How to install MetaPhlAn3?

Question

[sooni]

Hello

I tried to install MetaPhlAn3 in the conda environment of WSL. However, the results are as shown in the image below.

What is the problem, and how can I solve it? I want to install MetaPhlAn3.

Please help me. Thank you!

[Ram]

Please do not paste screenshots of plain text content, it is counterproductive. You can copy paste the content directly here (using the code formatting option shown below), or use a GitHub Gist if the content volume exceeds allowed length here.

Answer 1

[Philipp Bayer]

You seem to have conflicts with existing packages. This happens when you install many packages into the base environment. Conda suggests to make separate environments so that this doesn't happen - I personally have little to nothing installed in my base environment.

Create an environment named metaphlan that contains metaphlan:

conda create -n metaphlan -c bioconda metaphlan

conda activate metaphlan

should do the trick.

(I'd also suggest updating your conda in general, you have a bunch of warnings that an update will get rid of: conda update conda)

[sooni]

Thank you for your answer. But, there is an error as shown in the below image.

How can I solve it?

[GenoMax]

Please copy/paste error messages (10101 button to format them as code after highlighting parts that you show in shot above) instead of pasting screenshots.

[Philipp Bayer]

Now that is a strange error. Killed usually means that you ran out of memory. That normally doesn't happen... I'd suggest updating conda first (or perhaps a clean install of conda?)