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1 | 1 | # atomate2
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| 2 | + |
| 3 | +<a href="https://github.com/materialsproject/atomate2/actions?query=workflow%3Atesting"><img alt="code coverage" src="https://img.shields.io/github/workflow/status/materialsproject/atomate2/testing?label=tests"></a> |
| 4 | +<a href="https://codecov.io/gh/materialsproject/atomate2/"><img alt="code coverage" src="https://img.shields.io/codecov/c/gh/materialsproject/atomate2"></a> |
| 5 | +<a href="https://pypi.org/project/atomate2"><img alt="pypi version" src="https://img.shields.io/pypi/v/atomate2?color=blue"></a> |
| 6 | +<img alt="supported python versions" src="https://img.shields.io/pypi/pyversions/atomate2"> |
| 7 | + |
| 8 | +**👉 [Full Documentation][docs] 👈** |
| 9 | + |
| 10 | +Atomate2 is a free, open-source software for performing complex materials science |
| 11 | +workflows using simple Python functions. Features of atomate2 include |
| 12 | + |
| 13 | +- It is built on open-source libraries: [pymatgen], [custodian], [jobflow], and |
| 14 | + [FireWorks]. |
| 15 | +- A library of "standard" workflows to compute a wide variety of desired materials |
| 16 | + properties. |
| 17 | +- The ability scale from a single material, to 100 materials, or 100,000 materials. |
| 18 | +- Easy routes to modifying and chaining workflows together. |
| 19 | +- It can build large databases of output properties that you can query, analyze, and |
| 20 | + share in a systematic way. |
| 21 | +- It automatically keeps meticulous records of jobs, their directories, runtime |
| 22 | + parameters, and more. |
| 23 | + |
| 24 | +**Note**: Atomate2 is primarily built to work with the [VASP] electronic structure |
| 25 | +software, but we are actively working on adding more codes. |
| 26 | + |
| 27 | +## Workflows |
| 28 | + |
| 29 | +Some of the workflows available in atomate2 are: |
| 30 | + |
| 31 | +- electronic band structures |
| 32 | +- electronic transport using [AMSET] |
| 33 | +- full elastic tensor |
| 34 | +- dielectric tensor |
| 35 | + |
| 36 | +It is easy to customise and compose any of the above workflows. |
| 37 | + |
| 38 | +## Quick start |
| 39 | + |
| 40 | +Workflows in atomate2 written using the [jobflow] library. Workflows are generated using |
| 41 | +`Maker` objects, that have a consistent API for modifying input settings and chaining |
| 42 | +workflows together. Below, we demonstrate how to run a band structure workflow as |
| 43 | +detailed in the [RelaxBandStructure] section of the documentation. In total, 4 VASP |
| 44 | +calculations will be performed: |
| 45 | + |
| 46 | +1. A structural optimisation. |
| 47 | +2. A self-consistent static calculation on the relaxed geometry. |
| 48 | +3. A non-self-consistent calculation on a uniform k-point mesh (for the density of |
| 49 | + states). |
| 50 | +4. A non-self-consistent calculation on a high symmetry k-point path (for the line mode |
| 51 | + band structure). |
| 52 | + |
| 53 | +```python |
| 54 | +from atomate2.vasp.flows.core import RelaxBandStructureMaker |
| 55 | +from jobflow import run_locally |
| 56 | +from pymatgen.core import Structure |
| 57 | + |
| 58 | +# construct a rock salt MgO structure |
| 59 | +mgo_structure = Structure( |
| 60 | + lattice=[[0, 2.13, 2.13], [2.13, 0, 2.13], [2.13, 2.13, 0]], |
| 61 | + species=["Mg", "O"], |
| 62 | + coords=[[0, 0, 0], [0.5, 0.5, 0.5]], |
| 63 | +) |
| 64 | + |
| 65 | +# make a band structure flow to optimise the structure and obtain the band structure |
| 66 | +bandstructure_flow = RelaxBandStructureMaker().make(mgo_structure) |
| 67 | + |
| 68 | +# run the job |
| 69 | +run_locally(bandstructure_flow) |
| 70 | +``` |
| 71 | + |
| 72 | +In this example, we run execute the workflow immediately. In most cases, you will want |
| 73 | +to perform calculations on many materials simulatenously. To achieve this, all atomate2 |
| 74 | +workflows can be run using the [FireWorks] software. See the |
| 75 | +[documentation][atomate2_fireworks] for more details. |
| 76 | + |
| 77 | +## Installation |
| 78 | + |
| 79 | +Atomate2 is a Python 3.7+ library and can be installed using pip. Full installation |
| 80 | +and configuration instructions are provided in the [installation tutorial][installation]. |
| 81 | + |
| 82 | +## Tutorials |
| 83 | + |
| 84 | +The documentation includes comprehensive tutorials and reference information to get you |
| 85 | +started: |
| 86 | + |
| 87 | +- [Introduction to running workflows][running-workflows] |
| 88 | +- [Using atomate2 with FireWorks][atomate2_fireworks] |
| 89 | +- [List of VASP workflows][vasp_workflows] |
| 90 | + |
| 91 | +## Need help? |
| 92 | + |
| 93 | +Ask questions about atomate2 on the [atomate2 support forum][help-forum]. |
| 94 | +If you've found an issue with atomate2, please submit a bug report on [GitHub Issues][issues]. |
| 95 | + |
| 96 | +## What’s new? |
| 97 | + |
| 98 | +Track changes to atomate2 through the [changelog][changelog]. |
| 99 | + |
| 100 | +## Contributing |
| 101 | + |
| 102 | +We greatly appreciate any contributions in the form of a pull request. |
| 103 | +Additional information on contributing to atomate2 can be found [here][contributing]. |
| 104 | +We maintain a list of all contributors [here][contributors]. |
| 105 | + |
| 106 | +## License |
| 107 | + |
| 108 | +Atomate2 is released under a modified BSD license; the full text can be found [here][license]. |
| 109 | + |
| 110 | +## Acknowledgements |
| 111 | + |
| 112 | +Atomate2 was designed and developed by Alex Ganose. |
| 113 | + |
| 114 | +[maggma]: https://materialsproject.github.io/maggma/ |
| 115 | +[pymatgen]: https://pymatgen.org |
| 116 | +[fireworks]: https://materialsproject.github.io/fireworks/ |
| 117 | +[jobflow]: https://materialsproject.github.io/jobflow/ |
| 118 | +[custodian]: https://materialsproject.github.io/custodian/ |
| 119 | +[VASP]: https://www.vasp.at |
| 120 | +[AMSET]: https://hackingmaterials.lbl.gov/amset/ |
| 121 | +[help-forum]: https://matsci.org/c/atomate |
| 122 | +[issues]: https://github.com/materialsproject/atomate2/issues |
| 123 | +[changelog]: https://materialsproject.github.io/atomate2/user/changelog.html |
| 124 | +[installation]: https://materialsproject.github.io/atomate2/user/install.html |
| 125 | +[contributing]: https://materialsproject.github.io/atomate2/user/contributing.html |
| 126 | +[contributors]: https://materialsproject.github.io/atomate2/user/contributors.html |
| 127 | +[license]: https://raw.githubusercontent.com/materialsproject/atomate2/main/LICENSE |
| 128 | +[running-workflows]: https://materialsproject.github.io/atomate2/user/running-workflows.html |
| 129 | +[atomate2_fireworks]: https://materialsproject.github.io/atomate2/user/fireworks.html |
| 130 | +[vasp_workflows]: https://materialsproject.github.io/atomate2/user/codes/vasp.html |
| 131 | +[RelaxBandStructure]: https://materialsproject.github.io/atomate2/user/codes/vasp.html#relax-and-band-structure |
| 132 | +[docs]: https://materialsproject.github.io/atomate2/ |
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