decagon-pytorch/tests/triacontagon/test_batch.py

from triacontagon.batch import _same_data_org, \
    DualBatcher, \
    Batcher
from triacontagon.data import Data
from triacontagon.decode import dedicom_decoder
import torch


def test_same_data_org_01():
    data = Data()
    assert _same_data_org(data, data)

    data.add_vertex_type('Foo', 10)
    assert _same_data_org(data, data)

    data.add_vertex_type('Bar', 10)
    assert _same_data_org(data, data)

    data_1 = Data()
    assert not _same_data_org(data, data_1)

    data_1.add_vertex_type('Foo', 10)
    assert not _same_data_org(data, data_1)

    data_1.add_vertex_type('Bar', 10)
    assert _same_data_org(data, data_1)


def test_same_data_org_02():
    data = Data()
    data.add_vertex_type('Foo', 4)
    data.add_edge_type('Foo-Foo', 0, 0, [
        torch.tensor([
            [0, 0, 0, 1],
            [1, 0, 0, 0],
            [0, 1, 0, 1],
            [1, 0, 1, 0]
        ]).to_sparse()
    ], dedicom_decoder)

    assert _same_data_org(data, data)

    data_1 = Data()
    data_1.add_vertex_type('Foo', 4)
    data_1.add_edge_type('Foo-Foo', 0, 0, [
        torch.tensor([
            [0, 0, 0, 1],
            [1, 0, 0, 0],
            [0, 1, 0, 1],
            [1, 0, 0, 0]
        ]).to_sparse()
    ], dedicom_decoder)

    assert not _same_data_org(data, data_1)


def test_batcher_01():
    d = Data()
    d.add_vertex_type('Gene', 5)

    d.add_edge_type('Gene-Gene', 0, 0, [
        torch.tensor([
            [0, 1, 0, 1, 0],
            [0, 0, 0, 0, 1],
            [1, 0, 0, 0, 0],
            [0, 0, 1, 0, 0],
            [0, 0, 0, 1, 0]
        ]).to_sparse()
    ], dedicom_decoder)

    b = Batcher(d, batch_size=1)

    visited = set()
    for t in b:
        print(t)
        k = tuple(t.edges[0].tolist())
        visited.add(k)

    assert visited == { (0, 1), (0, 3),
        (1, 4), (2, 0), (3, 2), (4, 3) }


def test_batcher_02():
    d = Data()
    d.add_vertex_type('Gene', 5)

    d.add_edge_type('Gene-Gene', 0, 0, [
        torch.tensor([
            [0, 1, 0, 1, 0],
            [0, 0, 0, 0, 1],
            [1, 0, 0, 0, 0],
            [0, 0, 1, 0, 0],
            [0, 0, 0, 1, 0]
        ]).to_sparse(),

        torch.tensor([
            [0, 0, 1, 0, 1],
            [0, 0, 0, 1, 0],
            [0, 0, 0, 0, 1],
            [0, 1, 0, 0, 0],
            [0, 0, 1, 0, 0]
        ]).to_sparse()
    ], dedicom_decoder)

    b = Batcher(d, batch_size=1)

    visited = set()
    for t in b:
        print(t)
        k = (t.relation_type_index,) + \
            tuple(t.edges[0].tolist())
        visited.add(k)

    assert visited == { (0, 0, 1), (0, 0, 3),
        (0, 1, 4), (0, 2, 0), (0, 3, 2), (0, 4, 3),
        (1, 0, 2), (1, 0, 4), (1, 1, 3), (1, 2, 4),
        (1, 3, 1), (1, 4, 2) }


def test_batcher_03():
    d = Data()
    d.add_vertex_type('Gene', 5)
    d.add_vertex_type('Drug', 4)

    d.add_edge_type('Gene-Gene', 0, 0, [
        torch.tensor([
            [0, 1, 0, 1, 0],
            [0, 0, 0, 0, 1],
            [1, 0, 0, 0, 0],
            [0, 0, 1, 0, 0],
            [0, 0, 0, 1, 0]
        ]).to_sparse(),

        torch.tensor([
            [0, 0, 1, 0, 1],
            [0, 0, 0, 1, 0],
            [0, 0, 0, 0, 1],
            [0, 1, 0, 0, 0],
            [0, 0, 1, 0, 0]
        ]).to_sparse()
    ], dedicom_decoder)

    d.add_edge_type('Gene-Drug', 0, 1, [
        torch.tensor([
            [0, 1, 0, 0],
            [1, 0, 0, 1],
            [0, 1, 0, 0],
            [0, 0, 1, 0],
            [0, 1, 1, 0]
        ]).to_sparse()
    ], dedicom_decoder)

    b = Batcher(d, batch_size=1)

    visited = set()
    for t in b:
        print(t)
        k = (t.vertex_type_row, t.vertex_type_column,
            t.relation_type_index,) + \
                tuple(t.edges[0].tolist())
        visited.add(k)

    assert visited == { (0, 0, 0, 0, 1), (0, 0, 0, 0, 3),
        (0, 0, 0, 1, 4), (0, 0, 0, 2, 0), (0, 0, 0, 3, 2), (0, 0, 0, 4, 3),
        (0, 0, 1, 0, 2), (0, 0, 1, 0, 4), (0, 0, 1, 1, 3), (0, 0, 1, 2, 4),
        (0, 0, 1, 3, 1), (0, 0, 1, 4, 2),
        (0, 1, 0, 0, 1), (0, 1, 0, 1, 0), (0, 1, 0, 1, 3),
        (0, 1, 0, 2, 1), (0, 1, 0, 3, 2), (0, 1, 0, 4, 1),
        (0, 1, 0, 4, 2) }


def test_batcher_04():
    d = Data()
    d.add_vertex_type('Gene', 5)

    d.add_edge_type('Gene-Gene', 0, 0, [
        torch.tensor([
            [0, 1, 0, 1, 0],
            [0, 0, 0, 0, 1],
            [1, 0, 0, 0, 0],
            [0, 0, 1, 0, 0],
            [0, 0, 0, 1, 0]
        ]).to_sparse()
    ], dedicom_decoder)

    b = Batcher(d, batch_size=3)

    visited = set()
    for t in b:
        print(t)
        for e in t.edges:
            k = tuple(e.tolist())
            visited.add(k)

    assert visited == { (0, 1), (0, 3),
        (1, 4), (2, 0), (3, 2), (4, 3) }


def test_batcher_05():
    d = Data()
    d.add_vertex_type('Gene', 5)
    d.add_vertex_type('Drug', 4)

    d.add_edge_type('Gene-Gene', 0, 0, [
        torch.tensor([
            [0, 1, 0, 1, 0],
            [0, 0, 0, 0, 1],
            [1, 0, 0, 0, 0],
            [0, 0, 1, 0, 0],
            [0, 0, 0, 1, 0]
        ]).to_sparse(),

        torch.tensor([
            [0, 0, 1, 0, 1],
            [0, 0, 0, 1, 0],
            [0, 0, 0, 0, 1],
            [0, 1, 0, 0, 0],
            [0, 0, 1, 0, 0]
        ]).to_sparse()
    ], dedicom_decoder)

    d.add_edge_type('Gene-Drug', 0, 1, [
        torch.tensor([
            [0, 1, 0, 0],
            [1, 0, 0, 1],
            [0, 1, 0, 0],
            [0, 0, 1, 0],
            [0, 1, 1, 0]
        ]).to_sparse()
    ], dedicom_decoder)

    b = Batcher(d, batch_size=5)

    visited = set()
    for t in b:
        print(t)
        for e in t.edges:
            k = (t.vertex_type_row, t.vertex_type_column,
                t.relation_type_index,) + \
                    tuple(e.tolist())
            visited.add(k)

    assert visited == { (0, 0, 0, 0, 1), (0, 0, 0, 0, 3),
        (0, 0, 0, 1, 4), (0, 0, 0, 2, 0), (0, 0, 0, 3, 2), (0, 0, 0, 4, 3),
        (0, 0, 1, 0, 2), (0, 0, 1, 0, 4), (0, 0, 1, 1, 3), (0, 0, 1, 2, 4),
        (0, 0, 1, 3, 1), (0, 0, 1, 4, 2),
        (0, 1, 0, 0, 1), (0, 1, 0, 1, 0), (0, 1, 0, 1, 3),
        (0, 1, 0, 2, 1), (0, 1, 0, 3, 2), (0, 1, 0, 4, 1),
        (0, 1, 0, 4, 2) }


def test_dual_batcher_01():
    d = Data()
    d.add_vertex_type('Gene', 5)
    d.add_vertex_type('Drug', 4)

    d.add_edge_type('Gene-Gene', 0, 0, [
        torch.tensor([
            [0, 1, 0, 1, 0],
            [0, 0, 0, 0, 1],
            [1, 0, 0, 0, 0],
            [0, 0, 1, 0, 0],
            [0, 0, 0, 1, 0]
        ]).to_sparse(),

        torch.tensor([
            [0, 0, 1, 0, 1],
            [0, 0, 0, 1, 0],
            [0, 0, 0, 0, 1],
            [0, 1, 0, 0, 0],
            [0, 0, 1, 0, 0]
        ]).to_sparse()
    ], dedicom_decoder)

    d.add_edge_type('Gene-Drug', 0, 1, [
        torch.tensor([
            [0, 1, 0, 0],
            [1, 0, 0, 1],
            [0, 1, 0, 0],
            [0, 0, 1, 0],
            [0, 1, 1, 0]
        ]).to_sparse()
    ], dedicom_decoder)

    b = DualBatcher(d, d, batch_size=5)

    visited_pos = set()
    visited_neg = set()
    for t_pos, t_neg in b:
        assert t_pos.vertex_type_row == t_neg.vertex_type_row
        assert t_pos.vertex_type_column == t_neg.vertex_type_column
        assert t_pos.relation_type_index == t_neg.relation_type_index
        assert len(t_pos.edges) == len(t_neg.edges)

        for e in t_pos.edges:
            k = (t_pos.vertex_type_row, t_pos.vertex_type_column,
                t_pos.relation_type_index,) + \
                    tuple(e.tolist())
            visited_pos.add(k)

        for e in t_neg.edges:
            k = (t_neg.vertex_type_row, t_neg.vertex_type_column,
                t_neg.relation_type_index,) + \
                    tuple(e.tolist())
            visited_neg.add(k)

    expected = { (0, 0, 0, 0, 1), (0, 0, 0, 0, 3),
        (0, 0, 0, 1, 4), (0, 0, 0, 2, 0), (0, 0, 0, 3, 2), (0, 0, 0, 4, 3),
        (0, 0, 1, 0, 2), (0, 0, 1, 0, 4), (0, 0, 1, 1, 3), (0, 0, 1, 2, 4),
        (0, 0, 1, 3, 1), (0, 0, 1, 4, 2),
        (0, 1, 0, 0, 1), (0, 1, 0, 1, 0), (0, 1, 0, 1, 3),
        (0, 1, 0, 2, 1), (0, 1, 0, 3, 2), (0, 1, 0, 4, 1),
        (0, 1, 0, 4, 2) }

    assert visited_pos == expected
    assert visited_neg == expected