Remove unused dependencies.

Author: adam-azarchs

MANIFEST

@@ -20,6 +20,7 @@ string_utils          string utilities        yes              yes
 stirling_numbers      stirling numbers        yes              no
 tables                table print printing    no               yes
 vdj_ann               vdj annotation          no               yes
+vdj_ann_ref           vdj reference data      no               yes
 vec_utils             vector utilities        yes              yes
 
 Crates labeled INTERNAL are publicly accessible but we discourage relying on their internals 

io_utils/Cargo.toml

@@ -14,4 +14,3 @@ flate2 = "1.0.20"
 lz4 = "1.23.1"
 serde = { version = "1.0", features = ["derive"] }
 string_utils = "0.1"
-vector_utils = "0.1"

pretty_trace/Cargo.toml

@@ -14,7 +14,6 @@ repository = "https://github.com/10XGenomics/rust-toolbox"
 [dependencies]
 backtrace = "0.3.40"
 io_utils = "0.2"
-itertools = ">= 0.8, <= 0.11"
 lazy_static = "1.4"
 libc = "0.2.85"
 nix = ">=0.19.1, <0.24"

vdj_ann/Cargo.toml

@@ -16,7 +16,6 @@ amino = "0.1"
 bio_edit = "0.1"
 debruijn = "0.3.2"
 fasta_tools = "0.1"
-flate2 = "1.0.20"
 hyperbase = "0.1"
 io_utils = "0.2"
 itertools = ">= 0.8, <= 0.11"
@@ -26,6 +25,4 @@ serde_json = "1.0.62"
 stats_utils = "0.1"
 string_utils = "0.1"
 vector_utils = "0.1"
-strum = ">=0.18.0, <0.22"
-strum_macros = ">=0.18.0, <0.22"
 vdj_types = "0.1"

vdj_ann_ref/Cargo.toml

@@ -11,25 +11,14 @@ repository = "https://github.com/10XGenomics/rust-toolbox"
 publish = false
 
 [dependencies]
-align_tools = "0.1"
-amino = "0.1"
-bio_edit = "0.1"
 debruijn = "0.3.2"
 exons = "0.1"
 fasta_tools = "0.1"
 flate2 = "1.0.20"
-hyperbase = "0.1"
 io_utils = "0.2"
-itertools = ">= 0.8, <= 0.11"
 kmer_lookup = "0.1"
 pretty_trace = "0.5"
-serde = { version = "1.0", features = ["derive"] }
-serde_json = "1.0.62"
 sha2 = "0.9.3"
-stats_utils = "0.1"
 string_utils = "0.1"
 vector_utils = "0.1"
-strum = ">=0.18.0, <0.22"
-strum_macros = ">=0.18.0, <0.22"
-vdj_types = "0.1"
-vdj_ann = { path = "../vdj_ann" }
+vdj_ann = { version = "0.1", path = "../vdj_ann" }