From de2f36982bd22053d0686dbec6aa8a7fe5fddfcb Mon Sep 17 00:00:00 2001
From: Ben Darwin <bcdarwin@gmail.com>
Date: Tue, 26 Sep 2017 18:08:14 -0400
Subject: [PATCH] ezminc: init at 2017-08-29
---
.../science/biology/EZminc/default.nix | 32 +++++++++++++++++++
pkgs/top-level/all-packages.nix | 2 ++
2 files changed, 34 insertions(+)
create mode 100644 pkgs/applications/science/biology/EZminc/default.nix
diff --git a/pkgs/applications/science/biology/EZminc/default.nix b/pkgs/applications/science/biology/EZminc/default.nix
new file mode 100644
index 00000000000..20d88eb3aaf
--- /dev/null
+++ b/pkgs/applications/science/biology/EZminc/default.nix
@@ -0,0 +1,32 @@
+{ stdenv, fetchFromGitHub, cmake, libminc, bicpl, itk, fftwFloat, gsl }:
+
+stdenv.mkDerivation rec { pname = "EZminc";
+ name = "${pname}-2017-08-29";
+
+ src = fetchFromGitHub {
+ owner = "BIC-MNI";
+ repo = pname;
+ rev = "4e017236cb6e7f6e07507446b18b759c584b6fc3";
+ sha256 = "1pg06x42pgsg7zy7dz9wf6ajakkm2n8by64lg9z64qi8qqy82b8v";
+ };
+
+ nativeBuildInputs = [ cmake ];
+ buildInputs = [ itk libminc bicpl fftwFloat gsl ];
+
+ cmakeFlags = [ "-DLIBMINC_DIR=${libminc}/lib/"
+ "-DEZMINC_BUILD_TOOLS=TRUE"
+ "-DEZMINC_BUILD_MRFSEG=TRUE"
+ "-DEZMINC_BUILD_DD=TRUE" ];
+
+ checkPhase = "ctest --output-on-failure ../tests/"; # but ctest doesn't find the tests ...
+
+ enableParallelBuilding = true;
+
+ meta = with stdenv.lib; {
+ homepage = "https://github.com/BIC-MNI/${pname}";
+ description = "Collection of Perl and shell scripts for processing MINC files";
+ maintainers = with maintainers; [ bcdarwin ];
+ platforms = platforms.unix;
+ license = licenses.free;
+ };
+}
diff --git a/pkgs/top-level/all-packages.nix b/pkgs/top-level/all-packages.nix
index f74a9b75f5e..c5faf48dda8 100644
--- a/pkgs/top-level/all-packages.nix
+++ b/pkgs/top-level/all-packages.nix
@@ -19739,6 +19739,8 @@ with pkgs;
emboss = callPackage ../applications/science/biology/emboss { };
+ ezminc = callPackage ../applications/science/biology/EZminc { };
+
htslib = callPackage ../development/libraries/science/biology/htslib { };
igv = callPackage ../applications/science/biology/igv { };