jmol: 16.2.21 -> 16.3.1 (#349514)

pkgs/applications/science/chemistry/jmol/default.nix

@@ -25,14 +25,14 @@ let
   };
 in
 stdenv.mkDerivation rec {
-  version = "16.2.21";
+  version = "16.3.1";
   pname = "jmol";
 
   src = let
     baseVersion = "${lib.versions.major version}.${lib.versions.minor version}";
   in fetchurl {
     url = "mirror://sourceforge/jmol/Jmol/Version%20${baseVersion}/Jmol%20${version}/Jmol-${version}-binary.tar.gz";
-    hash = "sha256-9gIOrHoy0JyoPXaHOfBDHCL+ykmmHNam+Um12sHqZsE=";
+    hash = "sha256-mjID6o+2yhzKd1g3MO4as1dA11nhessjzCDHSUyUQBw=";
   };
 
   patchPhase = ''

pkgs/applications/science/math/sage/sage-env.nix

@@ -49,7 +49,7 @@
 , zlib
 , gsl
 , ntl
-, jdk
+, jre8
 , less
 }:
 
@@ -96,7 +96,7 @@ let
     ecm
     lcalc
     rubiks
-    jdk # only needed for `jmol` which may be replaced in the future
+    jre8 # only needed for `jmol` (https://sourceforge.net/p/jmol/mailman/message/58818762/), which will be optional in sage 10.5
     less # needed to prevent transient test errors until https://github.com/ipython/ipython/pull/11864 is resolved
   ]
   ));