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1 import unittest
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2 import os
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3 from commons.core.utils.FileUtils import FileUtils
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4 from SMART.Java.Python.getWigDistance import *
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5
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6 class Test_F_getWigDistance(unittest.TestCase):
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7
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8
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9 def setUp(self):
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10 self._inputGffFileName = 'inputGff.gff3'
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11 self._writeInputGff(self._inputGffFileName)
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12 self._inputWigFileName = '../TestFiles/sorted_query_wig.wig'
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13 self._outFileName = 'outGffWig.png'
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14
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15 def tearDown(self):
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16 os.remove(self._inputGffFileName)
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17 os.remove(self._outFileName)
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18
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19 def test_getWigDistance_defaultOption(self):
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20 cmd = 'python ../getWigDistance.py -i %s -f gff3 -w %s -d 10 -o %s' % (self._inputGffFileName, self._inputWigFileName, self._outFileName)
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21 os.system(cmd)
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22
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23 def test_getWigDistance_strandsOption(self):
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24 cmd = 'python ../getWigDistance.py -i %s -f gff3 -w %s -d 10 -o %s -s' % (self._inputGffFileName, self._inputWigFileName, self._outFileName)
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25 os.system(cmd)
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26
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27 def test_getWigDistance_logOption(self):
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28 cmd = 'python ../getWigDistance.py -i %s -f gff3 -w %s -d 10 -o %s -l' % (self._inputGffFileName, self._inputWigFileName, self._outFileName)
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29 os.system(cmd)
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30
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31 def _writeInputGff(self, fileName):
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32 f = open(fileName, 'w')
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33 f.write("chr1\tquery\ttest1.1\t25\t150\t126\t+\t.\tID=query_1;Name=test1.1\n")
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34 f.write("chr1\tquery\ttest1.2\t70\t850\t781\t-\t.\tID=query_2;Name=test1.2\n")
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35 f.write("chr1\tquery\ttest1.3\t550\t850\t201\t-\t.\tID=query_3;Name=test1.3\n")
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36 f.write("chr1\tquery\ttest1.4\t925\t1025\t101\t+\t.\tID=query_4;Name=test1.4\n")
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37 f.write("chr1\tquery\ttest1.5\t1201\t1210\t10\t+\t.\tID=query_5;Name=test1.5\n")
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38 f.write("chr1\tquery\ttest1.6\t1500\t1600\t101\t+\t.\tID=query_6;Name=test1.6\n")
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39 f.close()
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40
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41
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42
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43 if __name__ == "__main__":
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44 #import sys;sys.argv = ['', 'Test.testName']
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45 unittest.main() |
