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[MISC] Remove pip install commands from notebooks #25

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deusebio merged 2 commits into from
Jan 5, 2025
Merged

[MISC] Remove pip install commands from notebooks #25

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0097afb
dgl disclaimer
deusebio Dec 7, 2024
607c5c3
removing pip installs
deusebio Dec 7, 2024
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27 changes: 0 additions & 27 deletions Chapter05/04_Graph_Neural_Networks.ipynb
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Original file line number Diff line number Diff line change
Expand Up @@ -20,27 +20,6 @@
"In Chapter 1 you learned how local and global graph properties can be extracted from graphs. Those properties represent the graph itself and bring important informations which can be useful for classification."
]
},
{
"cell_type": "code",
"execution_count": 5,
"metadata": {
"id": "5k3sYIRJpMgb",
"scrolled": true
},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"Uninstalling stellargraph-1.2.1:\r\n",
" Successfully uninstalled stellargraph-1.2.1\r\n"
]
}
],
"source": [
"!pip install stellargraph"
]
},
{
"cell_type": "markdown",
"metadata": {
Expand Down Expand Up @@ -921,9 +900,6 @@
"metadata": {},
"outputs": [],
"source": [
"#!pip install fsspec==2024.3.1 # needed for PROTEINS download torch geometric\n",
"#!pip install torch_geometric\n",
"\n",
"import torch\n",
"from torch_geometric.datasets import TUDataset\n",
"from torch_geometric.data import DataLoader\n",
Expand Down Expand Up @@ -1031,9 +1007,6 @@
"metadata": {},
"outputs": [],
"source": [
"#!pip install torch==2.1.1 # needed for dgl\n",
"#!pip install dgl -f https://data.dgl.ai/wheels/torch-2.1/repo.html\n",
"\n",
"import dgl\n",
"import torch\n",
"import torch.nn.functional as F\n",
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2 changes: 1 addition & 1 deletion Chapter05/pyproject.toml
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Expand Up @@ -25,7 +25,7 @@ chardet = "==5.2.0"
torch_geometric = "^2.5.2"
torchvision = "^0.16.0"
torchmetrics="^1.3.0"
# dgl = https://data.dgl.ai/wheels/torch-2.1/dgl-2.4.0-cp38-cp38-manylinux1_x86_64.whl
# Since 2024.06.27, DGL have stopped providing packages for Windows and MacOS. The latest version of available package is 2.2.1.
dgl = {url = "https://data.dgl.ai/wheels/torch-2.1/dgl-2.4.0-cp38-cp38-manylinux1_x86_64.whl"}

[build-system]
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30 changes: 0 additions & 30 deletions Chapter07/02_Social_network_analysis.ipynb
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Expand Up @@ -9,18 +9,6 @@
"# Link prediction on social network using DGL"
]
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {
"id": "xqMpPrND8SeA"
},
"outputs": [],
"source": [
"# !pip uninstall -y dgl\n",
"# !pip install dgl==2.2.1 -f https://data.dgl.ai/wheels/torch-2.3/repo.html"
]
},
{
"cell_type": "code",
"execution_count": null,
Expand Down Expand Up @@ -478,24 +466,6 @@
"We will now replicate the example using another popular library for graph machine learning: Pytorch Geometric"
]
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {
"colab": {
"base_uri": "https://localhost:8080/"
},
"id": "_Smng0hRNtbZ",
"outputId": "21f31f79-a12c-49b2-9212-b0a5a0d901b6"
},
"outputs": [],
"source": [
"!pip install torch_geometric\n",
"\n",
"# Optional dependencies:\n",
"!pip install pyg_lib torch_scatter torch_sparse torch_cluster torch_spline_conv -f https://data.pyg.org/whl/torch-2.3.0+cpu.html"
]
},
{
"cell_type": "code",
"execution_count": null,
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7 changes: 3 additions & 4 deletions Chapter07/pyproject.toml
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Original file line number Diff line number Diff line change
Expand Up @@ -30,15 +30,14 @@ torch = "^2.1.0"
torch_geometric = "^2.5.2"
torchvision = "^0.16.0"
torchmetrics="^1.3.0"
# torch-sparse = {version = "^0.6.18", source = "torch-wheels"}
torch-sparse = {url = "https://data.pyg.org/whl/torch-2.1.0%2Bcpu/torch_sparse-0.6.18%2Bpt21cpu-cp38-cp38-linux_x86_64.whl"}
pyg-lib = {url = "https://data.pyg.org/whl/torch-2.1.0%2Bcpu/pyg_lib-0.4.0%2Bpt21cpu-cp38-cp38-linux_x86_64.whl"}
python-louvain = "==0.16"
# communities = "==2.2.0"
nxt-gem = { git="https://github.com/palash1992/GEM.git", branch="master" }
# This is what is holding us back to python 3.8
stellargraph = "^1.2.1"
# Since 2024.06.27, DGL have stopped providing packages for Windows and MacOS. The latest version of available package is 2.2.1.
dgl = {url = "https://data.dgl.ai/wheels/torch-2.1/dgl-2.4.0-cp38-cp38-manylinux1_x86_64.whl"}
torch-sparse = {url = "https://data.pyg.org/whl/torch-2.1.0%2Bcpu/torch_sparse-0.6.18%2Bpt21cpu-cp38-cp38-linux_x86_64.whl"}
pyg-lib = {url = "https://data.pyg.org/whl/torch-2.1.0%2Bcpu/pyg_lib-0.4.0%2Bpt21cpu-cp38-cp38-linux_x86_64.whl"}

[build-system]
requires = ["poetry-core"]
Expand Down
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