"""Module contains tests for gn3.heatmaps.heatmaps"""
from unittest import TestCase

from numpy import allclose

from gn3.heatmaps import (
    cluster_traits,
    get_loci_names,
    get_lrs_from_chr,
    compute_traits_order,
    retrieve_samples_and_values,
    process_traits_data_for_heatmap)
from tests.unit.sample_test_data import organised_trait_1, organised_trait_2

samplelist = ["B6cC3-1", "BXD1", "BXD12", "BXD16", "BXD19", "BXD2"]

slinked = (
    (((0, 2, 0.16381088984330505),
      ((1, 7, 0.06024619831474998), 5, 0.19179284676938602),
      0.20337048635536847),
     9,
     0.23451785425383564),
    ((3, (6, 8, 0.2140799896286565), 0.25879514152086425),
     4, 0.8968250491499363),
    0.9313185954797953)

class TestHeatmap(TestCase):
    """Class for testing heatmap computation functions"""

    def test_cluster_traits(self):
        """
        Test that the clustering is working as expected.
        """
        traits_data_list = [
            (7.51879, 7.77141, 8.39265, 8.17443, 8.30401, 7.80944),
            (6.1427, 6.50588, 7.73705, 6.68328, 7.49293, 7.27398),
            (8.4211, 8.30581, 9.24076, 8.51173, 9.18455, 8.36077),
            (10.0904, 10.6509, 9.36716, 9.91202, 8.57444, 10.5731),
            (10.188, 9.76652, 9.54813, 9.05074, 9.52319, 9.10505),
            (6.74676, 7.01029, 7.54169, 6.48574, 7.01427, 7.26815),
            (6.39359, 6.85321, 5.78337, 7.11141, 6.22101, 6.16544),
            (6.84118, 7.08432, 7.59844, 7.08229, 7.26774, 7.24991),
            (9.45215, 10.6943, 8.64719, 10.1592, 7.75044, 8.78615),
            (7.04737, 6.87185, 7.58586, 6.92456, 6.84243, 7.36913)]
        self.assertTrue(allclose(
            cluster_traits(traits_data_list),
            ((0.0, 0.20337048635536847, 0.16381088984330505, 1.7388553629398245,
              1.5025235756329178, 0.6952839500255574, 1.271661230252733,
              0.2100487290977544, 1.4699690641062024, 0.7934461515867415),
             (0.20337048635536847, 0.0, 0.2198321044997198, 1.5753041735592204,
              1.4815755944537086, 0.26087293140686374, 1.6939790104301427,
              0.06024619831474998, 1.7430082449189215, 0.4497104244247795),
             (0.16381088984330505, 0.2198321044997198, 0.0, 1.9073926868549234,
              1.0396738891139845, 0.5278328671176757, 1.6275069061182947,
              0.2636503792482082, 1.739617877037615, 0.7127042590637039),
             (1.7388553629398245, 1.5753041735592204, 1.9073926868549234, 0.0,
              0.9936846292920328, 1.1169999189889366, 0.6007483980555253,
              1.430209221053372, 0.25879514152086425, 0.9313185954797953),
             (1.5025235756329178, 1.4815755944537086, 1.0396738891139845,
              0.9936846292920328, 0.0, 1.027827186339337, 1.1441743109173244,
              1.4122477962364253, 0.8968250491499363, 1.1683723389247052),
             (0.6952839500255574, 0.26087293140686374, 0.5278328671176757,
              1.1169999189889366, 1.027827186339337, 0.0, 1.8420471110023269,
              0.19179284676938602, 1.4875072385631605, 0.23451785425383564),
             (1.271661230252733, 1.6939790104301427, 1.6275069061182947,
              0.6007483980555253, 1.1441743109173244, 1.8420471110023269, 0.0,
              1.6540234785929928, 0.2140799896286565, 1.7413442197913358),
             (0.2100487290977544, 0.06024619831474998, 0.2636503792482082,
              1.430209221053372, 1.4122477962364253, 0.19179284676938602,
              1.6540234785929928, 0.0, 1.5225640692832796, 0.33370067057028485),
             (1.4699690641062024, 1.7430082449189215, 1.739617877037615,
              0.25879514152086425, 0.8968250491499363, 1.4875072385631605,
              0.2140799896286565, 1.5225640692832796, 0.0, 1.3256191648260216),
             (0.7934461515867415, 0.4497104244247795, 0.7127042590637039,
              0.9313185954797953, 1.1683723389247052, 0.23451785425383564,
              1.7413442197913358, 0.33370067057028485, 1.3256191648260216,
              0.0))))

    def test_compute_heatmap_order(self):
        """Test the orders."""
        self.assertEqual(
            compute_traits_order(slinked), (0, 2, 1, 7, 5, 9, 3, 6, 8, 4))

    def test_retrieve_samples_and_values(self):
        """Test retrieval of samples and values."""
        for orders, slist, tdata, expected in [
                [
                    [2],
                    ["s1", "s2", "s3", "s4"],
                    [[2, 9, 6, None, 4],
                     [7, 5, None, None, 4],
                     [9, None, 5, 4, 7],
                     [6, None, None, 4, None]],
                    [[2, ["s1", "s3", "s4"], [9, 5, 4]]]
                ],
                [
                    [3],
                    ["s1", "s2", "s3", "s4", "s5"],
                    [[2, 9, 6, None, 4],
                     [7, 5, None, None, 4],
                     [9, None, 5, 4, 7],
                     [6, None, None, 4, None]],
                    [[3, ["s1", "s4"], [6, 4]]]
                ]]:
            with self.subTest(samplelist=slist, traitdata=tdata):
                self.assertEqual(
                    retrieve_samples_and_values(orders, slist, tdata), expected)

    def test_get_lrs_from_chr(self):
        """Check that function gets correct LRS values"""
        for trait, chromosome, expected in [
                [{"chromosomes": {}}, 3, [None]],
                [{"chromosomes": {3: {"loci": [
                    {"Locus": "b", "LRS": 1.9},
                    {"Locus": "a", "LRS": 13.2},
                    {"Locus": "d", "LRS": 53.21},
                    {"Locus": "c", "LRS": 2.22}]}}},
                 3,
                 [13.2, 1.9, 2.22, 53.21]]]:
            with self.subTest(trait=trait, chromosome=chromosome):
                self.assertEqual(get_lrs_from_chr(trait, chromosome), expected)

    def test_process_traits_data_for_heatmap(self):
        """Check for correct processing of data for heatmap generation."""
        self.assertEqual(
            process_traits_data_for_heatmap(
                {**organised_trait_1, **organised_trait_2},
                ["2", "1"],
                [1, 2]),
            [[[0.5, 0.5, 0.5, 0.5, 0.5, 0.5, 0.5],
              [0.5, 0.5, 0.5, 0.5, 0.5, 0.5, 0.5]],
             [[0.5, 0.579, 0.5],
              [0.5, 0.5, 0.5]]])

    def test_get_loci_names(self):
        """Check that loci names are retrieved correctly."""
        for organised, expected in (
                (organised_trait_1,
                 (("rs258367496", "rs30658298", "rs31443144", "rs32285189",
                   "rs32430919", "rs36251697", "rs6269442"),
                  ("rs31879829", "rs36742481", "rs51852623"))),
                ({**organised_trait_1, **organised_trait_2},
                 (("rs258367496", "rs30658298", "rs31443144", "rs32285189",
                   "rs32430919", "rs36251697", "rs6269442"),
                  ("rs31879829", "rs36742481", "rs51852623")))):
            with self.subTest(organised=organised):
                self.assertEqual(get_loci_names(organised, (1, 2)), expected)