The bioBakery help forum

Conda repo not working

Microbial community profiling HUMAnN
#1

I’m following the install instructions here: https://huttenhower.sph.harvard.edu/humann3/

However, when I type:
conda install humann -c biobakery

I’m getting a package not found error…

Conda info is:

(metaphlan-3.0) rkamale@BMIs-MacBook-Pro ~ % conda info

 active environment : metaphlan-3.0
active env location : /Users/rkamale/anaconda3/envs/metaphlan-3.0
        shell level : 2
   user config file : /Users/rkamale/.condarc

populated config files : /Users/rkamale/.condarc
conda version : 4.8.3
conda-build version : 3.18.11
python version : 3.7.6.final.0
virtual packages : __osx=10.15.5
base environment : /Users/rkamale/anaconda3 (writable)
channel URLs : https://conda.anaconda.org/biobakery/osx-64
https://conda.anaconda.org/biobakery/noarch
https://conda.anaconda.org/conda-forge/osx-64
https://conda.anaconda.org/conda-forge/noarch
https://conda.anaconda.org/bioconda/osx-64
https://conda.anaconda.org/bioconda/noarch
https://repo.anaconda.com/pkgs/main/osx-64
https://repo.anaconda.com/pkgs/main/noarch
https://repo.anaconda.com/pkgs/r/osx-64
https://repo.anaconda.com/pkgs/r/noarch
package cache : /Users/rkamale/anaconda3/pkgs
/Users/rkamale/.conda/pkgs
envs directories : /Users/rkamale/anaconda3/envs
/Users/rkamale/.conda/envs
platform : osx-64
user-agent : conda/4.8.3 requests/2.24.0 CPython/3.7.6 Darwin/19.5.0 OSX/10.15.5
UID:GID : 502:20
netrc file : None
offline mode : False

#2

Hello, Thank you for the detailed post! I just checked an we only had a HUMAnN conda package that supported a 64 bit linux platform. I have just built and released a HUMAnN conda package that should be a cross platform (linux, MacOS, windows) compatible package (ie noarch python). This should resolve the install error you are seeing. I will double check all of the other tools that we support in conda to make sure that we have noarch releases for these too.

Thanks,
Lauren

#3

Thank you so much! I ended up shifting to a virtualbox to get this working, but regardless much appreciated.