and again I destroyed qiime …
first, I thank thank you for your patience! second, I have to emphasise that I am not an bioinformatician (as you may have noted), third, I do not know what you mean with “In your QIIME 2 conda environment”.
I have the following folder tree: miniconda3 - envs - qiime2-2020.2
In my terminal, I do: conda activate qiime2-2020.2
and doing cd “folder.name” I move to my folders
once qiime is working, where do I have to go??? in which folder do I have to go to use the command conda install songbird -c conda-forge; untill now, I only destroyed qiime, re-installed it, destroyed it,…
The “qiime environment” is the installation of qiime running within your machine. Think on your computer as being a box, and you pop down another little box inside it. There you go. That’s the qiime environment.
You activate it by typing conda activate qiime2-2020.2
Apparenttly nothing changes but a “qiime2-2020.2” appearing in the command line.
Now you have to install songbird following the tutorial(step 2 Using Songbird…) and run it.
I was sharing a quote from the songbird installation. In the next sentence I reiterated in my own words:
I will demonstrate with commands you could theoretically run:
conda activate qiime2-2020.2
conda install songbird -c conda-forge
qiime dev refresh-cache
After running the last command you should see a list of QIIME 2 plugins in your QIIME 2 conda environment, including q2-songbird. You will need to make sure that you have a clean QIIME 2 environment, first.
Lastly, I strongly recommend you read up on conda and miniconda, the working model and terminology is helpful defined and explored there: