Clean up dependencies

Cargo.toml

@@ -7,18 +7,14 @@ edition = "2021"
 anyhow = { version = "1.0.86", features = ["backtrace"] }
 assert_cmd = "2.0.16"
 assert_fs = "1.1.2"
-bio = "1.6.0"
 chrono = "0.4.38"
 clap = { version = "4.5.7", features = ["derive"] }
-crossbeam = "0.8.4"
 csv = "1.3.0"
 env_logger = "0.11.3"
 handlebars = "6.2.0"
 indexmap = "2.5.0"
 log = "0.4.22"
-needletail = { git = "https://github.com/olliecheng/needletail" }
-num = "0.4.3"
-pariter = "0.5.1"
+needletail = "^0.6.1"
 rayon = "1.10.0"
 regex = "1.10.6"
 serde = "1.0.203"
@@ -27,7 +23,6 @@ spoa = { git = "https://github.com/olliecheng/spoa-rs" }
 tempfile = "3.14.0"
 thiserror = "1.0.64"
 predicates = "3.1.2"
-itertools = "0.13.0"
 indoc = "2.0.5"
 
 [[bin]]