ancestral: Accept files to `--genes` #1863

Job	Run time
pathogen-repo-ci (avian-flu)	49s
pathogen-repo-ci (ebola)	55s
test (python=3.8 biopython=1.76)	6m 34s
pathogen-repo-ci (lassa)	42s
test (python=3.8 biopython=1.79)	6m 32s
pathogen-repo-ci (mumps)	53s
test (python=3.8 biopython=1.80)	6m 32s
pathogen-repo-ci (ncov)	2m 0s
pathogen-repo-ci (rsv)	2m 24s
test (python=3.8 biopython=latest)	6m 55s
pathogen-repo-ci (seasonal-flu)	28s
test (python=3.9 biopython=1.79)	6m 45s
build-docs / build-pip	54s
pathogen-repo-ci (tb)	1m 15s
test (python=3.9 biopython=1.80)	6m 33s
pathogen-repo-ci (zika)	44s
test (python=3.9 biopython=latest)	6m 32s
test (python=3.10 biopython=1.80)	6m 54s
build-docs / build-conda	0s
test (python=3.10 biopython=latest)	7m 5s
test (python=3.11 biopython=1.80)	6m 46s
test (python=3.11 biopython=latest)	6m 45s
codecov	17s
	1h 25m 14s

Provide feedback