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xtb本体是ok的
寻思测试一下xtb dock module的官方demo
xtb dock amine.xyz cat.xyz --alpb dmso
my xtb version is * xtb version 6.7.1 (edcfbbe) compiled by 'albert@albert-system'
it had performed the docking process.but while opt the docked structure, memory err occured
the .out ends with
Optimizing 15 best structures with gfn2
.err ↓
forrtl: severe (174): SIGSEGV, segmentation fault occurred
Image PC Routine Line Source
xtb 000000000046E88A Unknown Unknown Unknown
xtb 0000000002D1BD40 Unknown Unknown Unknown
xtb 000000000092A456 xtb_axis_mp_axis2 234 axis_trafo.f90
xtb 0000000000B12BC9 xtb_optimizer_mp_ 356 optimizer.f90
xtb 0000000000A2754E xtb_geoopt_mp_geo 147 geoopt_driver.f90
xtb 000000000052DDC7 xtb_docking_searc 907 search_nci.f90
xtb 000000000040662E xtb_prog_dock_mp_ 284 dock.f90
xtb 0000000000450E5A MAIN__ 73 primary.f90
xtb 0000000000401E42 Unknown Unknown Unknown
xtb 0000000002D1298A Unknown Unknown Unknown
xtb 0000000002D14227 Unknown Unknown Unknown
xtb 0000000000401D05 Unknown Unknown Unknown
full slurm job:
#SBATCH -n 32
#SBATCH --ntasks-per-node=32
#SBATCH -o %j.out
#SBATCH -e %j.err
module purge
module load openmpi
ulimit -s unlimited
ulimit -l unlimited
export OMP_NUM_THREADS=32
export OMP_STACKSIZE=256G
xtb dock amine.xyz cat.xyz --alpb dmso
forrtl: severe (151): allocatable array is already allocated
Image PC Routine Line Source
xtb 000000000049883F Unknown Unknown Unknown
xtb 000000000069E771 xtb_gfnff_neighbo 672 neighbor.f90
xtb 000000000069F15E xtb_gfnff_neighbo 100 neighbor.f90
xtb 00000000005EB938 xtb_gfnff_ini_mp_ 192 gfnff_ini.f90
xtb 000000000054F2E4 xtb_docking_searc 1075 search_nci.f90
xtb 0000000000522A8E xtb_docking_searc 262 search_nci.f90
xtb 000000000040662E xtb_prog_dock_mp_ 284 dock.f90
xtb 0000000000450E5A MAIN__ 73 primary.f90
xtb 0000000000401E42 Unknown Unknown Unknown
xtb 0000000002D1298A Unknown Unknown Unknown
xtb 0000000002D14227 Unknown Unknown Unknown
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