diff --git a/pkgs/applications/science/biology/minc-tools/default.nix b/pkgs/applications/science/biology/minc-tools/default.nix
index 87d5ceaa125..4c8b768a56a 100644
--- a/pkgs/applications/science/biology/minc-tools/default.nix
+++ b/pkgs/applications/science/biology/minc-tools/default.nix
@@ -1,4 +1,5 @@
-{ stdenv, fetchFromGitHub, cmake, makeWrapper, flex, bison, perlPackages, libminc, libjpeg, zlib }:
+{ stdenv, fetchFromGitHub, cmake, makeWrapper, flex, bison, perl, TextFormat,
+  libminc, libjpeg, nifticlib, zlib }:
 
 stdenv.mkDerivation rec {
   pname   = "minc-tools";
@@ -15,9 +16,13 @@ stdenv.mkDerivation rec {
 
   nativeBuildInputs = [ cmake flex bison makeWrapper ];
   buildInputs = [ libminc libjpeg zlib ];
-  propagatedBuildInputs = with perlPackages; [ perl TextFormat ];
+  propagatedBuildInputs = [ perl TextFormat ];
 
-  cmakeFlags = [ "-DLIBMINC_DIR=${libminc}/lib/" ];
+  cmakeFlags = [ "-DLIBMINC_DIR=${libminc}/lib/"
+                 "-DZNZ_INCLUDE_DIR=${nifticlib}/include/"
+                 "-DZNZ_LIBRARY=${nifticlib}/lib/libznz.a"
+                 "-DNIFTI_INCLUDE_DIR=${nifticlib}/include/nifti/"
+                 "-DNIFTI_LIBRARY=${nifticlib}/lib/libniftiio.a" ];
 
   postFixup = ''
     for prog in minccomplete minchistory mincpik; do
diff --git a/pkgs/top-level/all-packages.nix b/pkgs/top-level/all-packages.nix
index b325f77a87a..85891e27c51 100644
--- a/pkgs/top-level/all-packages.nix
+++ b/pkgs/top-level/all-packages.nix
@@ -23884,7 +23884,9 @@ in
 
   messer-slim = callPackage ../applications/science/biology/messer-slim { };
 
-  minc_tools = callPackage ../applications/science/biology/minc-tools { };
+  minc_tools = callPackage ../applications/science/biology/minc-tools {
+    inherit (perlPackages) perl TextFormat;
+  };
 
   minc_widgets = callPackage ../applications/science/biology/minc-widgets { };