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How to use test_presenter method in SeleniumBase

Best Python code snippet using SeleniumBase

test_presenter.py

Source:test_presenter.py

1import unittest2from .read import Read3from .alignment import Alignment4from .reference import Reference5from .presenter import Presenter6class TestPresenter(unittest.TestCase):7    def create_aligned_pairs(self, read_sequence, reference_positions):8        return tuple(zip(range(len(read_sequence)), reference_positions))9    def create_test_reference(self, name):10        self.n20 = "aaaatttc"11        self.sequence = "tactactacaaaatttccggt"12        self.pam = "ngg"13        reference_positions_a = [8, None, None, None, 9, 10, 11, None, None, None, None, 12, 13, 14]14        seq_a = "ctttaaattttatt"15        read_a = Read("a", reference_positions_a, seq_a, self.create_aligned_pairs(seq_a, reference_positions_a))16        reference_positions_b = [10, 15]17        seq_b = "at"18        read_b = Read("b", reference_positions_b, seq_b, ((0,10),(None, 11), (None, 12), (None, 13), (None, 14), (1, 15)))19        reference_positions_c = [10, 11, 12, 13, 14]20        seq_c = "aaatt"21        read_c = Read("c", reference_positions_c, seq_a, self.create_aligned_pairs(seq_c, reference_positions_c))22        reference_positions_d = [6, 7, 8, 9, 10, 11, 12, 13, None, None, None, None, 14]23        seq_d = "tacaaaattggggt"24        read_d = Read("d", reference_positions_d, seq_d, self.create_aligned_pairs(seq_d, reference_positions_d))25        reference_positions_e = [18, 20]26        seq_e = "gt"27        read_e = Read("e", reference_positions_e, seq_e, ((0,18),(None, 19),(1,20)))28        reference_positions_f = [None, None, None, 0, 1, 2]29        seq_f = "gggtac"30        read_f = Read("f", reference_positions_f, seq_f, self.create_aligned_pairs(seq_f, reference_positions_f))31        reads = [read_a, read_b, read_c, read_d, read_e, read_f]32        return Reference(name, self.n20, self.sequence, self.pam, reads)33    def test_reference_presenter_results(self):34        references = [self.create_test_reference("foo"), self.create_test_reference("bar")]35        test_presenter = Presenter(references)36        results = test_presenter.present()37        self.assertEqual(len(results), 2)38        self.assertEqual(results[0].sequence(), self.sequence.upper())39        self.assertEqual(results[0].n20(), self.n20.upper())40        self.assertEqual(results[0].pam(), self.pam.upper())41        self.assertEqual(results[0].name(), "foo")42        self.assertEqual(len(results[0].mutation_clusters), 1)43        self.assertEqual(results[0].total_reads(), 6)44        self.assertEqual(results[1].sequence(), self.sequence.upper())45        self.assertEqual(results[1].n20(), self.n20.upper())46        self.assertEqual(results[1].pam(), self.pam.upper())47        self.assertEqual(results[1].name(), "bar")48        self.assertEqual(len(results[1].mutation_clusters), 1)49        self.assertEqual(results[1].total_reads(), 6)50    def test_cluster_results(self):51        references = [self.create_test_reference("foo")]52        test_presenter = Presenter(references)53        results = test_presenter.present()54        mutation_clusters = results[0].mutation_clusters55        self.assertEqual(mutation_clusters[0].count(), 1)56        expected = [('A___||_T', 'A___||_T', 'AAAT||TT')]57        actual = []58        for cluster in mutation_clusters:59            got = (cluster.cas9_region.read, cluster.alignments[0].read, cluster.alignments[0].reference)60            actual.append(got)...

ringmaster_test_support.py

Source:ringmaster_test_support.py

1"""Test support code for testing Ringmasters."""2from collections import defaultdict3from cStringIO import StringIO4from gomill import ringmasters5from gomill import ringmaster_presenters6class Test_presenter(ringmaster_presenters.Presenter):7    """Presenter which stores the messages."""8    def __init__(self):9        ringmaster_presenters.Presenter.__init__(self)10        self.channels = defaultdict(list)11    shows_warnings_only = False12    def clear(self, channel):13        self.channels[channel] = []14    def say(self, channel, s):15        self.channels[channel].append(s)16    def refresh(self):17        pass18    def recent_messages(self, channel):19        """Retrieve messages sent since the channel was last cleared.20        Returns a list of strings.21        """22        return self.channels[channel][:]23class Testing_ringmaster(ringmasters.Ringmaster):24    """Variant of ringmaster suitable for use in tests.25    This doesn't read from or write to the filesystem.26    (If you're testing run(), make sure record_games is False, and either27    stderr_to_log is False, or else discard_stderr is True for each player.)28    (Currently, write_status is made to do nothing, so it's not usefully29    testable.)30    Instantiate with the control file contents as an 8-bit string.31    It will act as if the control file had been loaded from32    /nonexistent/ctl/test.ctl.33    You'll want to run set_display_mode('test') with this.34    """35    def __init__(self, control_file_contents):36        self._control_file_contents = control_file_contents37        self._test_status = None38        self._written_status = None39        ringmasters.Ringmaster.__init__(self, '/nonexistent/ctl/test.ctl')40        self.set_stdout(StringIO())41    _presenter_classes = {42        'test' : Test_presenter,43        }44    def _open_files(self):45        self.logfile = StringIO()46        self.historyfile = StringIO()47    def _close_files(self):48        # Don't want to close the StringIOs49        pass50    def _read_control_file(self):51        return self._control_file_contents52    def set_test_status(self, test_status):53        """Specify the value that will be loaded from the state file.54        test_status -- fake state file contents55        test_status should be a pair (status_format_version, status dict)56        """57        self._test_status = test_status58    def _load_status(self):59        return self._test_status60    def status_file_exists(self):61        return (self._test_status is not None)62    def _write_status(self, value):63        self._written_status = value64    def retrieve_printed_output(self):...

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