Author: bugman
Date: Thu Jan 29 16:20:54 2015
New Revision: 27360
URL: http://svn.gna.org/viewcvs/relax?rev=27360&view=rev
Log:
Deleted the Test_coordinates.test_common_residues unit test.
This is from the _lib._structure._internal.test_coordinates unit test module.
The
lib.structure.internal.coordinates.common_residues() function no longer exists.
Modified:
trunk/test_suite/unit_tests/_lib/_structure/_internal/test_coordinates.py
Modified:
trunk/test_suite/unit_tests/_lib/_structure/_internal/test_coordinates.py
URL:
http://svn.gna.org/viewcvs/relax/trunk/test_suite/unit_tests/_lib/_structure/_internal/test_coordinates.py?rev=27360&r1=27359&r2=27360&view=diff
==============================================================================
--- trunk/test_suite/unit_tests/_lib/_structure/_internal/test_coordinates.py
(original)
+++ trunk/test_suite/unit_tests/_lib/_structure/_internal/test_coordinates.py
Thu Jan 29 16:20:54 2015
@@ -29,46 +29,3 @@
class Test_coordinates(UnitTestCase):
"""Unit tests for the functions of the
'lib.structure.internal.coordinates' module."""
-
- def test_common_residues(self):
- """Test the lib.structure.internal.coordinates.common_residues()
function."""
-
- # The gap matrices.
- gap_matrices = [
- array([
- [1, 1, 1, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 1, 1, 1, 1,
1, 1, 1, 1, 1, 1, 1, 1, 1, 1],
- [0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0,
0, 0, 0, 0, 0, 0, 0, 0, 0, 0]
- ], int16),
- array([
- [1, 0, 0, 0, 0, 1, 1, 1, 1, 0, 0, 0, 0, 0, 1, 0, 0, 1, 1, 1,
1, 1, 1, 1, 1, 1, 1, 1, 1],
- [0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0,
0, 0, 0, 0, 0, 0, 0, 0, 0]
- ], int16)
- ]
- seq1 = 'TEEQVDADGGT'
- seq2 = 'ADQLTEEQVDADGNGTIDFPEFLTMMARKM'
- seq3 = 'LTEEQMINEVDAGNGTIDFPEFLTMMAR'
-
- # Determine the common residues.
- skip, gapped_strings =
coordinates.common_residues(gap_matrices=gap_matrices, one_letter_codes=[seq1,
seq2, seq3], seq=True)
-
- # The expected skipping matrices.
- N = len(seq1)
- skip_real = [
- [0]*4 + [1]*4 + [0]*(N-8),
- [1]*4 + [0]*N + [1]*(len(seq2)-N-4),
- [1] + [0]*N + [1]*(len(seq3)-N-1)
- ]
-
- # The expected gapped strings.
- gapped_seq1 = '----TEEQ----VDA-G-GT----------------'
- gapped_seq2 = '----TEEQ----VDA-G-GT----------------'
- gapped_seq3 = '----TEEQMINEVDA-G-GT----------------'
- gapped_real = [gapped_seq1, gapped_seq2, gapped_seq3]
-
- # Checks.
- for i in range(3):
- print("Sequence %i" % (i+1))
- self.assertEqual(len(skip_real[i]), len(skip[i]))
- for j in range(len(skip_real[i])):
- self.assertEqual(skip_real[i][j], skip[i][j])
- #self.assertEqual(gapped_real[i], gapped_strings[i])
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