From 5462f67cc8d1d9efa9ddc75c34e22a6e9405d9ee Mon Sep 17 00:00:00 2001
From: natsukium <tomoya.otabi@gmail.com>
Date: Fri, 18 Aug 2023 00:17:15 +0900
Subject: [PATCH] bamtools: init at 2.5.2

---
 .../science/biology/bamtools/default.nix      | 41 +++++++++++++++++++
 pkgs/top-level/all-packages.nix               |  2 +
 2 files changed, 43 insertions(+)
 create mode 100644 pkgs/applications/science/biology/bamtools/default.nix

diff --git a/pkgs/applications/science/biology/bamtools/default.nix b/pkgs/applications/science/biology/bamtools/default.nix
new file mode 100644
index 000000000000..05373dafd381
--- /dev/null
+++ b/pkgs/applications/science/biology/bamtools/default.nix
@@ -0,0 +1,41 @@
+{ lib
+, stdenv
+, fetchFromGitHub
+, cmake
+, jsoncpp
+, pkg-config
+, zlib
+}:
+
+stdenv.mkDerivation (finalAttrs: {
+  pname = "bamtools";
+  version = "2.5.2";
+
+  src = fetchFromGitHub {
+    owner = "pezmaster31";
+    repo = "bamtools";
+    rev = "refs/tags/v${finalAttrs.version}";
+    hash = "sha256-l2DmA4P1kPneTCL9YVACE6LcQHT0F+mufPyM69VkksE=";
+  };
+
+  nativeBuildInputs = [
+    cmake
+    pkg-config
+  ];
+
+  buildInputs = [
+    jsoncpp
+    zlib
+  ];
+
+  doCheck = true;
+
+  meta = with lib; {
+    description = "C++ API & command-line toolkit for working with BAM data";
+    homepage = "https://github.com/pezmaster31/bamtools";
+    changelog = "https://github.com/pezmaster31/bamtools/releases/tag/${finalAttrs.src.rev}";
+    license = licenses.mit;
+    maintainers = with maintainers; [ natsukium ];
+    platforms = platforms.unix;
+  };
+})
diff --git a/pkgs/top-level/all-packages.nix b/pkgs/top-level/all-packages.nix
index e84c8e7d19d2..d94b06b4515f 100644
--- a/pkgs/top-level/all-packages.nix
+++ b/pkgs/top-level/all-packages.nix
@@ -38663,6 +38663,8 @@ with pkgs;
 
   archimedes = callPackage ../applications/science/electronics/archimedes { };
 
+  bamtools = callPackage ../applications/science/biology/bamtools { };
+
   bayescan = callPackage ../applications/science/biology/bayescan { };
 
   bedops = callPackage ../applications/science/biology/bedops { };