abinit
FreeGenerate and manage ABINIT DFT calculations. Use when the user requests ABINIT, or needs DFPT phonons, GW calculations, or BSE optical spectra.
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Generate and manage GPAW Python-based DFT calculations. Use when the user requests GPAW, Python DFT, real-space grid DFT, or LCAO-DFT with ASE integration.
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Run score Not tested
See how to installReview the instructions the agent will receive before you install.
gpaw --version, python -c "import gpaw")gpaw install-data)catgo_view(action="get_state")catgo_view(action="get_state")
catgo_workflow_engine(action="create", params={"name": "GPAW PBE relaxation"})
CatGo does not yet have a native GPAW engine. Use task_type: "shell" with a Python script.
catgo_workflow_engine(action="add_task", params={
"workflow_id": "wf_xxx",
"task_type": "shell",
"name": "gpaw_relax",
"command": "python gpaw_relax.py",
"input_files": {
"gpaw_relax.py": "<script content>",
"structure.json": "<pymatgen dict>"
},
"system_name": "TiO2_relax"
})
When a @register_engine("gpaw") is added to CatGo, use task_type: "geo_opt" with software: "gpaw" instead.
from ase.io import read
from gpaw import GPAW, PW
atoms = read('structure.json')
calc = GPAW(
mode=PW(500), # Plane-wave mode, 500 eV cutoff
xc='PBE',
kpts={'density': 3.0}, # ~0.03 A^-1 k-point density
txt='gpaw_scf.txt',
occupations={'name': 'fermi-dirac', 'width': 0.05},
convergence={'energy': 1e-5},
)
atoms.calc = calc
energy = atoms.get_potential_energy()
print(f'Total energy: {energy:.6f} eV')
from ase.io import read, write
from ase.optimize import BFGS
from ase.constraints import FixAtoms
from gpaw import GPAW, PW
atoms = read('structure.json')
# Freeze bottom layers for slabs
c = FixAtoms(indices=[i for i, a in enumerate(atoms)
if a.position[2] < atoms.cell[2][2] * 0.4])
atoms.set_constraint(c)
calc = GPAW(
mode=PW(500),
xc='PBE',
kpts={'density': 3.0},
txt='gpaw_relax.txt',
convergence={'energy': 1e-5},
)
atoms.calc = calc
opt = BFGS(atoms, trajectory='relax.traj', logfile='relax.log')
opt.run(fmax=0.02)
write('CONTCAR.vasp', atoms)
| Parameter | Typical value | Notes |
|---|---|---|
| mode | PW(500) | Plane-wave cutoff in eV; PW(600) for accurate forces |
| mode | LCAO(dzp) | LCAO mode for large systems (1000+ atoms) |
| xc | 'PBE' | Also: 'RPBE', 'BEEF-vdW', 'mBEEF' |
| kpts | {'density': 3.0} | Auto k-mesh; higher = denser |
| convergence | {'energy': 1e-5} | In eV; tighten for phonon calcs |
| occupations | fermi-dirac, 0.05 | Smearing width in eV |
| parallel | {'domain': 2, 'band': 2} | Domain decomposition for MPI |
| Mode | Best for | Speed |
|---|---|---|
| PW (plane-wave) | Accurate bulk/surface | Moderate |
| LCAO | Large systems, screening | Fast |
| FD (finite-difference) | Real-space, nanostructures | Slow but flexible |
txt parameter — without it, GPAW writes no log and debugging is impossiblegpaw install-data with --basis flagcalc.write('checkpoint.gpw') after SCF for restart capabilitydomain * band * kpt must equal total MPI rankskpts={'size': (N, N, 1)} to avoid k-points along vacuum directionNo reviews yet. Tell others what you thought.
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Generate and manage ABINIT DFT calculations. Use when the user requests ABINIT, or needs DFPT phonons, GW calculations, or BSE optical spectra.
The English summary is being prepared. Showing the original description.
Use when the user asks to place an adsorbate molecule on a surface, find adsorption sites, or set up a surface+adsorbate model for DFT.
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Use when the user asks for adsorption energy, binding energy, or wants to compare how strongly a molecule binds to a surface.
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Use when the user asks to analyze computational results: Gibbs free energy, OER/HER/CO2RR overpotentials, adsorption energy, convergence tests, DOS/d-band analysis, or Bader charge analysis.
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Use AmberTools antechamber for molecular force field parameterization. Generates GAFF/GAFF2 parameters and AM1-BCC or RESP charges for use in AMBER or LAMMPS classical MD simulations.
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One-shot recipes for adding, deleting, moving, and replacing individual atoms in the active CatGo viewer structure. Use whenever the user asks to "add an atom", "delete atoms", "remove this atom", "move atom N", "replace H with Li", or any single-atom edit — including "add a hydrogen on top of atom 12" / "delete atoms 5–9" / "swap the oxygen at site 3 for fluorine". Skips the discovery loop (no need to list structure tools or check adsorption sites first); goes straight to the matching `catgo_structure` action. Triggers in Chinese on 加原子, 删原子, 减原子, 移动原子, 替换原子, 增加氢, 删除氧, 把 ... 换成 ....
The English summary is being prepared. Showing the original description.