Enter a model name: === Verification check vc-memory-leak start (2025-07-10 16:44:15) === !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!! !!!!! !!!!! !!!!! 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 : EAM_Dynamo_ZhouJohnsonWadley_2004NISTretabulation_Pt__MO_601539325066_001 Supported species : Pt random seed = 13 lattice constant (orig) = 3.000 perturbation amplitude = 0.300 number unit cells per side = 2 ----------------------------------------------------------------------------------------------------- MONOATOMIC STRUCTURE (pbc=False)-- Species = Pt (Configuration in file "config-F-Pt.xyz") ----------------------------------------------------------------------------------------------------- Energy = 91.81270903374768 Forces: 1 -1.08494763e+01 -1.29195703e+01 -1.65208436e+01 2 -8.02236263e+00 1.25658188e+01 -1.95644876e+01 3 -2.14008634e+00 -1.70685625e+01 1.08795955e+01 4 -1.46315964e+01 9.79089373e+00 5.12147794e+00 5 1.58158807e+01 -2.27250825e+01 -1.39246066e+01 6 8.64642549e+00 2.07863008e+00 -1.36223048e+01 7 1.44577082e+01 -3.66500424e+01 -2.36641631e+01 8 -1.58597625e+01 -2.53023239e+01 -8.51523423e+00 9 -9.58952884e+00 -1.20861162e+01 -2.22005858e+01 10 -7.18703056e+00 2.40705652e+01 -2.60963779e+01 11 -1.95900308e+01 -1.65596581e+01 -1.87326034e+01 12 -1.86582632e+01 1.94282939e+01 8.71358940e+00 13 2.40821744e+00 -1.34299298e+01 -5.07815488e+01 14 1.09050601e+01 1.07351406e+01 -9.64263490e+00 15 5.06663773e+01 -4.15094378e-01 -6.63391084e+00 16 9.84699784e+00 5.02893378e+01 5.10578225e+00 17 -1.90362817e+01 -1.10518298e+01 -3.41974683e+00 18 2.74469208e+00 3.98468425e+00 -5.70040564e+00 19 8.35450166e+00 -2.48734174e+01 1.74215594e+01 20 -1.62617793e+01 9.92708772e+00 1.26279294e+01 21 -1.30414559e+01 -2.04263684e+01 1.28592760e+01 22 3.19796433e+01 1.63016936e+01 2.41596897e+01 23 5.61710478e+00 -3.27018397e+00 9.90071303e+00 24 3.82109432e+00 -1.05733991e+01 1.75625507e+01 25 -3.66766045e+01 -4.17899146e+00 6.61256109e+00 26 -1.22530199e+01 4.40644566e+01 -1.94338437e+00 27 -4.89092365e+00 -2.41723598e+01 2.73333717e+01 28 -2.51659470e+01 1.96575762e+01 1.04753096e+01 29 1.02302792e+01 -1.00731561e+01 2.36339604e+01 30 1.77968720e+01 2.11306390e+01 9.06587620e+00 31 2.49106538e+01 -3.69151353e+00 1.47321918e+01 32 1.56526413e+01 2.54427820e+01 2.47574043e+01 MONOATOMIC STRUCTURE (pbc=True)-- Species = Pt (Configuration in file "config-T-Pt.xyz") ----------------------------------------------------------------------------------------------------- Energy = 91.81270903374768 Forces: 1 -1.08494763e+01 -1.29195703e+01 -1.65208436e+01 2 -8.02236263e+00 1.25658188e+01 -1.95644876e+01 3 -2.14008634e+00 -1.70685625e+01 1.08795955e+01 4 -1.46315964e+01 9.79089373e+00 5.12147794e+00 5 1.58158807e+01 -2.27250825e+01 -1.39246066e+01 6 8.64642549e+00 2.07863008e+00 -1.36223048e+01 7 1.44577082e+01 -3.66500424e+01 -2.36641631e+01 8 -1.58597625e+01 -2.53023239e+01 -8.51523423e+00 9 -9.58952884e+00 -1.20861162e+01 -2.22005858e+01 10 -7.18703056e+00 2.40705652e+01 -2.60963779e+01 11 -1.95900308e+01 -1.65596581e+01 -1.87326034e+01 12 -1.86582632e+01 1.94282939e+01 8.71358940e+00 13 2.40821744e+00 -1.34299298e+01 -5.07815488e+01 14 1.09050601e+01 1.07351406e+01 -9.64263490e+00 15 5.06663773e+01 -4.15094378e-01 -6.63391084e+00 16 9.84699784e+00 5.02893378e+01 5.10578225e+00 17 -1.90362817e+01 -1.10518298e+01 -3.41974683e+00 18 2.74469208e+00 3.98468425e+00 -5.70040564e+00 19 8.35450166e+00 -2.48734174e+01 1.74215594e+01 20 -1.62617793e+01 9.92708772e+00 1.26279294e+01 21 -1.30414559e+01 -2.04263684e+01 1.28592760e+01 22 3.19796433e+01 1.63016936e+01 2.41596897e+01 23 5.61710478e+00 -3.27018397e+00 9.90071303e+00 24 3.82109432e+00 -1.05733991e+01 1.75625507e+01 25 -3.66766045e+01 -4.17899146e+00 6.61256109e+00 26 -1.22530199e+01 4.40644566e+01 -1.94338437e+00 27 -4.89092365e+00 -2.41723598e+01 2.73333717e+01 28 -2.51659470e+01 1.96575762e+01 1.04753096e+01 29 1.02302792e+01 -1.00731561e+01 2.36339604e+01 30 1.77968720e+01 2.11306390e+01 9.06587620e+00 31 2.49106538e+01 -3.69151353e+00 1.47321918e+01 32 1.56526413e+01 2.54427820e+01 2.47574043e+01 ================================================================================ VALGRIND OUTPUT ================================================================================ ==3535319== Memcheck, a memory error detector ==3535319== Copyright (C) 2002-2017, and GNU GPL'd, by Julian Seward et al. ==3535319== Using Valgrind-3.18.1 and LibVEX; rerun with -h for copyright info ==3535319== Command: python runner2.py EAM_Dynamo_ZhouJohnsonWadley_2004NISTretabulation_Pt__MO_601539325066_001 ==3535319== ==3535319== Invalid read of size 8 ==3535319== at 0x40286A0: strncmp (strcmp.S:170) ==3535319== by 0x400668D: is_dst (dl-load.c:216) ==3535319== by 0x400810E: _dl_dst_count (dl-load.c:253) ==3535319== by 0x400810E: expand_dynamic_string_token (dl-load.c:395) ==3535319== by 0x40082B7: fillin_rpath.isra.0 (dl-load.c:483) ==3535319== by 0x4008602: decompose_rpath (dl-load.c:654) ==3535319== by 0x400A8C8: cache_rpath (dl-load.c:696) ==3535319== by 0x400A8C8: cache_rpath (dl-load.c:677) ==3535319== by 0x400A8C8: _dl_map_object (dl-load.c:2117) ==3535319== by 0x4003494: openaux (dl-deps.c:64) ==3535319== by 0x4B08A97: _dl_catch_exception (dl-error-skeleton.c:208) ==3535319== by 0x4003C7B: _dl_map_object_deps (dl-deps.c:248) ==3535319== by 0x400EA0E: dl_open_worker_begin (dl-open.c:592) ==3535319== by 0x4B08A97: _dl_catch_exception (dl-error-skeleton.c:208) ==3535319== by 0x400DF99: dl_open_worker (dl-open.c:782) ==3535319== Address 0x64cd4e1 is 1 bytes inside a block of size 8 alloc'd ==3535319== at 0x4848899: malloc (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so) ==3535319== by 0x40271DF: malloc (rtld-malloc.h:56) ==3535319== by 0x40271DF: strdup (strdup.c:42) ==3535319== by 0x4008594: decompose_rpath (dl-load.c:629) ==3535319== by 0x400A8C8: cache_rpath (dl-load.c:696) ==3535319== by 0x400A8C8: cache_rpath (dl-load.c:677) ==3535319== by 0x400A8C8: _dl_map_object (dl-load.c:2117) ==3535319== by 0x4003494: openaux (dl-deps.c:64) ==3535319== by 0x4B08A97: _dl_catch_exception (dl-error-skeleton.c:208) ==3535319== by 0x4003C7B: _dl_map_object_deps (dl-deps.c:248) ==3535319== by 0x400EA0E: dl_open_worker_begin (dl-open.c:592) ==3535319== by 0x4B08A97: _dl_catch_exception (dl-error-skeleton.c:208) ==3535319== by 0x400DF99: dl_open_worker (dl-open.c:782) ==3535319== by 0x4B08A97: _dl_catch_exception (dl-error-skeleton.c:208) ==3535319== by 0x400E34D: _dl_open (dl-open.c:883) ==3535319== ==3535319== Invalid read of size 8 ==3535319== at 0x40286A8: strncmp (strcmp.S:172) ==3535319== by 0x400668D: is_dst (dl-load.c:216) ==3535319== by 0x400810E: _dl_dst_count (dl-load.c:253) ==3535319== by 0x400810E: expand_dynamic_string_token (dl-load.c:395) ==3535319== by 0x40082B7: fillin_rpath.isra.0 (dl-load.c:483) ==3535319== by 0x4008602: decompose_rpath (dl-load.c:654) ==3535319== by 0x400A8C8: cache_rpath (dl-load.c:696) ==3535319== by 0x400A8C8: cache_rpath (dl-load.c:677) ==3535319== by 0x400A8C8: _dl_map_object (dl-load.c:2117) ==3535319== by 0x4003494: openaux (dl-deps.c:64) ==3535319== by 0x4B08A97: _dl_catch_exception (dl-error-skeleton.c:208) ==3535319== by 0x4003C7B: _dl_map_object_deps (dl-deps.c:248) ==3535319== by 0x400EA0E: dl_open_worker_begin (dl-open.c:592) ==3535319== by 0x4B08A97: _dl_catch_exception (dl-error-skeleton.c:208) ==3535319== by 0x400DF99: dl_open_worker (dl-open.c:782) ==3535319== Address 0x64cd4e9 is 1 bytes after a block of size 8 alloc'd ==3535319== at 0x4848899: malloc (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so) ==3535319== by 0x40271DF: malloc (rtld-malloc.h:56) ==3535319== by 0x40271DF: strdup (strdup.c:42) ==3535319== by 0x4008594: decompose_rpath (dl-load.c:629) ==3535319== by 0x400A8C8: cache_rpath (dl-load.c:696) ==3535319== by 0x400A8C8: cache_rpath (dl-load.c:677) ==3535319== by 0x400A8C8: _dl_map_object (dl-load.c:2117) ==3535319== by 0x4003494: openaux (dl-deps.c:64) ==3535319== by 0x4B08A97: _dl_catch_exception (dl-error-skeleton.c:208) ==3535319== by 0x4003C7B: _dl_map_object_deps (dl-deps.c:248) ==3535319== by 0x400EA0E: dl_open_worker_begin (dl-open.c:592) ==3535319== by 0x4B08A97: _dl_catch_exception (dl-error-skeleton.c:208) ==3535319== by 0x400DF99: dl_open_worker (dl-open.c:782) ==3535319== by 0x4B08A97: _dl_catch_exception (dl-error-skeleton.c:208) ==3535319== by 0x400E34D: _dl_open (dl-open.c:883) ==3535319== ==3535319== Invalid read of size 8 ==3535319== at 0x40286A0: strncmp (strcmp.S:170) ==3535319== by 0x400668D: is_dst (dl-load.c:216) ==3535319== by 0x4007F79: _dl_dst_substitute (dl-load.c:295) ==3535319== by 0x40082B7: fillin_rpath.isra.0 (dl-load.c:483) ==3535319== by 0x4008602: decompose_rpath (dl-load.c:654) ==3535319== by 0x400A8C8: cache_rpath (dl-load.c:696) ==3535319== by 0x400A8C8: cache_rpath (dl-load.c:677) ==3535319== by 0x400A8C8: _dl_map_object (dl-load.c:2117) ==3535319== by 0x4003494: openaux (dl-deps.c:64) ==3535319== by 0x4B08A97: _dl_catch_exception (dl-error-skeleton.c:208) ==3535319== by 0x4003C7B: _dl_map_object_deps (dl-deps.c:248) ==3535319== by 0x400EA0E: dl_open_worker_begin (dl-open.c:592) ==3535319== by 0x4B08A97: _dl_catch_exception (dl-error-skeleton.c:208) ==3535319== by 0x400DF99: dl_open_worker (dl-open.c:782) ==3535319== Address 0x64cd4e1 is 1 bytes inside a block of size 8 alloc'd ==3535319== at 0x4848899: malloc (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so) ==3535319== by 0x40271DF: malloc (rtld-malloc.h:56) ==3535319== by 0x40271DF: strdup (strdup.c:42) ==3535319== by 0x4008594: decompose_rpath (dl-load.c:629) ==3535319== by 0x400A8C8: cache_rpath (dl-load.c:696) ==3535319== by 0x400A8C8: cache_rpath (dl-load.c:677) ==3535319== by 0x400A8C8: _dl_map_object (dl-load.c:2117) ==3535319== by 0x4003494: openaux (dl-deps.c:64) ==3535319== by 0x4B08A97: _dl_catch_exception (dl-error-skeleton.c:208) ==3535319== by 0x4003C7B: _dl_map_object_deps (dl-deps.c:248) ==3535319== by 0x400EA0E: dl_open_worker_begin (dl-open.c:592) ==3535319== by 0x4B08A97: _dl_catch_exception (dl-error-skeleton.c:208) ==3535319== by 0x400DF99: dl_open_worker (dl-open.c:782) ==3535319== by 0x4B08A97: _dl_catch_exception (dl-error-skeleton.c:208) ==3535319== by 0x400E34D: _dl_open (dl-open.c:883) ==3535319== ==3535319== Invalid read of size 8 ==3535319== at 0x40286A8: strncmp (strcmp.S:172) ==3535319== by 0x400668D: is_dst (dl-load.c:216) ==3535319== by 0x4007F79: _dl_dst_substitute (dl-load.c:295) ==3535319== by 0x40082B7: fillin_rpath.isra.0 (dl-load.c:483) ==3535319== by 0x4008602: decompose_rpath (dl-load.c:654) ==3535319== by 0x400A8C8: cache_rpath (dl-load.c:696) ==3535319== by 0x400A8C8: cache_rpath (dl-load.c:677) ==3535319== by 0x400A8C8: _dl_map_object (dl-load.c:2117) ==3535319== by 0x4003494: openaux (dl-deps.c:64) ==3535319== by 0x4B08A97: _dl_catch_exception (dl-error-skeleton.c:208) ==3535319== by 0x4003C7B: _dl_map_object_deps (dl-deps.c:248) ==3535319== by 0x400EA0E: dl_open_worker_begin (dl-open.c:592) ==3535319== by 0x4B08A97: _dl_catch_exception (dl-error-skeleton.c:208) ==3535319== by 0x400DF99: dl_open_worker (dl-open.c:782) ==3535319== Address 0x64cd4e9 is 1 bytes after a block of size 8 alloc'd ==3535319== at 0x4848899: malloc (in /usr/libexec/valgrind/vgpreload_memcheck-amd64-linux.so) ==3535319== by 0x40271DF: malloc (rtld-malloc.h:56) ==3535319== by 0x40271DF: strdup (strdup.c:42) ==3535319== by 0x4008594: decompose_rpath (dl-load.c:629) ==3535319== by 0x400A8C8: cache_rpath (dl-load.c:696) ==3535319== by 0x400A8C8: cache_rpath (dl-load.c:677) ==3535319== by 0x400A8C8: _dl_map_object (dl-load.c:2117) ==3535319== by 0x4003494: openaux (dl-deps.c:64) ==3535319== by 0x4B08A97: _dl_catch_exception (dl-error-skeleton.c:208) ==3535319== by 0x4003C7B: _dl_map_object_deps (dl-deps.c:248) ==3535319== by 0x400EA0E: dl_open_worker_begin (dl-open.c:592) ==3535319== by 0x4B08A97: _dl_catch_exception (dl-error-skeleton.c:208) ==3535319== by 0x400DF99: dl_open_worker (dl-open.c:782) ==3535319== by 0x4B08A97: _dl_catch_exception (dl-error-skeleton.c:208) ==3535319== by 0x400E34D: _dl_open (dl-open.c:883) ==3535319== ==3535319== ==3535319== HEAP SUMMARY: ==3535319== in use at exit: 3,734,006 bytes in 5,931 blocks ==3535319== total heap usage: 83,616 allocs, 77,685 frees, 322,306,126 bytes allocated ==3535319== ==3535319== LEAK SUMMARY: ==3535319== definitely lost: 0 bytes in 0 blocks ==3535319== indirectly lost: 0 bytes in 0 blocks ==3535319== possibly lost: 158,559 bytes in 109 blocks ==3535319== still reachable: 3,575,447 bytes in 5,822 blocks ==3535319== of which reachable via heuristic: ==3535319== stdstring : 4,256 bytes in 48 blocks ==3535319== suppressed: 0 bytes in 0 blocks ==3535319== Rerun with --leak-check=full to see details of leaked memory ==3535319== ==3535319== For lists of detected and suppressed errors, rerun with: -s ==3535319== ERROR SUMMARY: 4 errors from 4 contexts (suppressed: 0 from 0) ================================================================================ 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. Full Valgrind output written to auxiliary file "valgrind.out" Grade: P Comment: No memory leak detected. === Verification check vc-memory-leak end (2025-07-10 16:45:00) ===