diff env/lib/python3.9/site-packages/bioblend/_tests/TestGalaxyDatasetCollections.py @ 0:4f3585e2f14b draft default tip

"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/env/lib/python3.9/site-packages/bioblend/_tests/TestGalaxyDatasetCollections.py	Mon Mar 22 18:12:50 2021 +0000
@@ -0,0 +1,135 @@
+from bioblend.galaxy import dataset_collections
+from . import GalaxyTestBase
+
+
+class TestGalaxyDatasetCollections(GalaxyTestBase.GalaxyTestBase):
+
+    def test_create_list_in_history(self):
+        history_id = self.gi.histories.create_history(name="TestDSListCreate")["id"]
+        dataset1_id = self._test_dataset(history_id)
+        dataset2_id = self._test_dataset(history_id)
+        dataset3_id = self._test_dataset(history_id)
+        collection_response = self.gi.histories.create_dataset_collection(
+            history_id=history_id,
+            collection_description=dataset_collections.CollectionDescription(
+                name="MyDatasetList",
+                elements=[
+                    dataset_collections.HistoryDatasetElement(name="sample1", id=dataset1_id),
+                    dataset_collections.HistoryDatasetElement(name="sample2", id=dataset2_id),
+                    dataset_collections.HistoryDatasetElement(name="sample3", id=dataset3_id),
+                ]
+            )
+        )
+        self.assertEqual(collection_response["name"], "MyDatasetList")
+        self.assertEqual(collection_response["collection_type"], "list")
+        elements = collection_response["elements"]
+        self.assertEqual(len(elements), 3)
+        self.assertEqual(elements[0]["element_index"], 0)
+        self.assertEqual(elements[0]["object"]["id"], dataset1_id)
+        self.assertEqual(elements[1]["object"]["id"], dataset2_id)
+        self.assertEqual(elements[2]["object"]["id"], dataset3_id)
+        self.assertEqual(elements[2]["element_identifier"], "sample3")
+
+    def test_create_list_of_paired_datasets_in_history(self):
+        history_id = self.gi.histories.create_history(name="TestDSListCreate")["id"]
+        dataset1_id = self._test_dataset(history_id)
+        dataset2_id = self._test_dataset(history_id)
+        dataset3_id = self._test_dataset(history_id)
+        dataset4_id = self._test_dataset(history_id)
+        collection_response = self.gi.histories.create_dataset_collection(
+            history_id=history_id,
+            collection_description=dataset_collections.CollectionDescription(
+                name="MyListOfPairedDatasets",
+                type="list:paired",
+                elements=[
+                    dataset_collections.CollectionElement(
+                        name="sample1",
+                        type="paired",
+                        elements=[
+                            dataset_collections.HistoryDatasetElement(name="forward", id=dataset1_id),
+                            dataset_collections.HistoryDatasetElement(name="reverse", id=dataset2_id),
+                        ]
+                    ),
+                    dataset_collections.CollectionElement(
+                        name="sample2",
+                        type="paired",
+                        elements=[
+                            dataset_collections.HistoryDatasetElement(name="forward", id=dataset3_id),
+                            dataset_collections.HistoryDatasetElement(name="reverse", id=dataset4_id),
+                        ]
+                    ),
+                ]
+            )
+        )
+        self.assertEqual(collection_response["name"], "MyListOfPairedDatasets")
+        self.assertEqual(collection_response["collection_type"], "list:paired")
+        elements = collection_response["elements"]
+        self.assertEqual(len(elements), 2)
+        self.assertEqual(elements[0]["element_index"], 0)
+        created_pair1 = elements[0]["object"]
+        self.assertEqual(created_pair1["collection_type"], "paired")
+        self.assertEqual(len(created_pair1["elements"]), 2)
+        forward_element1 = created_pair1["elements"][0]
+        self.assertEqual(forward_element1["element_identifier"], "forward")
+        self.assertEqual(forward_element1["element_index"], 0)
+        forward_dataset1 = forward_element1["object"]
+        self.assertEqual(forward_dataset1["id"], dataset1_id)
+
+        self.assertEqual(elements[1]["element_index"], 1)
+        created_pair2 = elements[1]["object"]
+        self.assertEqual(created_pair2["collection_type"], "paired")
+        self.assertEqual(len(created_pair2["elements"]), 2)
+        reverse_element2 = created_pair2["elements"][1]
+        reverse_dataset2 = reverse_element2["object"]
+
+        self.assertEqual(reverse_element2["element_identifier"], "reverse")
+        self.assertEqual(reverse_element2["element_index"], 1)
+        self.assertEqual(reverse_dataset2["id"], dataset4_id)
+
+    def test_collections_in_history_index(self):
+        history_id = self.gi.histories.create_history(name="TestHistoryDSIndex")["id"]
+        history_dataset_collection = self._create_pair_in_history(history_id)
+        contents = self.gi.histories.show_history(history_id, contents=True)
+        self.assertEqual(len(contents), 3)
+        self.assertEqual(contents[2]["id"], history_dataset_collection["id"])
+        self.assertEqual(contents[2]["name"], "MyTestPair")
+        self.assertEqual(contents[2]["collection_type"], "paired")
+
+    def test_show_history_dataset_collection(self):
+        history_id = self.gi.histories.create_history(name="TestHistoryDSIndexShow")["id"]
+        history_dataset_collection = self._create_pair_in_history(history_id)
+        show_response = self.gi.histories.show_dataset_collection(history_id, history_dataset_collection["id"])
+        for key in ["collection_type", "elements", "name", "deleted", "visible"]:
+            self.assertIn(key, show_response)
+        self.assertFalse(show_response["deleted"])
+        self.assertTrue(show_response["visible"])
+
+    def test_delete_history_dataset_collection(self):
+        history_id = self.gi.histories.create_history(name="TestHistoryDSDelete")["id"]
+        history_dataset_collection = self._create_pair_in_history(history_id)
+        self.gi.histories.delete_dataset_collection(history_id, history_dataset_collection["id"])
+        show_response = self.gi.histories.show_dataset_collection(history_id, history_dataset_collection["id"])
+        self.assertTrue(show_response["deleted"])
+
+    def test_update_history_dataset_collection(self):
+        history_id = self.gi.histories.create_history(name="TestHistoryDSDelete")["id"]
+        history_dataset_collection = self._create_pair_in_history(history_id)
+        self.gi.histories.update_dataset_collection(history_id, history_dataset_collection["id"], visible=False)
+        show_response = self.gi.histories.show_dataset_collection(history_id, history_dataset_collection["id"])
+        self.assertFalse(show_response["visible"])
+
+    def _create_pair_in_history(self, history_id):
+        dataset1_id = self._test_dataset(history_id)
+        dataset2_id = self._test_dataset(history_id)
+        collection_response = self.gi.histories.create_dataset_collection(
+            history_id=history_id,
+            collection_description=dataset_collections.CollectionDescription(
+                name="MyTestPair",
+                type="paired",
+                elements=[
+                    dataset_collections.HistoryDatasetElement(name="forward", id=dataset1_id),
+                    dataset_collections.HistoryDatasetElement(name="reverse", id=dataset2_id),
+                ]
+            )
+        )
+        return collection_response