--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/commons/core/coord/test/Test_Map.py	Fri Jan 18 04:54:14 2013 -0500
@@ -0,0 +1,183 @@
+# 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.
+
+
+import unittest
+import os
+from commons.core.coord.Map import Map
+from commons.core.utils.FileUtils import FileUtils
+
+
+class Test_Map( unittest.TestCase ):
+    
+    def setUp(self):
+        self._map = Map()
+        
+    def test_setFromString(self):
+        line = "MbQ12Gr2Cl2\tconsensus1\t51\t1230\n"   # test with '\t' separator
+        self._map.setFromString(line)
+        self.assertEqual( self._map.name, "MbQ12Gr2Cl2" )
+        self.assertEqual( self._map.seqname, "consensus1" )
+        self.assertEqual( self._map.start, 51 )
+        self.assertEqual( self._map.end, 1230 )
+        line = "MbQ12Gr2Cl2;consensus1;51;1230"   # test with ';' separator
+        self._map.setFromString(line,";")
+        self.assertEqual( self._map.name, "MbQ12Gr2Cl2" )
+        self.assertEqual( self._map.seqname, "consensus1" )
+        self.assertEqual( self._map.start, 51 )
+        self.assertEqual( self._map.end, 1230 )
+    
+    def test___eq__(self):
+        self._map.setFromString( "MbQ12Gr2Cl2\tconsensus1\t51\t1230\n" )
+        o = Map()
+        o.setFromString( "MbQ12Gr2Cl2\tconsensus1\t51\t1230\n" )
+        self.assertEqual( self._map, o )   # same data
+        o.setFromString( "MbQ12Gr2Cl1\tconsensus1\t51\t1230\n" )
+        self.assertNotEqual( self._map, o )   # different name
+        o.setFromString( "MbQ12Gr2Cl2\tconsensus2\t51\t1230\n" )
+        self.assertNotEqual( self._map, o )   # different seqname
+        o.setFromString( "MbQ12Gr2Cl2\tconsensus1\t15\t1230\n" )
+        self.assertNotEqual( self._map, o )   # different start
+        o.setFromString( "MbQ12Gr2Cl2\tconsensus1\t51\t123000\n" )
+        self.assertNotEqual( self._map, o )   # different end
+        o.setFromString( "MbQ12Gr2Cl2\tconsensus1\t1230\t51\n" )
+        self.assertNotEqual( self._map, o )   # same start/end but in different order
+        
+    def test_setFromTuple(self):
+        tuple = ("MbQ12Gr2Cl2", "consensus1","51","1230")
+        self._map.setFromTuple(tuple)
+
+        expMap = Map("MbQ12Gr2Cl2", "consensus1",51,1230)
+        obsMap = self._map
+        
+        self.assertEquals(expMap, obsMap)
+    
+    def test_read_empty_file(self):
+        
+        fileName = "dummyFile"
+        os.system("touch " + fileName) 
+        fileHandle = open(fileName, "r")
+        
+        obsResult = self._map.read(fileHandle)
+        expResult = 0
+         
+        fileHandle.close()
+        os.remove(fileName) 
+        
+        self.assertEquals(expResult, obsResult)
+    
+    def test_read_uncompleted_line( self):
+        uncompletedLine = "MbQ12Gr2Cl2\tconsensus1\t51"
+        fileName = "dummyFile"
+
+        fileHandle = open(fileName, "w")
+        fileHandle.write(uncompletedLine)
+        fileHandle.close()
+
+        fileHandle = open(fileName, "r")
+       
+        obsResult = self._map.read(fileHandle)
+        expResult = 0
+
+        fileHandle.close()
+        os.remove(fileName)
+
+        self.assertEquals(obsResult, expResult)
+
+    def test_read(self):
+        line =  "MbQ12Gr2Cl2\tconsensus1\t51\t1230\n"
+        fileName = "dummyFile"
+
+        fileHandle = open(fileName, "w")
+        fileHandle.write(line)
+        fileHandle.close()
+
+        fileHandle = open(fileName, "r")
+        self._map.read(fileHandle)
+        obsResult = self._map
+        
+        expResult = Map()
+        expResult.setFromString(line) 
+
+        fileHandle.close()
+        os.remove(fileName)
+
+        self.assertEquals(obsResult, expResult) 
+     
+    def test_write(self):
+        line =  "MbQ12Gr2Cl2\tconsensus1\t51\t1230\n"
+        expFileName = "expFileName"
+
+        fileHandle = open(expFileName, "w")
+        fileHandle.write(line)
+        fileHandle.close()
+        
+        obsFileName = "obsFileName"
+        fileHandle = open(obsFileName, "w")
+        self._map.setFromString(line)
+        self._map.write(fileHandle)
+        fileHandle.close()
+        
+        self.assertTrue( FileUtils.are2FilesIdentical( expFileName, obsFileName ) )
+        
+        os.remove(obsFileName)
+        os.remove(expFileName)
+        
+    def test_diff1(self):
+        map1 = Map("seq1","DmelChr4", 190000, 390000)
+        map2 = Map("seq2","DmelChr4", 290000, 590000)
+        
+        expMap1 = Map("seq1", "DmelChr4", 190000, 289999)
+        expReturnedMap = Map()
+        
+        obsReturnedMap = map1.diff(map2)
+        obsMap1 = map1
+        
+        self.assertEquals(expMap1, obsMap1)
+        self.assertEquals(expReturnedMap, obsReturnedMap)
+        
+    def test_diff2(self):
+        map1 = Map("seq1","DmelChr4", 190000, 590000)
+        map2 = Map("seq2","DmelChr4", 290000, 390000)
+
+        expMap1 = Map("seq1", "DmelChr4", 190000, 289999)
+        expReturnedMap = Map("seq1", "DmelChr4", 390001, 590000)
+        
+        obsReturnedMap = map1.diff(map2)
+        obsMap1 = map1
+        
+        self.assertEquals(expMap1, obsMap1)
+        self.assertEquals(expReturnedMap, obsReturnedMap)
+        
+        
+test_suite = unittest.TestSuite()
+test_suite.addTest( unittest.makeSuite( Test_Map ) )
+if __name__ == "__main__":
+    unittest.TextTestRunner(verbosity=2).run( test_suite )