mlgiddetect 0.2.0

Inference package for GIWAXS peak detection.

mlgidDETECT

This package is included in the mlgidBASE package and can be used as part of the mlgid pipeline.

Clone repository

• Clone with ssh (recommended) git clone [e-mail]:mlgid-project/mlgidDETECT.git
• If it fails, use https: git clone https://github.com/mlgid-project/mlgidDETECT.git

Installation

Install Conda environment (recommended)

• Install miniconda https://docs.anaconda.com/miniconda/#quick-command-line-install

• Move into directory: cd mlgidDETECT

• (Option 1) Create environment with CPU and optional GPU inference
  cd setup
conda env create -f conda_cpu.yaml
conda activate mlgiddetect-cpu\

• (Option 2) Create environment with with additional GPU preprocessing
  cd setup
python setup_cuda.py
conda activate mlgiddetect-gpu
conda env config vars set LD_LIBRARY_PATH=${CONDA_PREFIX}/lib:${LD_LIBRARY_PATH}
conda deactivate
conda activate mlgiddetect-gpu
  Set PREPROCESSING CUDA: True in the config file

Install with pip (not recommended)

• Move into directory: cd mlgidDETECT
• Install package, recommended with option -e to install in editable mode pip install -e ./

Usage

With a PyGIDDataset

python main.py --input_dataset=/home/testuser/dataset.h5

With a single image

python main.py --image_path=./w4_mapbbr32.tif

With a config file

python main.py --config_file=./faster_rcnn.yaml

GPU support with CUDA 12.X

If a GPU is available, it is automatically used for inference. To use CUDA for preprocessing, use the install instructions for GPU support.