I’m not quite sure on this to be honest, but I’ll suggest a couple of things while we wait for more helpful advice.
Are you sure biom is installed in this environment? If you’re using biom packaged with QIIME 2 you’ll want to make sure you’ve activated that env first.
Which Q2 version is this?
What does conda list show?
In the event this is caused by a corrupt install a Q2 re-install may resolve this.
Screen Shot 2020-05-31 at 12.06.55 AM
Yes, biom is installed in this environment and I activated the environment. It was working well before the point where I tried to convert the biom to OTU. It only showed error in that point. I attached the screenshot of the conda list display. Can there be other ways to fix the issue?
The version of Q2 I am using is 2019.10.0