filter: Rewrite using SQLite3 #2832

Job	Run time
check-docs	39s
mypy	47s
pathogen-repo-ci (dengue)	3m 26s
pathogen-repo-ci-v0 (avian-flu)	1m 26s
pathogen-repo-ci (lassa)	1m 29s
pathogen-repo-ci-v0 (ebola)	1m 31s
pyright	14s
pathogen-repo-ci (measles)	2m 0s
pathogen-repo-ci-v0 (mumps)	1m 40s
test (python=3.8 biopython=1.80)	1m 19s
pathogen-repo-ci (mpox)	1m 55s
pathogen-repo-ci-v0 (ncov)	1m 36s
test (python=3.8 biopython=latest)	1m 22s
pathogen-repo-ci (seasonal-cov)	2m 30s
pathogen-repo-ci-v0 (rsv)	9m 7s
test (python=3.9 biopython=1.80)	1m 26s
pathogen-repo-ci (zika)	1m 42s
pathogen-repo-ci-v0 (seasonal-flu)	1m 49s
test (python=3.9 biopython=latest)	1m 31s
pathogen-repo-ci-v0 (tb)	1m 50s
test (python=3.10 biopython=1.80)	1m 19s
test (python=3.10 biopython=latest)	1m 15s
test (python=3.11 biopython=1.80)	1m 14s
test (python=3.11 biopython=latest)	1m 21s
build-docs / build-conda	0s
build-docs / build-pip	2m 15s
codecov	0s
	46m 43s

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