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overround

铁虫 (初入文坛)

[求助] 关于Gruneisen参数的计算

各位前辈好,

本人前段时间才接触vasp,用于计算材料的晶格热导率。

目前已完成了声子谱的计算,但在计算gruneisen参数的时候总是报错,据其他课题组的师兄说要修改vasp源码,但网上查阅后也未找到相关资料,特来发帖求助。

报错如下:
RuntimeError: Creating primitive cell is failed. PRIMITIVE_AXIS may be incorrectly specified.

其他的部分我认为不是重点,单独放出:
Traceback (most recent call last):
  File "/public4/soft/phonopy/python3.6.5-install/lib/python3.6/site-packages/phonopy/api_phonopy.py", line 1618, in _build_primitive_cell
    self._supercell, trans_mat, self._symprec)
  File "/public4/soft/phonopy/python3.6.5-install/lib/python3.6/site-packages/phonopy/structure/cells.py", line 48, in get_primitive
    return Primitive(supercell, primitive_frame, symprec=symprec)
  File "/public4/soft/phonopy/python3.6.5-install/lib/python3.6/site-packages/phonopy/structure/cells.py", line 343, in __init__
    self._primitive_cell(supercell)
  File "/public4/soft/phonopy/python3.6.5-install/lib/python3.6/site-packages/phonopy/structure/cells.py", line 402, in _primitive_cell
    raise ValueError
ValueError

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/public4/soft/phonopy/python3.6.5-install/bin/phonopy-gruneisen", line 457, in <module>
    main(get_options())
  File "/public4/soft/phonopy/python3.6.5-install/bin/phonopy-gruneisen", line 377, in main
    symprec=args.symprec)
  File "/public4/soft/phonopy/python3.6.5-install/bin/phonopy-gruneisen", line 83, in get_phonon
    symprec=symprec)
  File "/public4/soft/phonopy/python3.6.5-install/lib/python3.6/site-packages/phonopy/api_phonopy.py", line 111, in __init__
    self._build_primitive_cell()
  File "/public4/soft/phonopy/python3.6.5-install/lib/python3.6/site-packages/phonopy/api_phonopy.py", line 1622, in _build_primitive_cell
    raise RuntimeError(msg)

用官网上Si的案例也计算了一下,但报错不一样:
DeprecationWarning: ASE Atoms-like input is deprecated.

Traceback (most recent call last):
  File "/public4/soft/phonopy/python3.6.5-install/bin/phonopy-gruneisen", line 457, in <module>
    main(get_options())
  File "/public4/soft/phonopy/python3.6.5-install/bin/phonopy-gruneisen", line 377, in main
    symprec=args.symprec)
  File "/public4/soft/phonopy/python3.6.5-install/bin/phonopy-gruneisen", line 83, in get_phonon
    symprec=symprec)
  File "/public4/soft/phonopy/python3.6.5-install/lib/python3.6/site-packages/phonopy/api_phonopy.py", line 116, in __init__
    self._search_symmetry()
  File "/public4/soft/phonopy/python3.6.5-install/lib/python3.6/site-packages/phonopy/api_phonopy.py", line 1568, in _search_symmetry
    self._is_symmetry)
  File "/public4/soft/phonopy/python3.6.5-install/lib/python3.6/site-packages/phonopy/structure/symmetry.py", line 63, in __init__
    self._set_symmetry_dataset()
  File "/public4/soft/phonopy/python3.6.5-install/lib/python3.6/site-packages/phonopy/structure/symmetry.py", line 184, in _set_symmetry_dataset
    self._dataset = spg.get_symmetry_dataset(self._cell, self._symprec)
  File "/public4/soft/phonopy/python3.6.5-install/lib/python3.6/site-packages/phonopy/structure/spglib.py", line 171, in get_symmetry_dataset
    lattice, positions, numbers, _ = _expand_cell(cell)
  File "/public4/soft/phonopy/python3.6.5-install/lib/python3.6/site-packages/phonopy/structure/spglib.py", line 768, in _expand_cell
    DeprecationWarning)


目前该问题已困扰两周,实在是找不到解决方法了才来发帖求助,提前谢谢各位前辈解惑!
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valenhou001

至尊木虫 (职业作家)

这个问题与vasp无关。可能是你的POSCAR里的基矢写法有点不规范。或者运行phonopy的脚本时,将对称性检查的容忍度参数值设置的比默认值大些

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