diff SMART/Java/Python/test/Test_F_qualToFastq.py @ 18:94ab73e8a190

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/SMART/Java/Python/test/Test_F_qualToFastq.py	Mon Apr 29 03:20:15 2013 -0400
@@ -0,0 +1,38 @@
+import unittest
+import os, glob
+
+
+class Test_F_qualToFastq(unittest.TestCase):
+
+    def setUp(self):
+        self.fastaFileName  = "file.fasta"
+        self.qualFileName   = "file.qual"
+        self.outputFileName = "outputFile.fastq"
+         
+    def tearDown(self):
+        for fileRoot in (self.fastaFileName, self.qualFileName, self.outputFileName):
+            for file in glob.glob("%s*" % (fileRoot)):
+                os.remove(file)
+
+    def test_run_simple(self):
+        handle = open(self.fastaFileName, "w")
+        handle.write(">test1\n")
+        handle.write("AAAAAA")
+        handle.close()
+        handle = open(self.qualFileName, "w")
+        handle.write(">test1\n")
+        handle.write("32\t32\t32\t32\t32\t32")
+        handle.close()
+        os.system("python ../qualToFastq.py -f %s -q %s -o %s -v 0" % (self.fastaFileName, self.qualFileName, self.outputFileName))
+        handle = open(self.outputFileName)
+        lines = handle.readlines()
+        self.assertEquals(len(lines), 4)
+        self.assertEquals(lines[0], "@test1\n")
+        self.assertEquals(lines[1], "AAAAAA\n")
+        self.assertEquals(lines[2], "+\n")
+        self.assertEquals(lines[3], "AAAAAA\n")
+
+        
+if __name__ == "__main__":
+    unittest.main()
+