mirror of
https://github.com/galaxyproject/galaxy.git
synced 2026-09-24 16:30:27 +08:00
Nicola Soranzo
9d74bba7fb
Upgrade syntax using `pyupgrade --py36-plus` . Manually drop several `six` imports. Also: - Remove broken pr_cache in scripts/bootstrap_history.py - Fix broken prefix removal in lib/galaxy/tool_util/deps/mulled/mulled_build.py
124 lines
5.7 KiB
Python
124 lines
5.7 KiB
Python
#!/usr/bin/env python
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"""
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"""
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import unittest
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from galaxy import model
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from galaxy.managers.collections import DatasetCollectionManager
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from galaxy.managers.datasets import DatasetManager
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from galaxy.managers.hdas import HDAManager
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from galaxy.managers.histories import HistoryManager
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from .base import BaseTestCase, CreatesCollectionsMixin
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# =============================================================================
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default_password = '123456'
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user2_data = dict(email='user2@user2.user2', username='user2', password=default_password)
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user3_data = dict(email='user3@user3.user3', username='user3', password=default_password)
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# =============================================================================
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class DatasetCollectionManagerTestCase(BaseTestCase, CreatesCollectionsMixin):
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def set_up_managers(self):
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super().set_up_managers()
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self.dataset_manager = DatasetManager(self.app)
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self.hda_manager = HDAManager(self.app)
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self.history_manager = HistoryManager(self.app)
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self.collection_manager = DatasetCollectionManager(self.app)
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def test_create_simple_list(self):
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owner = self.user_manager.create(**user2_data)
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history = self.history_manager.create(name='history1', user=owner)
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hda1 = self.hda_manager.create(name='one',
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history=history, dataset=self.dataset_manager.create())
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hda2 = self.hda_manager.create(name='two',
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history=history, dataset=self.dataset_manager.create())
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hda3 = self.hda_manager.create(name='three',
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history=history, dataset=self.dataset_manager.create())
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self.log("should be able to create a new Collection via ids")
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element_identifiers = self.build_element_identifiers([hda1, hda2, hda3])
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hdca = self.collection_manager.create(self.trans, history, 'test collection', 'list',
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element_identifiers=element_identifiers)
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self.assertIsInstance(hdca, model.HistoryDatasetCollectionAssociation)
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self.assertEqual(hdca.name, 'test collection')
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self.assertEqual(hdca.hid, 4)
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self.assertFalse(hdca.deleted)
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self.assertTrue(hdca.visible)
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self.log("should contain an underlying, well-formed DatasetCollection")
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self.assertIsInstance(hdca.collection, model.DatasetCollection)
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collection = hdca.collection
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self.assertEqual(collection.collection_type, 'list')
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self.assertEqual(collection.state, 'ok')
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self.assertEqual(len(collection.dataset_instances), 3)
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self.assertEqual(len(collection.elements), 3)
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self.log("and that collection should have three well-formed Elements")
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self.assertIsInstance(collection.elements[0], model.DatasetCollectionElement)
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self.assertEqual(collection.elements[0].element_identifier, 'one')
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self.assertEqual(collection.elements[0].element_index, 0)
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self.assertEqual(collection.elements[0].element_type, 'hda')
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self.assertEqual(collection.elements[0].element_object, hda1)
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self.assertIsInstance(collection.elements[1], model.DatasetCollectionElement)
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self.assertEqual(collection.elements[1].element_identifier, 'two')
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self.assertEqual(collection.elements[1].element_index, 1)
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self.assertEqual(collection.elements[1].element_type, 'hda')
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self.assertEqual(collection.elements[1].element_object, hda2)
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self.assertIsInstance(collection.elements[2], model.DatasetCollectionElement)
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self.assertEqual(collection.elements[2].element_identifier, 'three')
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self.assertEqual(collection.elements[2].element_index, 2)
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self.assertEqual(collection.elements[2].element_type, 'hda')
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self.assertEqual(collection.elements[2].element_object, hda3)
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self.log("should be able to create a new Collection via objects")
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elements = dict(one=hda1, two=hda2, three=hda3)
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hdca2 = self.collection_manager.create(self.trans, history, 'test collection 2', 'list', elements=elements)
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self.assertIsInstance(hdca2, model.HistoryDatasetCollectionAssociation)
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def test_update_from_dict(self):
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owner = self.user_manager.create(**user2_data)
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history = self.history_manager.create(name='history1', user=owner)
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hda1 = self.hda_manager.create(name='one',
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history=history, dataset=self.dataset_manager.create())
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hda2 = self.hda_manager.create(name='two',
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history=history, dataset=self.dataset_manager.create())
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hda3 = self.hda_manager.create(name='three',
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history=history, dataset=self.dataset_manager.create())
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elements = dict(one=hda1, two=hda2, three=hda3)
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hdca = self.collection_manager.create(self.trans, history, 'test collection', 'list', elements=elements)
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self.log("should be set from a dictionary")
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self.collection_manager._set_from_dict(self.trans, hdca, {
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'deleted': True,
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'visible': False,
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'name': 'New Name',
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# TODO: doesn't work
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# 'tags' : [ 'one', 'two', 'three' ]
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# 'annotations' : [?]
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})
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self.assertEqual(hdca.name, 'New Name')
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self.assertTrue(hdca.deleted)
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self.assertFalse(hdca.visible)
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# self.assertEqual( hdca.tags, [ 'one', 'two', 'three' ] )
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# self.assertEqual( hdca.annotations, [ 'one', 'two', 'three' ] )
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# def test_validation( self ):
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# self.log( "should be able to change the name" )
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# self.log( "should be able to set deleted" )
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# self.log( "should be able to set visible" )
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# self.log( "should be able to set tags" )
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# =============================================================================
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if __name__ == '__main__':
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# or more generally, nosetests test_resourcemanagers.py -s -v
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unittest.main()
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