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changing bgbench to ogbench everywhere #119

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2 changes: 1 addition & 1 deletion .cursorrrules
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@@ -1,3 +1,3 @@
Launch all commands in the conda environement "bgbench"
Launch all commands in the conda environement "ogbench"

It should be done via the conda shell activate.
16 changes: 8 additions & 8 deletions README.md
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@@ -1,6 +1,6 @@
[![Code Quality](https://github.com/geometric-intelligence/bgbench/actions/workflows/code-quality-main.yaml/badge.svg)](https://github.com/geometric-intelligence/bgbench/actions/workflows/code-quality-main.yaml)
[![Dependencies](https://github.com/geometric-intelligence/bgbench/actions/workflows/dependabot/dependabot-updates/badge.svg)](https://github.com/geometric-intelligence/bgbench/actions/workflows/dependabot/dependabot-updates)
[![Tests](https://github.com/geometric-intelligence/bgbench/actions/workflows/test.yml/badge.svg)](https://github.com/geometric-intelligence/bgbench/actions/workflows/test.yml)
[![Code Quality](https://github.com/geometric-intelligence/ogbench/actions/workflows/code-quality-main.yaml/badge.svg)](https://github.com/geometric-intelligence/ogbench/actions/workflows/code-quality-main.yaml)
[![Dependencies](https://github.com/geometric-intelligence/ogbench/actions/workflows/dependabot/dependabot-updates/badge.svg)](https://github.com/geometric-intelligence/ogbench/actions/workflows/dependabot/dependabot-updates)
[![Tests](https://github.com/geometric-intelligence/ogbench/actions/workflows/test.yml/badge.svg)](https://github.com/geometric-intelligence/ogbench/actions/workflows/test.yml)

# OGBench — Omics Graph Benchmarking

Expand All @@ -19,12 +19,12 @@ A benchmarking framework for Graph Neural Networks on omics datasets. OGBench pr
## Installation

```bash
git clone git@github.com:geometric-intelligence/bgbench.git
cd bgbench
git clone git@github.com:geometric-intelligence/ogbench.git
cd ogbench

conda create -n bgbench python=3.12
conda create -n ogbench python=3.12
curl -LsSf https://astral.sh/uv/install.sh | sh
conda activate bgbench
conda activate ogbench

uv venv
uv pip install -e '.[all]'
Expand Down Expand Up @@ -175,7 +175,7 @@ pytest tests/nn/ -v # specific module
### Project Structure

```
bgbench/
ogbench/
├── ogbench/ # Main Python package
│ ├── run.py # Training entry point
│ ├── baseline.py # Sklearn baseline experiments
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2 changes: 1 addition & 1 deletion configs/hparams_search/multi_dataset_grid_search.yaml
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Expand Up @@ -22,7 +22,7 @@ seeds: [42, 123, 456]

# Fixed parameters (not searched)
fixed:
logger.wandb.project: bgbench_dataset_grid_search_final
logger.wandb.project: ogbench_dataset_grid_search_final
logger.wandb.entity: bioshape-lab
paths.root_dir: /scratch/lcornelis/bgbench

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2 changes: 1 addition & 1 deletion configs/hparams_search/smoke_test.yaml
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Expand Up @@ -10,7 +10,7 @@ models:
seeds: [42]

fixed:
logger.wandb.project: bgbench_smoke_test
logger.wandb.project: ogbench_smoke_test

shared_grid:
dataset.loader.parameters.node_sample_ratio:
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6 changes: 3 additions & 3 deletions env_setup.sh
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Expand Up @@ -26,11 +26,11 @@ if ! command -v conda &> /dev/null; then
echo "Conda installation complete"
fi

if ! conda env list | grep -q "bgbench"; then
conda create -n bgbench python=3.12 -y
if ! conda env list | grep -q "ogbench"; then
conda create -n ogbench python=3.12 -y
fi

conda activate bgbench
conda activate ogbench

pip install --upgrade pip
pip install -e '.[all]'
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2 changes: 1 addition & 1 deletion notebooks/datasets.ipynb
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Expand Up @@ -115,7 +115,7 @@
],
"metadata": {
"kernelspec": {
"display_name": "bgbench",
"display_name": "ogbench",
"language": "python",
"name": "python3"
},
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4 changes: 2 additions & 2 deletions pyproject.toml
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Expand Up @@ -96,8 +96,8 @@ all = ["ogbench[dev, doc]"]
ogbench-train = "ogbench.run:main"

[project.urls]
homepage="https://geometric-intelligence.github.io/bgbench/index.html"
repository="https://github.com/geometric-intelligence/bgbench"
homepage="https://geometric-intelligence.github.io/ogbench/index.html"
repository="https://github.com/geometric-intelligence/ogbench"

[tool.ruff]
line-length = 99
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2 changes: 1 addition & 1 deletion tutorials/benchmarking_stats.ipynb
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Expand Up @@ -281,7 +281,7 @@
],
"metadata": {
"kernelspec": {
"display_name": "bgbench",
"display_name": "ogbench",
"language": "python",
"name": "python3"
},
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