How do I install the R package on GitHub with bioconda

Question

[zhao03]

Hi, I try to install 'xxx' package on GitHub with biconda, should i add channels of github, Do I need to add a full the full URL of this package (https://github.com/dviraran/xxx) or just Github URL (https://github.com/)?

~# conda install xxx
Collecting package metadata: done
Solving environment: failed

PackagesNotFoundError: The following packages are not available from current channels:

  - xxx

Current channels:

• https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/bioconda/linux-64
• https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/bioconda/noarch
• https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/msys2/linux-64
• https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/msys2/noarch
• https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge/linux-64
• https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge/noarch
• https://mirrors.tuna.tsinghua.edu.cn/anaconda/pkgs/free/linux-64
• https://mirrors.tuna.tsinghua.edu.cn/anaconda/pkgs/free/noarch
• https://conda.anaconda.org/bioconda/linux-64
• https://conda.anaconda.org/bioconda/noarch
• https://conda.anaconda.org/conda-forge/linux-64
• https://conda.anaconda.org/conda-forge/noarch
• https://repo.anaconda.com/pkgs/main/linux-64
• https://repo.anaconda.com/pkgs/main/noarch
• https://repo.anaconda.com/pkgs/free/linux-64
• https://repo.anaconda.com/pkgs/free/noarch
• https://repo.anaconda.com/pkgs/r/linux-64
• https://repo.anaconda.com/pkgs/r/noarch
• https://conda.anaconda.org/r/linux-64
• https://conda.anaconda.org/r/noarch

To search for alternate channels that may provide the conda package you're looking for, navigate to

https://anaconda.org

and use the search bar at the top of the page.

[zhao03]

I added the channels, but it is not correct. Is there some advice

# conda config --add channels https://github.com/dviraran

# conda install xxx
Collecting package metadata: failed

UnavailableInvalidChannel: The channel is not accessible or is invalid.
  channel name: dviraran
  channel url: https://github.com/dviraran
  error code: 404

[karl.stamm]

What does bioconda have to do with R packages? What are you trying to do? You've asked how to install a lightbulb with a hammer, and I can't see any reasonable answer.

[zhao03]

I got it, thank you very much.

Answer 1

[noodle]

Try to install specific packages instead of the entire repository, here is the conda for a package you asked about in your other post... https://anaconda.org/grst/r-xcell

Answer 2

[WouterDeCoster]

You cannot install something directly from GitHub using conda.

You can always search for the tool itself and see if it's available on conda. Why do you make this so difficult for us by removing the name of the package and using xxx? How are we supposed to help you without knowing what you want?

If joe is right and you want xcell, then you could have googled for conda xcell and your first hit would have been this page, explaining you exactly how you should install it.