From 86f362ce5b9d6606c6b6b832d864a47c45a05aaa Mon Sep 17 00:00:00 2001
From: natsukium <tomoya.otabi@gmail.com>
Date: Thu, 17 Aug 2023 23:45:27 +0900
Subject: [PATCH] bioawk: init at unstable-2017-09-11

---
 .../science/biology/bioawk/default.nix        | 50 +++++++++++++++++++
 pkgs/top-level/all-packages.nix               |  2 +
 2 files changed, 52 insertions(+)
 create mode 100644 pkgs/applications/science/biology/bioawk/default.nix

diff --git a/pkgs/applications/science/biology/bioawk/default.nix b/pkgs/applications/science/biology/bioawk/default.nix
new file mode 100644
index 000000000000..cfbb1a551fac
--- /dev/null
+++ b/pkgs/applications/science/biology/bioawk/default.nix
@@ -0,0 +1,50 @@
+{ lib
+, stdenv
+, fetchFromGitHub
+, installShellFiles
+, bison
+, zlib
+}:
+
+stdenv.mkDerivation {
+  pname = "bioawk";
+  version = "unstable-2017-09-11";
+
+  src = fetchFromGitHub {
+    owner = "lh3";
+    repo = "bioawk";
+    rev = "fd40150b7c557da45e781a999d372abbc634cc21";
+    hash = "sha256-WWgz96DPP83J45isWkMbgEvOlibq6WefK//ImV6+AU0=";
+  };
+
+  nativeBuildInputs = [
+    bison
+    installShellFiles
+  ];
+
+  buildInputs = [
+    zlib
+  ];
+
+  buildFlags = [
+    "CC=${stdenv.cc.targetPrefix}cc"
+  ];
+
+  installPhase = ''
+    runHook preInstall
+
+    install -Dm755 bioawk -t $out/bin
+    mv awk.1 bioawk.1
+    installManPage bioawk.1
+
+    runHook postInstall
+  '';
+
+  meta = with lib; {
+    description = "BWK awk modified for biological data";
+    homepage = "https://github.com/lh3/bioawk";
+    license = licenses.hpnd;
+    maintainers = with maintainers; [ natsukium ];
+    platforms = platforms.unix;
+  };
+}
diff --git a/pkgs/top-level/all-packages.nix b/pkgs/top-level/all-packages.nix
index 8aed8f81e818..d2f791224a83 100644
--- a/pkgs/top-level/all-packages.nix
+++ b/pkgs/top-level/all-packages.nix
@@ -38671,6 +38671,8 @@ with pkgs;
 
   bftools = callPackage ../applications/science/biology/bftools { };
 
+  bioawk = callPackage ../applications/science/biology/bioawk { };
+
   blast = callPackage ../applications/science/biology/blast {
     inherit (darwin.apple_sdk.frameworks) ApplicationServices;
   };