Add Transition1x-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: mit
|
| 8 |
+
tags:
|
| 9 |
+
- molecular dynamics
|
| 10 |
+
- mlip
|
| 11 |
+
- interatomic potential
|
| 12 |
+
pretty_name: Transition1x-test
|
| 13 |
+
---
|
| 14 |
+
### <details><summary>Cite this dataset </summary>Schreiner, M., Bhowmik, A., Vegge, T., Busk, J., and Winther, O. _Transition1x-test_. ColabFit, 2023. https://doi.org/10.60732/f26a9f60</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_zzfaosyakwom_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 |
+
Transition1x-test
|
| 23 |
+
### Description
|
| 24 |
+
The test split of the Transition1x dataset. Transition1x is a benchmark dataset containing 9.6 million Density Functional Theory (DFT) calculations of forces and energies of molecular configurations on and around reaction pathways at the ωB97x/6-31 G(d) level of theory. The configurations contained in this dataset allow a better representation of features in transition state regions when compared to other benchmark datasets -- in particular QM9 and ANI1x.
|
| 25 |
+
### Dataset authors
|
| 26 |
+
Mathias Schreiner, Arghya Bhowmik, Tejs Vegge, Jonas Busk, Ole Winther
|
| 27 |
+
### Publication
|
| 28 |
+
https://doi.org/10.1038/s41597-022-01870-w
|
| 29 |
+
### Original data link
|
| 30 |
+
https://doi.org/10.6084/m9.figshare.19614657.v4
|
| 31 |
+
### License
|
| 32 |
+
MIT
|
| 33 |
+
### Number of unique molecular configurations
|
| 34 |
+
190261
|
| 35 |
+
### Number of atoms
|
| 36 |
+
2106595
|
| 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 sha256:6469b7eb7328b250e14cf8156e69e994f0ed7e0a3643386ea9cbf405a61ebb71
|
| 3 |
+
size 146399841
|
ds.parquet
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:ac148e479f636784af4f5ef8eed55056f4596a0ac62d6df2fcfa4d796c0c0490
|
| 3 |
+
size 18153
|