comparison env/lib/python3.7/site-packages/prov/tests/test_extras.py @ 0:26e78fe6e8c4 draft

"planemo upload commit c699937486c35866861690329de38ec1a5d9f783"

0:26e78fe6e8c4

from __future__ import (absolute_import, division, print_function,
                        unicode_literals)

import io
import unittest

from prov.model import *
from prov.dot import prov_to_dot
from prov.serializers import Registry
from prov.tests.examples import primer_example, primer_example_alternate


EX_NS = Namespace('ex', 'http://example.org/')
EX2_NS = Namespace('ex2', 'http://example2.org/')
EX_OTHER_NS = Namespace('other', 'http://exceptions.example.org/')


def add_label(record):
    record.add_attributes(
        [('prov:label', Literal("hello"))]
    )


def add_labels(record):
    record.add_attributes([
        ('prov:label', Literal("hello")),
        ('prov:label', Literal("bye", langtag="en")),
        ('prov:label', Literal("bonjour", langtag="fr"))
    ])


def add_types(record):
    record.add_attributes([
        ('prov:type', 'a'),
        ('prov:type', 1),
        ('prov:type', 1.0),
        ('prov:type', True),
        ('prov:type', EX_NS['abc']),
        ('prov:type', datetime.datetime.now()),
        ('prov:type', Literal('http://boiled-egg.example.com',
                              datatype=XSD_ANYURI)),
    ])


def add_locations(record):
    record.add_attributes([
        ('prov:Location', "Southampton"),
        ('prov:Location', 1),
        ('prov:Location', 1.0),
        ('prov:Location', True),
        ('prov:Location', EX_NS['london']),
        ('prov:Location', datetime.datetime.now()),
        ('prov:Location', EX_NS.uri + "london"),
        ('prov:Location', Literal(2002, datatype=XSD['gYear'])),
    ])


def add_value(record):
    record.add_attributes([
        ('prov:value', EX_NS['avalue'])
    ])


def add_further_attributes(record):
    record.add_attributes([
        (EX_NS['tag1'], "hello"),
        (EX_NS['tag2'], "bye"),
        (EX2_NS['tag3'], "hi"),
        (EX_NS['tag1'], "hello\nover\nmore\nlines"),
    ])


def add_further_attributes0(record):
    record.add_attributes([
        (EX_NS['tag1'], "hello"),
        (EX_NS['tag2'], "bye"),
        (EX_NS['tag2'], Literal("hola", langtag="es")),
        (EX2_NS['tag3'], "hi"),
        (EX_NS['tag'], 1),
        # long on python 2, int on python 3
        (EX_NS['tag'], six.integer_types[-1](1)),
        (EX_NS['tag'], Literal(1, datatype=XSD_SHORT)),
        (EX_NS['tag'], Literal(1, datatype=XSD_DOUBLE)),
        (EX_NS['tag'], 1.0),
        (EX_NS['tag'], True),
        (EX_NS['tag'], EX_NS.uri + "southampton"),
    ])

    add_further_attributes_with_qnames(record)


def add_further_attributes_with_qnames(record):
    record.add_attributes([
        (EX_NS['tag'], EX2_NS['newyork']),
        (EX_NS['tag'], EX_NS['london']),
    ])


class TestExtras(unittest.TestCase):
    def test_dot(self):
        # This is naive, since we can't programatically check the output is
        # correct
        document = ProvDocument()

        bundle1 = ProvBundle(identifier=EX_NS['bundle1'])
        bundle1.usage(
            activity=EX_NS['a1'], entity=EX_NS['e1'], identifier=EX_NS['use1']
        )
        bundle1.entity(
            identifier=EX_NS['e1'], other_attributes={PROV_ROLE: "sausage"}
        )
        bundle1.activity(identifier=EX_NS['a1'])
        document.activity(EX_NS['a2'])

        bundle2 = ProvBundle(identifier=EX_NS['bundle2'])
        bundle2.usage(
            activity=EX_NS['aa1'], entity=EX_NS['ee1'],
            identifier=EX_NS['use2']
        )
        bundle2.entity(identifier=EX_NS['ee1'])
        bundle2.activity(identifier=EX_NS['aa1'])

        document.add_bundle(bundle1)
        document.add_bundle(bundle2)
        prov_to_dot(document)

    def test_extra_attributes(self):

        document = ProvDocument()

        inf = document.influence(
            EX_NS['a2'], EX_NS['a1'], identifier=EX_NS['inf7']
        )
        add_labels(inf)
        add_types(inf)
        add_further_attributes(inf)

        self.assertEqual(
            len(inf.attributes),
            len(list(inf.formal_attributes) + inf.extra_attributes)
        )

    def test_serialize_to_path(self):
        document = ProvDocument()
        document.serialize("output.json")
        os.remove('output.json')

        document.serialize("http://netloc/outputmyprov/submit.php")

    def test_bundle_no_id(self):
        document = ProvDocument()

        def test():
            bundle = ProvBundle()
            document.add_bundle(bundle)

        self.assertRaises(ProvException, test)

    def test_use_set_time_helpers(self):
        dt = datetime.datetime.now()
        document1 = ProvDocument()
        document1.activity(EX_NS['a8'], startTime=dt, endTime=dt)

        document2 = ProvDocument()
        a = document2.activity(EX_NS['a8'])
        a.set_time(startTime=dt, endTime=dt)

        self.assertEqual(document1, document2)
        self.assertEqual(a.get_startTime(), dt)
        self.assertEqual(a.get_endTime(), dt)

    def test_bundle_add_garbage(self):
        document = ProvDocument()

        def test():
            document.add_bundle(
                document.entity(EX_NS['entity_trying_to_be_a_bundle'])
            )

        self.assertRaises(ProvException, test)

        def test():
            bundle = ProvBundle()
            document.add_bundle(bundle)

        self.assertRaises(ProvException, test)

    def test_bundle_equality_garbage(self):
        document = ProvBundle()
        self.assertNotEqual(document, 1)

    def test_bundle_is_bundle(self):
        document = ProvBundle()
        self.assertTrue(document.is_bundle())

    def test_bundle_get_record_by_id(self):
        document = ProvDocument()
        self.assertEqual(document.get_record(None), None)

        # record = document.entity(identifier=EX_NS['e1'])
        # self.assertEqual(document.get_record(EX_NS['e1']), record)
        #
        # bundle = document.bundle(EX_NS['b'])
        # self.assertEqual(bundle.get_record(EX_NS['e1']), record)

    def test_bundle_get_records(self):
        document = ProvDocument()

        document.entity(identifier=EX_NS['e1'])
        document.agent(identifier=EX_NS['e1'])
        self.assertEqual(len(list(document.get_records(ProvAgent))), 1)
        self.assertEqual(len(document.get_records()), 2)

    def test_bundle_name_clash(self):
        document = ProvDocument()

        def test():
            document.bundle(EX_NS['indistinct'])
            document.bundle(EX_NS['indistinct'])

        self.assertRaises(ProvException, test)

        document = ProvDocument()

        def test():
            document.bundle(EX_NS['indistinct'])
            bundle = ProvBundle(identifier=EX_NS['indistinct'])
            document.add_bundle(bundle)

        self.assertRaises(ProvException, test)

    def test_document_helper_methods(self):
        document = ProvDocument()
        self.assertFalse(document.is_bundle())
        self.assertFalse(document.has_bundles())
        document.bundle(EX_NS['b'])
        self.assertTrue(document.has_bundles())
        self.assertEqual(u'<ProvDocument>', str(document))

    def test_reading_and_writing_to_file_like_objects(self):
        """
        Tests reading and writing to and from file like objects.
        """
        # Create some random document.
        document = ProvDocument()
        document.entity(EX2_NS["test"])

        objects = [io.BytesIO, io.StringIO]

        Registry.load_serializers()
        formats = Registry.serializers.keys()

        for obj in objects:
            for format in formats:
                try:
                    buf = obj()
                    document.serialize(destination=buf, format=format)
                    buf.seek(0, 0)
                    new_document = ProvDocument.deserialize(source=buf,
                                                            format=format)
                    self.assertEqual(document, new_document)
                except NotImplementedError:
                    # Some serializers might not implement serialize or
                    # deserialize method
                    pass  # and this is fine in the context of this test
                finally:
                    buf.close()

    # def test_document_unification(self):
    #     # TODO: Improve testing of this...
    #     document = ProvDocument()
    #     bundle = document.bundle(identifier=EX_NS['b'])
    #     e1 = bundle.entity(EX_NS['e'])
    #     e2 = bundle.entity(EX_NS['e'])
    #     unified = document.unified()
    #
    #     self.assertEqual(len(unified._bundles[0]._records), 1)

    def test_primer_alternate(self):
        g1 = primer_example()
        g2 = primer_example_alternate()
        self.assertEqual(g1, g2)


if __name__ == '__main__':
    unittest.main()