Added missing spore-tree saplings to many tilesets.

All tilesets except Masterwork, Obsidian Soul, and Phoebus were
missing spore tree definitions. This is now fixed.
Update settings program from splinterz/settings

Most notably changes from:
https://github.com/pjf/masterwork-dwarf-fortress/commit/f005f3f4ad97d5c5fc4d3838a348a7a16964abf8
patch-grapics-from-master.pl - Really don't make .rej files
patch-graphics-from-master.pl - Ignore already applied patches
Remove plant_fake.txt from tileset directories.

According to Meph, none of these plants grow naturally, and so
their graphics don't matter.

Matrix, Obsidian Soul, and Spacefox tilesets have been adjusted
accordingly. :)
patch-graphics-from-master: Be lenient with whitespace changes.
Fix typo syntax error in herbalism research reaction.

Thanks to Billy Jack for spotting this.
GH #36 - Enable simple minerals by default

The non-simple minerals don't seem to have reactions associated
with them, which may be a bug. This patch disables simple-minerals
by default, which also restores the previous MWDF default settings.
Merge remote-tracking branch 'upstream/master'

* upstream/master:
  GH #36 - Enable simple minerals by default
  Fix typo syntax error in herbalism research reaction.
  patch-graphics-from-master: Be lenient with whitespace changes.
  Remove plant_fake.txt from tileset directories.
  patch-graphics-from-master.pl - Ignore already applied patches
  patch-grapics-from-master.pl - Really don't make .rej files
  Update settings program from splinterz/settings
  Added missing spore-tree saplings to many tilesets.