You can set up an environment that contains all dependencies using mamba / conda. If you don't have mamba or conda installed yet see here for installation insructions.
You can then create an environment with all necessary dependencies. You have the choice between a cpu or gpu version:
- CPU Version: environment_cpu.yaml Create the environment via
mamba env create -f environment_cpu.yaml
- GPU version: environment_gpu.yaml Create the environment via
mamba env create -f environment_gpu.yaml
Note: you may need to change the CUDA version to match your system here.
This will install the environment dl-for-micro with all necessary dependencies.
After setting up the environment the following should work (activate the environment first with mamba/conda activate dl-for-micro):
$ python -c "import torch_em"
$ python -c "import micro_sam"