I am trying to install some packages from the Bioconda channel with Conda but even though the channel is added, I get to following error:
C:\Users\matti>conda install -c bioconda pybedtools
Solving environment: failed
PackagesNotFoundError: The following packages are not available from current channels:
- pybedtools
Current channels:
- https://conda.anaconda.org/bioconda/win-64
- https://conda.anaconda.org/bioconda/noarch
- https://conda.anaconda.org/conda-forge/win-64
- https://conda.anaconda.org/conda-forge/noarch
- https://repo.continuum.io/pkgs/main/win-64
- https://repo.continuum.io/pkgs/main/noarch
- https://repo.continuum.io/pkgs/free/win-64
- https://repo.continuum.io/pkgs/free/noarch
- https://repo.continuum.io/pkgs/r/win-64
- https://repo.continuum.io/pkgs/r/noarch
- https://repo.continuum.io/pkgs/pro/win-64
- https://repo.continuum.io/pkgs/pro/noarch
- https://repo.continuum.io/pkgs/msys2/win-64
- https://repo.continuum.io/pkgs/msys2/noarch
- https://conda.anaconda.org/daler/win-64
- https://conda.anaconda.org/daler/noarch
- https://conda.anaconda.org/anaconda-fusion/win-64
- https://conda.anaconda.org/anaconda-fusion/noarch
This also happens for other Bioconda packages like bowtie2. I have tried regular pip install and easy_install but those do not work either. Any ideas?
From your command line it appears you are on windows. There are several veresions of pybedtools on bioconda, however, if I grep through them, they are all for the linux platform.
If you're on Windows 10, you could consider setting up the 'windows subsystem for linux' (and possibly Xming), installing conda, and then installing pybedtools. This is obviously a long-winded approach, but would open up many bioconda packages to you