Rename genomeAPCAT package to PanACoTA

MANIFEST.in

PanACoTA/__init__.py

PanACoTA/align_module/__init__.py

PanACoTA/align_module/alignment.py

PanACoTA/align_module/get_seqs.py

PanACoTA/align_module/pan_to_pergenome.py

PanACoTA/align_module/post_align.py

PanACoTA/align_module/prt2codon.awk

PanACoTA/annote_module/__init__.py

PanACoTA/annote_module/format_functions.py

PanACoTA/annote_module/genome_seq_functions.py

PanACoTA/annote_module/prokka_functions.py

PanACoTA/corepers_module/__init__.py

PanACoTA/corepers_module/persistent_functions.py

PanACoTA/pangenome_module/__init__.py

PanACoTA/pangenome_module/mmseqs_functions.py

PanACoTA/pangenome_module/post_treatment.py

PanACoTA/pangenome_module/protein_seq_functions.py

PanACoTA/subcommands/__init__.py

PanACoTA/subcommands/align.py