Add HME21_test files
Browse files- README.md +55 -0
- co/co_0.parquet +3 -0
- ds.parquet +3 -0
README.md
ADDED
|
@@ -0,0 +1,55 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
---
|
| 2 |
+
configs:
|
| 3 |
+
- config_name: default
|
| 4 |
+
data_files: "co/*.parquet"
|
| 5 |
+
- config_name: info
|
| 6 |
+
data_files: "ds.parquet"
|
| 7 |
+
license: cc-by-4.0
|
| 8 |
+
tags:
|
| 9 |
+
- molecular dynamics
|
| 10 |
+
- mlip
|
| 11 |
+
- interatomic potential
|
| 12 |
+
pretty_name: HME21 test
|
| 13 |
+
---
|
| 14 |
+
### <details><summary>Cite this dataset </summary>Takamoto, S., Shinagawa, C., Motoki, D., Nakago, K., Li, W., Kurata, I., Watanabe, T., Yayama, Y., Iriguchi, H., Asano, Y., Onodera, T., Ishii, T., Kudo, T., Ono, H., Sawada, R., Ishitani, R., Ong, M., Yamaguchi, T., Kataoka, T., Hayashi, A., Charoenphakdee, N., and Ibuka, T. _HME21 test_. ColabFit, 2023. https://doi.org/10.60732/bddeac8f</details>
|
| 15 |
+
#### This dataset has been curated and formatted for the ColabFit Exchange
|
| 16 |
+
#### This dataset is also available on the ColabFit Exchange:
|
| 17 |
+
https://materials.colabfit.org/id/DS_cpgyq72fs7uk_0
|
| 18 |
+
#### Visit the ColabFit Exchange to search additional datasets by author, description, element content and more.
|
| 19 |
+
https://materials.colabfit.org
|
| 20 |
+
<br><hr>
|
| 21 |
+
# Dataset Name
|
| 22 |
+
HME21 test
|
| 23 |
+
### Description
|
| 24 |
+
The test set from HME21. The high-temperature multi-element 2021 (HME21) dataset comprises approximately 25,000 configurations, including 37 elements, used in the training of a universal NNP called PreFerential Potential (PFP). The dataset specifically contains disordered and unstable structures, and structures that include irregular substitutions, as well as varied temperature and density.
|
| 25 |
+
### Dataset authors
|
| 26 |
+
So Takamoto, Chikashi Shinagawa, Daisuke Motoki, Kosuke Nakago, Wenwen Li, Iori Kurata, Taku Watanabe, Yoshihiro Yayama, Hiroki Iriguchi, Yusuke Asano, Tasuku Onodera, Takafumi Ishii, Takao Kudo, Hideki Ono, Ryohto Sawada, Ryuichiro Ishitani, Marc Ong, Taiki Yamaguchi, Toshiki Kataoka, Akihide Hayashi, Nontawat Charoenphakdee, Takeshi Ibuka
|
| 27 |
+
### Publication
|
| 28 |
+
https://doi.org/10.1038/s41467-022-30687-9
|
| 29 |
+
### Original data link
|
| 30 |
+
https://doi.org/10.6084/m9.figshare.19658538.v2
|
| 31 |
+
### License
|
| 32 |
+
CC-BY-4.0
|
| 33 |
+
### Number of unique molecular configurations
|
| 34 |
+
2495
|
| 35 |
+
### Number of atoms
|
| 36 |
+
69572
|
| 37 |
+
### Elements included
|
| 38 |
+
Ag, Al, Au, Ba, C, Ca, Cl, Co, Cr, Cu, F, Fe, H, In, Ir, K, Li, Mg, Mn, Mo, N, Na, Ni, O, P, Pb, Pd, Pt, Rh, Ru, S, Sc, Si, Sn, Ti, V, Zn
|
| 39 |
+
### Properties included
|
| 40 |
+
energy, atomic forces, cauchy stress
|
| 41 |
+
<br>
|
| 42 |
+
<hr>
|
| 43 |
+
|
| 44 |
+
# Usage
|
| 45 |
+
- `ds.parquet` : Aggregated dataset information.
|
| 46 |
+
- `co/` directory: Configuration rows each include a structure, calculated properties, and metadata.
|
| 47 |
+
- `cs/` directory : Configuration sets are subsets of configurations grouped by some common characteristic. If `cs/` does not exist, no configurations sets have been defined for this dataset.
|
| 48 |
+
- `cs_co_map/` directory : The mapping of configurations to configuration sets (if defined).
|
| 49 |
+
<br>
|
| 50 |
+
#### ColabFit Exchange documentation includes descriptions of content and example code for parsing parquet files:
|
| 51 |
+
- [Parquet parsing: example code](https://materials.colabfit.org/docs/how_to_use_parquet)
|
| 52 |
+
- [Dataset info schema](https://materials.colabfit.org/docs/dataset_schema)
|
| 53 |
+
- [Configuration schema](https://materials.colabfit.org/docs/configuration_schema)
|
| 54 |
+
- [Configuration set schema](https://materials.colabfit.org/docs/configuration_set_schema)
|
| 55 |
+
- [Configuration set to configuration mapping schema](https://materials.colabfit.org/docs/cs_co_mapping_schema)
|
co/co_0.parquet
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:06741296bad66ec76171b7070b9fea09a511f7df1fef2e84f332c5cc2edd315c
|
| 3 |
+
size 4305137
|
ds.parquet
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:3378d5b1c26552f64f4f3d4338e7c34deddd74b159c6b27fea4750f12dfcd20c
|
| 3 |
+
size 18831
|