Comments (3)
If you're using Anaconda, you'll need to run ktUpdateTaxonomy.sh in your environment. The same goes for Miniconda you may need to create two folders, taxonomy
and scripts
, in the '~/miniconda3/envs/krona_env/bin' directory. This is what I did, and then I linked the scripts and content from the ~/miniconda3/envs/krona_env/opt/krona/scripts
folder ln -s ~/miniconda3/envs/krona_env/opt/krona/scripts/taxonomy.make .
ln -s ~/miniconda3/envs/krona_env/opt/krona/scripts/extractTaxonomy.pl .
. Finally, run ktUpdateTaxonomy to complete the process.
– if you encounter an error.
navigate to cd ~/miniconda3/envs/krona_env/opt/krona/taxonomy/
and run ./updateTaxonomy.sh
. This will update the taxonomy and resolve the issues.
It's possible that linking the content of the scripts
and taxonomy
folders may not be necessary, but I haven't been able to verify this. If anyone has tested this and found success without linking the folders, that would be great to know.
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I have the same problem
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Is make
available to you in the environment you are using (i.e. are you on some sort of cluster or cloud virtual machine where make
isn't installed or within your user-privileges?)
For me, I am able to install make (as in, with an ubuntu environment: sudo apt install make
), and CCMetagen can then use it, getting rid of the error.
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