diff commons/core/writer/test/Test_MapWriter.py @ 6:769e306b7933

Change the repository level.

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/commons/core/writer/test/Test_MapWriter.py	Fri Jan 18 04:54:14 2013 -0500
@@ -0,0 +1,61 @@
+from SMART.Java.Python.structure.Transcript import Transcript
+from SMART.Java.Python.structure.Interval import Interval
+import unittest
+import os
+from SMART.Java.Python.misc import Utils
+from commons.core.writer.MapWriter import MapWriter
+from commons.core.utils.FileUtils import FileUtils
+
+class Test_MapWriter(unittest.TestCase):
+    
+    def setUp(self):
+        self.expFileName = "expMapWriter.map"
+        self.obsFileName = "testMapWriter1.map"
+        
+    def tearDown(self):
+        os.remove(self.expFileName)
+        os.remove(self.obsFileName)
+        
+    def test_writer(self):
+        self.write_ExpMapFileName()
+        writer = MapWriter(self.obsFileName)
+        
+        transcript = Transcript()
+        transcript.setName("test1.1")
+        transcript.setChromosome("arm_X")
+        transcript.setStart(1000)
+        transcript.setEnd(4000)
+        transcript.setDirection("+")
+        transcript.setTagValue("ID", "test1.1-1")
+        transcript.setTagValue("occurrence", 1)
+        transcript.setTagValue("nbOccurrences", 2)
+        
+        exon1 = Interval()
+        exon1.setChromosome("arm_X")
+        exon1.setStart(1000)
+        exon1.setEnd(2000)
+        exon1.setDirection("+")
+        
+        exon2 = Interval()
+        exon2.setChromosome("arm_X")
+        exon2.setStart(3000)
+        exon2.setEnd(4000)
+        exon2.setDirection("+")
+        
+        transcript.addExon(exon1)
+        transcript.addExon(exon2)
+        
+        writer.addTranscript(transcript)
+        writer.write()
+        writer.close()
+        
+        self.assertTrue(FileUtils.are2FilesIdentical(self.expFileName, self.obsFileName))
+        
+
+    def write_ExpMapFileName(self):
+        f = open(self.expFileName, "w")
+        f.write("test1.1\tarm_X\t1000\t4001\n")
+        f.close()
+
+if __name__ == '__main__':
+    unittest.main()