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Add tests for library contents API
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Arash
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from typing import Any
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from galaxy_test.base.populators import (
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DatasetCollectionPopulator,
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DatasetPopulator,
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LibraryPopulator,
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)
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from ._framework import ApiTestCase
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class TestLibraryContentsApi(ApiTestCase):
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dataset_populator: DatasetPopulator
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def setUp(self):
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super().setUp()
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self.dataset_populator = DatasetPopulator(self.galaxy_interactor)
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self.dataset_collection_populator = DatasetCollectionPopulator(self.galaxy_interactor)
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self.library_populator = LibraryPopulator(self.galaxy_interactor)
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self.library = self.library_populator.new_private_library("TestLibrary")
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self.history = self.dataset_populator.new_history()
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def test_create_folder(self):
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folder_list = self._create_library_content(type="folder")
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assert isinstance(folder_list, list), "Expected response to be a list"
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for folder in folder_list:
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self._assert_has_keys(folder, "id", "name")
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def test_create_file_from_hda(self):
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file_item = self._create_library_content(type="from_hda")
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self._assert_has_keys(file_item, "id", "name")
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def test_create_file_from_hdca(self):
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files = self._create_library_content(type="from_hdca")
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assert isinstance(files, list), "Response should be a list of files"
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for file_item in files:
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self._assert_has_keys(file_item, "id", "name")
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def test_create_invalid(self):
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library_id = self.library["id"]
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folder_id = self.library["root_folder_id"]
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payload = {"folder_id": folder_id, "create_type": "invalid_type"}
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response = self._post(f"/api/libraries/{library_id}/contents", data=payload)
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self._assert_status_code_is(response, 400)
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def test_index(self):
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library_id = self.library["id"]
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response = self._get(f"/api/libraries/{library_id}/contents")
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self._assert_status_code_is(response, 200)
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contents = response.json()
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assert isinstance(contents, list), "Expected response to be a list"
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for item in contents:
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self._assert_has_keys(item, "id", "name", "type", "url")
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def test_get_library_contents_invalid_id(self):
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invalid_item_id = "invalid_id"
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response = self._get(f"/api/libraries/{invalid_item_id}/contents")
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self._assert_status_code_is(response, 400)
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def test_get_library_folder(self):
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library_id = self.library["id"]
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folder_id = self._create_library_content(type="folder")[0]["id"]
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response = self._get(f"/api/libraries/{library_id}/contents/{folder_id}")
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self._assert_status_code_is(response, 200)
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folder_info = response.json()
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self._assert_has_keys(
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folder_info,
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"model_class",
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"id",
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"parent_id",
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"name",
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"description",
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"item_count",
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"genome_build",
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"update_time",
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"deleted",
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"library_path",
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"parent_library_id",
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)
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def test_get_library_file_from_hda(self):
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library_id = self.library["id"]
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file_id = self._create_library_content(type="from_hda")["id"]
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response = self._get(f"/api/libraries/{library_id}/contents/{file_id}")
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self._assert_status_code_is(response, 200)
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file_info = response.json()
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self._assert_has_keys(
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file_info,
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"id",
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"ldda_id",
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"parent_library_id",
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"folder_id",
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"model_class",
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"state",
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"name",
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"file_name",
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"created_from_basename",
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"uploaded_by",
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"message",
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"date_uploaded",
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"update_time",
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"file_size",
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"file_ext",
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"data_type",
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"genome_build",
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"misc_info",
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"misc_blurb",
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"peek",
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"uuid",
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"metadata_dbkey",
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"metadata_data_lines",
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"tags",
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)
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def test_get_library_file_from_hdca(self):
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library_id = self.library["id"]
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file_id = self._create_library_content(type="from_hdca")[0]["id"]
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response = self._get(f"/api/libraries/{library_id}/contents/{file_id}")
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self._assert_status_code_is(response, 200)
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file_info = response.json()
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self._assert_has_keys(
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file_info,
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"id",
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"ldda_id",
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"parent_library_id",
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"folder_id",
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"model_class",
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"state",
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"name",
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"file_name",
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"created_from_basename",
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"uploaded_by",
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"message",
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"date_uploaded",
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"update_time",
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"file_size",
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"file_ext",
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"data_type",
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"genome_build",
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"misc_info",
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"misc_blurb",
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"peek",
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"uuid",
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"metadata_dbkey",
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"metadata_data_lines",
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"tags",
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)
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def test_get_invalid_library_item(self):
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library_id = self.library["id"]
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invalid_item_id = "invalid_id"
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response = self._get(f"/api/libraries/{library_id}/contents/{invalid_item_id}")
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self._assert_status_code_is(response, 400)
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def test_update_library_folder(self):
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library_id = self.library["id"]
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file_id = self._create_library_content(type="folder")[0]["id"]
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converted_dataset_id = self.dataset_populator.new_dataset(self.history)["id"]
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payload = {"converted_dataset_id": converted_dataset_id}
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response = self._put(f"/api/libraries/{library_id}/contents/{file_id}", data=payload)
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self._assert_status_code_is(response, 200)
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def test_update_library_item_from_hda(self):
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library_id = self.library["id"]
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file_id = self._create_library_content(type="from_hda")["id"]
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converted_dataset_id = self.dataset_populator.new_dataset(self.history)["id"]
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payload = {"converted_dataset_id": converted_dataset_id}
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response = self._put(f"/api/libraries/{library_id}/contents/{file_id}", data=payload)
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self._assert_status_code_is(response, 200)
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def test_update_library_item_from_hdca(self):
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library_id = self.library["id"]
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file_id = self._create_library_content(type="from_hdca")[0]["id"]
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converted_dataset_id = self.dataset_populator.new_dataset(self.history)["id"]
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payload = {"converted_dataset_id": converted_dataset_id}
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response = self._put(f"/api/libraries/{library_id}/contents/{file_id}", data=payload)
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self._assert_status_code_is(response, 200)
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def test_update_invalid_library_item(self):
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library_id = self.library["id"]
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invalid_item_id = "invalid_id"
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converted_dataset_id = self.dataset_populator.new_dataset(self.history)["id"]
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payload = {"converted_dataset_id": converted_dataset_id}
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response = self._put(f"/api/libraries/{library_id}/contents/{invalid_item_id}", data=payload)
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self._assert_status_code_is(response, 400)
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def test_delete_library_folder(self):
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library_id = self.library["id"]
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file_id = self._create_library_content(type="folder")[0]["id"]
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response = self._delete(f"/api/libraries/{library_id}/contents/{file_id}")
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self._assert_status_code_is(response, 200)
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def test_delete_library_item_from_hda(self):
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library_id = self.library["id"]
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file_id = self._create_library_content(type="from_hda")["id"]
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response = self._delete(f"/api/libraries/{library_id}/contents/{file_id}")
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self._assert_status_code_is(response, 200)
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def test_delete_library_item_from_hdca(self):
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library_id = self.library["id"]
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file_id = self._create_library_content(type="from_hdca")[0]["id"]
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response = self._delete(f"/api/libraries/{library_id}/contents/{file_id}")
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self._assert_status_code_is(response, 200)
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def test_delete_invalid_library_item(self):
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library_id = self.library["id"]
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invalid_item_id = "invalid_id"
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response = self._delete(f"/api/libraries/{library_id}/contents/{invalid_item_id}")
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self._assert_status_code_is(response, 500)
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def _create_library_content(self, type) -> Any:
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folder_id = self.library["root_folder_id"]
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library_id = self.library["id"]
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if type == "folder":
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folder_name = "NewFolder"
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payload = {
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"folder_id": folder_id,
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"create_type": "folder",
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"name": folder_name,
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"description": "Test",
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}
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elif type == "from_hda":
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dataset_id = self.dataset_populator.new_dataset(self.history)["id"]
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payload = {
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"folder_id": folder_id,
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"create_type": "file",
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"from_hda_id": dataset_id,
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"ldda_message": "Test",
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}
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elif type == "from_hdca":
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hdca_id = self.dataset_collection_populator.create_list_in_history(
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self.history, contents=["dataset01", "dataset02"], direct_upload=True, wait=True
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).json()["outputs"][0]["id"]
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payload = {
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"folder_id": folder_id,
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"create_type": "file",
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"from_hdca_id": hdca_id,
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"ldda_message": "Test",
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}
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response = self._post(f"/api/libraries/{library_id}/contents", data=payload)
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self._assert_status_code_is(response, 200)
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return response.json()
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