Note
Pymatgen formatted JSON files are identified by the extension pmgjson or json and parsed following the Molecule or Structure format.
Water molecules using Molecule schema.
{
"@module": "pymatgen.core.structure",
"@class": "Molecule",
"charge": 0,
"spin_multiplicity": 1,
"sites": [
{
"name": "O",
"species": [{"element": "O", "occu": 1}],
"xyz": [1.1847029, 1.1150792, -0.0344641],
"properties": {},
"label": "O"
},
{
"name": "H",
"species": [{"element": "H", "occu": 1}],
"xyz": [0.4939088, 0.9563767, 0.6340089],
"properties": {},
"label": "H"
},
{
"name": "H",
"species": [{"element": "H", "occu": 1}],
"xyz": [2.0242676, 1.0811246, 0.4301417],
"properties": {},
"label": "H"
},
{
"name": "O",
"species": [{"element": "O", "occu": 1}],
"xyz": [-1.1469443, 0.0697649, 1.1470196],
"properties": {},
"label": "O"
},
{
"name": "H",
"species": [{"element": "H", "occu": 1}],
"xyz": [-1.2798308, -0.5232169, 1.8902833],
"properties": {},
"label": "H"
},
{
"name": "H",
"species": [{"element": "H", "occu": 1}],
"xyz": [-1.0641398, -0.4956693, 0.356925],
"properties": {},
"label": "H"
},
{
"name": "O",
"species": [{"element": "O", "occu": 1}],
"xyz": [-0.1633508, -1.0289346, -1.2401808],
"properties": {},
"label": "O"
},
{
"name": "H",
"species": [{"element": "H", "occu": 1}],
"xyz": [0.4914771, -0.3248733, -1.0784838],
"properties": {},
"label": "H"
},
{
"name": "H",
"species": [{"element": "H", "occu": 1}],
"xyz": [-0.5400907, -0.8496512, -2.1052499],
"properties": {},
"label": "H"
}
],
"properties": {}
}
Rutile using Structure schema:
{
"@module": "pymatgen.core.structure",
"@class": "Structure",
"charge": 0.0,
"lattice": {
"matrix": [
[5.59003664376222, 0.0, 0.0],
[0.0, 8.68089159045265, 0.0],
[0.0, 0.0, 8.68089159045265]
],
"pbc": [true, true, true],
"a": 5.59003664376222,
"b": 8.68089159045265,
"c": 8.68089159045265,
"alpha": 90.0,
"beta": 90.0,
"gamma": 90.0,
"volume": 421.253303917213
},
"properties": {},
"sites": [
{
"species": [{"element": "Ti", "occu": 1}],
"abc": [0.0, 0.0, 0.0],
"properties": {},
"label": "Ti",
"xyz": [0.0, 0.0, 0.0]
},
{
"species": [{"element": "Ti", "occu": 1}],
"abc": [0.5, 0.5000000000000007, 0.5000000000000007],
"properties": {},
"label": "Ti",
"xyz": [2.79501832188111, 4.340445795226331, 4.340445795226331]
},
{
"species": [{"element": "O", "occu": 1}],
"abc": [0.0, 0.30530000000000074, 0.30530000000000074],
"properties": {},
"label": "O",
"xyz": [0.0, 2.6502762025652005, 2.6502762025652005]
},
{
"species": [{"element": "O", "occu": 1}],
"abc": [0.0, 0.6947000000000005, 0.6947000000000005],
"properties": {},
"label": "O",
"xyz": [0.0, 6.03061538788746, 6.03061538788746]
},
{
"species": [{"element": "O", "occu": 1}],
"abc": [0.5, 0.1946999999999999, 0.8053000000000002],
"properties": {},
"label": "O",
"xyz": [2.79501832188111, 1.69016959266113, 6.99072199779152]
},
{
"species": [{"element": "O", "occu": 1}],
"abc": [0.5, 0.8053000000000002, 0.1946999999999999],
"properties": {},
"label": "O",
"xyz": [2.79501832188111, 6.99072199779152, 1.69016959266113]
}
]
}
The schema is not verified on completeness and not all data is stored in the final structure type.
Note
Feel free to contribute support for missing features or bring missing features to our attention by opening an issue.