When I follow the tutorial example 2 I store the assembly file in a work directory. I then create the blastdb and the example_1_output folder.
Your example then crashes, since the assembly file is not stored in the folder "data/GCF_000024045.1_ASM2404v1_genomic.fna.gz"
It was easily fixed for me, by removing the data folder from the python code.
another point add that all code should be run in python or using python scripts.
I did not clone the repo to follow the tutorial.
When I follow the tutorial example 2 I store the assembly file in a work directory. I then create the blastdb and the example_1_output folder.
Your example then crashes, since the assembly file is not stored in the folder "data/GCF_000024045.1_ASM2404v1_genomic.fna.gz" It was easily fixed for me, by removing the data folder from the python code.