from galaxy_test.driver import integration_util class TestEdamToolboxIntegration(integration_util.IntegrationTestCase): framework_tool_and_types = True @classmethod def handle_galaxy_config_kwds(cls, config): super().handle_galaxy_config_kwds(config) config["edam_panel_views"] = "merged" def test_edam_toolbox(self): index = self.galaxy_interactor.get("tool_panels/ontology:edam_merged") index.raise_for_status() index_panel = index.json() sections = [x for _, x in index_panel.items() if x["model_class"] == "ToolSection"] section_names = [s["name"] for s in sections] assert "Mapping" in section_names mapping_section = [s for s in sections if s["name"] == "Mapping"][0] mapping_section_tools = mapping_section["tools"] # make sure our mapper tool was mapped using Edam correctly... assert [x for x in mapping_section_tools if x == "mapper"] tool_panels = self.galaxy_interactor.get("tool_panels") tool_panels.raise_for_status() panel_views = tool_panels.json()["views"] assert len(panel_views) > 1 assert isinstance(panel_views, dict) edam_panel_view = panel_views["ontology:edam_merged"] assert edam_panel_view["view_type"] == "ontology" class TestEdamToolboxDefaultIntegration(integration_util.IntegrationTestCase): framework_tool_and_types = True @classmethod def handle_galaxy_config_kwds(cls, config): super().handle_galaxy_config_kwds(config) config["edam_panel_views"] = "topics" config["default_panel_view"] = "ontology:edam_topics" def test_edam_toolbox(self): index = self.galaxy_interactor.get("tool_panels/default_panel_view") index.raise_for_status() index_panel = index.json() sections = [x for _, x in index_panel.items() if x["model_class"] == "ToolSection"] section_names = [s["name"] for s in sections] assert "Mapping" in section_names mapping_section = [s for s in sections if s["name"] == "Mapping"][0] mapping_section_tools = mapping_section["tools"] # make sure our mapper tool was mapped using Edam correctly... assert [x for x in mapping_section_tools if x == "mapper"] tool_panels = self.galaxy_interactor.get("tool_panels") tool_panels.raise_for_status() panel_views = tool_panels.json() default = panel_views["default_panel_view"] assert default == "ontology:edam_topics" views = panel_views["views"] assert len(views) > 1 assert isinstance(views, dict) edam_panel_view = views["ontology:edam_topics"] assert edam_panel_view["view_type"] == "ontology"