Source code for galaxy_test.selenium.test_workflow_editor

import json

import yaml
from selenium.webdriver.common.action_chains import ActionChains
from selenium.webdriver.common.keys import Keys

from galaxy_test.base.workflow_fixtures import (
    WORKFLOW_NESTED_SIMPLE,
    WORKFLOW_OPTIONAL_TRUE_INPUT_COLLECTION,
    WORKFLOW_SELECT_FROM_OPTIONAL_DATASET,
    WORKFLOW_SIMPLE_CAT_TWICE,
    WORKFLOW_SIMPLE_MAPPING,
    WORKFLOW_WITH_INVALID_STATE,
    WORKFLOW_WITH_OLD_TOOL_VERSION,
    WORKFLOW_WITH_OUTPUT_COLLECTION,
    WORKFLOW_WITH_RULES_1,
    WORKFLOW_WITH_RULES_2,
)
from .framework import (
    retry_assertion_during_transitions,
    retry_during_transitions,
    RunsWorkflows,
    selenium_test,
    SeleniumTestCase,
)


[docs]class WorkflowEditorTestCase(SeleniumTestCase, RunsWorkflows): ensure_registered = True
[docs] @selenium_test def test_basics(self): editor = self.components.workflow_editor annotation = "basic_test" name = self.workflow_create_new(annotation=annotation) self.assert_wf_name_is(name) self.assert_wf_annotation_is(annotation) editor.canvas_body.wait_for_visible() editor.tool_menu.wait_for_visible() # shouldn't have changes on fresh load save_button = self.components.workflow_editor.save_button save_button.wait_for_visible() assert save_button.has_class("disabled") self.screenshot("workflow_editor_blank") self.components._.left_panel_drag.wait_for_visible() self.components._.left_panel_collapse.wait_for_and_click() self.sleep_for(self.wait_types.UX_RENDER) self.screenshot("workflow_editor_left_collapsed") self.components._.right_panel_drag.wait_for_visible() self.components._.right_panel_collapse.wait_for_and_click() self.sleep_for(self.wait_types.UX_RENDER) self.screenshot("workflow_editor_left_and_right_collapsed")
[docs] @selenium_test def test_edit_annotation(self): editor = self.components.workflow_editor annotation = "new_annotation_test" name = self.workflow_create_new(annotation=annotation) edit_annotation = self.components.workflow_editor.edit_annotation self.assert_wf_annotation_is(annotation) editor.canvas_body.wait_for_visible() new_annotation = "look new annotation" edit_annotation.wait_for_and_send_keys(new_annotation) self.assert_workflow_has_changes_and_save() self.workflow_index_open_with_name(name) self.assert_wf_annotation_is(new_annotation)
[docs] @selenium_test def test_edit_name(self): editor = self.components.workflow_editor name = self.workflow_create_new() editor.canvas_body.wait_for_visible() new_name = self._get_random_name() edit_name = self.components.workflow_editor.edit_name edit_name.wait_for_and_send_keys(new_name) self.assert_workflow_has_changes_and_save() self.workflow_index_open_with_name(new_name) self.assert_wf_name_is(name)
[docs] @selenium_test def test_optional_select_data_field(self): editor = self.components.workflow_editor workflow_id = self.workflow_populator.upload_yaml_workflow(WORKFLOW_SELECT_FROM_OPTIONAL_DATASET) self.workflow_index_open() self.workflow_index_click_option("Edit") editor = self.components.workflow_editor node = editor.node._(label="select_from_dataset_optional") node.title.wait_for_and_click() self.components.tool_form.parameter_checkbox(parameter="select_single").wait_for_and_click() # External (selenium-side) debounce hack for old backbone input # TODO: remove when form elements are all converted. self.components.tool_form.parameter_input(parameter="select_single").wait_for_and_send_keys("parameter valu") self.sleep_for(self.wait_types.UX_RENDER) self.components.tool_form.parameter_input(parameter="select_single").wait_for_and_send_keys("e") self.sleep_for(self.wait_types.UX_RENDER) self.assert_workflow_has_changes_and_save() workflow = self.workflow_populator.download_workflow(workflow_id) tool_state = json.loads(workflow["steps"]["0"]["tool_state"]) assert tool_state["select_single"] == "parameter value" # Disable optional button, resets value to null self.components.tool_form.parameter_checkbox(parameter="select_single").wait_for_and_click() self.assert_workflow_has_changes_and_save() workflow = self.workflow_populator.download_workflow(workflow_id) tool_state = json.loads(workflow["steps"]["0"]["tool_state"]) assert tool_state["select_single"] is None # Enable button but don't provide a value self.components.tool_form.parameter_checkbox(parameter="select_single").wait_for_and_click() self.assert_workflow_has_changes_and_save() workflow = self.workflow_populator.download_workflow(workflow_id) tool_state = json.loads(workflow["steps"]["0"]["tool_state"]) assert tool_state["select_single"] == ""
[docs] @selenium_test def test_data_input(self): editor = self.components.workflow_editor name = self.workflow_create_new() self.workflow_editor_add_input(item_name="data_input") self.screenshot("workflow_editor_data_input_new") editor.label_input.wait_for_and_send_keys("input1") editor.annotation_input.wait_for_and_send_keys("my cool annotation") self.sleep_for(self.wait_types.UX_RENDER) self.screenshot("workflow_editor_data_input_filled_in") self.workflow_editor_click_save() self.workflow_index_open_with_name(name) data_input_node = editor.node._(label="input1") data_input_node.title.wait_for_and_click() label = editor.label_input.wait_for_value() assert label == "input1", label annotation = editor.annotation_input.wait_for_value() assert annotation == "my cool annotation", annotation data_input_node.destroy.wait_for_and_click() data_input_node.wait_for_absent() self.screenshot("workflow_editor_data_input_deleted")
[docs] @selenium_test def test_collection_input(self): editor = self.components.workflow_editor name = self.workflow_create_new() self.workflow_editor_add_input(item_name="data_collection_input") self.screenshot("workflow_editor_data_collection_input_new") editor.label_input.wait_for_and_send_keys("input1") editor.annotation_input.wait_for_and_send_keys("my cool annotation") self.sleep_for(self.wait_types.UX_RENDER) self.screenshot("workflow_editor_data_collection_input_filled_in") self.workflow_editor_click_save() self.workflow_index_open_with_name(name) data_input_node = editor.node._(label="input1") data_input_node.title.wait_for_and_click() label = editor.label_input.wait_for_value() assert label == "input1", label annotation = editor.annotation_input.wait_for_value() assert annotation == "my cool annotation", annotation data_input_node.destroy.wait_for_and_click() data_input_node.wait_for_absent() self.sleep_for(self.wait_types.UX_RENDER) self.screenshot("workflow_editor_data_collection_input_deleted")
[docs] @selenium_test def test_data_column_input_editing(self): self.open_in_workflow_editor( """ class: GalaxyWorkflow steps: column_param_list: tool_id: column_param_list state: col: ["1","2","3"] col_names: ["a", "b", "c"] """ ) editor = self.components.workflow_editor node = editor.node._(label="column_param_list") node.title.wait_for_and_click() columns = self.components.tool_form.parameter_textarea(parameter="col") textarea_columns = columns.wait_for_visible() assert textarea_columns.get_attribute("value") == "1\n2\n3\n" column_names = self.components.tool_form.parameter_textarea(parameter="col_names") textarea_column_names = column_names.wait_for_visible() assert textarea_column_names.get_attribute("value") == "a\nb\nc\n" self.sleep_for(self.wait_types.UX_RENDER) self.set_text_element(columns, "4\n5\n6\n") self.sleep_for(self.wait_types.UX_RENDER) self.assert_workflow_has_changes_and_save() self.driver.refresh() node.title.wait_for_and_click() textarea_columns = columns.wait_for_visible() assert textarea_columns.get_attribute("value") == "4\n5\n6\n"
[docs] @selenium_test def test_integer_input(self): editor = self.components.workflow_editor name = self.workflow_create_new() self.workflow_editor_add_input(item_name="parameter_input") self.screenshot("workflow_editor_parameter_input_new") editor.label_input.wait_for_and_send_keys("input1") editor.annotation_input.wait_for_and_send_keys("my cool annotation") self.sleep_for(self.wait_types.UX_RENDER) self.screenshot("workflow_editor_parameter_input_filled_in") self.workflow_editor_click_save() self.workflow_index_open_with_name(name) data_input_node = editor.node._(label="input1") data_input_node.title.wait_for_and_click() label = editor.label_input.wait_for_value() assert label == "input1", label annotation = editor.annotation_input.wait_for_value() assert annotation == "my cool annotation", annotation data_input_node.destroy.wait_for_and_click() data_input_node.wait_for_absent() self.sleep_for(self.wait_types.UX_RENDER) self.screenshot("workflow_editor_parameter_input_deleted")
[docs] @selenium_test def test_non_data_connections(self): self.open_in_workflow_editor( """ class: GalaxyWorkflow inputs: input_int: integer steps: simple_constructs: tool_id: simple_constructs label: tool_exec in: inttest: input_int cat1: # regression test, ensures connecting works in the presence of data input terminals tool_id: cat1 """ ) self.screenshot("workflow_editor_parameter_connection_simple") self.assert_connected("input_int#output", "tool_exec#inttest") editor = self.components.workflow_editor tool_node = editor.node._(label="tool_exec") tool_input = tool_node.input_terminal(name="inttest") tool_input.wait_for_and_click() editor.connector_destroy_callout.wait_for_and_click() self.assert_not_connected("input_int#output", "tool_exec#inttest") self.screenshot("workflow_editor_parameter_connection_destroyed") # When connected, cannot turn it into a RuntimeValue.. collapse_input = editor.collapse_icon(name="inttest") collapse_input.wait_for_absent_or_hidden() # If it is disconnected, then can specify as RuntimeValue connect_icon = editor.connect_icon(name="inttest") connect_icon.wait_for_visible() connect_icon.wait_for_and_click() collapse_input.wait_for_visible() # Also the connector should disappear tool_input.wait_for_absent_or_hidden() # Now make it connected again and watch the requests connect_icon.wait_for_and_click() tool_input.wait_for_visible() collapse_input.wait_for_absent_or_hidden() self.workflow_editor_connect( "input_int#output", "tool_exec#inttest", screenshot_partial="workflow_editor_parameter_connection_dragging" ) self.assert_connected("input_int#output", "tool_exec#inttest")
[docs] @selenium_test def test_non_data_map_over_carried_through(self): # Use auto_layout=false, which prevents placing any # step outside of the scroll area # xref: https://github.com/galaxyproject/galaxy/issues/13211 self.open_in_workflow_editor( """ class: GalaxyWorkflow inputs: input_collection: type: collection collection_type: "list" steps: param_value_from_file: tool_id: param_value_from_file in: input1: input_collection text_input_step: tool_id: param_text_option in: text_param: param_value_from_file/text_param collection_input: tool_id: identifier_collection """, auto_layout=False, ) self.workflow_editor_connect("text_input_step#out_file1", "collection_input#input1") self.assert_connected("text_input_step#out_file1", "collection_input#input1")
[docs] def test_connecting_display_in_upload_false_connections(self): self.open_in_workflow_editor( """ class: GalaxyWorkflow steps: step1: tool_id: test_sam_to_bam_conversions step2: tool_id: test_sam_to_bam_conversions """ ) self.workflow_editor_connect("step1#qname_input_sorted_bam_output", "step2#input5") self.assert_connected("step1#qname_input_sorted_bam_output", "step2#input5")
[docs] @selenium_test def test_existing_connections(self): self.open_in_workflow_editor(WORKFLOW_SIMPLE_CAT_TWICE) editor = self.components.workflow_editor self.assert_connected("input1#output", "first_cat#input1") self.screenshot("workflow_editor_connection_simple") cat_node = editor.node._(label="first_cat") cat_input = cat_node.input_terminal(name="input1") cat_input.wait_for_and_click() editor.connector_destroy_callout.wait_for_visible() self.screenshot("workflow_editor_connection_callout") editor.connector_destroy_callout.wait_for_and_click() self.assert_not_connected("input1#output", "first_cat#input1") self.screenshot("workflow_editor_connection_destroyed") self.workflow_editor_connect( "input1#output", "first_cat#input1", screenshot_partial="workflow_editor_connection_dragging" ) self.assert_connected("input1#output", "first_cat#input1")
[docs] @selenium_test def test_reconnecting_nodes(self): name = self.open_in_workflow_editor(WORKFLOW_SIMPLE_CAT_TWICE) self.assert_connected("input1#output", "first_cat#input1") self.workflow_editor_destroy_connection("first_cat#input1") self.assert_not_connected("input1#output", "first_cat#input1") self.workflow_editor_connect("input1#output", "first_cat#input1") self.assert_connected("input1#output", "first_cat#input1") self.sleep_for(self.wait_types.UX_RENDER) self.assert_workflow_has_changes_and_save() self.workflow_index_open_with_name(name) self.assert_connected("input1#output", "first_cat#input1")
[docs] @selenium_test def test_rendering_output_collection_connections(self): self.open_in_workflow_editor(WORKFLOW_WITH_OUTPUT_COLLECTION) self.workflow_editor_maximize_center_pane() self.screenshot("workflow_editor_output_collections")
[docs] @selenium_test def test_simple_mapping_connections(self): self.open_in_workflow_editor(WORKFLOW_SIMPLE_MAPPING) self.workflow_editor_maximize_center_pane() self.screenshot("workflow_editor_simple_mapping") self.assert_connected("input1#output", "cat#input1") self.assert_input_mapped("cat#input1") self.workflow_editor_destroy_connection("cat#input1") self.assert_input_not_mapped("cat#input1") self.assert_not_connected("input1#output", "cat#input1") self.workflow_editor_connect("input1#output", "cat#input1") self.assert_input_mapped("cat#input1")
[docs] @selenium_test def test_rendering_simple_nested_workflow(self): self.open_in_workflow_editor(WORKFLOW_NESTED_SIMPLE) self.workflow_editor_maximize_center_pane() self.screenshot("workflow_editor_simple_nested")
[docs] @selenium_test def test_rendering_rules_workflow_1(self): self.open_in_workflow_editor(WORKFLOW_WITH_RULES_1) rule_output = "apply#output" random_lines_input = "random_lines#input" self.workflow_editor_maximize_center_pane() self.screenshot("workflow_editor_rules_1") self.assert_connected(rule_output, random_lines_input) self.assert_input_mapped(random_lines_input) self.workflow_editor_destroy_connection(random_lines_input) self.assert_not_connected(rule_output, random_lines_input) self.assert_input_not_mapped(random_lines_input) self.workflow_editor_connect(rule_output, random_lines_input) self.assert_connected(rule_output, random_lines_input) self.assert_input_mapped(random_lines_input)
[docs] @selenium_test def test_rendering_rules_workflow_2(self): self.open_in_workflow_editor(WORKFLOW_WITH_RULES_2) self.workflow_editor_maximize_center_pane(collapse_right=False) editor = self.components.workflow_editor rule_builder = self.components.rule_builder rule_output = "apply#output" copy_list_input = "copy_list#input1" apply_node = editor.node._(label="apply") self.assert_connected(rule_output, copy_list_input) self.assert_input_mapped(copy_list_input) self.workflow_editor_destroy_connection(copy_list_input) self.assert_not_connected(rule_output, copy_list_input) self.assert_input_not_mapped(copy_list_input) self.workflow_editor_connect(rule_output, copy_list_input) self.assert_connected(rule_output, copy_list_input) self.assert_input_mapped(copy_list_input) apply_node.title.wait_for_and_click() self.screenshot("workflow_editor_rules_2_form") self.tool_parameter_edit_rules() rule_builder._.wait_for_visible() self.screenshot("workflow_editor_rules_2_builder") new_rules = dict( rules=[{"type": "add_column_metadata", "value": "identifier0"}], mapping=[{"type": "list_identifiers", "columns": [0]}], ) self.rule_builder_set_source(json.dumps(new_rules)) rule_builder.main_button_ok.wait_for_and_click() apply_node.title.wait_for_and_click() self.sleep_for(self.wait_types.UX_RENDER) # screenshot should have async warning about connection removed self.screenshot("workflow_editor_rules_2_after_change") self.assert_input_not_mapped(copy_list_input) # changing output collection type remove outbound connections, so this # this needs to be re-connected. Remove this re-connection if we upgrade # the workflow editor to try to re-establish the connection with different # mapping. self.workflow_editor_connect(rule_output, copy_list_input) self.assert_connected(rule_output, copy_list_input) # Regardless - this rules now say to connect a list to a list instead of a list # to a list:list, so there should be no mapping anymore even after connected. self.assert_input_not_mapped(copy_list_input)
[docs] @selenium_test def test_save_as(self): name = self.workflow_upload_yaml_with_random_name(WORKFLOW_SIMPLE_CAT_TWICE) self.workflow_index_open() self.workflow_index_open_with_name(name) self.sleep_for(self.wait_types.UX_RENDER) self.screenshot("workflow_editor_edit_menu") self.workflow_editor_click_option("Save As")
[docs] @selenium_test def test_editor_tool_upgrade(self): workflow_populator = self.workflow_populator workflow_id = workflow_populator.upload_yaml_workflow( """class: GalaxyWorkflow inputs: [] steps: - tool_id: multiple_versions tool_version: 0.1 label: multiple_versions state: foo: bar """, exact_tools=True, ) self.workflow_index_open() self.workflow_index_click_option("Edit") editor = self.components.workflow_editor editor.node._(label="multiple_versions").wait_for_and_click() editor.tool_version_button.wait_for_and_click() assert self.select_dropdown_item("Switch to 0.2"), "Switch to tool version dropdown item not found" self.screenshot("workflow_editor_version_update") self.sleep_for(self.wait_types.UX_RENDER) self.assert_workflow_has_changes_and_save() workflow = self.workflow_populator.download_workflow(workflow_id) assert workflow["steps"]["0"]["tool_version"] == "0.2"
[docs] @selenium_test def test_editor_tool_upgrade_message(self): workflow_populator = self.workflow_populator workflow_populator.upload_yaml_workflow(WORKFLOW_WITH_OLD_TOOL_VERSION, exact_tools=True) self.workflow_index_open() self.workflow_index_click_option("Edit") self.assert_modal_has_text("Using version '0.2' instead of version '0.0.1'") self.screenshot("workflow_editor_tool_upgrade") self.components.workflow_editor.modal_button_continue.wait_for_and_click() self.assert_workflow_has_changes_and_save()
[docs] @selenium_test def test_editor_subworkflow_tool_upgrade_message(self): workflow_populator = self.workflow_populator embedded_workflow = yaml.safe_load(WORKFLOW_WITH_OLD_TOOL_VERSION) # Create invalid tool state embedded_workflow["steps"]["mul_versions"]["state"]["inttest"] = "Invalid" outer_workflow = yaml.safe_load( """ class: GalaxyWorkflow inputs: outer_input: data steps: nested_workflow: run: {} in: input1: outer_input """ ) outer_workflow["steps"]["nested_workflow"]["run"] = embedded_workflow workflow_populator.upload_yaml_workflow(json.dumps(outer_workflow), exact_tools=True) self.workflow_index_open() self.workflow_index_click_option("Edit") self.sleep_for(self.wait_types.UX_RENDER) self.assert_modal_has_text("Using version '0.2' instead of version '0.0.1'") self.assert_modal_has_text("parameter 'inttest': an integer or workflow parameter is required") self.screenshot("workflow_editor_subworkflow_tool_upgrade") self.components.workflow_editor.modal_button_continue.wait_for_and_click() self.assert_workflow_has_changes_and_save()
[docs] @staticmethod def set_text_element(element, value): # Try both, no harm here element.wait_for_and_send_keys(Keys.CONTROL, "a") element.wait_for_and_send_keys(Keys.COMMAND, "a") element.wait_for_and_send_keys(Keys.BACKSPACE) element.wait_for_and_send_keys(value)
[docs] @selenium_test def test_change_datatype(self): self.open_in_workflow_editor( """ class: GalaxyWorkflow inputs: [] steps: - tool_id: create_2 label: create_2 - tool_id: checksum label: checksum in: input: create_2/out_file1 """ ) editor = self.components.workflow_editor self.assert_connected("create_2#out_file1", "checksum#input") node = editor.node._(label="create_2") node.wait_for_and_click() editor.configure_output(output="out_file1").wait_for_and_click() editor.change_datatype.wait_for_and_click() editor.select_dataype_text_search.wait_for_and_send_keys("bam") editor.select_datatype(datatype="bam").wait_for_and_click() editor.node.output_data_row(output_name="out_file1", extension="bam").wait_for_visible() self.assert_not_connected("create_2#out_file1", "checksum#input")
[docs] @selenium_test def test_change_datatype_post_job_action_lost_regression(self): self.open_in_workflow_editor( """ class: GalaxyWorkflow inputs: [] steps: - tool_id: create_2 label: create_2 outputs: out_file1: change_datatype: bam - tool_id: metadata_bam label: metadata_bam in: input_bam: create_2/out_file1 """ ) self.assert_connected("create_2#out_file1", "metadata_bam#input_bam") editor = self.components.workflow_editor node = editor.node._(label="create_2") node.wait_for_and_click() self.assert_connected("create_2#out_file1", "metadata_bam#input_bam")
[docs] @selenium_test def test_change_datatype_in_subworkflow(self): self.open_in_workflow_editor( """ class: GalaxyWorkflow inputs: [] steps: nested_workflow: run: class: GalaxyWorkflow inputs: [] steps: - tool_id: create_2 label: create_2 outputs: out_file1: change_datatype: bam outputs: workflow_output: outputSource: create_2/out_file1 metadata_bam: tool_id: metadata_bam """ ) editor = self.components.workflow_editor node = editor.node._(label="nested_workflow") node.wait_for_and_click() node.output_data_row(output_name="workflow_output", extension="bam").wait_for_visible() # Move canvas, so terminals are in viewport self.move_center_of_canvas(xoffset=100, yoffset=100) self.workflow_editor_connect("nested_workflow#workflow_output", "metadata_bam#input_bam") self.assert_connected("nested_workflow#workflow_output", "metadata_bam#input_bam")
[docs] @selenium_test def test_editor_duplicate_node(self): workflow_id = self.workflow_populator.upload_yaml_workflow(WORKFLOW_SIMPLE_CAT_TWICE) self.workflow_index_open() self.workflow_index_click_option("Edit") editor = self.components.workflow_editor cat_node = editor.node._(label="first_cat") cat_node.wait_for_and_click() self.set_text_element(editor.label_input, "source label") # Select node using new label, ensures labels are synced between side panel and node cat_node = editor.node._(label="source label") self.assert_workflow_has_changes_and_save() editor.annotation_input.wait_for_and_send_keys("source annotation") self.assert_workflow_has_changes_and_save() editor.configure_output(output="out_file1").wait_for_and_click() output_label = editor.label_output(output="out_file1") self.set_text_element(output_label, "workflow output label") self.set_text_element(editor.rename_output, "renamed_output") editor.change_datatype.wait_for_and_click() editor.select_dataype_text_search.wait_for_and_send_keys("bam") editor.select_datatype(datatype="bam").wait_for_and_click() self.set_text_element(editor.add_tags, "#crazynewtag") self.set_text_element(editor.remove_tags, "#oldboringtag") self.sleep_for(self.wait_types.UX_RENDER) cat_node.clone.wait_for_and_click() editor.label_input.wait_for_and_send_keys("cloned label") output_label = editor.label_output(output="out_file1") self.set_text_element(output_label, "cloned output label") self.sleep_for(self.wait_types.UX_RENDER) self.assert_workflow_has_changes_and_save() edited_workflow = self.workflow_populator.download_workflow(workflow_id) source_step = next(iter(step for step in edited_workflow["steps"].values() if step["label"] == "source label")) cloned_step = next(iter(step for step in edited_workflow["steps"].values() if step["label"] == "cloned label")) assert source_step["annotation"] == cloned_step["annotation"] == "source annotation" assert source_step["workflow_outputs"][0]["label"] == "workflow output label" assert cloned_step["workflow_outputs"][0]["label"] == "cloned output label" assert len(source_step["post_job_actions"]) == len(cloned_step["post_job_actions"]) == 4 assert source_step["post_job_actions"] == cloned_step["post_job_actions"]
[docs] @selenium_test def test_editor_embed_workflow(self): workflow_populator = self.workflow_populator child_workflow_name = self._get_random_name() workflow_populator.upload_yaml_workflow(WORKFLOW_OPTIONAL_TRUE_INPUT_COLLECTION, name=child_workflow_name) parent_workflow_id = workflow_populator.upload_yaml_workflow( """class: GalaxyWorkflow inputs: [] steps: - tool_id: multiple_versions tool_version: 0.1 label: multiple_versions state: foo: bar """ ) self.workflow_index_open() self.workflow_index_click_option("Edit") editor = self.components.workflow_editor editor.canvas_body.wait_for_visible() editor.tool_menu.wait_for_visible() editor.tool_menu_section_link(section_name="workflows").wait_for_and_click() editor.workflow_link(workflow_title=child_workflow_name).wait_for_and_click() self.sleep_for(self.wait_types.UX_RENDER) self.assert_workflow_has_changes_and_save() workflow = self.workflow_populator.download_workflow(parent_workflow_id) subworkflow_step = workflow["steps"]["1"] assert subworkflow_step["name"] == child_workflow_name assert subworkflow_step["type"] == "subworkflow" assert subworkflow_step["subworkflow"]["a_galaxy_workflow"] == "true"
[docs] @selenium_test def test_editor_invalid_tool_state(self): workflow_populator = self.workflow_populator workflow_populator.upload_yaml_workflow(WORKFLOW_WITH_INVALID_STATE, exact_tools=True) self.workflow_index_open() self.workflow_index_click_option("Edit") self.assert_modal_has_text("Using version '0.2' instead of version '0.0.1'") self.assert_modal_has_text("Using default: '1'") self.screenshot("workflow_editor_invalid_state")
[docs] @selenium_test def test_missing_tools(self): workflow_populator = self.workflow_populator workflow_populator.upload_yaml_workflow( """ class: GalaxyWorkflow inputs: - id: input1 steps: - tool_id: missing label: first_cat state: foo: bar """ ) self.workflow_index_open() self.workflow_index_click_option("Edit") self.assert_modal_has_text("Tool is not installed") self.screenshot("workflow_editor_missing_tool")
[docs] @selenium_test def test_workflow_bookmarking(self): @retry_during_transitions def assert_workflow_bookmarked_status(target_status): name_matches = [c.text == new_workflow_name for c in self.components.tool_panel.workflow_names.all()] status = any(name_matches) self.assertTrue(status == target_status) new_workflow_name = self.workflow_create_new(clear_placeholder=True) # Assert workflow not initially bookmarked. assert_workflow_bookmarked_status(False) self.components.workflow_editor.canvas_body.wait_for_visible() self.wait_for_selector_absent_or_hidden(self.modal_body_selector()) self.components.masthead.workflow.wait_for_and_click() # parse workflow table table_elements = self.workflow_index_table_elements() self.sleep_for(self.wait_types.UX_RENDER) bookmark_td = table_elements[0].find_elements_by_tag_name("td")[4] # get bookmark pseudo element # https://stackoverflow.com/questions/45427223/click-on-pseudo-element-using-selenium self.action_chains().move_to_element_with_offset(bookmark_td, 20, 20).click().perform() self.sleep_for(self.wait_types.UX_TRANSITION) # search for bookmark in tools menu self.components.tool_panel.search.wait_for_and_send_keys(new_workflow_name) assert_workflow_bookmarked_status(True)
[docs] def workflow_editor_maximize_center_pane(self, collapse_left=True, collapse_right=True): if collapse_left: self.components._.left_panel_collapse.wait_for_and_click() if collapse_right: self.components._.right_panel_collapse.wait_for_and_click() self.sleep_for(self.wait_types.UX_RENDER)
[docs] def workflow_editor_connect(self, source, sink, screenshot_partial=None): source_id, sink_id = self.workflow_editor_source_sink_terminal_ids(source, sink) source_element = self.driver.find_element_by_css_selector(f"#{source_id}") sink_element = self.driver.find_element_by_css_selector(f"#{sink_id}") ac = self.action_chains() ac = ac.move_to_element(source_element).click_and_hold() if screenshot_partial: ac = ac.move_to_element_with_offset(sink_element, -5, 0) ac.perform() self.sleep_for(self.wait_types.UX_RENDER) self.screenshot(screenshot_partial) ac = self.action_chains() ac = ac.move_to_element(sink_element).release().perform()
[docs] def assert_connected(self, source, sink): source_id, sink_id = self.workflow_editor_source_sink_terminal_ids(source, sink) self.components.workflow_editor.connector_for(source_id=source_id, sink_id=sink_id).wait_for_visible()
[docs] def assert_not_connected(self, source, sink): source_id, sink_id = self.workflow_editor_source_sink_terminal_ids(source, sink) self.components.workflow_editor.connector_for(source_id=source_id, sink_id=sink_id).wait_for_absent()
[docs] def open_in_workflow_editor(self, yaml_content, auto_layout=True): name = self.workflow_upload_yaml_with_random_name(yaml_content) self.workflow_index_open() self.workflow_index_open_with_name(name) if auto_layout: self.workflow_editor_click_option("Auto Layout") return name
[docs] def workflow_editor_source_sink_terminal_ids(self, source, sink): editor = self.components.workflow_editor source_node_label, source_output = source.split("#", 1) sink_node_label, sink_input = sink.split("#", 1) source_node = editor.node._(label=source_node_label) sink_node = editor.node._(label=sink_node_label) source_node.wait_for_visible() sink_node.wait_for_visible() output_terminal = source_node.output_terminal(name=source_output) input_terminal = sink_node.input_terminal(name=sink_input) output_element = output_terminal.wait_for_visible() input_element = input_terminal.wait_for_visible() source_id = output_element.get_attribute("id") sink_id = input_element.get_attribute("id") return source_id, sink_id
[docs] def workflow_editor_add_input(self, item_name="data_input"): editor = self.components.workflow_editor # Make sure we're on the the workflow editor and not clicking the main tool panel. editor.canvas_body.wait_for_visible() editor.tool_menu.wait_for_visible() editor.tool_menu_section_link(section_name="inputs").wait_for_and_click() editor.tool_menu_item_link(item_name=item_name).wait_for_and_click()
[docs] def workflow_editor_destroy_connection(self, sink): editor = self.components.workflow_editor sink_node_label, sink_input_name = sink.split("#", 1) sink_node = editor.node._(label=sink_node_label) sink_input = sink_node.input_terminal(name=sink_input_name) sink_input.wait_for_and_click() editor.connector_destroy_callout.wait_for_and_click()
[docs] def assert_input_mapped(self, sink): editor = self.components.workflow_editor sink_node_label, sink_input_name = sink.split("#", 1) sink_node = editor.node._(label=sink_node_label) sink_mapping_icon = sink_node.input_mapping_icon(name=sink_input_name) sink_mapping_icon.wait_for_visible()
[docs] def assert_input_not_mapped(self, sink): editor = self.components.workflow_editor sink_node_label, sink_input_name = sink.split("#", 1) sink_node = editor.node._(label=sink_node_label) sink_mapping_icon = sink_node.input_mapping_icon(name=sink_input_name) sink_mapping_icon.wait_for_absent_or_hidden()
[docs] def workflow_index_open_with_name(self, name): self.workflow_index_open() self.workflow_index_search_for(name) self.workflow_index_click_option("Edit")
[docs] def workflow_upload_yaml_with_random_name(self, content): workflow_populator = self.workflow_populator name = self._get_random_name() workflow_populator.upload_yaml_workflow(content, name=name) return name
[docs] @retry_assertion_during_transitions def assert_wf_name_is(self, expected_name): edit_name_element = self.components.workflow_editor.edit_name.wait_for_visible() actual_name = edit_name_element.get_attribute("value") assert expected_name in actual_name, f"'{expected_name}' unequal name '{actual_name}'"
[docs] @retry_assertion_during_transitions def assert_wf_annotation_is(self, expected_annotation): edit_annotation = self.components.workflow_editor.edit_annotation edit_annotation_element = edit_annotation.wait_for_visible() actual_annotation = edit_annotation_element.get_attribute("value") assert ( expected_annotation in actual_annotation ), f"'{expected_annotation}' unequal annotation '{actual_annotation}'"
[docs] @retry_assertion_during_transitions def assert_modal_has_text(self, expected_text): modal_element = self.components.workflow_editor.state_modal_body.wait_for_visible() text = modal_element.text assert expected_text in text, f"Failed to find expected text [{expected_text}] in modal text [{text}]"
[docs] def move_center_of_canvas(self, xoffset=0, yoffset=0): canvas = self.driver.find_element_by_id("canvas-container") chains = ActionChains(self.driver) chains.click_and_hold(canvas).move_by_offset(xoffset=xoffset, yoffset=yoffset).release().perform()