -3.72746962e+01 6.02314883e+01 6.53774759e+01 21 -6.65512817e+01 -8.92141042e+01 5.29619971e+01 22 1.85755485e+02 9.70852099e+01 1.28567527e+02 23 4.63021480e+01 -1.63771318e+01 4.06376905e+01 24 2.80256780e+01 3.70945897e+01 9.26708483e+01 25 -1.05259963e+02 -6.76859465e+01 4.73990932e+01 26 -2.03218202e+02 3.58285929e+02 3.12952477e+01 27 5.85436484e+01 -1.71723561e+02 5.85561503e+01 28 -2.07316830e+02 1.65047546e+02 7.03024328e+01 29 1.96083920e+02 -3.17321672e+02 1.22863957e+01 30 4.15001564e+01 3.94442023e+01 -1.54079125e+01 31 3.49545144e+01 -2.10382340e+01 3.97869986e+01 32 1.19206803e+02 3.57196800e+01 1.37232628e+02 MONOATOMIC STRUCTURE (pbc=True)-- Species = C (Configuration in file "config-T-C.xyz") ----------------------------------------------------------------------------------------------------- Energy = 639.3215077573501 Forces: 1 -6.90533259e+01 -9.10787463e+00 -6.90023658e+01 2 7.61497638e+00 2.08127935e+00 -4.06187970e+01 3 5.69809644e+01 -6.29216291e+01 6.76215269e+01 4 -8.54085401e+01 -2.54885176e+01 2.15641152e+01 5 4.43053060e+01 -3.95576913e+01 8.84357310e-01 6 5.41375346e+00 -2.27261410e+00 -6.87484678e+00 7 -1.65700554e+01 -1.47012302e+02 -2.03951887e+02 8 -1.12036882e+02 -3.72620957e+01 -2.49042199e+01 9 -7.27759127e+01 1.73474230e+01 -1.61743623e+02 10 -6.60127070e+01 1.62154258e+02 -2.36909458e+02 11 -2.44750619e+01 -1.82580547e+02 2.71042906e+01 12 -9.34708233e+01 1.08613073e+02 3.04814397e-01 13 -3.54728126e+01 -2.28131552e+01 -3.02699512e+02 14 3.86763908e+01 3.30865107e+01 -2.15529469e+01 15 2.43494218e+02 3.15729135e+01 1.12563532e+02 16 1.57359315e+02 2.08248246e+02 1.41676961e+02 17 -5.13825727e+01 -3.74870516e+01 -5.74755548e+01 18 -4.31563876e+01 -1.25616139e+01 -3.12191829e+01 19 2.52187769e+01 -9.35866082e+01 2.35662229e+01 20 -3.72746962e+01 6.02314883e+01 6.53774759e+01 21 -6.65512817e+01 -8.92141042e+01 5.29619971e+01 22 1.85755485e+02 9.70852099e+01 1.28567527e+02 23 4.63021480e+01 -1.63771318e+01 4.06376905e+01 24 2.80256780e+01 3.70945897e+01 9.26708483e+01 25 -1.05259963e+02 -6.76859465e+01 4.73990932e+01 26 -2.03218202e+02 3.58285929e+02 3.12952477e+01 27 5.85436484e+01 -1.71723561e+02 5.85561503e+01 28 -2.07316830e+02 1.65047546e+02 7.03024328e+01 29 1.96083920e+02 -3.17321672e+02 1.22863957e+01 30 4.15001564e+01 3.94442023e+01 -1.54079125e+01 31 3.49545144e+01 -2.10382340e+01 3.97869986e+01 32 1.19206803e+02 3.57196800e+01 1.37232628e+02 MONOATOMIC STRUCTURE (pbc=False)-- Species = H (Configuration in file "config-F-H.xyz") ----------------------------------------------------------------------------------------------------- Energy = -7.795279313645881 Forces: 1 -7.00829742e-01 3.75949213e-01 -2.90672076e-01 2 -4.82456567e+00 2.01942385e+00 -5.34240701e+00 3 -1.65889654e+00 -5.14144643e+00 3.23740963e+00 4 -3.67167214e+00 1.96630064e+00 -4.50000338e+00 5 4.81971237e+00 -4.66079676e+00 -2.85761124e+00 6 5.47816784e-01 1.23912106e+00 -1.88603849e+00 7 1.42079333e+00 -1.22352866e+00 -1.81800236e+00 8 1.36374233e+00 -1.88641878e+00 3.67876818e+00 9 3.77692191e+00 2.31371618e+00 -2.76555394e-01 10 -2.09692977e+00 -3.07614400e+00 -2.01309858e+00 11 -4.95640087e+00 2.03336266e+00 -4.02540961e+00 12 5.31560339e-01 2.67500186e-01 4.55582187e+00 13 -1.79397122e+00 -6.02764467e+00 -5.34943040e+00 14 -1.75563363e+00 3.91583636e+00 3.98451606e+00 15 4.51002597e+00 -4.18376214e+00 3.41047596e+00 16 2.57084842e+00 6.46622826e+00 -2.39967211e+00 17 1.44250312e+00 -3.09884012e+00 1.81156706e+00 18 -6.75413176e-01 6.67669428e-01 -9.84001171e-01 19 -1.82182518e+00 -1.28890634e+00 3.39202967e+00 20 -1.42411725e+00 1.24609642e-01 -3.19182102e-01 21 5.06761759e+00 -4.96322333e+00 1.47132272e+00 22 3.95503472e+00 4.71490891e+00 -7.58456261e+00 23 -3.56117064e+00 -3.46832061e+00 1.58072715e+00 24 1.90917721e+00 1.66804089e+00 1.04717134e+00 25 -7.73363867e-01 2.01432548e+00 2.05365899e+00 26 -4.56456787e+00 3.03956509e+00 -4.04619583e+00 27 -7.39580234e+00 2.54855096e+00 3.77472517e+00 28 1.22058198e+00 -1.35286146e+00 -2.93133223e-01 29 1.46431531e+00 -1.33127537e+00 3.04112153e+00 30 9.49681879e-01 2.01114679e+00 1.36149890e+00 31 3.49438722e+00 5.86759159e-01 3.73949498e+00 32 2.63043944e+00 3.73015391e+00 1.84566637e+00 MONOATOMIC STRUCTURE (pbc=True)-- Species = H (Configuration in file "config-T-H.xyz") ----------------------------------------------------------------------------------------------------- Energy = -7.795279313645881 Forces: 1 -7.00829742e-01 3.75949213e-01 -2.90672076e-01 2 -4.82456567e+00 2.01942385e+00 -5.34240701e+00 3 -1.65889654e+00 -5.14144643e+00 3.23740963e+00 4 -3.67167214e+00 1.96630064e+00 -4.50000338e+00 5 4.81971237e+00 -4.66079676e+00 -2.85761124e+00 6 5.47816784e-01 1.23912106e+00 -1.88603849e+00 7 1.42079333e+00 -1.22352866e+00 -1.81800236e+00 8 1.36374233e+00 -1.88641878e+00 3.67876818e+00 9 3.77692191e+00 2.31371618e+00 -2.76555394e-01 10 -2.09692977e+00 -3.07614400e+00 -2.01309858e+00 11 -4.95640087e+00 2.03336266e+00 -4.02540961e+00 12 5.31560339e-01 2.67500186e-01 4.55582187e+00 13 -1.79397122e+00 -6.02764467e+00 -5.34943040e+00 14 -1.75563363e+00 3.91583636e+00 3.98451606e+00 15 4.51002597e+00 -4.18376214e+00 3.41047596e+00 16 2.57084842e+00 6.46622826e+00 -2.39967211e+00 17 1.44250312e+00 -3.09884012e+00 1.81156706e+00 18 -6.75413176e-01 6.67669428e-01 -9.84001171e-01 19 -1.82182518e+00 -1.28890634e+00 3.39202967e+00 20 -1.42411725e+00 1.24609642e-01 -3.19182102e-01 21 5.06761759e+00 -4.96322333e+00 1.47132272e+00 22 3.95503472e+00 4.71490891e+00 -7.58456261e+00 23 -3.56117064e+00 -3.46832061e+00 1.58072715e+00 24 1.90917721e+00 1.66804089e+00 1.04717134e+00 25 -7.73363867e-01 2.01432548e+00 2.05365899e+00 26 -4.56456787e+00 3.03956509e+00 -4.04619583e+00 27 -7.39580234e+00 2.54855096e+00 3.77472517e+00 28 1.22058198e+00 -1.35286146e+00 -2.93133223e-01 29 1.46431531e+00 -1.33127537e+00 3.04112153e+00 30 9.49681879e-01 2.01114679e+00 1.36149890e+00 31 3.49438722e+00 5.86759159e-01 3.73949498e+00 32 2.63043944e+00 3.73015391e+00 1.84566637e+00 MIXED STRUCTURE (pbc=False)-- Species = C H (Configuration in file "config-F-CH.xyz") ----------------------------------------------------------------------------------------------------- Energy = -25.281217857860455 Forces: 1 -1.37285901e-03 1.02530629e-03 -1.28660101e-02 2 -9.43810426e+00 7.34341176e+00 -6.62030039e-01 3 7.79666796e+00 1.68770847e+01 8.19872851e+00 4 1.11010452e+01 -3.24508751e+00 1.53536656e+01 5 8.12431260e-01 -6.71908978e-01 -1.17067620e+00 6 3.51018608e-01 9.40881280e+00 9.23135760e+00 7 -6.26540669e-03 3.34432993e-03 2.06759313e-03 8 -3.28397548e+00 -1.06655829e+01 1.06672210e+01 9 2.73817964e+01 1.19752502e+01 2.09583587e+00 10 -7.74371754e+00 -1.81947285e+01 1.54552856e+01 11 -2.48447884e+00 1.66836163e+00 -2.58687444e+00 12 5.33297591e+00 2.82849130e-01 -4.26397524e+00 13 -1.53013020e+00 5.34480383e+00 5.82951253e+00 14 -9.33498796e-03 -1.04640891e-02 8.36214640e-03 15 -2.76183090e+00 -1.82483620e+01 3.94962729e-01 16 -1.14725570e+01 -6.88471926e+00 -1.73788950e+01 17 -2.19214730e+00 3.61206398e+00 -5.14024500e+00 18 -3.61148182e+00 -4.81588628e+00 -1.83890821e+01 19 -6.52591300e-01 3.31148010e-01 -1.39102188e-02 20 6.87676198e-01 -3.40485249e-01 6.84327236e-02 21 1.64604363e-02 1.85465433e-01 1.25971945e-01 22 -1.37460997e+01 1.43993799e+01 -1.62250659e+01 23 9.56829798e-03 -1.12781919e-02 8.87408391e-03 24 -2.96957849e-01 -1.97499677e+00 1.96759580e+00 25 -1.46405032e+00 -2.05863738e+00 -5.55215422e-01 26 1.30952302e-03 -3.29221263e-03 4.90801759e-04 27 4.01337418e-03 -7.95140681e-04 -7.26736994e-03 28 6.98678178e-03 -8.39107907e-03 -3.95076612e-03 29 7.19959128e+00 -4.29458427e+00 -3.00043662e+00 30 6.59488966e-03 -3.55879589e-03 -2.20786060e-03 31 -7.50183151e-03 1.95773557e-03 -1.02439606e-03 32 -5.53847942e-03 -2.20023253e-03 5.35801544e-03 MIXED STRUCTURE (pbc=True)-- Species = C H (Configuration in file "config-T-CH.xyz") ----------------------------------------------------------------------------------------------------- Energy = -26.006579486783 Forces: 1 -1.18310462e-02 6.23130633e-02 -8.06612904e-02 2 -1.01266221e+01 8.13509564e+00 -6.20552616e-01 3 9.01108282e+00 1.68685396e+01 8.50280263e+00 4 1.05311833e+01 -1.04982639e+00 1.48588803e+01 5 1.61917720e+00 -1.33702648e+00 -6.59511352e-01 6 3.50486416e-01 9.38682937e+00 9.03469458e+00 7 -6.42987162e-01 -1.08671027e+00 -1.08330495e-01 8 -4.37788818e+00 -1.12014154e+01 1.03907738e+01 9 2.54197369e+01 1.20243470e+01 3.82654109e+00 10 -4.77628711e+00 -1.84921540e+01 1.26283667e+01 11 -2.48057080e+00 1.65064481e+00 -2.68465572e+00 12 2.21985898e+00 2.93408263e-01 -1.44121875e+00 13 -1.51065549e+00 5.31090952e+00 5.81673465e+00 14 -1.16464412e-01 -3.02083817e-03 -8.71912056e-02 15 3.83083406e-01 -1.89370236e+01 -1.43734294e+00 16 -1.19309745e+01 -5.92054013e+00 -1.71712101e+01 17 -2.01252765e+00 3.24690406e+00 -4.94459924e+00 18 -3.43912504e+00 -5.17023119e+00 -1.88017003e+01 19 -9.66300939e-01 2.30855510e-01 -5.30258348e-01 20 6.79482821e-01 -3.34393272e-01 6.32927985e-02 21 1.92664931e-02 1.78351019e-01 1.27340214e-01 22 -1.38140118e+01 1.44795466e+01 -1.53776030e+01 23 -1.89149178e-02 -3.36732050e-02 5.41764230e-02 24 -2.91569216e-01 -1.97890254e+00 1.97721587e+00 25 -1.02395908e+00 -1.94801661e+00 -3.55407941e-01 26 -8.95307752e-03 3.30790441e-03 -6.10512253e-03 27 3.50518515e-04 3.21595055e-03 3.20035150e-03 28 3.90579437e-03 -1.44814404e-03 6.37589888e-03 29 7.31766358e+00 -4.38686187e+00 -3.01886052e+00 30 7.53104312e-03 -1.10309421e-02 1.18722711e-02 31 -1.03849149e-02 1.12414019e-02 1.05158285e-02 32 -2.78176676e-03 6.76525519e-03 1.24256792e-02 ================================================================================ VALGRIND OUTPUT ================================================================================ ==253627== Memcheck, a memory error detector ==253627== Copyright (C) 2002-2017, and GNU GPL'd, by Julian Seward et al. ==253627== Using Valgrind-3.15.0 and LibVEX; rerun with -h for copyright info ==253627== Command: python runner2.py Sim_LAMMPS_AIREBO_Morse_OConnorAndzelmRobbins_2015_CH__SM_460187474631_000 ==253627== ==254468== Warning: invalid file descriptor 255988 in syscall close() ==254468== Warning: invalid file descriptor 255989 in syscall close() ==254468== Warning: invalid file descriptor 255990 in syscall close() ==254468== Warning: invalid file descriptor 255991 in syscall close() ==254468== Use --log-fd= to select an alternative log fd. ==254468== Warning: invalid file descriptor 255992 in syscall close() ==254468== Warning: invalid file descriptor 255993 in syscall close() -------------------------------------------------------------------------- By default, for Open MPI 4.0 and later, infiniband ports on a device are not used by default. The intent is to use UCX for these devices. You can override this policy by setting the btl_openib_allow_ib MCA parameter to true. Local host: c401-061 Local adapter: hfi1_0 Local port: 1 -------------------------------------------------------------------------- ==253627== Conditional jump or move depends on uninitialised value(s) ==253627== at 0x4A65E97B: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_btl_openib.so) ==253627== by 0x317A49C8: mca_btl_base_select (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x4A64B527: mca_bml_r2_component_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_bml_r2.so) ==253627== by 0x113A570A: mca_bml_base_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so.40.20.3) ==253627== by 0x113E5714: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so.40.20.3) ==253627== by 0x11389072: PMPI_Init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so.40.20.3) ==253627== by 0x52AC5165: lammps_mpi_init (in /usr/local/lib/liblammps.so.0) ==253627== by 0x52AC519F: lammps_open (in /usr/local/lib/liblammps.so.0) ==253627== by 0x57FF7FF4: ??? (in /usr/lib/x86_64-linux-gnu/libffi.so.7.1.0) ==253627== by 0x57FF7409: ??? (in /usr/lib/x86_64-linux-gnu/libffi.so.7.1.0) ==253627== by 0x20B79A305: _ctypes_callproc (in /usr/lib/python3.8/lib-dynload/_ctypes.cpython-38-x86_64-linux-gnu.so) ==253627== by 0x20B79AAE6: ??? (in /usr/lib/python3.8/lib-dynload/_ctypes.cpython-38-x86_64-linux-gnu.so) ==253627== -------------------------------------------------------------------------- WARNING: There is at least non-excluded one OpenFabrics device found, but there are no active ports detected (or Open MPI was unable to use them). This is most certainly not what you wanted. Check your cables, subnet manager configuration, etc. The openib BTL will be ignored for this job. Local host: c401-061 -------------------------------------------------------------------------- ==253627== Syscall param rt_sigaction(act->sa_mask) points to uninitialised byte(s) ==253627== at 0x4893166: __libc_sigaction (sigaction.c:58) ==253627== by 0x560BDB4F: ??? (in /usr/lib/x86_64-linux-gnu/libpsm2.so.2.1) ==253627== by 0x560C3890: ??? (in /usr/lib/x86_64-linux-gnu/libpsm2.so.2.1) ==253627== by 0x560C447A: psm2_ep_open (in /usr/lib/x86_64-linux-gnu/libpsm2.so.2.1) ==253627== by 0x5614430D: ompi_mtl_psm2_module_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_mtl_psm2.so) ==253627== by 0x56144764: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_mtl_psm2.so) ==253627== by 0x113C9C53: ompi_mtl_base_select (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so.40.20.3) ==253627== by 0x4A654E4D: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_pml_cm.so) ==253627== by 0x113D8673: mca_pml_base_select (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so.40.20.3) ==253627== by 0x113E5789: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so.40.20.3) ==253627== by 0x11389072: PMPI_Init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so.40.20.3) ==253627== by 0x52AC5165: lammps_mpi_init (in /usr/local/lib/liblammps.so.0) ==253627== Address 0x1ffeffd9a8 is on thread 1's stack ==253627== in frame #0, created by __libc_sigaction (sigaction.c:43) ==253627== ==253627== Syscall param rt_sigaction(act->sa_mask) points to uninitialised byte(s) ==253627== at 0x4893166: __libc_sigaction (sigaction.c:58) ==253627== by 0x560BDB63: ??? (in /usr/lib/x86_64-linux-gnu/libpsm2.so.2.1) ==253627== by 0x560C3890: ??? (in /usr/lib/x86_64-linux-gnu/libpsm2.so.2.1) ==253627== by 0x560C447A: psm2_ep_open (in /usr/lib/x86_64-linux-gnu/libpsm2.so.2.1) ==253627== by 0x5614430D: ompi_mtl_psm2_module_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_mtl_psm2.so) ==253627== by 0x56144764: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_mtl_psm2.so) ==253627== by 0x113C9C53: ompi_mtl_base_select (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so.40.20.3) ==253627== by 0x4A654E4D: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_pml_cm.so) ==253627== by 0x113D8673: mca_pml_base_select (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so.40.20.3) ==253627== by 0x113E5789: ompi_mpi_init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so.40.20.3) ==253627== by 0x11389072: PMPI_Init (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so.40.20.3) ==253627== by 0x52AC5165: lammps_mpi_init (in /usr/local/lib/liblammps.so.0) ==253627== Address 0x1ffeffd9a8 is on thread 1's stack ==253627== in frame #0, created by __libc_sigaction (sigaction.c:43) ==253627== ==253627== Conditional jump or move depends on uninitialised value(s) ==253627== at 0x3175EE84: opal_interval_tree_traverse (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x317B4E59: mca_rcache_base_vma_tree_iterate (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x4A63B4B2: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_rcache_grdma.so) ==253627== by 0x317B4FA4: mca_rcache_base_mem_cb (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x3175F2FB: opal_mem_hooks_release_hook (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x317AF75A: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x4881F9B: _nl_unload_locale (loadlocale.c:298) ==253627== by 0x49E84BD: _nl_locale_subfreeres (in /usr/lib/x86_64-linux-gnu/libc-2.31.so) ==253627== by 0x49E73A6: free_mem (in /usr/lib/x86_64-linux-gnu/libc-2.31.so) ==253627== by 0x49E8B21: __libc_freeres (in /usr/lib/x86_64-linux-gnu/libc-2.31.so) ==253627== by 0x48311C6: _vgnU_freeres (in /usr/lib/x86_64-linux-gnu/valgrind/vgpreload_core-amd64-linux.so) ==253627== by 0x48969C1: __run_exit_handlers (exit.c:132) ==253627== ==253627== Use of uninitialised value of size 8 ==253627== at 0x3175EEAD: opal_interval_tree_traverse (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x317B4E59: mca_rcache_base_vma_tree_iterate (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x4A63B4B2: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_rcache_grdma.so) ==253627== by 0x317B4FA4: mca_rcache_base_mem_cb (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x3175F2FB: opal_mem_hooks_release_hook (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x317AF75A: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x4881F9B: _nl_unload_locale (loadlocale.c:298) ==253627== by 0x49E84BD: _nl_locale_subfreeres (in /usr/lib/x86_64-linux-gnu/libc-2.31.so) ==253627== by 0x49E73A6: free_mem (in /usr/lib/x86_64-linux-gnu/libc-2.31.so) ==253627== by 0x49E8B21: __libc_freeres (in /usr/lib/x86_64-linux-gnu/libc-2.31.so) ==253627== by 0x48311C6: _vgnU_freeres (in /usr/lib/x86_64-linux-gnu/valgrind/vgpreload_core-amd64-linux.so) ==253627== by 0x48969C1: __run_exit_handlers (exit.c:132) ==253627== ==253627== Use of uninitialised value of size 8 ==253627== at 0x3175EEB4: opal_interval_tree_traverse (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x317B4E59: mca_rcache_base_vma_tree_iterate (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x4A63B4B2: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_rcache_grdma.so) ==253627== by 0x317B4FA4: mca_rcache_base_mem_cb (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x3175F2FB: opal_mem_hooks_release_hook (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x317AF75A: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x4881F9B: _nl_unload_locale (loadlocale.c:298) ==253627== by 0x49E84BD: _nl_locale_subfreeres (in /usr/lib/x86_64-linux-gnu/libc-2.31.so) ==253627== by 0x49E73A6: free_mem (in /usr/lib/x86_64-linux-gnu/libc-2.31.so) ==253627== by 0x49E8B21: __libc_freeres (in /usr/lib/x86_64-linux-gnu/libc-2.31.so) ==253627== by 0x48311C6: _vgnU_freeres (in /usr/lib/x86_64-linux-gnu/valgrind/vgpreload_core-amd64-linux.so) ==253627== by 0x48969C1: __run_exit_handlers (exit.c:132) ==253627== ==253627== Use of uninitialised value of size 8 ==253627== at 0x3175EED3: opal_interval_tree_traverse (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x317B4E59: mca_rcache_base_vma_tree_iterate (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x4A63B4B2: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi3/mca_rcache_grdma.so) ==253627== by 0x317B4FA4: mca_rcache_base_mem_cb (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x3175F2FB: opal_mem_hooks_release_hook (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x317AF75A: ??? (in /usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so.40.20.3) ==253627== by 0x4881F9B: _nl_unload_locale (loadlocale.c:298) ==253627== by 0x49E84BD: _nl_locale_subfreeres (in /usr/lib/x86_64-linux-gnu/libc-2.31.so) ==253627== by 0x49E73A6: free_mem (in /usr/lib/x86_64-linux-gnu/libc-2.31.so) ==253627== by 0x49E8B21: __libc_freeres (in /usr/lib/x86_64-linux-gnu/libc-2.31.so) ==253627== by 0x48311C6: _vgnU_freeres (in /usr/lib/x86_64-linux-gnu/valgrind/vgpreload_core-amd64-linux.so) ==253627== by 0x48969C1: __run_exit_handlers (exit.c:132) ==253627== ==253627== ==253627== HEAP SUMMARY: ==253627== in use at exit: 28,133,072 bytes in 17,858 blocks ==253627== total heap usage: 1,911,920 allocs, 1,894,062 frees, 202,977,574 bytes allocated ==253627== ==253627== LEAK SUMMARY: ==253627== definitely lost: 11,640 bytes in 35 blocks ==253627== indirectly lost: 97 bytes in 5 blocks ==253627== possibly lost: 184,228 bytes in 102 blocks ==253627== still reachable: 27,937,075 bytes in 17,715 blocks ==253627== suppressed: 32 bytes in 1 blocks ==253627== Rerun with --leak-check=full to see details of leaked memory ==253627== ==253627== Use --track-origins=yes to see where uninitialised values come from ==253627== For lists of detected and suppressed errors, rerun with: -s ==253627== ERROR SUMMARY: 11 errors from 7 contexts (suppressed: 19638 from 633) ================================================================================ To pass this verification check the number of bytes that are "definitely lost" or "indirectly lost" must be zero. NOTE that Valgrind will typically report non-zero "possibly lost" bytes due to Python's internal memory allocation and garbage collection that it does not monitor. ERROR: Unable to perform verification check. Message = Failed to run valgrind; check that it is installed.