From 7f656f3ef604e76373f63b25404f34a98393f934 Mon Sep 17 00:00:00 2001
From: Ben Darwin <bcdarwin@gmail.com>
Date: Mon, 9 Mar 2020 22:20:35 -0400
Subject: [PATCH] bpp-popgen: init at 2.4.1

---
 .../science/biology/bpp-popgen/default.nix    | 35 +++++++++++++++++++
 pkgs/top-level/all-packages.nix               |  2 ++
 2 files changed, 37 insertions(+)
 create mode 100644 pkgs/development/libraries/science/biology/bpp-popgen/default.nix

diff --git a/pkgs/development/libraries/science/biology/bpp-popgen/default.nix b/pkgs/development/libraries/science/biology/bpp-popgen/default.nix
new file mode 100644
index 00000000000..af5d1d00d4d
--- /dev/null
+++ b/pkgs/development/libraries/science/biology/bpp-popgen/default.nix
@@ -0,0 +1,35 @@
+{ stdenv, fetchFromGitHub, cmake, bpp-core, bpp-seq }:
+
+stdenv.mkDerivation rec {
+  pname = "bpp-popgen";
+
+  inherit (bpp-core) version;
+
+  src = fetchFromGitHub {
+    owner = "BioPP";
+    repo = pname;
+    rev = "v${version}";
+    sha256 = "0bz0fhrq3dri6a0hvfc3zlvrns8mrzzlnicw5pyfa812gc1qwfvh";
+  };
+
+  nativeBuildInputs = [ cmake ];
+  buildInputs = [ bpp-core bpp-seq ];
+
+  preCheck = ''
+    export LD_LIBRARY_PATH=$(pwd)/src
+  '';
+
+  postFixup = ''
+    substituteInPlace $out/lib/cmake/${pname}/${pname}-targets.cmake  \
+      --replace 'set(_IMPORT_PREFIX' '#set(_IMPORT_PREFIX'
+  '';
+  # prevents cmake from exporting incorrect INTERFACE_INCLUDE_DIRECTORIES
+  # of form /nix/store/.../nix/store/.../include,
+  # probably due to relative vs absolute path issue
+
+  doCheck = !stdenv.isDarwin;
+
+  meta = bpp-core.meta // {
+    changelog = "https://github.com/BioPP/bpp-popgen/blob/master/ChangeLog";
+  };
+}
diff --git a/pkgs/top-level/all-packages.nix b/pkgs/top-level/all-packages.nix
index 164669e5591..34bd7b3db02 100644
--- a/pkgs/top-level/all-packages.nix
+++ b/pkgs/top-level/all-packages.nix
@@ -24394,6 +24394,8 @@ in
 
   bpp-phyl = callPackage ../development/libraries/science/biology/bpp-phyl { };
 
+  bpp-popgen = callPackage ../development/libraries/science/biology/bpp-popgen { };
+
   bpp-seq = callPackage ../development/libraries/science/biology/bpp-seq { };
 
   cd-hit = callPackage ../applications/science/biology/cd-hit { };