diff --git a/Cargo.lock b/Cargo.lock
index 36b5f96..95adf7e 100644
--- a/Cargo.lock
+++ b/Cargo.lock
@@ -10,57 +10,56 @@ checksum = "f26201604c87b1e01bd3d98f8d5d9a8fcbb815e8cedb41ffccbeb4bf593a35fe"
 
 [[package]]
 name = "aho-corasick"
-version = "1.0.4"
+version = "1.1.3"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "6748e8def348ed4d14996fa801f4122cd763fff530258cdc03f64b25f89d3a5a"
+checksum = "8e60d3430d3a69478ad0993f19238d2df97c507009a52b3c10addcd7f6bcb916"
 dependencies = [
  "memchr",
 ]
 
 [[package]]
 name = "anstream"
-version = "0.3.2"
+version = "0.6.13"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "0ca84f3628370c59db74ee214b3263d58f9aadd9b4fe7e711fd87dc452b7f163"
+checksum = "d96bd03f33fe50a863e394ee9718a706f988b9079b20c3784fb726e7678b62fb"
 dependencies = [
  "anstyle",
  "anstyle-parse",
  "anstyle-query",
  "anstyle-wincon",
  "colorchoice",
- "is-terminal",
  "utf8parse",
 ]
 
 [[package]]
 name = "anstyle"
-version = "1.0.1"
+version = "1.0.6"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "3a30da5c5f2d5e72842e00bcb57657162cdabef0931f40e2deb9b4140440cecd"
+checksum = "8901269c6307e8d93993578286ac0edf7f195079ffff5ebdeea6a59ffb7e36bc"
 
 [[package]]
 name = "anstyle-parse"
-version = "0.2.1"
+version = "0.2.3"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "938874ff5980b03a87c5524b3ae5b59cf99b1d6bc836848df7bc5ada9643c333"
+checksum = "c75ac65da39e5fe5ab759307499ddad880d724eed2f6ce5b5e8a26f4f387928c"
 dependencies = [
  "utf8parse",
 ]
 
 [[package]]
 name = "anstyle-query"
-version = "1.0.0"
+version = "1.0.2"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "5ca11d4be1bab0c8bc8734a9aa7bf4ee8316d462a08c6ac5052f888fef5b494b"
+checksum = "e28923312444cdd728e4738b3f9c9cac739500909bb3d3c94b43551b16517648"
 dependencies = [
  "windows-sys",
 ]
 
 [[package]]
 name = "anstyle-wincon"
-version = "1.0.2"
+version = "3.0.2"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "c677ab05e09154296dd37acecd46420c17b9713e8366facafa8fc0885167cf4c"
+checksum = "1cd54b81ec8d6180e24654d0b371ad22fc3dd083b6ff8ba325b72e00c87660a7"
 dependencies = [
  "anstyle",
  "windows-sys",
@@ -68,9 +67,9 @@ dependencies = [
 
 [[package]]
 name = "anyhow"
-version = "1.0.75"
+version = "1.0.82"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "a4668cab20f66d8d020e1fbc0ebe47217433c1b6c8f2040faf858554e394ace6"
+checksum = "f538837af36e6f6a9be0faa67f9a314f8119e4e4b5867c6ab40ed60360142519"
 
 [[package]]
 name = "approx"
@@ -83,15 +82,15 @@ dependencies = [
 
 [[package]]
 name = "autocfg"
-version = "1.1.0"
+version = "1.2.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "d468802bab17cbc0cc575e9b053f41e72aa36bfa6b7f55e3529ffa43161b97fa"
+checksum = "f1fdabc7756949593fe60f30ec81974b613357de856987752631dea1e3394c80"
 
 [[package]]
 name = "bio"
-version = "1.3.1"
+version = "1.6.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "549b4c9b9f56970dd6c169a59d04cf4b940aba860c4023cb8427ec4967b4d84e"
+checksum = "7a72cb93babf08c85b375c2938ac678cc637936b3ebb72266d433cec2577f6c2"
 dependencies = [
  "anyhow",
  "approx",
@@ -104,7 +103,6 @@ dependencies = [
  "editdistancek",
  "enum-map",
  "fxhash",
- "getset",
  "itertools",
  "itertools-num",
  "lazy_static",
@@ -121,7 +119,7 @@ dependencies = [
  "serde_derive",
  "statrs",
  "strum",
- "strum_macros 0.25.2",
+ "strum_macros",
  "thiserror",
  "triple_accel",
  "vec_map",
@@ -129,14 +127,14 @@ dependencies = [
 
 [[package]]
 name = "bio-types"
-version = "1.0.0"
+version = "1.0.1"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "c915bf6c578d40e1e497f8c571a4514bc89c3195cec2abb8be6dd5500405c752"
+checksum = "9d45749b87f21808051025e9bf714d14ff4627f9d8ca967eade6946ea769aa4a"
 dependencies = [
  "derive-new",
  "lazy_static",
  "regex",
- "strum_macros 0.24.3",
+ "strum_macros",
  "thiserror",
 ]
 
@@ -156,10 +154,13 @@ source = "registry+https://github.com/rust-lang/crates.io-index"
 checksum = "349f9b6a179ed607305526ca489b34ad0a41aed5f7980fa90eb03160b69598fb"
 
 [[package]]
-name = "bitflags"
-version = "2.4.0"
+name = "buffer-redux"
+version = "1.0.1"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "b4682ae6287fcf752ecaabbfcc7b6f9b72aa33933dc23a554d853aea8eea8635"
+checksum = "4c9f8ddd22e0a12391d1e7ada69ec3b0da1914f1cec39c5cf977143c5b2854f5"
+dependencies = [
+ "memchr",
+]
 
 [[package]]
 name = "bv"
@@ -173,36 +174,27 @@ dependencies = [
 
 [[package]]
 name = "bytecount"
-version = "0.6.3"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "2c676a478f63e9fa2dd5368a42f28bba0d6c560b775f38583c8bbaa7fcd67c9c"
-
-[[package]]
-name = "bytelines"
-version = "2.2.2"
+version = "0.6.8"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "791e4e40d13e1463dee537b254225c12c46ec7328f1817c6264873bc166f615f"
+checksum = "5ce89b21cab1437276d2650d57e971f9d548a2d9037cc231abdc0562b97498ce"
 
 [[package]]
 name = "bytemuck"
-version = "1.13.1"
+version = "1.15.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "17febce684fd15d89027105661fec94afb475cb995fbc59d2865198446ba2eea"
+checksum = "5d6d68c57235a3a081186990eca2867354726650f42f7516ca50c28d6281fd15"
 
 [[package]]
 name = "byteorder"
-version = "1.4.3"
+version = "1.5.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "14c189c53d098945499cdfa7ecc63567cf3886b3332b312a5b4585d8d3a6a610"
+checksum = "1fd0f2584146f6f2ef48085050886acf353beff7305ebd1ae69500e27c67f64b"
 
 [[package]]
 name = "cc"
-version = "1.0.82"
+version = "1.0.94"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "305fe645edc1442a0fa8b6726ba61d422798d37a52e12eaecf4b022ebbb88f01"
-dependencies = [
- "libc",
-]
+checksum = "17f6e324229dc011159fcc089755d1e2e216a90d43a7dea6853ca740b84f35e7"
 
 [[package]]
 name = "cfg-if"
@@ -217,26 +209,26 @@ dependencies = [
  "approx",
  "bio",
  "clap",
+ "flate2",
  "minimap2",
  "rayon",
 ]
 
 [[package]]
 name = "clap"
-version = "4.3.21"
+version = "4.5.4"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "c27cdf28c0f604ba3f512b0c9a409f8de8513e4816705deb0498b627e7c3a3fd"
+checksum = "90bc066a67923782aa8515dbaea16946c5bcc5addbd668bb80af688e53e548a0"
 dependencies = [
  "clap_builder",
  "clap_derive",
- "once_cell",
 ]
 
 [[package]]
 name = "clap_builder"
-version = "4.3.21"
+version = "4.5.2"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "08a9f1ab5e9f01a9b81f202e8562eb9a10de70abf9eaeac1be465c28b75aa4aa"
+checksum = "ae129e2e766ae0ec03484e609954119f123cc1fe650337e155d03b022f24f7b4"
 dependencies = [
  "anstream",
  "anstyle",
@@ -246,21 +238,21 @@ dependencies = [
 
 [[package]]
 name = "clap_derive"
-version = "4.3.12"
+version = "4.5.4"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "54a9bb5758fc5dfe728d1019941681eccaf0cf8a4189b692a0ee2f2ecf90a050"
+checksum = "528131438037fd55894f62d6e9f068b8f45ac57ffa77517819645d10aed04f64"
 dependencies = [
- "heck",
+ "heck 0.5.0",
  "proc-macro2",
  "quote",
- "syn 2.0.29",
+ "syn 2.0.60",
 ]
 
 [[package]]
 name = "clap_lex"
-version = "0.5.0"
+version = "0.7.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "2da6da31387c7e4ef160ffab6d5e7f00c42626fe39aea70a7b0f1773f7dd6c1b"
+checksum = "98cc8fbded0c607b7ba9dd60cd98df59af97e84d24e49c8557331cfc26d301ce"
 
 [[package]]
 name = "colorchoice"
@@ -270,61 +262,43 @@ checksum = "acbf1af155f9b9ef647e42cdc158db4b64a1b61f743629225fde6f3e0be2a7c7"
 
 [[package]]
 name = "crc32fast"
-version = "1.3.2"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "b540bd8bc810d3885c6ea91e2018302f68baba2129ab3e88f32389ee9370880d"
-dependencies = [
- "cfg-if",
-]
-
-[[package]]
-name = "crossbeam-channel"
-version = "0.5.8"
+version = "1.4.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "a33c2bf77f2df06183c3aa30d1e96c0695a313d4f9c453cc3762a6db39f99200"
+checksum = "b3855a8a784b474f333699ef2bbca9db2c4a1f6d9088a90a2d25b1eb53111eaa"
 dependencies = [
  "cfg-if",
- "crossbeam-utils",
 ]
 
 [[package]]
 name = "crossbeam-deque"
-version = "0.8.3"
+version = "0.8.5"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "ce6fd6f855243022dcecf8702fef0c297d4338e226845fe067f6341ad9fa0cef"
+checksum = "613f8cc01fe9cf1a3eb3d7f488fd2fa8388403e97039e2f73692932e291a770d"
 dependencies = [
- "cfg-if",
  "crossbeam-epoch",
  "crossbeam-utils",
 ]
 
 [[package]]
 name = "crossbeam-epoch"
-version = "0.9.15"
+version = "0.9.18"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "ae211234986c545741a7dc064309f67ee1e5ad243d0e48335adc0484d960bcc7"
+checksum = "5b82ac4a3c2ca9c3460964f020e1402edd5753411d7737aa39c3714ad1b5420e"
 dependencies = [
- "autocfg",
- "cfg-if",
  "crossbeam-utils",
- "memoffset",
- "scopeguard",
 ]
 
 [[package]]
 name = "crossbeam-utils"
-version = "0.8.16"
+version = "0.8.19"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "5a22b2d63d4d1dc0b7f1b6b2747dd0088008a9be28b6ddf0b1e7d335e3037294"
-dependencies = [
- "cfg-if",
-]
+checksum = "248e3bacc7dc6baa3b21e405ee045c3047101a49145e7e9eca583ab4c2ca5345"
 
 [[package]]
 name = "csv"
-version = "1.2.2"
+version = "1.3.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "626ae34994d3d8d668f4269922248239db4ae42d538b14c398b74a52208e8086"
+checksum = "ac574ff4d437a7b5ad237ef331c17ccca63c46479e5b5453eb8e10bb99a759fe"
 dependencies = [
  "csv-core",
  "itoa",
@@ -334,9 +308,9 @@ dependencies = [
 
 [[package]]
 name = "csv-core"
-version = "0.1.10"
+version = "0.1.11"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "2b2466559f260f48ad25fe6317b3c8dac77b5bdb5763ac7d9d6103530663bc90"
+checksum = "5efa2b3d7902f4b634a20cae3c9c4e6209dc4779feb6863329607560143efa70"
 dependencies = [
  "memchr",
 ]
@@ -366,50 +340,35 @@ checksum = "3e02df23d5b1c6f9e69fa603b890378123b93073df998a21e6e33b9db0a32613"
 
 [[package]]
 name = "either"
-version = "1.9.0"
+version = "1.11.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "a26ae43d7bcc3b814de94796a5e736d4029efb0ee900c12e2d54c993ad1a1e07"
+checksum = "a47c1c47d2f5964e29c61246e81db715514cd532db6b5116a25ea3c03d6780a2"
 
 [[package]]
 name = "enum-map"
-version = "1.1.1"
+version = "2.7.3"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "e893a7ba6116821058dec84a6fb14fb2a97cd8ce5fd0f85d5a4e760ecd7329d9"
+checksum = "6866f3bfdf8207509a033af1a75a7b08abda06bbaaeae6669323fd5a097df2e9"
 dependencies = [
  "enum-map-derive",
 ]
 
 [[package]]
 name = "enum-map-derive"
-version = "0.6.0"
+version = "0.17.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "84278eae0af6e34ff6c1db44c11634a694aafac559ff3080e4db4e4ac35907aa"
+checksum = "f282cfdfe92516eb26c2af8589c274c7c17681f5ecc03c18255fe741c6aa64eb"
 dependencies = [
  "proc-macro2",
  "quote",
- "syn 1.0.109",
+ "syn 2.0.60",
 ]
 
 [[package]]
-name = "errno"
-version = "0.3.2"
+name = "equivalent"
+version = "1.0.1"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "6b30f669a7961ef1631673d2766cc92f52d64f7ef354d4fe0ddfd30ed52f0f4f"
-dependencies = [
- "errno-dragonfly",
- "libc",
- "windows-sys",
-]
-
-[[package]]
-name = "errno-dragonfly"
-version = "0.1.2"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "aa68f1b12764fab894d2755d2518754e71b4fd80ecfb822714a1206c2aab39bf"
-dependencies = [
- "cc",
- "libc",
-]
+checksum = "5443807d6dff69373d433ab9ef5378ad8df50ca6298caf15de6e52e24aaf54d5"
 
 [[package]]
 name = "feature-probe"
@@ -417,18 +376,6 @@ version = "0.1.1"
 source = "registry+https://github.com/rust-lang/crates.io-index"
 checksum = "835a3dc7d1ec9e75e2b5fb4ba75396837112d2060b03f7d43bc1897c7f7211da"
 
-[[package]]
-name = "fffx"
-version = "0.1.3"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "f33c20b97a5cfd9d56d67e15677c1dae66c52846ee51801af32b94b70438f626"
-dependencies = [
- "bytelines",
- "flate2",
- "simdutf8",
- "static_assertions",
-]
-
 [[package]]
 name = "fixedbitset"
 version = "0.4.2"
@@ -437,12 +384,11 @@ checksum = "0ce7134b9999ecaf8bcd65542e436736ef32ddca1b3e06094cb6ec5755203b80"
 
 [[package]]
 name = "flate2"
-version = "1.0.27"
+version = "1.0.28"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "c6c98ee8095e9d1dcbf2fcc6d95acccb90d1c81db1e44725c6a984b1dbdfb010"
+checksum = "46303f565772937ffe1d394a4fac6f411c6013172fadde9dcdb1e147a086940e"
 dependencies = [
  "crc32fast",
- "libz-sys",
  "miniz_oxide",
 ]
 
@@ -457,32 +403,20 @@ dependencies = [
 
 [[package]]
 name = "getrandom"
-version = "0.2.10"
+version = "0.2.14"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "be4136b2a15dd319360be1c07d9933517ccf0be8f16bf62a3bee4f0d618df427"
+checksum = "94b22e06ecb0110981051723910cbf0b5f5e09a2062dd7663334ee79a9d1286c"
 dependencies = [
  "cfg-if",
  "libc",
  "wasi",
 ]
 
-[[package]]
-name = "getset"
-version = "0.1.2"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "e45727250e75cc04ff2846a66397da8ef2b3db8e40e0cef4df67950a07621eb9"
-dependencies = [
- "proc-macro-error",
- "proc-macro2",
- "quote",
- "syn 1.0.109",
-]
-
 [[package]]
 name = "hashbrown"
-version = "0.12.3"
+version = "0.14.3"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "8a9ee70c43aaf417c914396645a0fa852624801b24ebb7ae78fe8272889ac888"
+checksum = "290f1a1d9242c78d09ce40a5e87e7554ee637af1351968159f4952f028f75604"
 
 [[package]]
 name = "heck"
@@ -491,32 +425,21 @@ source = "registry+https://github.com/rust-lang/crates.io-index"
 checksum = "95505c38b4572b2d910cecb0281560f54b440a19336cbbcb27bf6ce6adc6f5a8"
 
 [[package]]
-name = "hermit-abi"
-version = "0.3.2"
+name = "heck"
+version = "0.5.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "443144c8cdadd93ebf52ddb4056d257f5b52c04d3c804e657d19eb73fc33668b"
+checksum = "2304e00983f87ffb38b55b444b5e3b60a884b5d30c0fca7d82fe33449bbe55ea"
 
 [[package]]
 name = "indexmap"
-version = "1.9.3"
+version = "2.2.6"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "bd070e393353796e801d209ad339e89596eb4c8d430d18ede6a1cced8fafbd99"
+checksum = "168fb715dda47215e360912c096649d23d58bf392ac62f73919e831745e40f26"
 dependencies = [
- "autocfg",
+ "equivalent",
  "hashbrown",
 ]
 
-[[package]]
-name = "is-terminal"
-version = "0.4.9"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "cb0889898416213fab133e1d33a0e5858a48177452750691bde3666d0fdbaf8b"
-dependencies = [
- "hermit-abi",
- "rustix",
- "windows-sys",
-]
-
 [[package]]
 name = "itertools"
 version = "0.11.0"
@@ -537,9 +460,9 @@ dependencies = [
 
 [[package]]
 name = "itoa"
-version = "1.0.9"
+version = "1.0.11"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "af150ab688ff2122fcef229be89cb50dd66af9e01a4ff320cc137eecc9bacc38"
+checksum = "49f1f14873335454500d59611f1cf4a4b0f786f9ac11f4312a78e4cf2566695b"
 
 [[package]]
 name = "lazy_static"
@@ -549,21 +472,21 @@ checksum = "e2abad23fbc42b3700f2f279844dc832adb2b2eb069b2df918f455c4e18cc646"
 
 [[package]]
 name = "libc"
-version = "0.2.147"
+version = "0.2.153"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "b4668fb0ea861c1df094127ac5f1da3409a82116a4ba74fca2e58ef927159bb3"
+checksum = "9c198f91728a82281a64e1f4f9eeb25d82cb32a5de251c6bd1b5154d63a8e7bd"
 
 [[package]]
 name = "libm"
-version = "0.2.7"
+version = "0.2.8"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "f7012b1bbb0719e1097c47611d3898568c546d597c2e74d66f6087edd5233ff4"
+checksum = "4ec2a862134d2a7d32d7983ddcdd1c4923530833c9f2ea1a44fc5fa473989058"
 
 [[package]]
 name = "libz-sys"
-version = "1.1.12"
+version = "1.1.16"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "d97137b25e321a73eef1418d1d5d2eda4d77e12813f8e6dead84bc52c5870a7b"
+checksum = "5e143b5e666b2695d28f6bca6497720813f699c9602dd7f5cac91008b8ada7f9"
 dependencies = [
  "cc",
  "libc",
@@ -571,17 +494,11 @@ dependencies = [
  "vcpkg",
 ]
 
-[[package]]
-name = "linux-raw-sys"
-version = "0.4.5"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "57bcfdad1b858c2db7c38303a6d2ad4dfaf5eb53dfeb0910128b2c26d6158503"
-
 [[package]]
 name = "matrixmultiply"
-version = "0.3.7"
+version = "0.3.8"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "090126dc04f95dc0d1c1c91f61bdd474b3930ca064c1edc8a849da2c6cbe1e77"
+checksum = "7574c1cf36da4798ab73da5b215bbf444f50718207754cb522201d78d1cd0ff2"
 dependencies = [
  "autocfg",
  "rawpointer",
@@ -589,37 +506,27 @@ dependencies = [
 
 [[package]]
 name = "memchr"
-version = "2.5.0"
+version = "2.7.2"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "2dffe52ecf27772e601905b7522cb4ef790d2cc203488bbd0e2fe85fcb74566d"
-
-[[package]]
-name = "memoffset"
-version = "0.9.0"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "5a634b1c61a95585bd15607c6ab0c4e5b226e695ff2800ba0cdccddf208c406c"
-dependencies = [
- "autocfg",
-]
+checksum = "6c8640c5d730cb13ebd907d8d04b52f55ac9a2eec55b440c8892f40d56c76c1d"
 
 [[package]]
 name = "minimap2"
-version = "0.1.15+minimap2.2.26"
+version = "0.1.17+minimap2.2.27"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "af90a1190361baf557a7aada5abe3e5944ec4e3be68d1e43540d63213411d813"
+checksum = "d920763956405bd0cbeead7e4415097d5780f8a8ce4e1dde0415d15736597dfd"
 dependencies = [
- "fffx",
- "flate2",
  "libc",
  "minimap2-sys",
+ "needletail",
  "simdutf8",
 ]
 
 [[package]]
 name = "minimap2-sys"
-version = "0.1.15+minimap2.2.26"
+version = "0.1.18+minimap2.2.27"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "732bc692162fb9ff77966deeeeeef3167807c070996ce53ebc33b4a813a5109e"
+checksum = "185d3f931e11c1df371455a01e93a0037041d011705b5ff1d283d619b234c47c"
 dependencies = [
  "cc",
  "libz-sys",
@@ -628,18 +535,18 @@ dependencies = [
 
 [[package]]
 name = "miniz_oxide"
-version = "0.7.1"
+version = "0.7.2"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "e7810e0be55b428ada41041c41f32c9f1a42817901b4ccf45fa3d4b6561e74c7"
+checksum = "9d811f3e15f28568be3407c8e7fdb6514c1cda3cb30683f15b6a1a1dc4ea14a7"
 dependencies = [
  "adler",
 ]
 
 [[package]]
 name = "multimap"
-version = "0.8.3"
+version = "0.9.1"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "e5ce46fe64a9d73be07dcbe690a38ce1b293be448fd8ce1e6c1b8062c9f72c6a"
+checksum = "e1a5d38b9b352dbd913288736af36af41c48d61b1a8cd34bcecd727561b7d511"
 dependencies = [
  "serde",
 ]
@@ -686,6 +593,17 @@ dependencies = [
  "rawpointer",
 ]
 
+[[package]]
+name = "needletail"
+version = "0.5.1"
+source = "registry+https://github.com/rust-lang/crates.io-index"
+checksum = "db05a5ab397f64070d8c998fa0fbb84e484b81f95752af317dac183a82d9295d"
+dependencies = [
+ "buffer-redux",
+ "bytecount",
+ "memchr",
+]
+
 [[package]]
 name = "newtype_derive"
 version = "0.1.6"
@@ -697,20 +615,19 @@ dependencies = [
 
 [[package]]
 name = "num-complex"
-version = "0.4.4"
+version = "0.4.5"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "1ba157ca0885411de85d6ca030ba7e2a83a28636056c7c699b07c8b6f7383214"
+checksum = "23c6602fda94a57c990fe0df199a035d83576b496aa29f4e634a8ac6004e68a6"
 dependencies = [
  "num-traits",
 ]
 
 [[package]]
 name = "num-integer"
-version = "0.1.45"
+version = "0.1.46"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "225d3389fb3509a24c93f5c29eb6bde2586b98d9f016636dff58d7c6f7569cd9"
+checksum = "7969661fd2958a5cb096e56c8e1ad0444ac2bbcd0061bd28660485a44879858f"
 dependencies = [
- "autocfg",
  "num-traits",
 ]
 
@@ -727,35 +644,19 @@ dependencies = [
 
 [[package]]
 name = "num-traits"
-version = "0.2.16"
+version = "0.2.18"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "f30b0abd723be7e2ffca1272140fac1a2f084c77ec3e123c192b66af1ee9e6c2"
+checksum = "da0df0e5185db44f69b44f26786fe401b6c293d1907744beaa7fa62b2e5a517a"
 dependencies = [
  "autocfg",
  "libm",
 ]
 
-[[package]]
-name = "num_cpus"
-version = "1.16.0"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "4161fcb6d602d4d2081af7c3a45852d875a03dd337a6bfdd6e06407b61342a43"
-dependencies = [
- "hermit-abi",
- "libc",
-]
-
-[[package]]
-name = "once_cell"
-version = "1.18.0"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "dd8b5dd2ae5ed71462c540258bedcb51965123ad7e7ccf4b9a8cafaa4a63576d"
-
 [[package]]
 name = "ordered-float"
-version = "3.7.0"
+version = "3.9.2"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "2fc2dbde8f8a79f2102cc474ceb0ad68e3b80b85289ea62389b60e66777e4213"
+checksum = "f1e1c390732d15f1d48471625cd92d154e66db2c56645e29a9cd26f4699f72dc"
 dependencies = [
  "num-traits",
 ]
@@ -768,9 +669,9 @@ checksum = "de3145af08024dea9fa9914f381a17b8fc6034dfb00f3a84013f7ff43f29ed4c"
 
 [[package]]
 name = "petgraph"
-version = "0.6.3"
+version = "0.6.4"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "4dd7d28ee937e54fe3080c91faa1c3a46c06de6252988a7f4592ba2310ef22a4"
+checksum = "e1d3afd2628e69da2be385eb6f2fd57c8ac7977ceeff6dc166ff1657b0e386a9"
 dependencies = [
  "fixedbitset",
  "indexmap",
@@ -778,9 +679,9 @@ dependencies = [
 
 [[package]]
 name = "pkg-config"
-version = "0.3.27"
+version = "0.3.30"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "26072860ba924cbfa98ea39c8c19b4dd6a4a25423dbdf219c1eca91aa0cf6964"
+checksum = "d231b230927b5e4ad203db57bbcbee2802f6bce620b1e4a9024a07d94e2907ec"
 
 [[package]]
 name = "ppv-lite86"
@@ -788,44 +689,20 @@ version = "0.2.17"
 source = "registry+https://github.com/rust-lang/crates.io-index"
 checksum = "5b40af805b3121feab8a3c29f04d8ad262fa8e0561883e7653e024ae4479e6de"
 
-[[package]]
-name = "proc-macro-error"
-version = "1.0.4"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "da25490ff9892aab3fcf7c36f08cfb902dd3e71ca0f9f9517bea02a73a5ce38c"
-dependencies = [
- "proc-macro-error-attr",
- "proc-macro2",
- "quote",
- "syn 1.0.109",
- "version_check",
-]
-
-[[package]]
-name = "proc-macro-error-attr"
-version = "1.0.4"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "a1be40180e52ecc98ad80b184934baf3d0d29f979574e439af5a55274b35f869"
-dependencies = [
- "proc-macro2",
- "quote",
- "version_check",
-]
-
 [[package]]
 name = "proc-macro2"
-version = "1.0.66"
+version = "1.0.81"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "18fb31db3f9bddb2ea821cde30a9f70117e3f119938b5ee630b7403aa6e2ead9"
+checksum = "3d1597b0c024618f09a9c3b8655b7e430397a36d23fdafec26d6965e9eec3eba"
 dependencies = [
  "unicode-ident",
 ]
 
 [[package]]
 name = "quote"
-version = "1.0.33"
+version = "1.0.36"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "5267fca4496028628a95160fc423a33e8b2e6af8a5302579e322e4b520293cae"
+checksum = "0fa76aaf39101c457836aec0ce2316dbdc3ab723cdda1c6bd4e6ad4208acaca7"
 dependencies = [
  "proc-macro2",
 ]
@@ -878,9 +755,9 @@ checksum = "60a357793950651c4ed0f3f52338f53b2f809f32d83a07f72909fa13e4c6c1e3"
 
 [[package]]
 name = "rayon"
-version = "1.7.0"
+version = "1.10.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "1d2df5196e37bcc87abebc0053e20787d73847bb33134a69841207dd0a47f03b"
+checksum = "b418a60154510ca1a002a752ca9714984e21e4241e804d32555251faf8b78ffa"
 dependencies = [
  "either",
  "rayon-core",
@@ -888,21 +765,19 @@ dependencies = [
 
 [[package]]
 name = "rayon-core"
-version = "1.11.0"
+version = "1.12.1"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "4b8f95bd6966f5c87776639160a66bd8ab9895d9d4ab01ddba9fc60661aebe8d"
+checksum = "1465873a3dfdaa8ae7cb14b4383657caab0b3e8a0aa9ae8e04b044854c8dfce2"
 dependencies = [
- "crossbeam-channel",
  "crossbeam-deque",
  "crossbeam-utils",
- "num_cpus",
 ]
 
 [[package]]
 name = "regex"
-version = "1.9.3"
+version = "1.10.4"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "81bc1d4caf89fac26a70747fe603c130093b53c773888797a6329091246d651a"
+checksum = "c117dbdfde9c8308975b6a18d71f3f385c89461f7b3fb054288ecf2a2058ba4c"
 dependencies = [
  "aho-corasick",
  "memchr",
@@ -912,9 +787,9 @@ dependencies = [
 
 [[package]]
 name = "regex-automata"
-version = "0.3.6"
+version = "0.4.6"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "fed1ceff11a1dddaee50c9dc8e4938bd106e9d89ae372f192311e7da498e3b69"
+checksum = "86b83b8b9847f9bf95ef68afb0b8e6cdb80f498442f5179a29fad448fcc1eaea"
 dependencies = [
  "aho-corasick",
  "memchr",
@@ -923,9 +798,9 @@ dependencies = [
 
 [[package]]
 name = "regex-syntax"
-version = "0.7.4"
+version = "0.8.3"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "e5ea92a5b6195c6ef2a0295ea818b312502c6fc94dde986c5553242e18fd4ce2"
+checksum = "adad44e29e4c806119491a7f06f03de4d1af22c3a680dd47f1e6e179439d1f56"
 
 [[package]]
 name = "rustc_version"
@@ -936,30 +811,17 @@ dependencies = [
  "semver",
 ]
 
-[[package]]
-name = "rustix"
-version = "0.38.8"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "19ed4fa021d81c8392ce04db050a3da9a60299050b7ae1cf482d862b54a7218f"
-dependencies = [
- "bitflags",
- "errno",
- "libc",
- "linux-raw-sys",
- "windows-sys",
-]
-
 [[package]]
 name = "rustversion"
-version = "1.0.14"
+version = "1.0.15"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "7ffc183a10b4478d04cbbbfc96d0873219d962dd5accaff2ffbd4ceb7df837f4"
+checksum = "80af6f9131f277a45a3fba6ce8e2258037bb0477a67e610d3c1fe046ab31de47"
 
 [[package]]
 name = "ryu"
-version = "1.0.15"
+version = "1.0.17"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "1ad4cc8da4ef723ed60bced201181d83791ad433213d8c24efffda1eec85d741"
+checksum = "e86697c916019a8588c99b5fac3cead74ec0b4b819707a682fd4d23fa0ce1ba1"
 
 [[package]]
 name = "safe_arch"
@@ -970,12 +832,6 @@ dependencies = [
  "bytemuck",
 ]
 
-[[package]]
-name = "scopeguard"
-version = "1.2.0"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "94143f37725109f92c262ed2cf5e59bce7498c01bcc1502d7b9afe439a4e9f49"
-
 [[package]]
 name = "semver"
 version = "0.1.20"
@@ -984,22 +840,22 @@ checksum = "d4f410fedcf71af0345d7607d246e7ad15faaadd49d240ee3b24e5dc21a820ac"
 
 [[package]]
 name = "serde"
-version = "1.0.183"
+version = "1.0.198"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "32ac8da02677876d532745a130fc9d8e6edfa81a269b107c5b00829b91d8eb3c"
+checksum = "9846a40c979031340571da2545a4e5b7c4163bdae79b301d5f86d03979451fcc"
 dependencies = [
  "serde_derive",
 ]
 
 [[package]]
 name = "serde_derive"
-version = "1.0.183"
+version = "1.0.198"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "aafe972d60b0b9bee71a91b92fee2d4fb3c9d7e8f6b179aa99f27203d99a4816"
+checksum = "e88edab869b01783ba905e7d0153f9fc1a6505a96e4ad3018011eedb838566d9"
 dependencies = [
  "proc-macro2",
  "quote",
- "syn 2.0.29",
+ "syn 2.0.60",
 ]
 
 [[package]]
@@ -1021,12 +877,6 @@ version = "0.1.4"
 source = "registry+https://github.com/rust-lang/crates.io-index"
 checksum = "f27f6278552951f1f2b8cf9da965d10969b2efdea95a6ec47987ab46edfe263a"
 
-[[package]]
-name = "static_assertions"
-version = "1.1.0"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "a2eb9349b6444b326872e140eb1cf5e7c522154d69e7a0ffb0fb81c06b37543f"
-
 [[package]]
 name = "statrs"
 version = "0.16.0"
@@ -1042,9 +892,9 @@ dependencies = [
 
 [[package]]
 name = "strsim"
-version = "0.10.0"
+version = "0.11.1"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "73473c0e59e6d5812c5dfe2a064a6444949f089e20eec9a2e5506596494e4623"
+checksum = "7da8b5736845d9f2fcb837ea5d9e2628564b3b043a70948a3f0b778838c5fb4f"
 
 [[package]]
 name = "strum"
@@ -1054,28 +904,15 @@ checksum = "290d54ea6f91c969195bdbcd7442c8c2a2ba87da8bf60a7ee86a235d4bc1e125"
 
 [[package]]
 name = "strum_macros"
-version = "0.24.3"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "1e385be0d24f186b4ce2f9982191e7101bb737312ad61c1f2f984f34bcf85d59"
-dependencies = [
- "heck",
- "proc-macro2",
- "quote",
- "rustversion",
- "syn 1.0.109",
-]
-
-[[package]]
-name = "strum_macros"
-version = "0.25.2"
+version = "0.25.3"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "ad8d03b598d3d0fff69bf533ee3ef19b8eeb342729596df84bcc7e1f96ec4059"
+checksum = "23dc1fa9ac9c169a78ba62f0b841814b7abae11bdd047b9c58f893439e309ea0"
 dependencies = [
- "heck",
+ "heck 0.4.1",
  "proc-macro2",
  "quote",
  "rustversion",
- "syn 2.0.29",
+ "syn 2.0.60",
 ]
 
 [[package]]
@@ -1091,9 +928,9 @@ dependencies = [
 
 [[package]]
 name = "syn"
-version = "2.0.29"
+version = "2.0.60"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "c324c494eba9d92503e6f1ef2e6df781e78f6a7705a0202d9801b198807d518a"
+checksum = "909518bc7b1c9b779f1bbf07f2929d35af9f0f37e47c6e9ef7f9dddc1e1821f3"
 dependencies = [
  "proc-macro2",
  "quote",
@@ -1102,22 +939,22 @@ dependencies = [
 
 [[package]]
 name = "thiserror"
-version = "1.0.47"
+version = "1.0.58"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "97a802ec30afc17eee47b2855fc72e0c4cd62be9b4efe6591edde0ec5bd68d8f"
+checksum = "03468839009160513471e86a034bb2c5c0e4baae3b43f79ffc55c4a5427b3297"
 dependencies = [
  "thiserror-impl",
 ]
 
 [[package]]
 name = "thiserror-impl"
-version = "1.0.47"
+version = "1.0.58"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "6bb623b56e39ab7dcd4b1b98bb6c8f8d907ed255b18de254088016b27a8ee19b"
+checksum = "c61f3ba182994efc43764a46c018c347bc492c79f024e705f46567b418f6d4f7"
 dependencies = [
  "proc-macro2",
  "quote",
- "syn 2.0.29",
+ "syn 2.0.60",
 ]
 
 [[package]]
@@ -1128,15 +965,15 @@ checksum = "22048bc95dfb2ffd05b1ff9a756290a009224b60b2f0e7525faeee7603851e63"
 
 [[package]]
 name = "typenum"
-version = "1.16.0"
+version = "1.17.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "497961ef93d974e23eb6f433eb5fe1b7930b659f06d12dec6fc44a8f554c0bba"
+checksum = "42ff0bf0c66b8238c6f3b578df37d0b7848e55df8577b3f74f92a69acceeb825"
 
 [[package]]
 name = "unicode-ident"
-version = "1.0.11"
+version = "1.0.12"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "301abaae475aa91687eb82514b328ab47a211a533026cb25fc3e519b86adfc3c"
+checksum = "3354b9ac3fae1ff6755cb6db53683adb661634f67557942dea4facebec0fee4b"
 
 [[package]]
 name = "utf8parse"
@@ -1159,12 +996,6 @@ dependencies = [
  "serde",
 ]
 
-[[package]]
-name = "version_check"
-version = "0.9.4"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "49874b5167b65d7193b8aba1567f5c7d93d001cafc34600cee003eda787e483f"
-
 [[package]]
 name = "wasi"
 version = "0.11.0+wasi-snapshot-preview1"
@@ -1173,9 +1004,9 @@ checksum = "9c8d87e72b64a3b4db28d11ce29237c246188f4f51057d65a7eab63b7987e423"
 
 [[package]]
 name = "wide"
-version = "0.7.11"
+version = "0.7.16"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "aa469ffa65ef7e0ba0f164183697b89b854253fd31aeb92358b7b6155177d62f"
+checksum = "81a1851a719f11d1d2fea40e15c72f6c00de8c142d7ac47c1441cc7e4d0d5bc6"
 dependencies = [
  "bytemuck",
  "safe_arch",
@@ -1183,22 +1014,23 @@ dependencies = [
 
 [[package]]
 name = "windows-sys"
-version = "0.48.0"
+version = "0.52.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "677d2418bec65e3338edb076e806bc1ec15693c5d0104683f2efe857f61056a9"
+checksum = "282be5f36a8ce781fad8c8ae18fa3f9beff57ec1b52cb3de0789201425d9a33d"
 dependencies = [
  "windows-targets",
 ]
 
 [[package]]
 name = "windows-targets"
-version = "0.48.2"
+version = "0.52.5"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "d1eeca1c172a285ee6c2c84c341ccea837e7c01b12fbb2d0fe3c9e550ce49ec8"
+checksum = "6f0713a46559409d202e70e28227288446bf7841d3211583a4b53e3f6d96e7eb"
 dependencies = [
  "windows_aarch64_gnullvm",
  "windows_aarch64_msvc",
  "windows_i686_gnu",
+ "windows_i686_gnullvm",
  "windows_i686_msvc",
  "windows_x86_64_gnu",
  "windows_x86_64_gnullvm",
@@ -1207,42 +1039,48 @@ dependencies = [
 
 [[package]]
 name = "windows_aarch64_gnullvm"
-version = "0.48.2"
+version = "0.52.5"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "b10d0c968ba7f6166195e13d593af609ec2e3d24f916f081690695cf5eaffb2f"
+checksum = "7088eed71e8b8dda258ecc8bac5fb1153c5cffaf2578fc8ff5d61e23578d3263"
 
 [[package]]
 name = "windows_aarch64_msvc"
-version = "0.48.2"
+version = "0.52.5"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "571d8d4e62f26d4932099a9efe89660e8bd5087775a2ab5cdd8b747b811f1058"
+checksum = "9985fd1504e250c615ca5f281c3f7a6da76213ebd5ccc9561496568a2752afb6"
 
 [[package]]
 name = "windows_i686_gnu"
-version = "0.48.2"
+version = "0.52.5"
+source = "registry+https://github.com/rust-lang/crates.io-index"
+checksum = "88ba073cf16d5372720ec942a8ccbf61626074c6d4dd2e745299726ce8b89670"
+
+[[package]]
+name = "windows_i686_gnullvm"
+version = "0.52.5"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "2229ad223e178db5fbbc8bd8d3835e51e566b8474bfca58d2e6150c48bb723cd"
+checksum = "87f4261229030a858f36b459e748ae97545d6f1ec60e5e0d6a3d32e0dc232ee9"
 
 [[package]]
 name = "windows_i686_msvc"
-version = "0.48.2"
+version = "0.52.5"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "600956e2d840c194eedfc5d18f8242bc2e17c7775b6684488af3a9fff6fe3287"
+checksum = "db3c2bf3d13d5b658be73463284eaf12830ac9a26a90c717b7f771dfe97487bf"
 
 [[package]]
 name = "windows_x86_64_gnu"
-version = "0.48.2"
+version = "0.52.5"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "ea99ff3f8b49fb7a8e0d305e5aec485bd068c2ba691b6e277d29eaeac945868a"
+checksum = "4e4246f76bdeff09eb48875a0fd3e2af6aada79d409d33011886d3e1581517d9"
 
 [[package]]
 name = "windows_x86_64_gnullvm"
-version = "0.48.2"
+version = "0.52.5"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "8f1a05a1ece9a7a0d5a7ccf30ba2c33e3a61a30e042ffd247567d1de1d94120d"
+checksum = "852298e482cd67c356ddd9570386e2862b5673c85bd5f88df9ab6802b334c596"
 
 [[package]]
 name = "windows_x86_64_msvc"
-version = "0.48.2"
+version = "0.52.5"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "d419259aba16b663966e29e6d7c6ecfa0bb8425818bb96f6f1f3c3eb71a6e7b9"
+checksum = "bec47e5bfd1bff0eeaf6d8b485cc1074891a197ab4225d504cb7a1ab88b02bf0"
diff --git a/Cargo.toml b/Cargo.toml
index 40f3342..c2ff05f 100644
--- a/Cargo.toml
+++ b/Cargo.toml
@@ -1,6 +1,6 @@
 [package]
 name = "chopper"
-version = "0.7.1"
+version = "0.8.0"
 authors = ["wdecoster <decosterwouter@gmail.com>"]
 edition = "2021"
 
diff --git a/src/main.rs b/src/main.rs
index 8cbcc7a..d3b106b 100644
--- a/src/main.rs
+++ b/src/main.rs
@@ -78,16 +78,21 @@ fn main() {
 		// Process file if --input exist
 		Some(ref infile) => {
 			let path = Path::new(infile);
+            // make sure the input file is valid, if not shut down gracefully with an error message
+            if !path.exists() {
+                eprintln!("ERROR: Input file {} does not exist", infile);
+                std::process::exit(1);
+            }
 			if path.extension().and_then(|s| s.to_str()) == Some("gz") {
-        			// deal with gz compressed file
-				let gzfile = File::open(&path).unwrap();
+        		// deal with gz compressed file
+				let gzfile = File::open(&path).expect("Error: Unable to open gzipped file");
 				let mut decoder = GzDecoder::new(gzfile);
     				filter(&mut decoder, args);
         	
 			}
 			else {
 				// deal with uncompressed fastq file
-				let mut input_file = File::open(infile).unwrap();  
+				let mut input_file = File::open(infile).expect("Error: Unable to open fastq file");  
 				filter(&mut input_file, args);
 			}
 		}
@@ -226,7 +231,7 @@ fn ave_qual(quals: &[u8]) -> f64 {
 fn setup_contamination_filter(contam_fasta: &str, threads: &usize) -> Aligner {
     Aligner::builder()
         .preset(Preset::LrHq)
-        .with_threads(*threads)
+        .with_index_threads(*threads)
         .with_cigar()
         .with_index(contam_fasta, None)
         .expect("Unable to build index")