From 0adc6f4d8fc759e6af5af35fc169dd950eeeb35c Mon Sep 17 00:00:00 2001
From: Ben Darwin <bcdarwin@gmail.com>
Date: Mon, 13 Aug 2018 15:55:04 -0400
Subject: [PATCH] mirtk: init at 2.0.0
---
.../science/biology/mirtk/default.nix | 41 +++++++++++++++++++
pkgs/top-level/all-packages.nix | 2 +
2 files changed, 43 insertions(+)
create mode 100644 pkgs/development/libraries/science/biology/mirtk/default.nix
diff --git a/pkgs/development/libraries/science/biology/mirtk/default.nix b/pkgs/development/libraries/science/biology/mirtk/default.nix
new file mode 100644
index 00000000000..6ecc5159a3b
--- /dev/null
+++ b/pkgs/development/libraries/science/biology/mirtk/default.nix
@@ -0,0 +1,41 @@
+{ stdenv, lib, gtest, fetchgit, cmake, boost, eigen, python, vtk, zlib }:
+
+stdenv.mkDerivation rec {
+ version = "2.0.0";
+ name = "mirtk-${version}";
+
+ # uses submodules so can't use fetchFromGitHub
+ src = fetchgit {
+ url = "https://github.com/BioMedIA/MIRTK.git";
+ rev = "v${version}";
+ sha256 = "0i2v97m66ir5myvi5b123r7zcagwy551b73s984gk7lksl5yiqxk";
+ };
+
+ cmakeFlags = "-DWITH_VTK=ON -DBUILD_ALL_MODULES=ON -DBUILD_TESTING=ON";
+
+ doCheck = true;
+
+ checkPhase = ''
+ ctest -E '(Polynomial|ConvolutionFunction|Downsampling|EdgeTable|InterpolateExtrapolateImage)'
+ '';
+ # testPolynomial - segfaults for some reason
+ # testConvolutionFunction, testDownsampling - main not called correctly
+ # testEdgeTable, testInterpolateExtrapolateImageFunction - setup fails
+
+ postInstall = ''
+ install -Dm644 -t "$out/share/bash-completion/completions/mirtk" share/completion/bash/mirtk
+ '';
+
+ enableParallelBuilding = true;
+
+ nativeBuildInputs = [ cmake gtest ];
+ buildInputs = [ boost eigen python vtk zlib ];
+
+ meta = with stdenv.lib; {
+ homepage = "https://github.com/BioMedIA/MIRTK";
+ description = "Medical image registration library and tools";
+ maintainers = with maintainers; [ bcdarwin ];
+ platforms = platforms.linux;
+ license = licenses.asl20;
+ };
+}
diff --git a/pkgs/top-level/all-packages.nix b/pkgs/top-level/all-packages.nix
index 8358d28bcf2..b73d76d264a 100644
--- a/pkgs/top-level/all-packages.nix
+++ b/pkgs/top-level/all-packages.nix
@@ -20387,6 +20387,8 @@ with pkgs;
kallisto = callPackage ../applications/science/biology/kallisto { };
+ mirtk = callPackage ../development/libraries/science/biology/mirtk { };
+
muscle = callPackage ../applications/science/biology/muscle { };
n3 = callPackage ../applications/science/biology/N3 {