Minecraft Bukkit Server – Map problem

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I'm using Bukkit for a personal Minecraft Server. The problem is that the map have something wrong with biomes… see for yourself:

Map stripes and squares from dynmap
In-game screenshot

Why these stripes and squares of different biomes?
How do I regenerate the map without this?

More info:
CraftBukkit version: 1.6.2-R1.0-b2879.
Plugins: dynmap, MOTDColor.

This is a multiplayer private server hosted on my machine (playing with friends) and I just created it

Best Answer

If you wish to not create another world, you can delete the chunks using McEdit and then start your server back up again. This will reload the chunks again according to the seed of the map.

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