Add WS22_alanine 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: WS22 alanine
|
| 13 |
+
---
|
| 14 |
+
### <details><summary>Cite this dataset </summary>Jr, M. P., Zhang, S., Dral, P. O., and Barbatti, M. _WS22 alanine_. ColabFit, 2023. https://doi.org/10.60732/f74456fc</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_vxtsip8qgm7t_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 |
+
WS22 alanine
|
| 23 |
+
### Description
|
| 24 |
+
Configurations of alanine from WS22. The WS22 database combines Wigner sampling with geometry interpolation to generate 1.18 million molecular geometries equally distributed into 10 independent datasets of flexible organic molecules with varying sizes and chemical complexity. In addition to the potential energy and forces required to construct potential energy surfaces, the WS22 database provides several other quantum chemical properties, all obtained via single-point calculations for each molecular geometry. All quantum chemical calculations were performed with the Gaussian 09 program.
|
| 25 |
+
### Dataset authors
|
| 26 |
+
Max Pinheiro Jr, Shuang Zhang, Pavlo O. Dral, Mario Barbatti
|
| 27 |
+
### Publication
|
| 28 |
+
https://doi.org/10.1038/s41597-023-01998-3
|
| 29 |
+
### Original data link
|
| 30 |
+
https://doi.org/10.5281/zenodo.7032333
|
| 31 |
+
### License
|
| 32 |
+
CC-BY-4.0
|
| 33 |
+
### Number of unique molecular configurations
|
| 34 |
+
119991
|
| 35 |
+
### Number of atoms
|
| 36 |
+
1559883
|
| 37 |
+
### Elements included
|
| 38 |
+
C, H, N, O
|
| 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 sha256:377cffdf025bf1a13a8686f5c53bb2535ac36f73e77669d18613989347e09b5e
|
| 3 |
+
size 122673750
|
ds.parquet
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:0d32f4a3cce6c2c5b5c45d28fc2d380829df9a55c0617977540927e086d0c14b
|
| 3 |
+
size 18417
|