f6bb3e9608d45ceee5279864f785bd58f3c579e1,lib/prody/tests/test_sequence/test_msa.py,TestRefinement,testRowCol,#TestRefinement#,63

Before Change

        refined = refineMSA(FASTA, col_occ=0.9, row_occ=0.9)._getArray()
        rows = FASTA_ALPHA.sum(1) / 112. >= 0.9
        expected = FASTA._getArray()[rows,:][:, 
                        1.0 * FASTA_ALPHA[rows,:].sum(0) / rows.sum() >= 0.9]
        
        assert_array_equal(refined, expected)

After Change

        cols = char.isalpha(expected).sum(0, 
                    dtype=float) / expected.shape[0] >= col_occ 
        
        expected = expected.take(cols.nonzero()[0], 1)
        assert_array_equal(refined, expected)


    def testAll(self):

Instances