Coverage report

Module	statements	missing	excluded	coverage
PanACoTA/__init__.py	1	0	0	100%
PanACoTA/align_module/__init__.py	1	0	0	100%
PanACoTA/align_module/alignment.py	223	0	4	100%
PanACoTA/align_module/get_seqs.py	108	0	0	100%
PanACoTA/align_module/pan_to_pergenome.py	86	0	0	100%
PanACoTA/align_module/post_align.py	119	0	0	100%
PanACoTA/annotate_module/__init__.py	0	0	0	100%
PanACoTA/annotate_module/annotation_functions.py	262	0	4	100%
PanACoTA/annotate_module/format_prodigal.py	180	0	2	100%
PanACoTA/annotate_module/format_prokka.py	253	0	0	100%
PanACoTA/annotate_module/general_format_functions.py	77	0	0	100%
PanACoTA/annotate_module/genome_seq_functions.py	150	0	0	100%
PanACoTA/bin/__init__.py	1	1	0	0%
PanACoTA/bin/run_panacota.py	56	56	2	0%
PanACoTA/corepers_module/__init__.py	0	0	0	100%
PanACoTA/corepers_module/persistent_functions.py	70	0	0	100%
PanACoTA/pangenome_module/__init__.py	0	0	0	100%
PanACoTA/pangenome_module/mmseqs_functions.py	153	0	10	100%
PanACoTA/pangenome_module/post_treatment.py	49	0	0	100%
PanACoTA/pangenome_module/protein_seq_functions.py	22	0	0	100%
PanACoTA/prepare_module/__init__.py	0	0	0	100%
PanACoTA/prepare_module/download_genomes_func.py	99	0	7	100%
PanACoTA/prepare_module/filter_genomes.py	164	0	0	100%
PanACoTA/subcommands/__init__.py	0	0	0	100%
PanACoTA/subcommands/align.py	59	0	9	100%
PanACoTA/subcommands/all_modules.py	238	0	8	100%
PanACoTA/subcommands/annotate.py	155	0	15	100%
PanACoTA/subcommands/corepers.py	87	0	6	100%
PanACoTA/subcommands/pangenome.py	51	0	9	100%
PanACoTA/subcommands/prepare.py	146	1	8	99%
PanACoTA/subcommands/tree.py	106	0	24	100%
PanACoTA/tree_module/__init__.py	0	0	0	100%
PanACoTA/tree_module/fastme_func.py	49	0	0	100%
PanACoTA/tree_module/fasttree_func.py	27	0	0	100%
PanACoTA/tree_module/iqtree_func.py	54	0	0	100%
PanACoTA/tree_module/quicktree_func.py	34	0	0	100%
PanACoTA/utils.py	465	0	2	100%
PanACoTA/utils_argparse.py	155	2	0	99%
PanACoTA/utils_pangenome.py	74	0	0	100%
Total	3774	60	110	98%

No items found using the specified filter.