('The NEB initially has 2 images ', '(including the end-points)') Now adding images for initial run ('Max length between images is at ', 0) Start of evaluation of the initial images ('Now starting iteration 1 on ', [0, 1, 2, 3, 4]) /home/askhl/src/ase/ase/optimize/optimize.py:165: RuntimeWarning: overflow encountered in square fmax = sqrt((forces**2).sum(axis=1).max()) /home/askhl/src/ase/ase/optimize/optimize.py:165: RuntimeWarning: overflow encountered in square fmax = sqrt((forces**2).sum(axis=1).max()) /home/askhl/src/ase/ase/optimize/optimize.py:162: RuntimeWarning: overflow encountered in square return (forces**2).sum(axis=1).max() < self.fmax**2 /home/askhl/src/ase/ase/optimize/optimize.py:162: RuntimeWarning: overflow encountered in square return (forces**2).sum(axis=1).max() < self.fmax**2 /home/askhl/src/ase/ase/optimize/fire.py:93: RuntimeWarning: invalid value encountered in multiply np.vdot(f, f)) * np.sqrt(np.vdot(self.v, self.v)) /home/askhl/src/ase/ase/optimize/fire.py:93: RuntimeWarning: invalid value encountered in multiply np.vdot(f, f)) * np.sqrt(np.vdot(self.v, self.v)) /home/askhl/src/ase/ase/neighborlist.py:105: RuntimeWarning: invalid value encountered in less (self.cutoffs + self.cutoffs[a])**2] /home/askhl/src/ase/ase/neighborlist.py:105: RuntimeWarning: invalid value encountered in less (self.cutoffs + self.cutoffs[a])**2] /home/askhl/src/ase/ase/neb.py:202: RuntimeWarning: invalid value encountered in subtract images[i].get_positions(), /home/askhl/src/ase/ase/neb.py:202: RuntimeWarning: invalid value encountered in subtract images[i].get_positions(), /home/askhl/src/ase/ase/optimize/fire.py:99: RuntimeWarning: invalid value encountered in multiply self.v[:] *= 0.0 /home/askhl/src/ase/ase/optimize/fire.py:99: RuntimeWarning: invalid value encountered in multiply self.v[:] *= 0.0 rank=1 L0: Traceback (most recent call last): rank=1 L1: File "AutoNEB2.py", line 48, in rank=1 L2: autoneb.run() rank=1 L3: File "/home/askhl/src/ase/ase/autoneb.py", line 294, in run rank=1 L4: self.execute_one_neb(n_cur, to_run, climb=False) rank=1 L5: File "/home/askhl/src/ase/ase/autoneb.py", line 228, in execute_one_neb rank=1 L6: neb.distribute() rank=1 L7: File "/home/askhl/src/ase/ase/autoneb.py", line 598, in store_E_and_F_in_spc rank=1 L8: image)) rank=2 L0: Traceback (most recent call last): rank=2 L1: File "AutoNEB2.py", line 48, in rank=2 L2: autoneb.run() rank=2 L3: File "/home/askhl/src/ase/ase/autoneb.py", line 294, in run rank=2 L4: self.execute_one_neb(n_cur, to_run, climb=False) rank=2 L5: File "/home/askhl/src/ase/ase/autoneb.py", line 228, in execute_one_neb rank=2 L6: neb.distribute() rank=2 L7: File "/home/askhl/src/ase/ase/autoneb.py", line 598, in store_E_and_F_in_spc rank=1 L9: TypeError: __init__() takes exactly 2 arguments (6 given) rank=2 L8: image)) rank=2 L9: TypeError: __init__() takes exactly 2 arguments (6 given) GPAW CLEANUP (node 1): occurred. Calling MPI_Abort! GPAW CLEANUP (node 2): occurred. Calling MPI_Abort! rank=0 L0: Traceback (most recent call last): rank=0 L1: File "AutoNEB2.py", line 48, in rank=0 L2: autoneb.run() rank=0 L3: File "/home/askhl/src/ase/ase/autoneb.py", line 294, in run rank=0 L4: self.execute_one_neb(n_cur, to_run, climb=False) rank=0 L5: File "/home/askhl/src/ase/ase/autoneb.py", line 228, in execute_one_neb rank=0 L6: neb.distribute() rank=0 L7: File "/home/askhl/src/ase/ase/autoneb.py", line 598, in store_E_and_F_in_spc rank=0 L8: image)) rank=0 L9: TypeError: __init__() takes exactly 2 arguments (6 given) GPAW CLEANUP (node 0): occurred. Calling MPI_Abort! -------------------------------------------------------------------------- MPI_ABORT was invoked on rank 2 in communicator MPI_COMM_WORLD with errorcode 42. NOTE: invoking MPI_ABORT causes Open MPI to kill all MPI processes. You may or may not see output from other processes, depending on exactly when Open MPI kills them. -------------------------------------------------------------------------- [loki:26976] 2 more processes have sent help message help-mpi-api.txt / mpi-abort [loki:26976] Set MCA parameter "orte_base_help_aggregate" to 0 to see all help / error messages