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[Fix] Fix document requirement and update yaml (#910)
* add dependencies to dynamic in pyproject.toml * Add --create-dirs in curl scripts for creating directory automatically * remove visualdl from requirements.txt * use true/false instead of True/False for compatibility * update some links * fix visualdl
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‎docs/zh/examples/allen_cahn.md

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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/AllenCahn/allen_cahn.mat -P ./dataset/
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/AllenCahn/allen_cahn.mat --output ./dataset/antiderivative_unaligned_train.npz
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/AllenCahn/allen_cahn.mat --create-dirs -o ./dataset/allen_cahn.mat
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python allen_cahn_piratenet.py
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```
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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/AllenCahn/allen_cahn.mat -P ./dataset/
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/AllenCahn/allen_cahn.mat --output ./dataset/antiderivative_unaligned_train.npz
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/AllenCahn/allen_cahn.mat --create-dirs -o ./dataset/allen_cahn.mat
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python allen_cahn_piratenet.py mode=eval EVAL.pretrained_model_path=https://paddle-org.bj.bcebos.com/paddlescience/models/AllenCahn/allen_cahn_piratenet_pretrained.pdparams
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```
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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/AllenCahn/allen_cahn.mat -P ./dataset/
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/AllenCahn/allen_cahn.mat --output ./dataset/antiderivative_unaligned_train.npz
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/AllenCahn/allen_cahn.mat --create-dirs -o ./dataset/allen_cahn.mat
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python allen_cahn_piratenet.py mode=infer
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```
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‎docs/zh/examples/amgnet.md

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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/AMGNet/data.zip
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/AMGNet/data.zip --output data.zip
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/AMGNet/data.zip -o data.zip
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# unzip it
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unzip data.zip
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python amgnet_airfoil.py
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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/AMGNet/data.zip
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/AMGNet/data.zip --output data.zip
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/AMGNet/data.zip -o data.zip
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# unzip it
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unzip data.zip
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python amgnet_cylinder.py
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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/AMGNet/data.zip
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/AMGNet/data.zip --output data.zip
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/AMGNet/data.zip -o data.zip
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# unzip it
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unzip data.zip
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python amgnet_airfoil.py mode=eval EVAL.pretrained_model_path=https://paddle-org.bj.bcebos.com/paddlescience/models/amgnet/amgnet_airfoil_pretrained.pdparams
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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/AMGNet/data.zip
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/AMGNet/data.zip --output data.zip
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/AMGNet/data.zip -o data.zip
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# unzip it
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unzip data.zip
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python amgnet_cylinder.py mode=eval EVAL.pretrained_model_path=https://paddle-org.bj.bcebos.com/paddlescience/models/amgnet/amgnet_cylinder_pretrained.pdparams

‎docs/zh/examples/aneurysm.md

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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/aneurysm/aneurysm_dataset.tar
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/aneurysm/aneurysm_dataset.tar --output aneurysm_dataset.tar
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/aneurysm/aneurysm_dataset.tar -o aneurysm_dataset.tar
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# unzip it
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tar -xvf aneurysm_dataset.tar
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python aneurysm.py
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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/aneurysm/aneurysm_dataset.tar
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/aneurysm/aneurysm_dataset.tar --output aneurysm_dataset.tar
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/aneurysm/aneurysm_dataset.tar -o aneurysm_dataset.tar
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# unzip it
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tar -xvf aneurysm_dataset.tar
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python aneurysm.py mode=eval EVAL.pretrained_model_path=https://paddle-org.bj.bcebos.com/paddlescience/models/aneurysm/aneurysm_pretrained.pdparams
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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/aneurysm/aneurysm_dataset.tar
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/aneurysm/aneurysm_dataset.tar --output aneurysm_dataset.tar
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/aneurysm/aneurysm_dataset.tar -o aneurysm_dataset.tar
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# unzip it
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tar -xvf aneurysm_dataset.tar
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python aneurysm.py mode=infer
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/aneurysm/aneurysm_dataset.tar
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/aneurysm/aneurysm_dataset.tar --output aneurysm_dataset.tar
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/aneurysm/aneurysm_dataset.tar -o aneurysm_dataset.tar
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# unzip it
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tar -xvf aneurysm_dataset.tar
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???+ warning "注意"
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**使用 `Mesh` 类之前，必须先按照[安装使用](https://paddlescience-docs.readthedocs.io/zh/latest/zh/install_setup/#143-pip)文档，安装好 open3d、pysdf、PyMesh 3 个几何依赖包。**
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**使用 `Mesh` 类之前，必须先按照[1.4.2 额外依赖安装[可选]](https://paddlescience-docs.readthedocs.io/zh/latest/zh/install_setup/#142)文档，安装好 open3d、pysdf、PyMesh 3 个几何依赖包。**
123123

124124
然后通过 PaddleScience 内置的 STL 几何类 `Mesh` 来读取、解析这些几何文件，并且通过布尔运算，组合出各个计算域，代码如下：
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‎docs/zh/examples/bracket.md

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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/bracket/bracket_dataset.tar
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/bracket/bracket_dataset.tar --output bracket_dataset.tar
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/bracket/bracket_dataset.tar -o bracket_dataset.tar
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# unzip it
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tar -xvf bracket_dataset.tar
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python bracket.py
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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/bracket/bracket_dataset.tar
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/bracket/bracket_dataset.tar --output bracket_dataset.tar
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/bracket/bracket_dataset.tar -o bracket_dataset.tar
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# unzip it
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tar -xvf bracket_dataset.tar
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python bracket.py mode=eval EVAL.pretrained_model_path=https://paddle-org.bj.bcebos.com/paddlescience/models/bracket/bracket_pretrained.pdparams
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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/bracket/bracket_dataset.tar
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/bracket/bracket_dataset.tar --output bracket_dataset.tar
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/bracket/bracket_dataset.tar -o bracket_dataset.tar
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# unzip it
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tar -xvf bracket_dataset.tar
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python bracket.py mode=infer
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/bracket/bracket_dataset.tar
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/bracket/bracket_dataset.tar --output bracket_dataset.tar
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/bracket/bracket_dataset.tar -o bracket_dataset.tar
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tar -xvf bracket_dataset.tar
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???+ warning "注意"
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**使用 `Mesh` 类之前，必须先按照[1.4.3 额外依赖安装[可选]](https://paddlescience-docs.readthedocs.io/zh/latest/zh/install_setup/#143)文档，安装好 open3d、pysdf、PyMesh 3 个几何依赖包。**
139+
**使用 `Mesh` 类之前，必须先按照[1.4.2 额外依赖安装[可选]](https://paddlescience-docs.readthedocs.io/zh/latest/zh/install_setup/#142)文档，安装好 open3d、pysdf、PyMesh 3 个几何依赖包。**
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然后通过 PaddleScience 内置的 STL 几何类 `Mesh` 来读取、解析这些几何文件，并且通过布尔运算，组合出各个计算域，代码如下：
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‎docs/zh/examples/bubble.md

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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/BubbleNet/bubble.mat
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/BubbleNet/bubble.mat --output bubble.mat
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/BubbleNet/bubble.mat -o bubble.mat
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python bubble.py
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```
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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/BubbleNet/bubble.mat
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/BubbleNet/bubble.mat --output bubble.mat
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/BubbleNet/bubble.mat -o bubble.mat
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python bubble.py mode=eval EVAL.pretrained_model_path=https://paddle-org.bj.bcebos.com/paddlescience/models/bubble/bubble_pretrained.pdparams
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```
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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/BubbleNet/bubble.mat
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/BubbleNet/bubble.mat --output bubble.mat
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/BubbleNet/bubble.mat -o bubble.mat
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python bubble.py mode=infer
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```
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‎docs/zh/examples/control_arm.md

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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/control_arm/control_arm.stl -P ./datasets/
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/control_arm/control_arm.stl --output ./datasets/control_arm.stl
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/control_arm/control_arm.stl --create-dirs -o ./datasets/control_arm.stl
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python forward_analysis.py
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/control_arm/control_arm.stl -P ./datasets/
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/control_arm/control_arm.stl --output ./datasets/control_arm.stl
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/control_arm/control_arm.stl --create-dirs -o ./datasets/control_arm.stl
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python inverse_parameter.py TRAIN.pretrained_model_path=https://paddle-org.bj.bcebos.com/paddlescience/models/control_arm/forward_x_axis_pretrained.pdparams
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```
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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/control_arm/control_arm.stl -P ./datasets/
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/control_arm/control_arm.stl --output ./datasets/control_arm.stl
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/control_arm/control_arm.stl --create-dirs -o ./datasets/control_arm.stl
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python forward_analysis.py mode=eval EVAL.pretrained_model_path=https://paddle-org.bj.bcebos.com/paddlescience/models/control_arm/forward_x_axis_pretrained.pdparams
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```
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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/control_arm/control_arm.stl -P ./datasets/
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/control_arm/control_arm.stl --output ./datasets/control_arm.stl
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/control_arm/control_arm.stl --create-dirs -o ./datasets/control_arm.stl
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python inverse_parameter.py mode=eval EVAL.pretrained_model_path=https://paddle-org.bj.bcebos.com/paddlescience/models/control_arm/inverse_x_axis_pretrained.pdparams
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```
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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/control_arm/control_arm.stl -P ./datasets/
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/control_arm/control_arm.stl --output ./datasets/control_arm.stl
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/control_arm/control_arm.stl --create-dirs -o ./datasets/control_arm.stl
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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/control_arm/control_arm.stl -P ./datasets/
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/control_arm/control_arm.stl --output ./datasets/control_arm.stl
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/control_arm/control_arm.stl --create-dirs -o ./datasets/control_arm.stl
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python inverse_parameter.py mode=infer
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**使用 `Mesh` 类之前，必须先按照[1.4.3 额外依赖安装[可选]](https://paddlescience-docs.readthedocs.io/zh/latest/zh/install_setup/#143)文档，安装好 open3d、pysdf、PyMesh 3 个几何依赖包。**
182+
**使用 `Mesh` 类之前，必须先按照[1.4.2 额外依赖安装[可选]](https://paddlescience-docs.readthedocs.io/zh/latest/zh/install_setup/#142)文档，安装好 open3d、pysdf、PyMesh 3 个几何依赖包。**
183183

184184
然后通过 PaddleScience 内置的 STL 几何类 `ppsci.geometry.Mesh` 即可读取、解析几何文件，得到计算域，并获取几何结构边界：
185185

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???+ warning "注意"
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**使用 `Mesh` 类之前，必须先按照[1.4.3 额外依赖安装[可选]](https://paddlescience-docs.readthedocs.io/zh/latest/zh/install_setup/#143)文档，安装好 open3d、pysdf、PyMesh 3 个几何依赖包。**
387+
**使用 `Mesh` 类之前，必须先按照[1.4.2 额外依赖安装[可选]](https://paddlescience-docs.readthedocs.io/zh/latest/zh/install_setup/#142)文档，安装好 open3d、pysdf、PyMesh 3 个几何依赖包。**
388388

389389
然后通过 PaddleScience 内置的 STL 几何类 `ppsci.geometry.Mesh` 即可读取、解析几何文件，得到计算域，并获取几何结构边界：
390390

‎docs/zh/examples/cylinder2d_unsteady.md

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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/cylinder2d_unsteady_Re100/cylinder2d_unsteady_Re100_dataset.tar
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/cylinder2d_unsteady_Re100/cylinder2d_unsteady_Re100_dataset.tar --output cylinder2d_unsteady_Re100_dataset.tar
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/cylinder2d_unsteady_Re100/cylinder2d_unsteady_Re100_dataset.tar -o cylinder2d_unsteady_Re100_dataset.tar
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tar -xvf cylinder2d_unsteady_Re100_dataset.tar
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python cylinder2d_unsteady_Re100.py
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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/cylinder2d_unsteady_Re100/cylinder2d_unsteady_Re100_dataset.tar
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/cylinder2d_unsteady_Re100/cylinder2d_unsteady_Re100_dataset.tar --output cylinder2d_unsteady_Re100_dataset.tar
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/cylinder2d_unsteady_Re100/cylinder2d_unsteady_Re100_dataset.tar -o cylinder2d_unsteady_Re100_dataset.tar
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# unzip it
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tar -xvf cylinder2d_unsteady_Re100_dataset.tar
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python cylinder2d_unsteady_Re100.py mode=eval EVAL.pretrained_model_path=https://paddle-org.bj.bcebos.com/paddlescience/models/cylinder2d_unsteady_Re100/cylinder2d_unsteady_Re100_pretrained.pdparams
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# linux
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/cylinder2d_unsteady_Re100/cylinder2d_unsteady_Re100_dataset.tar
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# windows
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/cylinder2d_unsteady_Re100/cylinder2d_unsteady_Re100_dataset.tar --output cylinder2d_unsteady_Re100_dataset.tar
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/cylinder2d_unsteady_Re100/cylinder2d_unsteady_Re100_dataset.tar -o cylinder2d_unsteady_Re100_dataset.tar
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# unzip it
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tar -xvf cylinder2d_unsteady_Re100_dataset.tar
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python cylinder2d_unsteady_Re100.py mode=infer

‎docs/zh/examples/cylinder2d_unsteady_transformer_physx.md

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@@ -9,8 +9,8 @@
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/transformer_physx/cylinder_training.hdf5 -P ./datasets/
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/transformer_physx/cylinder_valid.hdf5 -P ./datasets/
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# windows
12-
# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/transformer_physx/cylinder_training.hdf5 --output ./datasets/cylinder_training.hdf5
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/transformer_physx/cylinder_valid.hdf5 --output ./datasets/cylinder_valid.hdf5
12+
# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/transformer_physx/cylinder_training.hdf5 --create-dirs -o ./datasets/cylinder_training.hdf5
13+
# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/transformer_physx/cylinder_valid.hdf5 --create-dirs -o ./datasets/cylinder_valid.hdf5
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python train_enn.py
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python train_transformer.py
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```
@@ -22,8 +22,8 @@
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/transformer_physx/cylinder_training.hdf5 -P ./datasets/
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/transformer_physx/cylinder_valid.hdf5 -P ./datasets/
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# windows
25-
# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/transformer_physx/cylinder_training.hdf5 --output ./datasets/cylinder_training.hdf5
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/transformer_physx/cylinder_valid.hdf5 --output ./datasets/cylinder_valid.hdf5
25+
# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/transformer_physx/cylinder_training.hdf5 --create-dirs -o ./datasets/cylinder_training.hdf5
26+
# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/transformer_physx/cylinder_valid.hdf5 --create-dirs -o ./datasets/cylinder_valid.hdf5
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python train_enn.py mode=eval EVAL.pretrained_model_path=https://paddle-org.bj.bcebos.com/paddlescience/models/cylinder/cylinder_pretrained.pdparams
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python train_transformer.py mode=eval EVAL.pretrained_model_path=https://paddle-org.bj.bcebos.com/paddlescience/models/cylinder/cylinder_transformer_pretrained.pdparams EMBEDDING_MODEL_PATH=https://paddle-org.bj.bcebos.com/paddlescience/models/cylinder/cylinder_pretrained.pdparams
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```
@@ -46,8 +46,8 @@
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/transformer_physx/cylinder_training.hdf5 -P ./datasets/
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wget -nc https://paddle-org.bj.bcebos.com/paddlescience/datasets/transformer_physx/cylinder_valid.hdf5 -P ./datasets/
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# windows
49-
# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/transformer_physx/cylinder_training.hdf5 --output ./datasets/cylinder_training.hdf5
50-
# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/transformer_physx/cylinder_valid.hdf5 --output ./datasets/cylinder_valid.hdf5
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/transformer_physx/cylinder_training.hdf5 --create-dirs -o ./datasets/cylinder_training.hdf5
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# curl https://paddle-org.bj.bcebos.com/paddlescience/datasets/transformer_physx/cylinder_valid.hdf5 --create-dirs -o ./datasets/cylinder_valid.hdf5
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python train_transformer.py mode=infer
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```
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