Goal: Demonstrate importing the large qiime application ecosystem.

In the following examples, we assume you already have a miniconda3 module already loaded.

Can I use a Channel

Not from the channels I have configured.

[]$ conda search qiime
Loading channels: done
No match found for: qiime. Search: *qiime*
# Name                       Version           Build  Channel
r-qiimer                       0.9.4        r3.3.2_0  conda-forge
...
r-qiimer                       0.9.4 r43hc72bb7e_1005  conda-forge

Only older versions in bioconda channel.

[]$ conda search bioconda::qiime
Loading channels: done
# Name                       Version           Build  Channel
qiime                          1.8.0          py27_0  bioconda
...
qiime                          1.9.1            py_3  bioconda

Using a Definition File

From Install QIIME2 within a conda environment:

[]$ pwd
/project/<project-name>/<username>/software
[]$ mkdir qiime
[]$ cd qiime/
[]$ wget https://data.qiime2.org/distro/amplicon/qiime2-amplicon-2024.5-py38-linux-conda.yml

[]$ conda env create -p amplicon-2024.5 --file qiime2-amplicon-2024.5-py38-linux-conda.yml

[]$ conda activate /cluster/medbow/project/<project-name>/<username>/software/qiime/amplicon-2024.5
(/cluster/medbow/project/<project-name>/<username>/software/qiime/amplicon-2024.5) []$ qiime info
System versions
Python version: 3.9.19
QIIME 2 release: 2024.5
QIIME 2 version: 2024.5.0
q2cli version: 2024.5.0
...