--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/SMART/Java/Python/test/Test_F_getRandomRegions.py	Mon Apr 29 03:20:15 2013 -0400
@@ -0,0 +1,66 @@
+import unittest
+import os
+from commons.core.parsing.GffParser import GffParser
+from SMART.Java.Python.getRandomRegions import RandomRegionsGenerator
+
+MIN_SIZE = 36
+MAX_SIZE = 100
+CHR      = "chr1"
+CHR_SIZE = 1000000
+NB_READS = 1000
+
+class Test_F_getRandomRegions(unittest.TestCase):
+
+    def setUp(self):
+        self._outputFileName = 'output.gff3'
+        
+    def tearDown(self):
+        for fileName in [self._outputFileName]:
+            if os.path.exists(fileName):
+                os.remove(fileName)
+        
+    def test_simple(self):
+        iRR = RandomRegionsGenerator(0)
+        iRR.setMinSize(MIN_SIZE)
+        iRR.setMaxSize(MAX_SIZE)
+        iRR.setGenomeSize(CHR_SIZE)
+        iRR.setChromosomeName(CHR)
+        iRR.setStrands(False)
+        iRR.setNumber(NB_READS)
+        iRR.setOutputFile(self._outputFileName)
+        iRR.run()
+        parser = GffParser(self._outputFileName, 0)
+        starts = set()
+        self.assertTrue(parser.getNbTranscripts(), CHR_SIZE)
+        for transcript in parser.getIterator():
+            start      = transcript.getStart()
+            end        = transcript.getEnd()
+            size       = transcript.getSize()
+            chromosome = transcript.getChromosome()
+            strand     = transcript.getDirection()
+            self.assertTrue(start not in starts)
+            self.assertTrue(start >= 1)
+            self.assertTrue(end <= CHR_SIZE)
+            self.assertEquals(chromosome, CHR)
+            self.assertEquals(strand, 1)
+            starts.add(start)
+
+    def test_both_strands(self):
+        iRR = RandomRegionsGenerator(0)
+        iRR.setMinSize(MIN_SIZE)
+        iRR.setMaxSize(MAX_SIZE)
+        iRR.setGenomeSize(CHR_SIZE)
+        iRR.setChromosomeName(CHR)
+        iRR.setStrands(True)
+        iRR.setNumber(NB_READS)
+        iRR.setOutputFile(self._outputFileName)
+        iRR.run()
+        parser = GffParser(self._outputFileName, 0)
+        strands = set()
+        for transcript in parser.getIterator():
+            strands.add(transcript.getDirection())
+        self.assertTrue(1 in strands)
+        self.assertTrue(-1 in strands)
+        
+if __name__ == "__main__":
+    unittest.main()