Installation does not work

[andersgs]

Hello.

I am trying the following:

  conda config --add channels anaconda
  conda config --add channels conda-forge
  conda config --add channels defaults
  conda config --add channels r
  conda config --add channels bioconda
  

  conda install -c qiime2/label/r2018.6 qiime2
  conda install -c anaconda -c defaults -c conda-forge -c bioconda -c https://conda.anaconda.org/biocore q2-fragment-insertion
  qiime dev refresh-cache

But, when trying to "Solve the environment", I am getting the PackagesNotFoundError:

conda install -c anaconda -c defaults -c conda-forge -c bioconda -c https://conda.anaconda.org/biocore q2-fragment-insertion
Solving environment: failed

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

  - q2-fragment-insertion
  - q2cli[version='>=2017.12.*']
  - q2-fragment-insertion
  - q2-feature-table[version='>=2017.12.*']
  - q2-fragment-insertion
  - q2-types[version='>=2017.12.*']
  - q2-fragment-insertion
  - q2templates[version='>=2017.12.*']

Current channels:

  - https://conda.anaconda.org/anaconda/linux-64
  - https://conda.anaconda.org/anaconda/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://repo.anaconda.com/pkgs/pro/linux-64
  - https://repo.anaconda.com/pkgs/pro/noarch
  - https://conda.anaconda.org/conda-forge/linux-64
  - https://conda.anaconda.org/conda-forge/noarch
  - https://conda.anaconda.org/bioconda/linux-64
  - https://conda.anaconda.org/bioconda/noarch
  - https://conda.anaconda.org/biocore/linux-64
  - https://conda.anaconda.org/biocore/noarch
  - https://conda.anaconda.org/r/linux-64
  - https://conda.anaconda.org/r/noarch

I am trying to create a Singularity container with qiime2 plus your extension.

Thank you.

Anders.

[sjanssen2]

Hi Anders,
thanks for your interest in our plugin!
In the past, I also experiences issues once I added the "r" channel into my default conda config. As far as I know, qiime2 doesn't use R, q2-fragment-insertion for sure not. Thus, I would try to delete the "r" channel and retry. Let me know if this solves the issue.
Best,
Stefan

[andersgs]

Thank you for the reply @sjanssen2. I have tried removing the r channel. But, no luck. :(

[sjanssen2]

could you please post the result of a conda list from within your qiime2 environment?

[sjanssen2]

I am optimistic and assume you could solve your problem and I thus close this issue. Feel free to re-open if I am wrong.