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blockpiece.py

+'''
+Created on 27.01.2015
+The class for the pieces of blocks. Basically just the relevant attributes
+@author: hringbauer
+'''
+
+class BlPiece(object):
+# Class for block pieces, container for relevant attributes
+
+    origin = ()  # Coordinates of the original individual
+    start = 0  # Starting coordinates
+    end = 0  # End coordinates
+    index=0 # Index of chromosome
+    screwed = False  # Variable which indicate this block will not be followed anymore
+
+    def __init__(self, origin, start, end,index=0):
+        self.origin = origin
+        self.start = start
+        self.end = end
+        self.index=index
+        
+    def update_length(self, start, end):
+        self.start = start
+        self.end = end
+        
+class Multi_Bl(BlPiece):
+    # Subclass of Block, simply carries blocks of multiple origins and total start and end value
+    
+    def __init__(self, sub_blocks):
+        self.origin = ()  # No origin since only subblocks have that
+        self.start = min(i.start for i in sub_blocks)
+        self.end = max(i.end for i in sub_blocks)
+        self.sub_blocks = []  # IMPORTANT: Since lists are mutable, we have to reset them
+        
+        for block in sub_blocks:  # Subblocks can be Multi-Blocks!
+            if isinstance(block, Multi_Bl):
+                self.sub_blocks += block.sub_blocks
+            else: self.sub_blocks.append(block)
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