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refactor: use local files for genome resources

Closed refactor: use local files for genome resources
27-specifying-local-files into dev
Closed Iris Mestres Pascual requested to merge 27-specifying-local-files into dev

fix: fix test_cleanup.sh to remove snakemake report
refactor: change prepare.smk, genome_process.sh and filter_anno_gtf.sh to use local files for genome resources.

Edited by Iris Mestres Pascual

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