Enter a model name: === Verification check vc-memory-leak start (2019-08-08 23:30:47) === !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!! !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!! !!!!! !!!!! !!!!! 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 ----------------------------------------------------------------------------------------------------- Results for KIM Model : Morse_Shifted_GirifalcoWeizer_1959MedCutoff_Na__MO_636041334617_002 Supported species : Na random seed = 13 lattice constant (orig) = 3.000 perturbation amplitude = 0.300 number unit cells per side = 2 ----------------------------------------------------------------------------------------------------- MONOATOMIC STRUCTURE (pbc=False)-- Species = Na (Configuration in file "config-F-Na.xyz") ----------------------------------------------------------------------------------------------------- Energy = 249.59316721754033 Forces: 1 -5.50276504e+00 -5.78445895e+00 -7.67437719e+00 2 -2.27365623e+00 -3.25011200e-01 -1.07441700e+01 3 -2.93046530e-01 -1.03319222e+01 -2.16990550e+00 4 -9.44691990e+00 2.81429166e+00 -1.09511679e+00 5 1.50354376e+00 -9.12035490e+00 -6.81134318e+00 6 6.85354603e+00 -1.16403335e+00 -7.71202803e+00 7 6.67003349e+00 -9.70544571e+00 -3.39059836e+00 8 7.60786145e-01 -4.68223252e+00 -2.08486096e+00 9 -6.83222895e+00 -1.90299967e+00 -1.05829157e+01 10 3.92544197e-01 9.93158934e+00 -9.01599611e+00 11 -5.38733792e+00 -7.95662507e-01 -2.04850878e+00 12 -9.42358135e+00 8.32517748e+00 1.54191236e+00 13 2.55464402e+00 1.92292392e-01 -1.36368664e+01 14 6.19805862e+00 5.95459303e+00 -5.53019985e+00 15 1.33574983e+01 4.25963894e-01 -2.13907155e+00 16 2.25054918e+00 1.29665001e+01 -4.63073774e-01 17 -9.28024986e+00 -6.68128151e+00 2.49202304e+00 18 -2.58352850e+00 -3.40335762e-01 2.76509243e+00 19 -9.30331101e-01 -8.06205778e+00 8.07410265e+00 20 -7.21405444e+00 -5.88136967e-01 6.65371154e+00 21 1.80064864e+00 -9.91907554e+00 3.44185857e+00 22 1.11705644e+01 -8.30312986e-02 3.13197391e+00 23 4.60612944e+00 -4.39177752e+00 6.14631274e+00 24 4.18799364e-01 -3.20424318e+00 1.03619312e+01 25 -1.08187303e+01 6.91668595e-01 5.66459706e-01 26 -2.23735150e+00 1.18931705e+01 6.54823331e-01 27 -1.71729751e+00 -1.92892541e+00 9.62038743e+00 28 -8.56488470e+00 7.28035058e+00 5.53561750e+00 29 1.74796004e+00 7.72542214e-01 4.22911942e+00 30 8.60402934e+00 8.32102236e+00 2.34561018e+00 31 9.62384990e+00 1.12786879e+00 8.30242476e+00 32 3.99277905e+00 8.31395508e+00 9.23567135e+00 MONOATOMIC STRUCTURE (pbc=True)-- Species = Na (Configuration in file "config-T-Na.xyz") ----------------------------------------------------------------------------------------------------- Energy = 249.59316721754033 Forces: 1 -5.50276504e+00 -5.78445895e+00 -7.67437719e+00 2 -2.27365623e+00 -3.25011200e-01 -1.07441700e+01 3 -2.93046530e-01 -1.03319222e+01 -2.16990550e+00 4 -9.44691990e+00 2.81429166e+00 -1.09511679e+00 5 1.50354376e+00 -9.12035490e+00 -6.81134318e+00 6 6.85354603e+00 -1.16403335e+00 -7.71202803e+00 7 6.67003349e+00 -9.70544571e+00 -3.39059836e+00 8 7.60786145e-01 -4.68223252e+00 -2.08486096e+00 9 -6.83222895e+00 -1.90299967e+00 -1.05829157e+01 10 3.92544197e-01 9.93158934e+00 -9.01599611e+00 11 -5.38733792e+00 -7.95662507e-01 -2.04850878e+00 12 -9.42358135e+00 8.32517748e+00 1.54191236e+00 13 2.55464402e+00 1.92292392e-01 -1.36368664e+01 14 6.19805862e+00 5.95459303e+00 -5.53019985e+00 15 1.33574983e+01 4.25963894e-01 -2.13907155e+00 16 2.25054918e+00 1.29665001e+01 -4.63073774e-01 17 -9.28024986e+00 -6.68128151e+00 2.49202304e+00 18 -2.58352850e+00 -3.40335762e-01 2.76509243e+00 19 -9.30331101e-01 -8.06205778e+00 8.07410265e+00 20 -7.21405444e+00 -5.88136967e-01 6.65371154e+00 21 1.80064864e+00 -9.91907554e+00 3.44185857e+00 22 1.11705644e+01 -8.30312986e-02 3.13197391e+00 23 4.60612944e+00 -4.39177752e+00 6.14631274e+00 24 4.18799364e-01 -3.20424318e+00 1.03619312e+01 25 -1.08187303e+01 6.91668595e-01 5.66459706e-01 26 -2.23735150e+00 1.18931705e+01 6.54823331e-01 27 -1.71729751e+00 -1.92892541e+00 9.62038743e+00 28 -8.56488470e+00 7.28035058e+00 5.53561750e+00 29 1.74796004e+00 7.72542214e-01 4.22911942e+00 30 8.60402934e+00 8.32102236e+00 2.34561018e+00 31 9.62384990e+00 1.12786879e+00 8.30242476e+00 32 3.99277905e+00 8.31395508e+00 9.23567135e+00 ================================================================================ VALGRIND OUTPUT ================================================================================ ==67701== Memcheck, a memory error detector ==67701== Copyright (C) 2002-2017, and GNU GPL'd, by Julian Seward et al. ==67701== Using Valgrind-3.13.0 and LibVEX; rerun with -h for copyright info ==67701== Command: python runner2.py Morse_Shifted_GirifalcoWeizer_1959MedCutoff_Na__MO_636041334617_002 ==67701== ==68950== Warning: invalid file descriptor 1048564 in syscall close() ==68950== Warning: invalid file descriptor 1048565 in syscall close() ==68950== Warning: invalid file descriptor 1048566 in syscall close() ==68950== Warning: invalid file descriptor 1048567 in syscall close() ==68950== Use --log-fd= to select an alternative log fd. ==68950== Warning: invalid file descriptor 1048568 in syscall close() ==68950== Warning: invalid file descriptor 1048569 in syscall close() ==68952== Warning: invalid file descriptor 1048564 in syscall close() ==68952== Warning: invalid file descriptor 1048565 in syscall close() ==68952== Warning: invalid file descriptor 1048566 in syscall close() ==68952== Warning: invalid file descriptor 1048567 in syscall close() ==68952== Use --log-fd= to select an alternative log fd. ==68952== Warning: invalid file descriptor 1048568 in syscall close() ==68952== Warning: invalid file descriptor 1048569 in syscall close() ==68981== Warning: invalid file descriptor 1048564 in syscall close() ==68981== Warning: invalid file descriptor 1048565 in syscall close() ==68981== Warning: invalid file descriptor 1048566 in syscall close() ==68981== Warning: invalid file descriptor 1048567 in syscall close() ==68981== Use --log-fd= to select an alternative log fd. ==68981== Warning: invalid file descriptor 1048568 in syscall close() ==68981== Warning: invalid file descriptor 1048569 in syscall close() ==68984== Warning: invalid file descriptor 1048564 in syscall close() ==68984== Warning: invalid file descriptor 1048565 in syscall close() ==68984== Warning: invalid file descriptor 1048566 in syscall close() ==68984== Warning: invalid file descriptor 1048567 in syscall close() ==68984== Use --log-fd= to select an alternative log fd. ==68984== Warning: invalid file descriptor 1048568 in syscall close() ==68984== Warning: invalid file descriptor 1048569 in syscall close() ==68985== Warning: invalid file descriptor 1048564 in syscall close() ==68985== Warning: invalid file descriptor 1048565 in syscall close() ==68985== Warning: invalid file descriptor 1048566 in syscall close() ==68985== Warning: invalid file descriptor 1048567 in syscall close() ==68985== Use --log-fd= to select an alternative log fd. ==68985== Warning: invalid file descriptor 1048568 in syscall close() ==68985== Warning: invalid file descriptor 1048569 in syscall close() ==68986== Warning: invalid file descriptor 1048564 in syscall close() ==68986== Warning: invalid file descriptor 1048565 in syscall close() ==68986== Warning: invalid file descriptor 1048566 in syscall close() ==68986== Warning: invalid file descriptor 1048567 in syscall close() ==68986== Use --log-fd= to select an alternative log fd. ==68986== Warning: invalid file descriptor 1048568 in syscall close() ==68986== Warning: invalid file descriptor 1048569 in syscall close() ==67701== ==67701== HEAP SUMMARY: ==67701== in use at exit: 1,718,292 bytes in 1,321 blocks ==67701== total heap usage: 31,396 allocs, 30,075 frees, 38,295,244 bytes allocated ==67701== ==67701== LEAK SUMMARY: ==67701== definitely lost: 0 bytes in 0 blocks ==67701== indirectly lost: 0 bytes in 0 blocks ==67701== possibly lost: 178,943 bytes in 97 blocks ==67701== still reachable: 1,539,349 bytes in 1,224 blocks ==67701== suppressed: 0 bytes in 0 blocks ==67701== Rerun with --leak-check=full to see details of leaked memory ==67701== ==67701== For counts of detected and suppressed errors, rerun with: -v ==67701== ERROR SUMMARY: 0 errors from 0 contexts (suppressed: 16378 from 614) ================================================================================ 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 (2019-08-08 23:31:08) ===