name: deepsignalpenv
channels:
  - bioconda
  - pytorch
  - conda-forge
dependencies:
  - python>=3.8
  - pip
  - cudatoolkit=10.2  # 10.2 is ok for 1.7.0-1.11.0
  - numpy>=1.19.2,<1.20  # <1.20 is for tombo
  - h5py>=2.8.0,<3  # <3 is for tombo
  - statsmodels>=0.13.2
  - scikit-learn>=1.0.2
  - pytorch::pytorch=1.11.0  # add channel prefix (pytorch::) to make sure the cuda version being installed?
  - scipy=1.7.3
  - pandas
  - samtools>=1.12  # will install dependence->htslib, which includes tabix and bgzip
  - minimap2>=2.23
  - deepsignal-plant=0.1.6
  - pip:
    - ont-tombo==1.5.1  # using conda to install tombo causes conflicts?