# Copyright 2021 AlQuraishi Laboratory # # Licensed under the Apache License, Version 2.0 (the "License"); # you may not use this file except in compliance with the License. # You may obtain a copy of the License at # # http://www.apache.org/licenses/LICENSE-2.0 # # Unless required by applicable law or agreed to in writing, software # distributed under the License is distributed on an "AS IS" BASIS, # WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. # See the License for the specific language governing permissions and # limitations under the License. import torch import numpy as np import unittest from alphafold.model.template import * class TestTemplatePointwiseAttention(unittest.TestCase): def test_shape(self): batch_size = 2 s_t = 3 c_t = 5 c_z = 7 c = 26 no_heads = 13 n = 17 tpa = TemplatePointwiseAttention(c_t, c_z, c, no_heads, chunk_size=4) t = torch.rand((batch_size, s_t, n, n, c_t)) z = torch.rand((batch_size, n, n, c_z)) z_update = tpa(t, z) self.assertTrue(z_update.shape == z.shape) class TestTemplatePairStack(unittest.TestCase): def test_shape(self): batch_size = 2 c_t = 5 c_hidden_tri_att = 7 c_hidden_tri_mul = 7 no_blocks = 2 no_heads = 4 pt_inner_dim = 15 dropout = 0.25 n_templ = 3 n_res = 5 chunk_size = 4 tpe = TemplatePairStack( c_t, c_hidden_tri_att=c_hidden_tri_att, c_hidden_tri_mul=c_hidden_tri_mul, no_blocks=no_blocks, no_heads=no_heads, pair_transition_n=pt_inner_dim, dropout_rate=dropout, chunk_size=chunk_size, ) t = torch.rand((batch_size, n_templ, n_res, n_res, c_t)) mask = torch.randint(0, 2, (batch_size, n_templ, n_res, n_res)) shape_before = t.shape t = tpe(t, mask) shape_after = t.shape self.assertTrue(shape_before == shape_after) if __name__ == "__main__": unittest.main()