I tries using conda installer and ended up with an error.
What was the exact error? trimmomatic works fine on a M1 Macbook.
Follow the minimal directions to install conda and set the proper order of channels (this is important): https://bioconda.github.io/user/install.html
Once you do that:
# to install trimmomatic in a new env
conda create -n trimmomatic trimmomatic
#activate that env to use trimmomatic
conda activate trimmomatic
Ive installed Conda as per the instructions , and this is the code I used to set up the channels
conda config --add channels defaults
conda config --add channels bioconda
conda config --add channels conda-forge
this is the error I'm getting zsh:
command not found: conda
zsh: command not found: conda
zsh: command not found: conda
It appears that you did not allow conda to initialize itself when you installed it. Try this
source ~/miniconda3/bin/activate
~/miniconda3/bin/conda init zsh
Then close the shell and open a new one.
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It should work fine, I don't have a M1 Mac to test but there shouldn't be anything in the way in principle. You need to provide a little more detail for us to figure it out, including the exact commands you tried and exact error messages. My first guess is that you might be lacking Xcode tools or have the wrong (possibly from simply transferring software from your old mac) version of conda. There ought to be a native conda installer, see here https://stackoverflow.com/questions/65534042/anaconda-and-upgrading-to-new-m1-mac
Upon checking the Miniconda documentation website, conda doesn't seem to have support for M1 macs yet, so you might have to try the link given above.