--- a/TEisotools-1.1.a/commons/core/coord/MergedRange.py	Thu Jul 21 07:36:44 2016 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,106 +0,0 @@
-# Copyright INRA (Institut National de la Recherche Agronomique)
-# http://www.inra.fr
-# http://urgi.versailles.inra.fr
-#
-# This software is governed by the CeCILL license under French law and
-# abiding by the rules of distribution of free software.  You can  use, 
-# modify and/ or redistribute the software under the terms of the CeCILL
-# license as circulated by CEA, CNRS and INRIA at the following URL
-# "http://www.cecill.info". 
-#
-# As a counterpart to the access to the source code and  rights to copy,
-# modify and redistribute granted by the license, users are provided only
-# with a limited warranty  and the software's author,  the holder of the
-# economic rights,  and the successive licensors  have only  limited
-# liability. 
-#
-# In this respect, the user's attention is drawn to the risks associated
-# with loading,  using,  modifying and/or developing or reproducing the
-# software by the user in light of its specific status of free software,
-# that may mean  that it is complicated to manipulate,  and  that  also
-# therefore means  that it is reserved for developers  and  experienced
-# professionals having in-depth computer knowledge. Users are therefore
-# encouraged to load and test the software's suitability as regards their
-# requirements in conditions enabling the security of their systems and/or 
-# data to be ensured and,  more generally, to use and operate it in the 
-# same conditions as regards security. 
-#
-# The fact that you are presently reading this means that you have had
-# knowledge of the CeCILL license and that you accept its terms.
-
-## Record a region on multiple sequence using Path ID information
-#
-class MergedRange(object):
-    
-    __slots__ = ("_lId", "_start", "_end")
-
-    ## Constructor
-    #
-    # @param lId list of Path ID
-    # @param start the start coordinate
-    # @param end the end coordinate
-    #
-    def __init__(self, lId = None, start = -1, end = -1):
-        self._lId = lId or []
-        self._start = start
-        self._end = end 
-        
-    ## Equal operator
-    #
-    # @param o a MergedRange instance
-    #        
-    def __eq__(self, o):
-        if type(o) is type(self):
-            return o._lId == self._lId and o._start == self._start and o._end == self._end
-        else:
-            return False
-    
-    ## Not equal operator
-    #
-    def __ne__(self, o):
-        return not self.__eq__(o)
-    
-    ## Return True if the MergedRange instance overlaps with another MergedRange instance, False otherwise 
-    #
-    # @param o a MergedRange instance
-    # @return boolean False or True
-    #
-    def isOverlapping(self, o):
-        if o._start <= self._start and o._end >= self._end:
-            return True
-        if o._start >= self._start and o._start <= self._end or o._end >= self._start and o._end <= self._end:
-            return True
-        return False
-    
-    ## Merge coordinates and ID of two Merged Range     
-    #
-    # @param o a MergedRange instance
-    #
-    def merge(self, o):
-        self._start = min(self._start, o._start)
-        self._end = max(self._end, o._end)   
-        self._lId.extend(o._lId)
-        self._lId.sort()
-        
-    ## Set a Merged Range instance using a Match instance
-    #
-    # @param iMatch instance Match instance 
-    # 
-    def setFromMatch(self, iMatch):
-        self._lId= [iMatch.id]
-        self._start = iMatch.range_query.start
-        self._end = iMatch.range_query.end
-     
-    ## Get a Merged Range instance list using a Match instance list
-    #
-    # @param lIMatch list Match instance list
-    # @return lMergedRange list MergedRange instance list
-    #
-    @staticmethod
-    def getMergedRangeListFromMatchList(lIMatch):
-        lMergedRange = []
-        for iMatch in lIMatch:
-            mr = MergedRange()
-            mr.setFromMatch(iMatch)
-            lMergedRange.append(mr)
-        return lMergedRange