diff --git a/pkgs/development/libraries/science/math/atlas/default.nix b/pkgs/development/libraries/science/math/atlas/default.nix
index 75f9de5e96a..b61204d8bf4 100644
--- a/pkgs/development/libraries/science/math/atlas/default.nix
+++ b/pkgs/development/libraries/science/math/atlas/default.nix
@@ -1,27 +1,32 @@
 { stdenv, fetchurl, gfortran, tolerateCpuTimingInaccuracy ? true, shared ? false }:
 
 let
+  version = "3.10.1";
+
   optionalString = stdenv.lib.optionalString;
+  optional = stdenv.lib.optional;
 in
 
 stdenv.mkDerivation {
-  name = "atlas-3.9.67";
+  name = "atlas-${version}";
 
   src = fetchurl {
-    url = mirror://sourceforge/math-atlas/atlas3.9.67.tar.bz2;
-    sha256 = "06xxlv440z8a3qmfrh17p28girv71c6awvpw5vhpspr0pcsgk1pa";
+    url = "mirror://sourceforge/math-atlas/atlas${version}.tar.bz2";
+    sha256 = "11ncgdc7kzb2y2gqb3sgarm5saj9fr07r3h2yh2h5bja429b85d2";
   };
 
+  # Atlas aborts the build if it detects that some kind of CPU frequency
+  # scaling is active on the build machine because that feature offsets the
+  # performance timings. We ignore that check, however, because with binaries
+  # being pre-built on Hydra those timings aren't accurate for the local
+  # machine in the first place.
+  patches = optional tolerateCpuTimingInaccuracy ./disable-timing-accuracy-check.patch;
+
   # Configure outside of the source directory.
   preConfigure = '' mkdir build; cd build; configureScript=../configure; '';
 
   # * -fPIC allows to build atlas inside shared objects, as octave does.
   #
-  # * Atlas aborts the build if it detects that some kind of CPU frequency
-  #   scaling is active on the build machine because that feature offsets the
-  #   performance timings. We ignore that check, however, because with binaries
-  #   being pre-built on Hydra those timings aren't accurate for the local
-  #   machine in the first place.
   # * Atlas detects the cpu and does some tricks. For example, notices the
   #   hydra AMD Family 10h computer, and uses a SSE trick for it (bit 17 of MXCSR)
   #   available, for what I know, only in that family. So we hardcode K7
@@ -33,7 +38,6 @@ stdenv.mkDerivation {
   configureFlags = "-Fa alg -fPIC -t 0"
     + optionalString stdenv.isi686 " -b 32 -A 18 -V 1"
     + optionalString stdenv.isx86_64 " -A 31 -V 192"
-    + optionalString tolerateCpuTimingInaccuracy " -Si cputhrchk 0"
     + optionalString shared " --shared "
     ;
 
diff --git a/pkgs/development/libraries/science/math/atlas/disable-timing-accuracy-check.patch b/pkgs/development/libraries/science/math/atlas/disable-timing-accuracy-check.patch
new file mode 100644
index 00000000000..ddacc742d14
--- /dev/null
+++ b/pkgs/development/libraries/science/math/atlas/disable-timing-accuracy-check.patch
@@ -0,0 +1,22 @@
+diff -ubr ATLAS-orig/CONFIG/src/config.c ATLAS/CONFIG/src/config.c
+--- ATLAS-orig/CONFIG/src/config.c	2013-02-06 11:23:47.078036878 +0100
++++ ATLAS/CONFIG/src/config.c	2013-02-06 11:24:16.481120888 +0100
+@@ -711,17 +711,7 @@
+ 
+ int ProbeCPUThrottle(int verb, char *targarg, enum OSTYPE OS, enum ASMDIA asmb)
+ {
+-   int i, iret;
+-   char *ln;
+-   i = strlen(targarg) + 22 + 12;
+-   ln = malloc(i*sizeof(char));
+-   assert(ln);
+-   sprintf(ln, "%s -O %d -s %d -t", targarg, OS, asmb);
+-   iret = GetIntProbe(verb, ln, "arch", "CPU THROTTLE", 0);
+-   free(ln);
+-   if (iret) printf("CPU Throttling apparently enabled!\n");
+-   else printf("Cannot detect CPU throttling.\n");
+-   return(iret);
++   return 0;
+ }
+ 
+ char *NewAppendedString_SFLAG(char *old, char *flag, char *str)