Source Code for Module test_suite.unit_tests._lib._structure.test_pdb_read

  1  ############################################################################### 
  2  #                                                                             # 
  3  # Copyright (C) 2008-2013 Edward d'Auvergne                                   # 
  4  #                                                                             # 
  5  # This file is part of the program relax (http://www.nmr-relax.com).          # 
  6  #                                                                             # 
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  8  # it under the terms of the GNU General Public License as published by        # 
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 12  # This program is distributed in the hope that it will be useful,             # 
 13  # but WITHOUT ANY WARRANTY; without even the implied warranty of              # 
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 15  # GNU General Public License for more details.                                # 
 16  #                                                                             # 
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 18  # along with this program.  If not, see <http://www.gnu.org/licenses/>.       # 
 19  #                                                                             # 
 20  ############################################################################### 
 21   
 22  # relax module imports. 
 23  from lib.structure import pdb_read 
 24  from test_suite.unit_tests.base_classes import UnitTestCase 
 25   
 26   
 27 -class Test_pdb_read(UnitTestCase): 
 28      """Unit tests for the functions of the 'lib.structure.pdb_read' module.""" 
 29   
 30 -    def test_atom(self): 
 31          """Test the lib.structure.pdb_read.atom() function.""" 
 32   
 33          # Parse a PDB record. 
 34          record = pdb_read.atom('ATOM    158  CG  GLU    11       9.590  -1.041 -11.596  1.00  0.00           C  ') 
 35   
 36          # Test the elements. 
 37          self.assertEqual(record[0], 'ATOM') 
 38          self.assertEqual(record[1], 158) 
 39          self.assertEqual(record[2], 'CG') 
 40          self.assertEqual(record[3], None) 
 41          self.assertEqual(record[4], 'GLU') 
 42          self.assertEqual(record[5], None) 
 43          self.assertEqual(record[6], 11) 
 44          self.assertEqual(record[7], None) 
 45          self.assertEqual(record[8], 9.59) 
 46          self.assertEqual(record[9], -1.041) 
 47          self.assertEqual(record[10], -11.596) 
 48          self.assertEqual(record[11], 1.0) 
 49          self.assertEqual(record[12], 0.0) 
 50          self.assertEqual(record[13], 'C') 
 51          self.assertEqual(record[14], None) 
 52   
 53   
 54 -    def test_helix(self): 
 55          """Test the lib.structure.pdb_read.helix() function.""" 
 56   
 57          # Parse a PDB record (from the 1UBQ PDB file). 
 58          record = pdb_read.helix('HELIX    1  H1 ILE A   23  GLU A   34  1                                  12    ') 
 59   
 60          # Test the elements. 
 61          self.assertEqual(record[0], 'HELIX') 
 62          self.assertEqual(record[1], 1) 
 63          self.assertEqual(record[2], 'H1') 
 64          self.assertEqual(record[3], 'ILE') 
 65          self.assertEqual(record[4], 'A') 
 66          self.assertEqual(record[5], 23) 
 67          self.assertEqual(record[6], None) 
 68          self.assertEqual(record[7], 'GLU') 
 69          self.assertEqual(record[8], 'A') 
 70          self.assertEqual(record[9], 34) 
 71          self.assertEqual(record[10], None) 
 72          self.assertEqual(record[11], 1) 
 73          self.assertEqual(record[12], None) 
 74          self.assertEqual(record[13], 12) 
 75   
 76   
 77 -    def test_sheet(self): 
 78          """Test the lib.structure.pdb_read.sheet() function.""" 
 79   
 80          # Parse a PDB record (from the 1UBQ PDB file). 
 81          record = pdb_read.sheet('SHEET    1 BET 5 GLY A  10  VAL A  17  0                                        ') 
 82   
 83          # Test the elements. 
 84          self.assertEqual(record[0], 'SHEET') 
 85          self.assertEqual(record[1], 1) 
 86          self.assertEqual(record[2], 'BET') 
 87          self.assertEqual(record[3], 5) 
 88          self.assertEqual(record[4], 'GLY') 
 89          self.assertEqual(record[5], 'A') 
 90          self.assertEqual(record[6], 10) 
 91          self.assertEqual(record[7], None) 
 92          self.assertEqual(record[8], 'VAL') 
 93          self.assertEqual(record[9], 'A') 
 94          self.assertEqual(record[10], 17) 
 95          self.assertEqual(record[11], None) 
 96          self.assertEqual(record[12], 0) 
 97          self.assertEqual(record[13], None) 
 98          self.assertEqual(record[14], None) 
 99          self.assertEqual(record[15], None) 
100          self.assertEqual(record[16], None) 
101          self.assertEqual(record[17], None) 
102          self.assertEqual(record[18], None) 
103          self.assertEqual(record[19], None) 
104          self.assertEqual(record[20], None) 
105          self.assertEqual(record[21], None) 
106          self.assertEqual(record[22], None) 
107