pythonPackages.shapely: use patch to set library paths

pkgs/development/python-modules/shapely/default.nix

@@ -1,5 +1,5 @@
-{ stdenv, buildPythonPackage, fetchPypi
-, geos, glibcLocales, pytest, cython
+{ stdenv, buildPythonPackage, fetchPypi, substituteAll
+, geos, pytest, cython
 , numpy
 }:
 
@@ -12,26 +12,31 @@ buildPythonPackage rec {
     sha256 = "c4b87bb61fc3de59fc1f85e71a79b0c709dc68364d9584473697aad4aa13240f";
   };
 
-  buildInputs = [ geos glibcLocales cython ];
+  nativeBuildInputs = [
+    geos # for geos-config
+    cython
+  ];
 
   checkInputs = [ pytest ];
 
   propagatedBuildInputs = [ numpy ];
 
-  preConfigure = ''
-    export LANG="en_US.UTF-8";
-  '';
+  # environment variable used in shapely/_buildcfg.py
+  GEOS_LIBRARY_PATH = "${geos}/lib/libgeos_c${stdenv.hostPlatform.extensions.sharedLibrary}";
 
-  patchPhase = let
-    libc = if stdenv.isDarwin then "libc.dylib" else "libc.so.6";
-  in ''
-    sed -i "s|_lgeos = load_dll('geos_c', fallbacks=.*)|_lgeos = load_dll('geos_c', fallbacks=['${geos}/lib/libgeos_c${stdenv.hostPlatform.extensions.sharedLibrary}'])|" shapely/geos.py
-    sed -i "s|free = load_dll('c').free|free = load_dll('c', fallbacks=['${stdenv.cc.libc}/lib/${libc}']).free|" shapely/geos.py
-  '';
+  patches = [
+    (substituteAll {
+      src = ./library-paths.patch;
+      libgeos_c = GEOS_LIBRARY_PATH;
+      libc = "${stdenv.cc.libc}/lib/libc${stdenv.hostPlatform.extensions.sharedLibrary}"
+               + stdenv.lib.optionalString (!stdenv.isDarwin) ".6";
+    })
+  ];
 
   # Disable the tests that improperly try to use the built extensions
   checkPhase = ''
-    py.test -k 'not test_vectorized and not test_fallbacks' tests
+    rm -r shapely # prevent import of local shapely
+    py.test tests
   '';
 
   meta = with stdenv.lib; {