sage: 6.1.1 -> 6.8

pkgs/applications/science/math/sage/default.nix

@@ -1,27 +1,32 @@
 { stdenv, fetchurl, m4, perl, gfortran, texLive, ffmpeg, tk
-, imagemagick, liblapack
+, imagemagick, liblapack, python, openssl, libpng
+, which
 }:
 
 stdenv.mkDerivation rec {
-  name = "sage-6.1.1";
+  name = "sage-6.8";
 
   src = fetchurl {
     url = "mirror://sagemath/${name}.tar.gz";
-    sha256 = "0kbzs0l9q7y34jv3f8rd1c2mrjsjkdgaw6mfdwjlpg9g4gghmq5y";
+    sha256 = "102mrzzi215g1xn5zgcv501x9sghwg758jagx2jixvg1rj2jijj9";
   };
 
-  buildInputs = [ m4 perl gfortran texLive ffmpeg tk imagemagick liblapack ];
+  buildInputs = [ m4 perl gfortran texLive ffmpeg tk imagemagick liblapack
+                  python openssl libpng which];
+
+  patches = [ ./spkg-singular.patch ./spkg-python.patch ./spkg-git.patch ];
 
   enableParallelBuilding = true;
 
   preConfigure = ''
     export SAGE_NUM_THREADS=$NIX_BUILD_CORES
-    sed -i 's/if ! [ -d "$HOME" ]/if [ -d "$HOME" ]/' src/bin/sage-env
-  '' + stdenv.lib.optionalString stdenv.isDarwin ''
-    sed -i "s/ld_version = try_run('ld  -v')/ld_version = 'Apple'/" \
-      build/pkgs/atlas/configuration.py
+    export SAGE_ATLAS_ARCH=fast
+    mkdir -p $out/sageHome
+    export HOME=$out/sageHome
   '';
 
+  installPhase = ''DESTDIR=$out make install'';
+
   meta = {
     homepage = "http://www.sagemath.org";
     description = "A free open source mathematics software system";

pkgs/applications/science/math/sage/spkg-git.patch

@@ -0,0 +1,11 @@
+--- old/build/pkgs/git/spkg-install	2015-07-26 15:34:43.000000000 +0200
++++ new/build/pkgs/git/spkg-install	2015-09-17 08:28:03.586657451 +0200
+@@ -45,6 +45,8 @@
+     fi
+ done
+ 
++find . -exec sed -e 's@/usr/bin/perl@perl@g' -i '{}' ';'
++
+ # We don't want to think about Fink or Macports
+ export NO_FINK=1
+ export NO_DARWIN_PORTS=1

pkgs/applications/science/math/sage/spkg-python.patch

@@ -0,0 +1,11 @@
+--- old/build/pkgs/python2/spkg-install	2015-07-26 15:34:43.000000000 +0200
++++ new/build/pkgs/python2/spkg-install	2015-09-16 20:48:51.904555797 +0200
+@@ -32,7 +32,7 @@
+ done
+ 
+ # We are setting LDFLAGS so that we pick up Sage's readline
+-LDFLAGS="-L$SAGE_LOCAL/lib $LDFLAGS"
++LDFLAGS="-L$SAGE_LOCAL/lib -lcrypt $LDFLAGS"
+ export LDFLAGS
+ 
+ if [ "$SAGE_DEBUG" = "yes" ]; then

pkgs/applications/science/math/sage/spkg-singular.patch

@@ -0,0 +1,28 @@
+--- old/build/pkgs/singular/spkg-install	2015-07-26 15:34:43.000000000 +0200
++++ new/build/pkgs/singular/spkg-install	2015-09-15 20:42:51.716505855 +0200
+@@ -115,6 +115,11 @@
+     done
+ }
+ 
++nix_nuke_bin_rm()
++{
++    find . -exec sed -e 's@/bin/rm@rm@g' -i '{}' ';'
++}
++
+ remove_old_version()
+ {
+     rm -f "$SAGE_LOCAL"/bin/Singular*
+@@ -306,11 +311,11 @@
+ 
+ 
+ # Actually run all the functions defined above
+-for i in choose_patches apply_patches remove_old_version config \
++for i in choose_patches apply_patches nix_nuke_bin_rm remove_old_version config \
+   build_singular build_libsingular build_factory build_libfac \
+   create_singular_script install_docs ; do
+     echo "### Singular spkg-install: $i ###"
+-    cd "$SRC" && $i
++    cd "$SRC" && pwd && $i
+     if [ $? -ne 0 ]; then
+         echo >&2 "Error building Singular (error in $i)."
+         exit 1