def setUp(self):
self.handler = self.cls()
test(self.cls)
test(self.cls.__init__)
try:
notest(self.cls.is_file_valid)
except AttributeError:
pass
python -m unittest [-v] config_test
"""
import syntax_check
from syntax_check import notest, testing, randomword, expando
import unittest
import random
import pydesc.config as config
syntax_check.module = config
TestSyntax = syntax_check.module_syntax()
notest(config.ConfigManager.show_config)
# pylint: disable=C0111
class BasicTests(unittest.TestCase):
@testing(config.Param)
@testing(config.Param.__init__)
def test_param_init(self):
name = randomword(8)
val = expando()
par = config.Param(name, val)
self.assertEqual((name, val, None),
(par.name, par.value, par.default_value))
from syntax_check import notest, testing
import Bio.PDB
import warnings
import pydesc.structure as structure
import pydesc.numberconverter as numberconverter
import pydesc.geometry as geometry
import pydesc.cydesc as cydesc
import pydesc.cydesc.overfit as overfit
import tests
syntax_check.module = overfit
notest(overfit.c_float_4)
notest(overfit.Overfit.token_context)
data_dir = tests.__path__[0] + '/data/test_structures/'
skip_slow = False
fast = False
TestSyntax = syntax_check.module_syntax()
# pylint: disable=C0111, R0201, R0912
def assert_sums_equal(self, sums1, sums2):
for field_name, field_type in overfit.t_overfit_sums._fields_:
if field_type is overfit.c_float_4:
test(contacts.DihedralAngleCriterion.is_in_contact)
test(contacts.HorizontalBisectorDistanceCriterion)
test(contacts.HorizontalBisectorDistanceCriterion.__init__)
test(contacts.HorizontalBisectorDistanceCriterion.is_in_contact)
test(contacts.PointsDistanceCriterion)
test(contacts.PointsDistanceCriterion.__init__)
test(contacts.SetDistanceCriterion)
test(contacts.SetDistanceCriterion.__init__)
test(contacts.SetDistanceCriterion.is_in_contact)
test(contacts.VerticalBisectorDistanceCriterion)
test(contacts.VerticalBisectorDistanceCriterion.__init__)
test(contacts.VerticalBisectorDistanceCriterion.is_in_contact)
test(contacts.CombinedContact)
test(contacts.CombinedContact.__init__)
notest(contacts.ContactsExclusiveDisjunction)
#~ notest(contacts.ContactMap)
data_dir = tests.__path__[0] + '/data/test_structures/'
# pylint: disable=C0111,R0912
def make_contactbasictest(strname, crit_cls):
"""Create and return a ContactBasicTest testcase for a given structure and contact criterion. """
@testing(crit_cls)
@test_name_append(crit_cls, strname)
class ContactBasicTest(unittest.TestCase):
name = strname
from syntax_check import notest, test import unittest import os import itertools from collections import defaultdict import pydesc.dbhandler as dbhandler from pydesc.config import ConfigManager import tests syntax_check.module = dbhandler TestSyntax = syntax_check.module_syntax() notest(dbhandler.add_db_dir) notest(dbhandler.validate_id) notest(dbhandler.InvalidID) notest(dbhandler.DBHandler) data_dir = tests.__path__[0] + '/data/dbtest/' fast = False fast = True # pylint: disable=C0111 class HandlerTestMixin(object):
import Bio.PDB
import warnings
import pydesc.selection as selection
import pydesc.structure as structure
import pydesc.numberconverter as numberconverter
import tests
import operator
#TO
syntax_check.module = selection
notest(selection.Selection)
fast = False
#~ fast = True
TestSyntax = syntax_check.module_syntax()
notest(selection.Selection.distinguish_chains)
# pylint: disable=C0111,R0912
random_generators = {}
data_dir = tests.__path__[0] + '/data/test_structures/'
ConfigManager.warnings_and_exceptions.class_filters.set(
"MonomerCreationFailed", "always")
ConfigManager.warnings_and_exceptions.class_filters.set(
"NoConfiguration", "always")
ConfigManager.warnings_and_exceptions.class_filters.set(
"UnknownParticleName", "always")
ConfigManager.warnings_and_exceptions.class_filters.set(
"UserWarning", "always")
ConfigManager.warnings_and_exceptions.class_filters.set(
"WrongMonomerType", "always")
syntax_check.module = warnexcept
TestSyntax = syntax_check.module_syntax()
notest(warnexcept.DiscontinuityError)
notest(warnexcept.IncompleteParticle)
notest(warnexcept.WrongAtomDistances)
notest(warnexcept.WrongMonomerType)
notest(warnexcept.CannotCalculateContact)
@testing(warnexcept.WarnManager)
class WarnManagerTest(unittest.TestCase):
@testing(warnexcept.WarnManager.__init__)
@classmethod
def setUpClass(cls):
cls.wm = warnexcept.WarnManager('obj_1')
@testing(warnexcept.WarnManager.__enter__)
@testing(warnexcept.WarnManager.__exit__)
config.ConfigManager.warnings_and_exceptions.class_filters.set(
"NoConfiguration", "ignore")
config.ConfigManager.warnings_and_exceptions.class_filters.set(
"LocalCopyAccess", "ignore")
config.ConfigManager.warnings_and_exceptions.class_filters.set(
"Info", "ignore")
config.ConfigManager.warnings_and_exceptions.class_filters.set(
"UnknownParticleName", "ignore")
config.ConfigManager.warnings_and_exceptions.class_filters.set(
"IncompleteChainableParticle", "ignore")
warnexcept.set_filters()
syntax_check.module = structure
notest(structure.AbstractStructure.rotate)
notest(structure.AbstractStructure.translate)
notest(structure.AbstractStructure.monomers)
notest(structure.Chain)
notest(structure.Contact.get_other_element)
notest(structure.AbstractDescriptor.create_coord_vector)
notest(structure.AbstractDescriptor.create_descriptors)
data_dir = tests.__path__[0] + '/data/test_structures/'
dcd_data_dir = tests.__path__[0] + '/data/dcd/'
skip_slow = False
fast = False
from pydesc.warnexcept import IncompleteChainableParticle as IncompleteChainableParticle
config.ConfigManager.warnings_and_exceptions.class_filters.set(
"UnknownParticleName", "ignore")
config.ConfigManager.warnings_and_exceptions.class_filters.set(
"IncompleteChainableParticle", "ignore")
fast = False
fast = True
syntax_check.module = monomer
TestSyntax = syntax_check.module_syntax()
notest(monomer.Atom.__iter__)
#notest(monomer.Atom.__getattr__)
#notest(monomer.Atom.__setattr__)
notest(monomer.Monomer.get_pdb_id)
notest(monomer.MonomerChainable.next_monomer)
notest(monomer.MonomerChainable.previous_monomer)
notest(monomer.Monomer.is_next)
notest(monomer.Monomer.is_prev)
notest(monomer.Monomer.get_representation)
notest(monomer.MonomerChainable.__metaclass__)
notest(monomer.MonomerChainable.__metaclass__.__call__)
notest(monomer.MonomerOther.__metaclass__)
notest(monomer.MonomerOther.__metaclass__.__call__)