From 875e737bfabe34b3976a1613b9810de52e497a49 Mon Sep 17 00:00:00 2001
From: "R. Ryantm" <ryantm-bot@ryantm.com>
Date: Sat, 2 Sep 2023 11:57:30 +0000
Subject: [PATCH 1/5] ants: 2.4.4 -> 2.5.0

---
 pkgs/applications/science/biology/ants/default.nix | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/pkgs/applications/science/biology/ants/default.nix b/pkgs/applications/science/biology/ants/default.nix
index d71fbca4becd..a28a601fcda3 100644
--- a/pkgs/applications/science/biology/ants/default.nix
+++ b/pkgs/applications/science/biology/ants/default.nix
@@ -2,13 +2,13 @@
 
 stdenv.mkDerivation rec {
   pname = "ANTs";
-  version = "2.4.4";
+  version = "2.5.0";
 
   src = fetchFromGitHub {
     owner = "ANTsX";
     repo = "ANTs";
     rev = "refs/tags/v${version}";
-    hash = "sha256-GQndI8ayBvqujb2/qXT6RBAfr8hNPCI5IbwYkPlyNg0=";
+    hash = "sha256-rSibcsprhMC1qsuZN8ou32QPLf8n62BiDzpnTRWRx0Q=";
   };
 
   nativeBuildInputs = [ cmake makeWrapper ];

From 35145f9df092a476a7995018ec1115c97d426fee Mon Sep 17 00:00:00 2001
From: Pol Dellaiera <pol.dellaiera@protonmail.com>
Date: Sat, 2 Sep 2023 22:17:19 +0200
Subject: [PATCH 2/5] ants: reformat file using `nixpkgs-fmt`

---
 .../science/biology/ants/default.nix          | 38 ++++++++++++++-----
 1 file changed, 29 insertions(+), 9 deletions(-)

diff --git a/pkgs/applications/science/biology/ants/default.nix b/pkgs/applications/science/biology/ants/default.nix
index a28a601fcda3..dc0b16e9f4a6 100644
--- a/pkgs/applications/science/biology/ants/default.nix
+++ b/pkgs/applications/science/biology/ants/default.nix
@@ -1,4 +1,12 @@
-{ lib, stdenv, fetchFromGitHub, cmake, makeWrapper, itk, vtk, Cocoa }:
+{ lib
+, stdenv
+, fetchFromGitHub
+, cmake
+, makeBinaryWrapper
+, itk
+, vtk
+, Cocoa
+}:
 
 stdenv.mkDerivation rec {
   pname = "ANTs";
@@ -11,10 +19,22 @@ stdenv.mkDerivation rec {
     hash = "sha256-rSibcsprhMC1qsuZN8ou32QPLf8n62BiDzpnTRWRx0Q=";
   };
 
-  nativeBuildInputs = [ cmake makeWrapper ];
-  buildInputs = [ itk vtk ] ++ lib.optionals stdenv.isDarwin [ Cocoa ];
+  nativeBuildInputs = [
+    cmake
+    makeBinaryWrapper
+  ];
 
-  cmakeFlags = [ "-DANTS_SUPERBUILD=FALSE" "-DUSE_VTK=TRUE" ];
+  buildInputs = [
+    itk
+    vtk
+  ] ++ lib.optionals stdenv.isDarwin [
+    Cocoa
+  ];
+
+  cmakeFlags = [
+    "-DANTS_SUPERBUILD=FALSE"
+    "-DUSE_VTK=TRUE"
+  ];
 
   postInstall = ''
     for file in $out/bin/*; do
@@ -22,11 +42,11 @@ stdenv.mkDerivation rec {
     done
   '';
 
-  meta = with lib; {
-    homepage = "https://github.com/ANTsX/ANTs";
+  meta = {
     description = "Advanced normalization toolkit for medical image registration and other processing";
-    maintainers = with maintainers; [ bcdarwin ];
-    platforms = platforms.unix;
-    license = licenses.bsd3;
+    homepage = "https://github.com/ANTsX/ANTs";
+    license = lib.licenses.bsd3;
+    maintainers = with lib.maintainers; [ bcdarwin ];
+    platforms = lib.platforms.unix;
   };
 }

From d04a1a598e1a4113359c4b8cbaa806a65274e8be Mon Sep 17 00:00:00 2001
From: Pol Dellaiera <pol.dellaiera@protonmail.com>
Date: Sat, 2 Sep 2023 22:18:19 +0200
Subject: [PATCH 3/5] ants: use `finalAttrs` pattern

---
 pkgs/applications/science/biology/ants/default.nix | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/pkgs/applications/science/biology/ants/default.nix b/pkgs/applications/science/biology/ants/default.nix
index dc0b16e9f4a6..16e20b6790e5 100644
--- a/pkgs/applications/science/biology/ants/default.nix
+++ b/pkgs/applications/science/biology/ants/default.nix
@@ -8,14 +8,14 @@
 , Cocoa
 }:
 
-stdenv.mkDerivation rec {
+stdenv.mkDerivation (finalAttrs: {
   pname = "ANTs";
   version = "2.5.0";
 
   src = fetchFromGitHub {
     owner = "ANTsX";
     repo = "ANTs";
-    rev = "refs/tags/v${version}";
+    rev = "refs/tags/v${finalAttrs.version}";
     hash = "sha256-rSibcsprhMC1qsuZN8ou32QPLf8n62BiDzpnTRWRx0Q=";
   };
 
@@ -49,4 +49,4 @@ stdenv.mkDerivation rec {
     maintainers = with lib.maintainers; [ bcdarwin ];
     platforms = lib.platforms.unix;
   };
-}
+})

From ad1e8a5b434b8be9bf5a4db6680d7c2032676c98 Mon Sep 17 00:00:00 2001
From: Pol Dellaiera <pol.dellaiera@protonmail.com>
Date: Sat, 2 Sep 2023 23:08:44 +0200
Subject: [PATCH 4/5] ants: update `meta` attributes

---
 pkgs/applications/science/biology/ants/default.nix | 4 +++-
 1 file changed, 3 insertions(+), 1 deletion(-)

diff --git a/pkgs/applications/science/biology/ants/default.nix b/pkgs/applications/science/biology/ants/default.nix
index 16e20b6790e5..b6c679178e77 100644
--- a/pkgs/applications/science/biology/ants/default.nix
+++ b/pkgs/applications/science/biology/ants/default.nix
@@ -43,9 +43,11 @@ stdenv.mkDerivation (finalAttrs: {
   '';
 
   meta = {
+    changelog = "https://github.com/ANTsX/ANTs/releases/tag/v${finalAttrs.version}";
     description = "Advanced normalization toolkit for medical image registration and other processing";
     homepage = "https://github.com/ANTsX/ANTs";
-    license = lib.licenses.bsd3;
+    license = lib.licenses.asl20;
+    mainProgram = "antsRegistration";
     maintainers = with lib.maintainers; [ bcdarwin ];
     platforms = lib.platforms.unix;
   };

From 55b00aa1f78a0bba81cd25f45b7819825f17260d Mon Sep 17 00:00:00 2001
From: Pol Dellaiera <pol.dellaiera@protonmail.com>
Date: Sat, 2 Sep 2023 23:09:28 +0200
Subject: [PATCH 5/5] ants: update `postInstall` attribute

---
 pkgs/applications/science/biology/ants/default.nix | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/pkgs/applications/science/biology/ants/default.nix b/pkgs/applications/science/biology/ants/default.nix
index b6c679178e77..cb3ec8a4f7ed 100644
--- a/pkgs/applications/science/biology/ants/default.nix
+++ b/pkgs/applications/science/biology/ants/default.nix
@@ -38,7 +38,7 @@ stdenv.mkDerivation (finalAttrs: {
 
   postInstall = ''
     for file in $out/bin/*; do
-      wrapProgram $file --set ANTSPATH "$out/bin"
+      wrapProgram $file --set PATH "$out/bin"
     done
   '';