Also Reload Plugin Defined Permissions

Closes https://github.com/PaperMC/Paper/issues/210

Spigot-Server-Patches/Add-getEntity-by-UUID-API.patch

@@ -42,8 +42,8 @@ index 0000000000000000000000000000000000000000..00000000000000000000000000000000
  import org.bukkit.craftbukkit.generator.CraftChunkData;
  import org.bukkit.craftbukkit.help.SimpleHelpMap;
 @@ -0,0 +0,0 @@ public final class CraftServer implements Server {
-         ((SimplePluginManager) pluginManager).clearPermissions();
-         loadCustomPermissions();
+             });
+         }
      }
 +
 +    @Override

Spigot-Server-Patches/Allow-Reloading-of-Custom-Permissions.patch

@@ -19,6 +19,15 @@ index 0000000000000000000000000000000000000000..00000000000000000000000000000000
 +    public void reloadPermissions() {
 +        ((SimplePluginManager) pluginManager).clearPermissions();
 +        loadCustomPermissions();
++        for (Plugin plugin : pluginManager.getPlugins()) {
++            plugin.getDescription().getPermissions().forEach((perm) -> {
++                try {
++                    pluginManager.addPermission(perm);
++                } catch (IllegalArgumentException ex) {
++                    getLogger().log(Level.WARNING, "Plugin " + plugin.getDescription().getFullName() + " tried to register permission '" + perm.getName() + "' but it's already registered", ex);
++                }
++            });
++        }
 +    }
 +    // Paper end
  }