Mercurial > repos > yufei-luo > s_mart

diff commons/core/parsing/test/Test_BlatToGff.py @ 6:769e306b7933

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Change the repository level.
author yufei-luo
date Fri, 18 Jan 2013 04:54:14 -0500
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/commons/core/parsing/test/Test_BlatToGff.py	Fri Jan 18 04:54:14 2013 -0500
@@ -0,0 +1,28 @@
+from commons.core.parsing.BlatToGff import BlatToGff
+import unittest
+
+
+class Test_BlatToGff(unittest.TestCase):
+
+
+    def test_convertBlatObjectToGffLine(self):
+        blatLine = '315\t20\t0\t0\t3\t10\t2\t9\t+\tMRRE1H001H13FM1\t378\t0\t345\tchr16\t22053297\t21686950\t21687294\t4\t76,185,7,67,\t0,77,263,278,\t21686950,21687026,21687213,21687227,\n'
+        nbLine = 15
+        iBlatToGff = BlatToGff()
+        BlatToGff._methodName = ''
+        obsGffLine = iBlatToGff.convertBlatObjectToGffLine(blatLine, nbLine)
+        expGffLine = 'chr16\tBlatToGff\tBES\t21686950\t21687294\t.\t+\t.\tID=MRRE1H001H13FM1;Name=MRRE1H001H13FM1;bes_start=21686950;bes_end=21687294;bes_size=22053297\n'
+        self.assertEquals(expGffLine, obsGffLine)
+
+    def test_convertBlatObjectToGffLine_with_methodName(self):
+        blatLine = '315\t20\t0\t0\t3\t10\t2\t9\t+\tMRRE1H001H13FM1\t378\t0\t345\tchr16\t22053297\t21686950\t21687294\t4\t76,185,7,67,\t0,77,263,278,\t21686950,21687026,21687213,21687227,\n'
+        nbLine = 15
+        iBlatToGff = BlatToGff()
+        BlatToGff._methodName = 'Test'
+        obsGffLine = iBlatToGff.convertBlatObjectToGffLine(blatLine, nbLine)
+        expGffLine = 'chr16\tBlatToGff\tTest:BES\t21686950\t21687294\t.\t+\t.\tID=MRRE1H001H13FM1;Name=MRRE1H001H13FM1;bes_start=21686950;bes_end=21687294;bes_size=22053297\n'
+        self.assertEquals(expGffLine, obsGffLine)
+
+
+if __name__ == "__main__":
+    unittest.main()
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