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"""Tests for gn3/db/traits.py"""
from unittest import mock, TestCase
from gn3.db.traits import (
    retrieve_trait_info,
    retrieve_geno_trait_info,
    retrieve_temp_trait_info,
    retrieve_trait_dataset_name,
    retrieve_publish_trait_info,
    retrieve_probeset_trait_info,
    update_sample_data)

class TestTraitsDBFunctions(TestCase):
    "Test cases for traits functions"

    def test_retrieve_trait_dataset_name(self):
        """Test that the function is called correctly."""
        for trait_type, thresh, trait_dataset_name, columns in [
                ["ProbeSet", 9, "testName",
                 "Id, Name, FullName, ShortName, DataScale"],
                ["Geno", 3, "genoTraitName", "Id, Name, FullName, ShortName"],
                ["Publish", 6, "publishTraitName",
                 "Id, Name, FullName, ShortName"],
                ["Temp", 4, "tempTraitName", "Id, Name, FullName, ShortName"]]:
            db_mock = mock.MagicMock()
            with self.subTest(trait_type=trait_type):
                with db_mock.cursor() as cursor:
                    cursor.fetchone.return_value = (
                        "testName", "testNameFull", "testNameShort",
                        "dataScale")
                    self.assertEqual(
                        retrieve_trait_dataset_name(
                            trait_type, thresh, trait_dataset_name, db_mock),
                        ("testName", "testNameFull", "testNameShort",
                         "dataScale"))
                    cursor.execute.assert_called_once_with(
                        "SELECT {cols} "
                        "FROM {ttype}Freeze "
                        "WHERE public > %(threshold)s AND "
                        "(Name = %(name)s OR FullName = %(name)s OR ShortName = %(name)s)".format(
                            cols=columns, ttype=trait_type),
                        {"threshold": thresh, "name": trait_dataset_name})

    def test_retrieve_publish_trait_info(self):
        """Test retrieval of type `Publish` traits."""
        db_mock = mock.MagicMock()
        with db_mock.cursor() as cursor:
            cursor.fetchone.return_value = tuple()
            trait_source = {
                "trait_name": "PublishTraitName", "trait_dataset_id": 1}
            self.assertEqual(
                retrieve_publish_trait_info(trait_source, db_mock), {})
            cursor.execute.assert_called_once_with(
                ("SELECT "
                 "PublishXRef.Id, Publication.PubMed_ID,"
                 " Phenotype.Pre_publication_description,"
                 " Phenotype.Post_publication_description,"
                 " Phenotype.Original_description,"
                 " Phenotype.Pre_publication_abbreviation,"
                 " Phenotype.Post_publication_abbreviation,"
                 " Phenotype.Lab_code, Phenotype.Submitter, Phenotype.Owner,"
                 " Phenotype.Authorized_Users,"
                 " CAST(Publication.Authors AS BINARY),"
                 " Publication.Title, Publication.Abstract,"
                 " Publication.Journal,"
                 " Publication.Volume, Publication.Pages, Publication.Month,"
                 " Publication.Year, PublishXRef.Sequence, Phenotype.Units,"
                 " PublishXRef.comments"
                 " FROM"
                 " PublishXRef, Publication, Phenotype, PublishFreeze"
                 " WHERE"
                 " PublishXRef.Id = %(trait_name)s "
                 " AND Phenotype.Id = PublishXRef.PhenotypeId"
                 " AND Publication.Id = PublishXRef.PublicationId"
                 " AND PublishXRef.InbredSetId = PublishFreeze.InbredSetId"
                 " AND PublishFreeze.Id =%(trait_dataset_id)s"),
                trait_source)

    def test_retrieve_probeset_trait_info(self):
        """Test retrieval of type `Probeset` traits."""
        db_mock = mock.MagicMock()
        with db_mock.cursor() as cursor:
            cursor.fetchone.return_value = tuple()
            trait_source = {
                "trait_name": "ProbeSetTraitName",
                "trait_dataset_name": "ProbeSetDatasetTraitName"}
            self.assertEqual(
                retrieve_probeset_trait_info(trait_source, db_mock), {})
            cursor.execute.assert_called_once_with(
                (
                    "SELECT "
                    "ProbeSet.name, ProbeSet.symbol, ProbeSet.description, "
                    "ProbeSet.probe_target_description, ProbeSet.chr, "
                    "ProbeSet.mb, ProbeSet.alias, ProbeSet.geneid, "
                    "ProbeSet.genbankid, ProbeSet.unigeneid, ProbeSet.omim, "
                    "ProbeSet.refseq_transcriptid, ProbeSet.blatseq, "
                    "ProbeSet.targetseq, ProbeSet.chipid, ProbeSet.comments, "
                    "ProbeSet.strand_probe, ProbeSet.strand_gene, "
                    "ProbeSet.probe_set_target_region, ProbeSet.proteinid, "
                    "ProbeSet.probe_set_specificity, "
                    "ProbeSet.probe_set_blat_score, "
                    "ProbeSet.probe_set_blat_mb_start, "
                    "ProbeSet.probe_set_blat_mb_end, "
                    "ProbeSet.probe_set_strand, ProbeSet.probe_set_note_by_rw, "
                    "ProbeSet.flag "
                    "FROM "
                    "ProbeSet, ProbeSetFreeze, ProbeSetXRef "
                    "WHERE "
                    "ProbeSetXRef.ProbeSetFreezeId = ProbeSetFreeze.Id "
                    "AND ProbeSetXRef.ProbeSetId = ProbeSet.Id "
                    "AND ProbeSetFreeze.Name = %(trait_dataset_name)s "
                    "AND ProbeSet.Name = %(trait_name)s"), trait_source)

    def test_retrieve_geno_trait_info(self):
        """Test retrieval of type `Geno` traits."""
        db_mock = mock.MagicMock()
        with db_mock.cursor() as cursor:
            cursor.fetchone.return_value = tuple()
            trait_source = {
                "trait_name": "GenoTraitName",
                "trait_dataset_name": "GenoDatasetTraitName"}
            self.assertEqual(
                retrieve_geno_trait_info(trait_source, db_mock), {})
            cursor.execute.assert_called_once_with(
                (
                    "SELECT "
                    "Geno.name, Geno.chr, Geno.mb, Geno.source2, Geno.sequence "
                    "FROM "
                    "Geno, GenoFreeze, GenoXRef "
                    "WHERE "
                    "GenoXRef.GenoFreezeId = GenoFreeze.Id "
                    "AND GenoXRef.GenoId = Geno.Id "
                    "AND GenoFreeze.Name = %(trait_dataset_name)s "
                    "AND Geno.Name = %(trait_name)s"),
                trait_source)

    def test_retrieve_temp_trait_info(self):
        """Test retrieval of type `Temp` traits."""
        db_mock = mock.MagicMock()
        with db_mock.cursor() as cursor:
            cursor.fetchone.return_value = tuple()
            trait_source = {"trait_name": "TempTraitName"}
            self.assertEqual(
                retrieve_temp_trait_info(trait_source, db_mock), {})
            cursor.execute.assert_called_once_with(
                "SELECT name, description FROM Temp WHERE Name = %(trait_name)s",
                trait_source)

    def test_retrieve_trait_info(self):
        """Test that information on traits is retrieved as appropriate."""
        for trait_type, trait_name, trait_dataset_id, trait_dataset_name, in [
                ["Publish", "PublishTraitName", 1, "PublishDatasetTraitName"],
                ["ProbeSet", "ProbeSetTraitName", 2, "ProbeSetDatasetTraitName"],
                ["Geno", "GenoTraitName", 3, "GenoDatasetTraitName"],
                ["Temp", "TempTraitName", 4, "TempDatasetTraitName"]]:
            db_mock = mock.MagicMock()
            with self.subTest(trait_type=trait_type):
                with db_mock.cursor() as cursor:
                    cursor.fetchone.return_value = tuple()
                    self.assertEqual(
                        retrieve_trait_info(
                            trait_type, trait_name, trait_dataset_id,
                            trait_dataset_name, db_mock),
                        {})

    def test_update_sample_data(self):
        """Test that the SQL queries when calling update_sample_data are called with
        the right calls.

        """
        db_mock = mock.MagicMock()

        STRAIN_ID_SQL: str = "UPDATE Strain SET Name = %s WHERE Id = %s"
        PUBLISH_DATA_SQL: str = ("UPDATE PublishData SET value = %s "
                                 "WHERE StrainId = %s AND Id = %s")
        PUBLISH_SE_SQL: str = ("UPDATE PublishSE SET error = %s "
                               "WHERE StrainId = %s AND DataId = %s")
        N_STRAIN_SQL: str = ("UPDATE NStrain SET count = %s "
                             "WHERE StrainId = %s AND DataId = %s")

        with db_mock.cursor() as cursor:
            type(cursor).rowcount = 1
            self.assertEqual(update_sample_data(
                conn=db_mock, strain_name="BXD11",
                strain_id=10, publish_data_id=8967049,
                value=18.7, error=2.3, count=2),
                             (1, 1, 1, 1))
            cursor.execute.assert_has_calls(
                [mock.call(STRAIN_ID_SQL, ('BXD11', 10)),
                 mock.call(PUBLISH_DATA_SQL, (18.7, 10, 8967049)),
                 mock.call(PUBLISH_SE_SQL, (2.3, 10, 8967049)),
                 mock.call(N_STRAIN_SQL, (2, 10, 8967049))]
            )