Upload folder using huggingface_hub
Browse files- .gitattributes +69 -32
- README.md +68 -0
- README_zh.md +68 -0
- data/Water/metadata.json +1 -0
- data/Water/test.tfrecord +3 -0
- data/Water/train.tfrecord +3 -0
- data/Water/valid.tfrecord +3 -0
- data_integrity_summary.json +47 -0
- files_sha256.jsonl +4 -0
- metadata/lagrangian_water_schema.json +42 -0
- onescience_relations.yaml +16 -0
- onescience_run_manifest.yaml +271 -0
- scripts/validate_lagrangian_dataset.py +162 -0
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README.md
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+
---
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| 2 |
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license: other
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| 3 |
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#User-Defined Tags
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| 4 |
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tags:
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| 5 |
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- Lagrangian
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| 6 |
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- CFD
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| 7 |
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- graph neural network
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| 8 |
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language:
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| 9 |
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- en
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- zh
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---
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| 12 |
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<p align="center">
|
| 13 |
+
<strong>
|
| 14 |
+
<span style="font-size: 30px;"> Lagrangian </span>
|
| 15 |
+
</strong>
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| 16 |
+
</p>
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| 17 |
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| 18 |
+
## Dataset Overview
|
| 19 |
+
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| 20 |
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The Lagrangian dataset is sourced from the DeepMind team's ICML 2020 paper [Learning to Simulate Complex Physics with Graph Networks](https://proceedings.mlr.press/v119/sanchez-gonzalez20a.html). It consists of the two-dimensional Water particle-dynamics data from the paper's Graph Network-based Simulator (GNS) benchmark. The data represents particles as graph nodes and describes fluid evolution over time through particle-position sequences and particle types. It can be used for Lagrangian particle-dynamics modeling, long-horizon fluid rollout prediction, and evaluation of graph-neural-network physics simulations.
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| 21 |
+
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| 22 |
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| 23 |
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## Supported Tasks
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| 24 |
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This standardized dataset repository organizes the training, validation, and test TFRecord files for Lagrangian Water, together with data metadata, a data schema, an integrity summary, and validation scripts. It can be used as data input for training, inference, evaluation, and visualization with the `OneScience/LagrangianMGN` model. The core data is placed uniformly under `data/Water/`; the training set contains 1,000 trajectories, while the validation and test sets each contain 30 trajectories.
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| 26 |
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| 27 |
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## Dataset Format and Structure
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| 29 |
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The dataset uses the TFRecord SequenceExample format, with each record corresponding to one particle-motion trajectory. The number of particles, `num_particles`, varies by trajectory, and the spatial dimension is `dim=2`.
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| 31 |
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| Feature | Component | shape | dtype | Source Encoding | Description |
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| 33 |
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|---|---|---:|---|---|---|
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| 34 |
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| `position` | sequence feature | `[1001, num_particles, 2]` | `float32` | `bytes` | Two-dimensional particle positions for 1,001 frames, corresponding to 1,000 evolution time steps |
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| 35 |
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| `particle_type` | context feature | `[num_particles]` | `int64` | `bytes` | Type identifier for each particle |
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| 36 |
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|
| 37 |
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The data splits are as follows:
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| 38 |
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|
| 39 |
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| File | split | Number of Trajectories | Description |
|
| 40 |
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|---|---|---:|---|
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| 41 |
+
| `data/Water/train.tfrecord` | `train` | 1,000 | Used for model training |
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| 42 |
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| `data/Water/valid.tfrecord` | `valid` | 30 | Used for model validation and hyperparameter selection |
|
| 43 |
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| `data/Water/test.tfrecord` | `test` | 30 | Used for model testing and result evaluation |
|
| 44 |
+
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| 45 |
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`data/Water/metadata.json` also contains `bounds=[[0.1, 0.9], [0.1, 0.9]]`, `sequence_length=1000`, `default_connectivity_radius=0.015`, `dt=0.0025`, and normalization fields such as `vel_mean`, `vel_std`, `acc_mean`, and `acc_std`.
|
| 46 |
+
|
| 47 |
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## How to Use the Dataset
|
| 48 |
+
|
| 49 |
+
This dataset is compatible with the `OneScience/LagrangianMGN` model.
|
| 50 |
+
|
| 51 |
+
- Files and Download:
|
| 52 |
+
|
| 53 |
+
```bash
|
| 54 |
+
hf download --dataset OneScience-Sugon/lagrangian --local-dir ./data
|
| 55 |
+
```
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| 56 |
+
|
| 57 |
+
|
| 58 |
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## Official OneScience Information
|
| 59 |
+
|
| 60 |
+
| Platform | OneScience Main Repository | Skills Repository |
|
| 61 |
+
|---|---|---|
|
| 62 |
+
| Gitee | https://gitee.com/onescience-ai/onescience | https://gitee.com/onescience-ai/oneskills |
|
| 63 |
+
| GitHub | https://github.com/onescience-ai/OneScience | https://github.com/onescience-ai/oneskills |
|
| 64 |
+
|
| 65 |
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## Citation and License
|
| 66 |
+
|
| 67 |
+
- Original Lagrangian Water paper: [Learning to Simulate Complex Physics with Graph Networks](https://proceedings.mlr.press/v119/sanchez-gonzalez20a/sanchez-gonzalez20a.pdf)
|
| 68 |
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- This dataset is organized from the Learning to Simulate project released by Google DeepMind. Before public distribution, confirm the licensing requirements of the upstream project.
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|
| 1 |
+
---
|
| 2 |
+
license: other
|
| 3 |
+
#用户自定义标签
|
| 4 |
+
tags:
|
| 5 |
+
- Lagrangian
|
| 6 |
+
- CFD
|
| 7 |
+
- graph neural network
|
| 8 |
+
language:
|
| 9 |
+
- en
|
| 10 |
+
- zh
|
| 11 |
+
---
|
| 12 |
+
<p align="center">
|
| 13 |
+
<strong>
|
| 14 |
+
<span style="font-size: 30px;"> Lagrangian </span>
|
| 15 |
+
</strong>
|
| 16 |
+
</p>
|
| 17 |
+
|
| 18 |
+
## 数据集介绍
|
| 19 |
+
|
| 20 |
+
Lagrangian 数据集来源于 DeepMind 团队发表于 ICML 2020 的论文 [《Learning to Simulate Complex Physics with Graph Networks》](https://proceedings.mlr.press/v119/sanchez-gonzalez20a.html),是该论文 Graph Network-based Simulator(GNS)基准中的二维 Water 粒子动力学数据。数据以粒子为图节点,通过粒子位置序列和粒子类型描述流体随时间的演化,可用于拉格朗日粒子动力学建模、流体长期滚动预测以及图神经网络物理仿真评测。
|
| 21 |
+
|
| 22 |
+
|
| 23 |
+
## 数据集支持的任务
|
| 24 |
+
|
| 25 |
+
本标准化数据集仓库整理了 Lagrangian Water 的训练集、验证集和测试集 TFRecord 文件,以及数据元信息、数据模式、完整性汇总和校验脚本,可作为 `OneScience/LagrangianMGN` 模型的训练、推理、评测和可视化数据输入。核心数据统一放置在 `data/Water/` 下,其中训练集包含 1,000 条轨迹,验证集和测试集各包含 30 条轨迹。
|
| 26 |
+
|
| 27 |
+
|
| 28 |
+
## 数据集的格式和结构
|
| 29 |
+
|
| 30 |
+
数据集采用 TFRecord SequenceExample 格式,每条记录对应一条粒子运动轨迹。粒子数量 `num_particles` 随轨迹变化,空间维度 `dim=2`。
|
| 31 |
+
|
| 32 |
+
| 特征 | 所属部分 | shape | dtype | 源编码 | 说明 |
|
| 33 |
+
|---|---|---:|---|---|---|
|
| 34 |
+
| `position` | sequence feature | `[1001, num_particles, 2]` | `float32` | `bytes` | 1,001 帧粒子二维位置,对应 1,000 个演化时间步 |
|
| 35 |
+
| `particle_type` | context feature | `[num_particles]` | `int64` | `bytes` | 每个粒子的类型标识 |
|
| 36 |
+
|
| 37 |
+
数据划分如下:
|
| 38 |
+
|
| 39 |
+
| 文件 | split | 轨迹数 | 说明 |
|
| 40 |
+
|---|---|---:|---|
|
| 41 |
+
| `data/Water/train.tfrecord` | `train` | 1,000 | 用于模型训练 |
|
| 42 |
+
| `data/Water/valid.tfrecord` | `valid` | 30 | 用于模型验证与参数选择 |
|
| 43 |
+
| `data/Water/test.tfrecord` | `test` | 30 | 用于模型测试与结果评估 |
|
| 44 |
+
|
| 45 |
+
`data/Water/metadata.json` 还包含 `bounds=[[0.1, 0.9], [0.1, 0.9]]`、`sequence_length=1000`、`default_connectivity_radius=0.015`、`dt=0.0025`,以及 `vel_mean`、`vel_std`、`acc_mean` 和 `acc_std` 等归一化字段。
|
| 46 |
+
|
| 47 |
+
## 数据集使用方式
|
| 48 |
+
|
| 49 |
+
本数据集适配 `OneScience-Sugon/LagrangianMGN` 模型。
|
| 50 |
+
|
| 51 |
+
- 文件与下载:
|
| 52 |
+
|
| 53 |
+
```bash
|
| 54 |
+
hf download --dataset OneScience-Sugon/lagrangian --local-dir ./data
|
| 55 |
+
```
|
| 56 |
+
|
| 57 |
+
|
| 58 |
+
## OneScience 官方信息
|
| 59 |
+
|
| 60 |
+
| 平台 | OneScience 主仓库 | Skills 仓库 |
|
| 61 |
+
|---|---|---|
|
| 62 |
+
| Gitee | https://gitee.com/onescience-ai/onescience | https://gitee.com/onescience-ai/oneskills |
|
| 63 |
+
| GitHub | https://github.com/onescience-ai/OneScience | https://github.com/onescience-ai/oneskills |
|
| 64 |
+
|
| 65 |
+
## 引用与许可证
|
| 66 |
+
|
| 67 |
+
- Lagrangian Water 原始论文:[Learning to Simulate Complex Physics with Graph Networks](https://proceedings.mlr.press/v119/sanchez-gonzalez20a/sanchez-gonzalez20a.pdf)
|
| 68 |
+
- 本数据集整理于 Google DeepMind 发布的 Learning to Simulate 项目,公开分发前请根据上游项目确认许可证要求。
|
data/Water/metadata.json
ADDED
|
@@ -0,0 +1 @@
|
|
|
|
|
|
|
| 1 |
+
{"bounds": [[0.1, 0.9], [0.1, 0.9]], "sequence_length": 1000, "default_connectivity_radius": 0.015, "dim": 2, "dt": 0.0025, "vel_mean": [-4.906372733478189e-06, -0.0003581614249505887], "vel_std": [0.0018492343327724738, 0.0018154400863548657], "acc_mean": [-1.3758095862050814e-08, 1.114232425851392e-07], "acc_std": [0.0001279824304831018, 0.0001388316140032424]}
|
data/Water/test.tfrecord
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:217f62f45d044a6c01a6f602932b295dee9f37383ddd0133156468c451cb9ca8
|
| 3 |
+
size 294312021
|
data/Water/train.tfrecord
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:986391d0436058e8701e5d5464d3de0701d902dc96682bc712632b0ccc16cc57
|
| 3 |
+
size 8403908822
|
data/Water/valid.tfrecord
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:7e008754834282442e8bb60a9ee27e4e93767882b2129a7bfb2836f49c5fd366
|
| 3 |
+
size 220308298
|
data_integrity_summary.json
ADDED
|
@@ -0,0 +1,47 @@
|
|
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|
| 1 |
+
{
|
| 2 |
+
"source_root": "cfd_dataset/Lagrangian_MGN/data",
|
| 3 |
+
"standardized_root": "modelscope_standardized/dataset/cfd_lagrangian/data",
|
| 4 |
+
"files": [
|
| 5 |
+
{
|
| 6 |
+
"source_path": "cfd_dataset/Lagrangian_MGN/data/Water/metadata.json",
|
| 7 |
+
"standardized_path": "modelscope_standardized/dataset/cfd_lagrangian/data/Water/metadata.json",
|
| 8 |
+
"relative_path": "data/Water/metadata.json",
|
| 9 |
+
"source_size": 365,
|
| 10 |
+
"standardized_size": 365,
|
| 11 |
+
"source_sha256": "5ca3b9ba19edadc3a2d24cd0336f8a719dcfd01f470878d0d9742e632bff2114",
|
| 12 |
+
"standardized_sha256": "5ca3b9ba19edadc3a2d24cd0336f8a719dcfd01f470878d0d9742e632bff2114",
|
| 13 |
+
"match": true
|
| 14 |
+
},
|
| 15 |
+
{
|
| 16 |
+
"source_path": "cfd_dataset/Lagrangian_MGN/data/Water/train.tfrecord",
|
| 17 |
+
"standardized_path": "modelscope_standardized/dataset/cfd_lagrangian/data/Water/train.tfrecord",
|
| 18 |
+
"relative_path": "data/Water/train.tfrecord",
|
| 19 |
+
"source_size": 8403908822,
|
| 20 |
+
"standardized_size": 8403908822,
|
| 21 |
+
"source_sha256": "986391d0436058e8701e5d5464d3de0701d902dc96682bc712632b0ccc16cc57",
|
| 22 |
+
"standardized_sha256": "986391d0436058e8701e5d5464d3de0701d902dc96682bc712632b0ccc16cc57",
|
| 23 |
+
"match": true
|
| 24 |
+
},
|
| 25 |
+
{
|
| 26 |
+
"source_path": "cfd_dataset/Lagrangian_MGN/data/Water/valid.tfrecord",
|
| 27 |
+
"standardized_path": "modelscope_standardized/dataset/cfd_lagrangian/data/Water/valid.tfrecord",
|
| 28 |
+
"relative_path": "data/Water/valid.tfrecord",
|
| 29 |
+
"source_size": 220308298,
|
| 30 |
+
"standardized_size": 220308298,
|
| 31 |
+
"source_sha256": "7e008754834282442e8bb60a9ee27e4e93767882b2129a7bfb2836f49c5fd366",
|
| 32 |
+
"standardized_sha256": "7e008754834282442e8bb60a9ee27e4e93767882b2129a7bfb2836f49c5fd366",
|
| 33 |
+
"match": true
|
| 34 |
+
},
|
| 35 |
+
{
|
| 36 |
+
"source_path": "cfd_dataset/Lagrangian_MGN/data/Water/test.tfrecord",
|
| 37 |
+
"standardized_path": "modelscope_standardized/dataset/cfd_lagrangian/data/Water/test.tfrecord",
|
| 38 |
+
"relative_path": "data/Water/test.tfrecord",
|
| 39 |
+
"source_size": 294312021,
|
| 40 |
+
"standardized_size": 294312021,
|
| 41 |
+
"source_sha256": "217f62f45d044a6c01a6f602932b295dee9f37383ddd0133156468c451cb9ca8",
|
| 42 |
+
"standardized_sha256": "217f62f45d044a6c01a6f602932b295dee9f37383ddd0133156468c451cb9ca8",
|
| 43 |
+
"match": true
|
| 44 |
+
}
|
| 45 |
+
],
|
| 46 |
+
"all_match": true
|
| 47 |
+
}
|
files_sha256.jsonl
ADDED
|
@@ -0,0 +1,4 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{"path": "data/Water/metadata.json", "size": 365, "sha256": "5ca3b9ba19edadc3a2d24cd0336f8a719dcfd01f470878d0d9742e632bff2114"}
|
| 2 |
+
{"path": "data/Water/train.tfrecord", "size": 8403908822, "sha256": "986391d0436058e8701e5d5464d3de0701d902dc96682bc712632b0ccc16cc57"}
|
| 3 |
+
{"path": "data/Water/valid.tfrecord", "size": 220308298, "sha256": "7e008754834282442e8bb60a9ee27e4e93767882b2129a7bfb2836f49c5fd366"}
|
| 4 |
+
{"path": "data/Water/test.tfrecord", "size": 294312021, "sha256": "217f62f45d044a6c01a6f602932b295dee9f37383ddd0133156468c451cb9ca8"}
|
metadata/lagrangian_water_schema.json
ADDED
|
@@ -0,0 +1,42 @@
|
|
|
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|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"dataset": "DeepMind Lagrangian Water",
|
| 3 |
+
"modelscope_repo_id": "OneScience/lagrangian",
|
| 4 |
+
"format": "tfrecord_sequence_example",
|
| 5 |
+
"splits": {
|
| 6 |
+
"train": {
|
| 7 |
+
"path": "data/Water/train.tfrecord",
|
| 8 |
+
"expected_sequences": 1000
|
| 9 |
+
},
|
| 10 |
+
"valid": {
|
| 11 |
+
"path": "data/Water/valid.tfrecord",
|
| 12 |
+
"expected_sequences": 30
|
| 13 |
+
},
|
| 14 |
+
"test": {
|
| 15 |
+
"path": "data/Water/test.tfrecord",
|
| 16 |
+
"expected_sequences": 30
|
| 17 |
+
}
|
| 18 |
+
},
|
| 19 |
+
"metadata_path": "data/Water/metadata.json",
|
| 20 |
+
"sequence_features": {
|
| 21 |
+
"position": {
|
| 22 |
+
"dtype": "float32",
|
| 23 |
+
"shape": ["sequence_length + 1", "num_particles", "dim"],
|
| 24 |
+
"source_encoding": "bytes"
|
| 25 |
+
}
|
| 26 |
+
},
|
| 27 |
+
"context_features": {
|
| 28 |
+
"particle_type": {
|
| 29 |
+
"dtype": "int64",
|
| 30 |
+
"shape": ["num_particles"],
|
| 31 |
+
"source_encoding": "bytes"
|
| 32 |
+
}
|
| 33 |
+
},
|
| 34 |
+
"water_metadata": {
|
| 35 |
+
"dim": 2,
|
| 36 |
+
"sequence_length": 1000,
|
| 37 |
+
"dt": 0.0025,
|
| 38 |
+
"default_connectivity_radius": 0.015,
|
| 39 |
+
"num_node_types": 6,
|
| 40 |
+
"normalization_stats": ["vel_mean", "vel_std", "acc_mean", "acc_std"]
|
| 41 |
+
}
|
| 42 |
+
}
|
onescience_relations.yaml
ADDED
|
@@ -0,0 +1,16 @@
|
|
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|
|
|
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|
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|
|
| 1 |
+
required_datasets: []
|
| 2 |
+
optional_datasets: []
|
| 3 |
+
compatible_models:
|
| 4 |
+
- id: OneScience/LagrangianMGN
|
| 5 |
+
role: train_data
|
| 6 |
+
required_for: [preflight, train, inference, evaluate, visualize]
|
| 7 |
+
resource_ref:
|
| 8 |
+
platform: modelscope
|
| 9 |
+
repo_id: OneScience/LagrangianMGN
|
| 10 |
+
repo_type: model
|
| 11 |
+
url: https://modelscope.cn/models/OneScience/LagrangianMGN
|
| 12 |
+
revision: main
|
| 13 |
+
readme_path: README.md
|
| 14 |
+
manifest_path: onescience_run_manifest.yaml
|
| 15 |
+
expected_local_path: data/Water
|
| 16 |
+
adapter: null
|
onescience_run_manifest.yaml
ADDED
|
@@ -0,0 +1,271 @@
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|
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|
|
|
| 1 |
+
onescience_manifest_version: "0.1"
|
| 2 |
+
resource_type: dataset
|
| 3 |
+
|
| 4 |
+
resource:
|
| 5 |
+
id: OneScience/lagrangian
|
| 6 |
+
name: lagrangian
|
| 7 |
+
domain: cfd
|
| 8 |
+
domain_tags: [cfd, particle_simulation, lagrangian_dynamics]
|
| 9 |
+
task: lagrangian_particle_simulation_dataset
|
| 10 |
+
task_tags: [train_data, eval_data, inference_input, dataset_validation]
|
| 11 |
+
modalities: [particle_trajectory]
|
| 12 |
+
input_formats: [tfrecord]
|
| 13 |
+
output_formats: [tfrecord]
|
| 14 |
+
summary: DeepMind Lagrangian Water 子数据集标准数据包,包含 train、valid、test 三个 TFRecord split 和 metadata.json。
|
| 15 |
+
|
| 16 |
+
platform_resource:
|
| 17 |
+
primary:
|
| 18 |
+
platform: modelscope
|
| 19 |
+
repo_id: OneScience/lagrangian
|
| 20 |
+
repo_type: dataset
|
| 21 |
+
url: https://modelscope.cn/datasets/OneScience/lagrangian
|
| 22 |
+
revision: main
|
| 23 |
+
readme_path: README.md
|
| 24 |
+
manifest_path: onescience_run_manifest.yaml
|
| 25 |
+
mirrors: []
|
| 26 |
+
access:
|
| 27 |
+
visibility: public
|
| 28 |
+
license: unknown
|
| 29 |
+
|
| 30 |
+
website_integration:
|
| 31 |
+
enabled: true
|
| 32 |
+
click_target:
|
| 33 |
+
platform: modelscope
|
| 34 |
+
resource_url: https://modelscope.cn/datasets/OneScience/lagrangian
|
| 35 |
+
llm_handoff:
|
| 36 |
+
readme_required: true
|
| 37 |
+
manifest_required: true
|
| 38 |
+
download_readme_first: true
|
| 39 |
+
resolve_related_models: true
|
| 40 |
+
default_run_goal: dataset_validation
|
| 41 |
+
cwd_note: 如果使用 modelscope download --cache_dir 下载数据集,请先 cd 到实际下载后的数据集仓库根目录;模型侧将 ONESCIENCE_LAGRANGIAN_DATA_DIR 指向本仓库 data/Water。
|
| 42 |
+
|
| 43 |
+
runtime:
|
| 44 |
+
enabled: true
|
| 45 |
+
onescience_domain: cfd
|
| 46 |
+
min_onescience_version: null
|
| 47 |
+
supported_execution: [local_dataset_validation, model_training_input, model_inference_input]
|
| 48 |
+
environment:
|
| 49 |
+
exported_env:
|
| 50 |
+
ONESCIENCE_LAGRANGIAN_DATA_DIR: <dataset_repo_root>/data/Water
|
| 51 |
+
dependencies:
|
| 52 |
+
python: ">=3.10"
|
| 53 |
+
python_packages: [tensorflow, numpy, pyyaml]
|
| 54 |
+
|
| 55 |
+
onescience:
|
| 56 |
+
repo: https://gitee.com/onescience-ai/onescience
|
| 57 |
+
official_links:
|
| 58 |
+
gitee:
|
| 59 |
+
doc: https://gitee.com/onescience-ai/onescience-doc
|
| 60 |
+
onescience: https://gitee.com/onescience-ai/onescience
|
| 61 |
+
skills: https://gitee.com/onescience-ai/oneskills
|
| 62 |
+
github:
|
| 63 |
+
doc: https://github.com/onescience-ai/OneScience-doc
|
| 64 |
+
onescience: https://github.com/onescience-ai/OneScience
|
| 65 |
+
skills: https://github.com/onescience-ai/oneskills
|
| 66 |
+
install:
|
| 67 |
+
required_by_default: false
|
| 68 |
+
command: bash install.sh cfd
|
| 69 |
+
source_paths:
|
| 70 |
+
- onescience/src/onescience/datapipes/cfd/deepmind_lagrangian.py
|
| 71 |
+
compatibility:
|
| 72 |
+
examples_path: onescience/examples/cfd/Lagrangian_MGN
|
| 73 |
+
status: examples_compatible
|
| 74 |
+
datapipe: onescience.datapipes.cfd.DeepMindLagrangianDatapipe
|
| 75 |
+
|
| 76 |
+
runtime_package:
|
| 77 |
+
kind: standard_runtime_package
|
| 78 |
+
package_root: .
|
| 79 |
+
standard_layout:
|
| 80 |
+
workdir: .
|
| 81 |
+
data_dir: data/Water
|
| 82 |
+
metadata_dir: metadata
|
| 83 |
+
output_dir: validation_outputs
|
| 84 |
+
apply_policy:
|
| 85 |
+
mode: direct_use
|
| 86 |
+
target: session_workdir
|
| 87 |
+
overwrite: false
|
| 88 |
+
protect_installed_onescience: true
|
| 89 |
+
entry_files:
|
| 90 |
+
- data/Water/metadata.json
|
| 91 |
+
- data/Water/train.tfrecord
|
| 92 |
+
- data/Water/valid.tfrecord
|
| 93 |
+
- data/Water/test.tfrecord
|
| 94 |
+
- metadata/lagrangian_water_schema.json
|
| 95 |
+
- scripts/validate_lagrangian_dataset.py
|
| 96 |
+
- files_sha256.jsonl
|
| 97 |
+
entrypoints:
|
| 98 |
+
preflight: scripts/validate_lagrangian_dataset.py
|
| 99 |
+
validate: scripts/validate_lagrangian_dataset.py
|
| 100 |
+
inference: null
|
| 101 |
+
train: null
|
| 102 |
+
finetune: null
|
| 103 |
+
evaluate: null
|
| 104 |
+
visualize: null
|
| 105 |
+
deploy: null
|
| 106 |
+
|
| 107 |
+
files:
|
| 108 |
+
model_files: []
|
| 109 |
+
dataset_files:
|
| 110 |
+
- id: water_tfrecord_splits
|
| 111 |
+
path: data/Water/*.tfrecord
|
| 112 |
+
role: train_eval_inference_data
|
| 113 |
+
description_zh: Water 子数据集的 train、valid、test TFRecord 序列文件。
|
| 114 |
+
required: true
|
| 115 |
+
required_for: [dataset_validation, train, inference, evaluate]
|
| 116 |
+
source: {platform: modelscope, repo_id: OneScience/lagrangian, repo_type: dataset, download_method: command_ref, command_ref: commands.download.download_dataset}
|
| 117 |
+
local_path: data/Water
|
| 118 |
+
- id: water_metadata
|
| 119 |
+
path: data/Water/metadata.json
|
| 120 |
+
role: schema_and_normalization_stats
|
| 121 |
+
description_zh: Water 数据的维度、时间步长、边界、半径、速度和加速度归一化统计。
|
| 122 |
+
required: true
|
| 123 |
+
required_for: [dataset_validation, train, inference, evaluate]
|
| 124 |
+
source: {platform: modelscope, repo_id: OneScience/lagrangian, repo_type: dataset, download_method: command_ref, command_ref: commands.download.download_dataset}
|
| 125 |
+
local_path: data/Water/metadata.json
|
| 126 |
+
- id: integrity_inventory
|
| 127 |
+
path: files_sha256.jsonl
|
| 128 |
+
role: file_size_sha256_inventory
|
| 129 |
+
description_zh: 整理后数据文件大小和 SHA256 清单。
|
| 130 |
+
required: true
|
| 131 |
+
required_for: [dataset_validation]
|
| 132 |
+
source: {platform: modelscope, repo_id: OneScience/lagrangian, repo_type: dataset, download_method: command_ref, command_ref: commands.download.download_dataset}
|
| 133 |
+
local_path: files_sha256.jsonl
|
| 134 |
+
- id: integrity_summary
|
| 135 |
+
path: data_integrity_summary.json
|
| 136 |
+
role: source_to_standardized_integrity_summary
|
| 137 |
+
description_zh: 原始数据与整理后数据的文件名、大小、SHA256 对照摘要。
|
| 138 |
+
required: true
|
| 139 |
+
required_for: [dataset_validation]
|
| 140 |
+
source: {platform: modelscope, repo_id: OneScience/lagrangian, repo_type: dataset, download_method: command_ref, command_ref: commands.download.download_dataset}
|
| 141 |
+
local_path: data_integrity_summary.json
|
| 142 |
+
config_files:
|
| 143 |
+
- id: schema
|
| 144 |
+
path: metadata/lagrangian_water_schema.json
|
| 145 |
+
role: dataset_schema
|
| 146 |
+
description_zh: TFRecord SequenceExample 字段、dtype、shape 和 split 数量说明。
|
| 147 |
+
required: true
|
| 148 |
+
required_for: [dataset_validation, train, inference]
|
| 149 |
+
source: {platform: modelscope, repo_id: OneScience/lagrangian, repo_type: dataset, download_method: command_ref, command_ref: commands.download.download_dataset}
|
| 150 |
+
local_path: metadata/lagrangian_water_schema.json
|
| 151 |
+
sample_files:
|
| 152 |
+
- id: validation_script
|
| 153 |
+
path: scripts/validate_lagrangian_dataset.py
|
| 154 |
+
role: dataset_validation
|
| 155 |
+
description_zh: 检查数据文件结构、metadata、TFRecord 首条样本 shape/dtype 和可选 SHA256。
|
| 156 |
+
required: true
|
| 157 |
+
required_for: [dataset_validation]
|
| 158 |
+
source: {platform: modelscope, repo_id: OneScience/lagrangian, repo_type: dataset, download_method: command_ref, command_ref: commands.download.download_dataset}
|
| 159 |
+
local_path: scripts/validate_lagrangian_dataset.py
|
| 160 |
+
|
| 161 |
+
dataset:
|
| 162 |
+
format: [tfrecord_sequence_example]
|
| 163 |
+
sample_unit: 一个 SequenceExample 对应一条粒子仿真序列。
|
| 164 |
+
schema:
|
| 165 |
+
path: metadata/lagrangian_water_schema.json
|
| 166 |
+
splits:
|
| 167 |
+
train: {path: data/Water/train.tfrecord, expected_sequences: 1000}
|
| 168 |
+
validation: {path: data/Water/valid.tfrecord, expected_sequences: 30}
|
| 169 |
+
test: {path: data/Water/test.tfrecord, expected_sequences: 30}
|
| 170 |
+
metadata:
|
| 171 |
+
path: data/Water/metadata.json
|
| 172 |
+
dim: 2
|
| 173 |
+
sequence_length: 1000
|
| 174 |
+
dt: 0.0025
|
| 175 |
+
default_connectivity_radius: 0.015
|
| 176 |
+
normalization_stats: [vel_mean, vel_std, acc_mean, acc_std]
|
| 177 |
+
|
| 178 |
+
relations:
|
| 179 |
+
required_datasets: []
|
| 180 |
+
optional_datasets: []
|
| 181 |
+
compatible_models:
|
| 182 |
+
- id: OneScience/LagrangianMGN
|
| 183 |
+
role: train_data
|
| 184 |
+
required_for: [preflight, train, inference, evaluate, visualize]
|
| 185 |
+
resource_ref:
|
| 186 |
+
platform: modelscope
|
| 187 |
+
repo_id: OneScience/LagrangianMGN
|
| 188 |
+
repo_type: model
|
| 189 |
+
url: https://modelscope.cn/models/OneScience/LagrangianMGN
|
| 190 |
+
revision: main
|
| 191 |
+
readme_path: README.md
|
| 192 |
+
manifest_path: onescience_run_manifest.yaml
|
| 193 |
+
expected_local_path: data/Water
|
| 194 |
+
adapter: null
|
| 195 |
+
|
| 196 |
+
run_matrix:
|
| 197 |
+
scenarios:
|
| 198 |
+
- name: dataset_validation
|
| 199 |
+
default: true
|
| 200 |
+
capability: preflight
|
| 201 |
+
description: 验证 Water TFRecord 数据、metadata schema、文件清单和可读性。
|
| 202 |
+
required_datasets:
|
| 203 |
+
- id: OneScience/lagrangian
|
| 204 |
+
role: dataset_validation
|
| 205 |
+
local_path: .
|
| 206 |
+
required_model_files: []
|
| 207 |
+
required_dataset_files: [data/Water/metadata.json, data/Water/train.tfrecord, data/Water/valid.tfrecord, data/Water/test.tfrecord, files_sha256.jsonl]
|
| 208 |
+
preconditions:
|
| 209 |
+
- 已下载 OneScience/lagrangian 数据集仓库并 cd 到数据集仓库根目录。
|
| 210 |
+
command_refs: [commands.preflight.validate_dataset]
|
| 211 |
+
expected_outputs: [dataset_validation_ok]
|
| 212 |
+
|
| 213 |
+
capabilities:
|
| 214 |
+
inference: false
|
| 215 |
+
train: false
|
| 216 |
+
finetune: false
|
| 217 |
+
evaluate: false
|
| 218 |
+
visualize: false
|
| 219 |
+
deploy: false
|
| 220 |
+
dataset_validation: true
|
| 221 |
+
|
| 222 |
+
commands:
|
| 223 |
+
download:
|
| 224 |
+
- name: download_dataset
|
| 225 |
+
target: dataset
|
| 226 |
+
repo_id: OneScience/lagrangian
|
| 227 |
+
local_path: <session_workdir>/lagrangian
|
| 228 |
+
required: true
|
| 229 |
+
required_for: [dataset_validation, train, inference, evaluate]
|
| 230 |
+
command: modelscope download --dataset OneScience/lagrangian
|
| 231 |
+
preflight:
|
| 232 |
+
- name: validate_dataset
|
| 233 |
+
description: 验证 Water 数据集文件结构、metadata、TFRecord 首条样本和清单。
|
| 234 |
+
cwd: .
|
| 235 |
+
command: python scripts/validate_lagrangian_dataset.py --dataset-root .
|
| 236 |
+
required_files: [scripts/validate_lagrangian_dataset.py, data/Water/metadata.json, data/Water/train.tfrecord, data/Water/valid.tfrecord, data/Water/test.tfrecord, files_sha256.jsonl]
|
| 237 |
+
required_env: []
|
| 238 |
+
expected_outputs: [{path: stdout, type: text, contains: "Lagrangian Water dataset validation passed"}]
|
| 239 |
+
success_criteria: [exit_code == 0]
|
| 240 |
+
prepare: []
|
| 241 |
+
inference: []
|
| 242 |
+
train: []
|
| 243 |
+
finetune: []
|
| 244 |
+
evaluate: []
|
| 245 |
+
visualize: []
|
| 246 |
+
deploy: []
|
| 247 |
+
|
| 248 |
+
expected_outputs:
|
| 249 |
+
- id: dataset_validation_ok
|
| 250 |
+
path: stdout
|
| 251 |
+
type: text
|
| 252 |
+
description_zh: 数据集验证输出 Lagrangian Water dataset validation passed。
|
| 253 |
+
|
| 254 |
+
diagnostics:
|
| 255 |
+
- symptom: "missing TFRecord split"
|
| 256 |
+
cause: 数据集下载不完整或当前目录不是数据集仓库根目录。
|
| 257 |
+
fix: 重新执行 modelscope download --dataset OneScience/lagrangian,并 cd 到下载后的数据集根目录。
|
| 258 |
+
- symptom: "metadata dim or sequence_length mismatch"
|
| 259 |
+
cause: 使用了非 Water 或非本标���包的数据目录。
|
| 260 |
+
fix: 确认 ONESCIENCE_LAGRANGIAN_DATA_DIR 指向 OneScience/lagrangian 的 data/Water。
|
| 261 |
+
- symptom: "TensorFlow first-record check skipped"
|
| 262 |
+
cause: 当前环境缺少 TensorFlow。
|
| 263 |
+
fix: 安装 TensorFlow 后重跑验证;文件大小和 SHA256 仍可先用于完整性判断。
|
| 264 |
+
|
| 265 |
+
domain_extension:
|
| 266 |
+
cfd:
|
| 267 |
+
dataset_family: DeepMind Learning to Simulate
|
| 268 |
+
subset: Water
|
| 269 |
+
simulation_type: lagrangian_particle_dynamics
|
| 270 |
+
dimensionality: 2
|
| 271 |
+
splits: [train, valid, test]
|
scripts/validate_lagrangian_dataset.py
ADDED
|
@@ -0,0 +1,162 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
| 1 |
+
#!/usr/bin/env python3
|
| 2 |
+
"""Validate the standardized DeepMind Lagrangian Water dataset package."""
|
| 3 |
+
|
| 4 |
+
from __future__ import annotations
|
| 5 |
+
|
| 6 |
+
import argparse
|
| 7 |
+
import hashlib
|
| 8 |
+
import json
|
| 9 |
+
from pathlib import Path
|
| 10 |
+
|
| 11 |
+
|
| 12 |
+
EXPECTED_SPLITS = {
|
| 13 |
+
"train": 1000,
|
| 14 |
+
"valid": 30,
|
| 15 |
+
"test": 30,
|
| 16 |
+
}
|
| 17 |
+
|
| 18 |
+
|
| 19 |
+
def fail(message: str) -> None:
|
| 20 |
+
raise SystemExit(f"[FAIL] {message}")
|
| 21 |
+
|
| 22 |
+
|
| 23 |
+
def sha256_file(path: Path) -> str:
|
| 24 |
+
digest = hashlib.sha256()
|
| 25 |
+
with path.open("rb") as f:
|
| 26 |
+
for chunk in iter(lambda: f.read(1024 * 1024), b""):
|
| 27 |
+
digest.update(chunk)
|
| 28 |
+
return digest.hexdigest()
|
| 29 |
+
|
| 30 |
+
|
| 31 |
+
def parse_args() -> argparse.Namespace:
|
| 32 |
+
parser = argparse.ArgumentParser()
|
| 33 |
+
parser.add_argument("--dataset-root", default=".", help="dataset package root")
|
| 34 |
+
parser.add_argument(
|
| 35 |
+
"--verify-sha256",
|
| 36 |
+
action="store_true",
|
| 37 |
+
help="recompute and verify SHA256 values from files_sha256.jsonl",
|
| 38 |
+
)
|
| 39 |
+
parser.add_argument(
|
| 40 |
+
"--skip-tfrecord-read",
|
| 41 |
+
action="store_true",
|
| 42 |
+
help="skip optional TensorFlow first-record readability check",
|
| 43 |
+
)
|
| 44 |
+
return parser.parse_args()
|
| 45 |
+
|
| 46 |
+
|
| 47 |
+
def load_metadata(data_dir: Path) -> dict:
|
| 48 |
+
meta_path = data_dir / "metadata.json"
|
| 49 |
+
if not meta_path.is_file():
|
| 50 |
+
fail(f"missing metadata file: {meta_path}")
|
| 51 |
+
metadata = json.loads(meta_path.read_text(encoding="utf-8"))
|
| 52 |
+
if metadata.get("dim") != 2:
|
| 53 |
+
fail(f"expected metadata dim=2, got {metadata.get('dim')}")
|
| 54 |
+
if metadata.get("sequence_length") != 1000:
|
| 55 |
+
fail(f"expected sequence_length=1000, got {metadata.get('sequence_length')}")
|
| 56 |
+
for key in ["vel_mean", "vel_std", "acc_mean", "acc_std"]:
|
| 57 |
+
value = metadata.get(key)
|
| 58 |
+
if not isinstance(value, list) or len(value) != 2:
|
| 59 |
+
fail(f"metadata {key} must be a length-2 list")
|
| 60 |
+
return metadata
|
| 61 |
+
|
| 62 |
+
|
| 63 |
+
def check_files(dataset_root: Path) -> dict:
|
| 64 |
+
data_dir = dataset_root / "data" / "Water"
|
| 65 |
+
if not data_dir.is_dir():
|
| 66 |
+
fail(f"missing data directory: {data_dir}")
|
| 67 |
+
sizes = {}
|
| 68 |
+
for split in EXPECTED_SPLITS:
|
| 69 |
+
path = data_dir / f"{split}.tfrecord"
|
| 70 |
+
if not path.is_file():
|
| 71 |
+
fail(f"missing TFRecord split: {path}")
|
| 72 |
+
size = path.stat().st_size
|
| 73 |
+
if size <= 0:
|
| 74 |
+
fail(f"empty TFRecord split: {path}")
|
| 75 |
+
sizes[str(path.relative_to(dataset_root))] = size
|
| 76 |
+
if not (data_dir / "metadata.json").is_file():
|
| 77 |
+
fail("missing data/Water/metadata.json")
|
| 78 |
+
sizes["data/Water/metadata.json"] = (data_dir / "metadata.json").stat().st_size
|
| 79 |
+
return sizes
|
| 80 |
+
|
| 81 |
+
|
| 82 |
+
def verify_inventory(dataset_root: Path, sizes: dict, verify_sha256: bool) -> None:
|
| 83 |
+
inventory_path = dataset_root / "files_sha256.jsonl"
|
| 84 |
+
if not inventory_path.is_file():
|
| 85 |
+
fail("missing files_sha256.jsonl")
|
| 86 |
+
seen = {}
|
| 87 |
+
for line in inventory_path.read_text(encoding="utf-8").splitlines():
|
| 88 |
+
if not line.strip():
|
| 89 |
+
continue
|
| 90 |
+
item = json.loads(line)
|
| 91 |
+
rel_path = item["path"]
|
| 92 |
+
path = dataset_root / rel_path
|
| 93 |
+
if not path.is_file():
|
| 94 |
+
fail(f"inventory path missing on disk: {rel_path}")
|
| 95 |
+
if path.stat().st_size != item["size"]:
|
| 96 |
+
fail(f"size mismatch for {rel_path}")
|
| 97 |
+
if sizes.get(rel_path) != item["size"]:
|
| 98 |
+
fail(f"required file size mismatch for {rel_path}")
|
| 99 |
+
if verify_sha256:
|
| 100 |
+
actual = sha256_file(path)
|
| 101 |
+
if actual != item["sha256"]:
|
| 102 |
+
fail(f"sha256 mismatch for {rel_path}")
|
| 103 |
+
seen[rel_path] = item
|
| 104 |
+
missing = sorted(set(sizes) - set(seen))
|
| 105 |
+
if missing:
|
| 106 |
+
fail(f"inventory missing required files: {missing}")
|
| 107 |
+
|
| 108 |
+
|
| 109 |
+
def check_tfrecord_first_record(data_dir: Path, metadata: dict) -> None:
|
| 110 |
+
try:
|
| 111 |
+
import numpy as np
|
| 112 |
+
import tensorflow.compat.v1 as tf
|
| 113 |
+
except Exception as exc: # pragma: no cover - depends on runtime env
|
| 114 |
+
print(f"[WARN] TensorFlow first-record check skipped: {exc}")
|
| 115 |
+
return
|
| 116 |
+
|
| 117 |
+
feature_description = {"position": tf.io.VarLenFeature(tf.string)}
|
| 118 |
+
context_features = {
|
| 119 |
+
"key": tf.io.FixedLenFeature([], tf.int64, default_value=0),
|
| 120 |
+
"particle_type": tf.io.VarLenFeature(tf.string),
|
| 121 |
+
}
|
| 122 |
+
expected_steps = metadata["sequence_length"] + 1
|
| 123 |
+
dim = metadata["dim"]
|
| 124 |
+
for split in EXPECTED_SPLITS:
|
| 125 |
+
record_iter = iter(tf.data.TFRecordDataset(str(data_dir / f"{split}.tfrecord")).take(1))
|
| 126 |
+
try:
|
| 127 |
+
raw = next(record_iter)
|
| 128 |
+
except StopIteration:
|
| 129 |
+
fail(f"{split}.tfrecord contains no records")
|
| 130 |
+
context, features = tf.io.parse_single_sequence_example(
|
| 131 |
+
raw,
|
| 132 |
+
context_features=context_features,
|
| 133 |
+
sequence_features=feature_description,
|
| 134 |
+
)
|
| 135 |
+
position = np.frombuffer(features["position"].values[0].numpy(), dtype=np.float32)
|
| 136 |
+
if position.size % (expected_steps * dim) != 0:
|
| 137 |
+
fail(f"{split}.tfrecord first record position shape is incompatible with metadata")
|
| 138 |
+
particle_type = np.frombuffer(context["particle_type"].values[0].numpy(), dtype=np.int64)
|
| 139 |
+
num_particles = position.size // (expected_steps * dim)
|
| 140 |
+
if particle_type.shape[0] != num_particles:
|
| 141 |
+
fail(f"{split}.tfrecord particle_type length does not match position particles")
|
| 142 |
+
print(
|
| 143 |
+
f"[OK] {split}.tfrecord first record: "
|
| 144 |
+
f"position_shape=({expected_steps}, {num_particles}, {dim}), "
|
| 145 |
+
"position_dtype=float32, particle_type_dtype=int64"
|
| 146 |
+
)
|
| 147 |
+
|
| 148 |
+
|
| 149 |
+
def main() -> None:
|
| 150 |
+
args = parse_args()
|
| 151 |
+
dataset_root = Path(args.dataset_root).resolve()
|
| 152 |
+
data_dir = dataset_root / "data" / "Water"
|
| 153 |
+
sizes = check_files(dataset_root)
|
| 154 |
+
metadata = load_metadata(data_dir)
|
| 155 |
+
verify_inventory(dataset_root, sizes, args.verify_sha256)
|
| 156 |
+
if not args.skip_tfrecord_read:
|
| 157 |
+
check_tfrecord_first_record(data_dir, metadata)
|
| 158 |
+
print("[OK] Lagrangian Water dataset validation passed")
|
| 159 |
+
|
| 160 |
+
|
| 161 |
+
if __name__ == "__main__":
|
| 162 |
+
main()
|