treewide: use more HTTPS URLs

Uses the HTTPS url for cases where the existing URL has a permanent
redirect. For each domain, at least one fixed derivation URL was
downloaded to test the domain is properly serving downloads.

Also fixes jbake source URL, which was broken.

pkgs/development/libraries/libtheora/default.nix

@@ -21,7 +21,7 @@ stdenv.mkDerivation rec {
   '';
 
   meta = with stdenv.lib; {
-    homepage = http://www.theora.org/;
+    homepage = https://www.theora.org/;
     description = "Library for Theora, a free and open video compression format";
     license = licenses.bsd3;
     maintainers = with maintainers; [ spwhitt wkennington ];