Description
When running viralverify, an output file "XXX_input_with_circ.fasta" is produced for input XXX.fasta.
However, this file contains the same number of sequences as the input. Exploring the repo, I noticed it should have been produced by check_circular.py.
I can't however manage to run that script solo, using a fresh install of ViralVerify: it throw an error first that fastaparser module is absent. I installed it with pip install fastaparser, and now the error is: AttributeError: module 'fastaparser' has no attribute 'read_fasta'
My question is : is it intended in viralverify workflow that XXX_input_with_circ.fasta be first a strict copy of the input fasta that is then trimmed to only "circs.fasta" based on annotation ? (HMM search is still running for me now).
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