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Source code for galaxy_test.api.test_pages
from typing import (
Any,
Dict,
List,
Optional,
Union,
)
from unittest import SkipTest
from uuid import uuid4
from requests import delete
from requests.models import Response
from galaxy.exceptions import error_codes
from galaxy_test.api._framework import ApiTestCase
from galaxy_test.api.sharable import SharingApiTests
from galaxy_test.base import api_asserts
from galaxy_test.base.populators import (
DatasetPopulator,
skip_without_tool,
WorkflowPopulator,
)
[docs]class BasePagesApiTestCase(ApiTestCase):
dataset_populator: DatasetPopulator
[docs] def setUp(self):
super().setUp()
self.dataset_populator = DatasetPopulator(self.galaxy_interactor)
self.workflow_populator = WorkflowPopulator(self.galaxy_interactor)
def _create_valid_page_with_slug(self, slug, **kwd) -> Dict[str, Any]:
return self.dataset_populator.new_page(slug=slug, **kwd)
def _create_valid_page_as(self, other_email, slug):
run_as_user = self._setup_user(other_email)
page_request = self._test_page_payload(slug=slug)
page_response = self._post("pages", page_request, headers={"run-as": run_as_user["id"]}, admin=True, json=True)
self._assert_status_code_is(page_response, 200)
return page_response.json()
def _test_page_payload(self, **kwds):
return self.dataset_populator.new_page_payload(**kwds)
[docs]class TestPagesApi(BasePagesApiTestCase, SharingApiTests):
api_name = "pages"
[docs] def create(self, name: str) -> str:
response_json = self._create_valid_page_with_slug(name)
return response_json["id"]
[docs] def test_create(self):
response_json = self._create_valid_page_with_slug("mypage")
self._assert_has_keys(response_json, "slug", "title", "id")
[docs] @skip_without_tool("cat")
def test_create_from_report(self):
test_data = """
input_1:
value: 1.bed
type: File
"""
with self.dataset_populator.test_history() as history_id:
summary = self.workflow_populator.run_workflow(
"""
class: GalaxyWorkflow
inputs:
input_1: data
outputs:
output_1:
outputSource: first_cat/out_file1
steps:
first_cat:
tool_id: cat
in:
input1: input_1
""",
test_data=test_data,
history_id=history_id,
)
workflow_id = summary.workflow_id
invocation_id = summary.invocation_id
report_json = self.workflow_populator.workflow_report_json(workflow_id, invocation_id)
assert "markdown" in report_json
self._assert_has_keys(report_json, "markdown", "render_format")
assert report_json["render_format"] == "markdown"
markdown_content = report_json["markdown"]
page_request = dict(
slug="invocation-report",
title="Invocation Report",
invocation_id=invocation_id,
)
page_response = self._post("pages", page_request, json=True)
self._assert_status_code_is(page_response, 200)
page_response = page_response.json()
show_response = self._get(f"pages/{page_response['id']}")
self._assert_status_code_is(show_response, 200)
show_json = show_response.json()
self._assert_has_keys(show_json, "slug", "title", "id")
assert show_json["slug"] == "invocation-report"
assert show_json["title"] == "Invocation Report"
assert show_json["content_format"] == "markdown"
markdown_content = show_json["content"]
assert "## Workflow Outputs" in markdown_content
assert "## Workflow Inputs" in markdown_content
assert "## About This Report" not in markdown_content
[docs] def test_index(self):
create_response_json = self._create_valid_page_with_slug("indexpage")
assert self._users_index_has_page_with_id(create_response_json)
[docs] def test_index_deleted(self):
response1 = self._create_valid_page_with_slug("indexdeletedpageundeleted")
response2 = self._create_valid_page_with_slug("indexdeletedpagedeleted")
assert self._users_index_has_page_with_id(response1)
assert self._users_index_has_page_with_id(response2)
delete_response = self._delete(f"pages/{response2['id']}")
delete_response.raise_for_status()
assert self._users_index_has_page_with_id(response1)
assert not self._users_index_has_page_with_id(response2)
assert self._users_index_has_page_with_id(response2, dict(deleted=True, show_published=False))
[docs] def test_index_user_id_security(self):
user_id = self.dataset_populator.user_id()
response1 = self._create_valid_page_with_slug("indexuseridsecurity")
assert self._users_index_has_page_with_id(response1, dict(user_id=user_id))
with self._different_user():
response = self._index_raw()
assert response.status_code == 200
response = self._index_raw(dict(user_id=user_id))
assert response.status_code == 403
[docs] def test_index_user_published(self):
user_id = self.dataset_populator.user_id()
response1 = self._create_valid_page_with_slug("indexuseridpublish1")
with self._different_user():
response2 = self._create_published_page_with_slug("indexuseridpublish2")
assert self._users_index_has_page_with_id(response1)
assert self._users_index_has_page_with_id(response2)
assert self._users_index_has_page_with_id(response1, dict(user_id=user_id))
assert not self._users_index_has_page_with_id(response2, dict(user_id=user_id))
[docs] def test_index_show_published(self):
with self._different_user():
response = self._create_published_page_with_slug("indexshowpublish2")
assert self._users_index_has_page_with_id(response)
assert self._users_index_has_page_with_id(response, dict(show_published=True))
assert not self._users_index_has_page_with_id(response, dict(show_published=False))
[docs] def test_index_owner(self):
my_workflow_id_1 = self._create_valid_page_with_slug("ownertags-m-1")
email_1 = f"{uuid4()}@test.com"
with self._different_user(email=email_1):
published_page_id_1 = self._create_published_page_with_slug("ownertags-p-1")["id"]
owner_1 = self._get("users").json()[0]["username"]
email_2 = f"{uuid4()}@test.com"
with self._different_user(email=email_2):
published_page_id_2 = self._create_published_page_with_slug("ownertags-p-2")["id"]
index_ids = self._index_ids(dict(search="is:published", show_published=True))
assert published_page_id_1 in index_ids
assert published_page_id_2 in index_ids
assert my_workflow_id_1 not in index_ids
index_ids = self._index_ids(dict(search=f"is:published u:{owner_1}", show_published=True))
assert published_page_id_1 in index_ids
assert published_page_id_2 not in index_ids
assert my_workflow_id_1 not in index_ids
index_ids = self._index_ids(dict(search=f"is:published u:'{owner_1}'", show_published=True))
assert published_page_id_1 in index_ids
assert published_page_id_2 not in index_ids
assert my_workflow_id_1 not in index_ids
index_ids = self._index_ids(dict(search=f"is:published {owner_1}", show_published=True))
assert published_page_id_1 in index_ids
assert published_page_id_2 not in index_ids
assert my_workflow_id_1 not in index_ids
[docs] def test_index_ordering(self):
older1 = self._create_valid_page_with_slug(slug="indexorderingcreatedfirst", title="A PAGE")["id"]
newer1 = self._create_valid_page_with_slug(slug="indexorderingcreatedsecond", title="B PAGE")["id"]
index_ids = self._index_ids(dict(sort_desc=True))
assert index_ids.index(older1) > index_ids.index(newer1)
index_ids = self._index_ids()
assert index_ids.index(older1) < index_ids.index(newer1)
index_ids = self._index_ids(dict(sort_desc=False)) # the default but verify it works when explicit
assert index_ids.index(older1) < index_ids.index(newer1)
# update older1 so the update time is newer...
revision_data = dict(content="<p>NewContent!</p>")
self._post(f"pages/{older1}/revisions", data=revision_data).raise_for_status()
index_ids = self._index_ids(dict(sort_desc=True))
assert index_ids.index(older1) < index_ids.index(newer1)
index_ids = self._index_ids(dict(sort_by="title", sort_desc=False))
assert index_ids.index(older1) < index_ids.index(newer1)
[docs] def test_index_limit_offset(self):
older1 = self._create_valid_page_with_slug("indexlimitoffsetcreatedfirst")["id"]
newer1 = self._create_valid_page_with_slug("indexlimitoffsetcreatedsecond")["id"]
index_ids = self._index_ids(dict(limit=1, sort_desc=True))
assert newer1 in index_ids
assert older1 not in index_ids
index_ids = self._index_ids(dict(limit=1, offset=1, sort_desc=True))
assert newer1 not in index_ids
assert older1 in index_ids
[docs] def test_index_search_slug(self):
response = self._create_valid_page_with_slug("indexsearchstringfoo")
older1 = response["id"]
newer1 = self._create_valid_page_with_slug("indexsearchstringbar")["id"]
index_ids = self._index_ids(dict(search="slug:indexsearchstringfoo"))
assert newer1 not in index_ids
assert older1 in index_ids
index_ids = self._index_ids(dict(search="slug:'indexsearchstringfoo'"))
assert newer1 not in index_ids
assert older1 in index_ids
index_ids = self._index_ids(dict(search="slug:foo"))
assert newer1 not in index_ids
assert older1 in index_ids
index_ids = self._index_ids(dict(search="foo"))
assert newer1 not in index_ids
assert older1 in index_ids
[docs] def test_index_search_title(self):
page_id = self._create_valid_page_with_slug("indexsearchbytitle", title="mycooltitle")["id"]
assert page_id in self._index_ids(dict(search="mycooltitle"))
assert page_id not in self._index_ids(dict(search="mycoolwrongtitle"))
assert page_id in self._index_ids(dict(search="title:mycoolti"))
assert page_id in self._index_ids(dict(search="title:'mycooltitle'"))
assert page_id not in self._index_ids(dict(search="title:'mycoolti'"))
[docs] def test_index_search_sharing_tags(self):
user_id = self.dataset_populator.user_id()
with self._different_user():
response_published = self._create_valid_page_with_slug("indexshowsharedpublishedtags")["id"]
self._make_public(response_published)
response_shared = self._create_valid_page_with_slug("indexshowsharedsharedtags")["id"]
self._share_with_user(response_shared, user_id)
assert response_published in self._index_ids(dict(show_published=True, show_shared=True))
assert response_shared in self._index_ids(dict(show_published=True, show_shared=True))
assert response_published in self._index_ids(dict(show_published=True, show_shared=True, search="is:published"))
assert response_shared not in self._index_ids(
dict(show_published=True, show_shared=True, search="is:published")
)
assert response_published not in self._index_ids(
dict(show_published=True, show_shared=True, search="is:shared_with_me")
)
assert response_shared in self._index_ids(
dict(show_published=True, show_shared=True, search="is:shared_with_me")
)
[docs] def test_cannot_create_pages_with_same_slug(self):
page_request = self._test_page_payload(slug="mypage1")
page_response_1 = self._post("pages", page_request, json=True)
self._assert_status_code_is(page_response_1, 200)
page_response_2 = self._post("pages", page_request, json=True)
self._assert_status_code_is(page_response_2, 400)
self._assert_error_code_is(page_response_2, error_codes.error_codes_by_name["USER_SLUG_DUPLICATE"])
[docs] def test_cannot_create_pages_with_invalid_slug(self):
page_request = self._test_page_payload(slug="invalid slug!")
page_response = self._post("pages", page_request, json=True)
self._assert_status_code_is(page_response, 400)
[docs] def test_cannot_create_page_with_invalid_content_format(self):
page_request = self._test_page_payload(slug="mypageinvalidformat")
page_request["content_format"] = "xml"
page_response_1 = self._post("pages", page_request, json=True)
self._assert_status_code_is(page_response_1, 400)
self._assert_error_code_is(page_response_1, error_codes.error_codes_by_name["USER_REQUEST_INVALID_PARAMETER"])
[docs] def test_page_requires_name(self):
page_request = self._test_page_payload(slug="requires-name")
del page_request["title"]
page_response = self._post("pages", page_request, json=True)
self._assert_status_code_is(page_response, 400)
self._assert_error_code_is(page_response, error_codes.error_codes_by_name["USER_REQUEST_MISSING_PARAMETER"])
[docs] def test_page_requires_slug(self):
page_request = self._test_page_payload()
del page_request["slug"]
page_response = self._post("pages", page_request, json=True)
self._assert_status_code_is(page_response, 400)
[docs] def test_delete(self):
response_json = self._create_valid_page_with_slug("testdelete")
delete_response = delete(self._api_url(f"pages/{response_json['id']}", use_key=True))
self._assert_status_code_is(delete_response, 204)
[docs] def test_400_on_delete_invalid_page_id(self):
delete_response = delete(self._api_url(f"pages/{self._random_key()}", use_key=True))
self._assert_status_code_is(delete_response, 400)
self._assert_error_code_is(delete_response, error_codes.error_codes_by_name["MALFORMED_ID"])
[docs] def test_403_on_delete_unowned_page(self):
page_response = self._create_valid_page_as("others_page@bx.psu.edu", "otherspage")
delete_response = delete(self._api_url(f"pages/{page_response['id']}", use_key=True))
self._assert_status_code_is(delete_response, 403)
self._assert_error_code_is(delete_response, error_codes.error_codes_by_name["USER_DOES_NOT_OWN_ITEM"])
[docs] def test_400_on_invalid_id_encoding(self):
page_request = self._test_page_payload(slug="invalid-id-encding")
page_request["content"] = """<p>Page!<div class="embedded-item" id="History-invaidencodedid"></div></p>"""
page_response = self._post("pages", page_request, json=True)
self._assert_status_code_is(page_response, 400)
self._assert_error_code_is(page_response, error_codes.error_codes_by_name["MALFORMED_ID"])
[docs] def test_400_on_invalid_id_encoding_markdown(self):
page_request = self._test_page_payload(slug="invalid-id-encding-markdown", content_format="markdown")
page_request["content"] = """```galaxy\nhistory_dataset_display(history_dataset_id=badencoding)\n```\n"""
page_response = self._post("pages", page_request, json=True)
self._assert_status_code_is(page_response, 400)
self._assert_error_code_is(page_response, error_codes.error_codes_by_name["MALFORMED_ID"])
[docs] def test_400_on_invalid_embedded_content(self):
valid_id = self.dataset_populator.new_history()
page_request = self._test_page_payload(slug="invalid-embed-content")
page_request["content"] = f"""<p>Page!<div class="embedded-item" id="CoolObject-{valid_id}"></div></p>"""
page_response = self._post("pages", page_request, json=True)
self._assert_status_code_is(page_response, 400)
self._assert_error_code_is(page_response, error_codes.error_codes_by_name["USER_REQUEST_INVALID_PARAMETER"])
assert "embedded HTML content" in page_response.text
[docs] def test_400_on_invalid_markdown_call(self):
page_request = self._test_page_payload(slug="invalid-markdown-call", content_format="markdown")
page_request["content"] = """```galaxy\njob_metrics(job_id)\n```\n"""
page_response = self._post("pages", page_request, json=True)
self._assert_status_code_is(page_response, 400)
self._assert_error_code_is(page_response, error_codes.error_codes_by_name["MALFORMED_CONTENTS"])
[docs] def test_show(self):
response_json = self._create_valid_page_with_slug("pagetoshow")
show_response = self._get(f"pages/{response_json['id']}")
self._assert_status_code_is(show_response, 200)
show_json = show_response.json()
self._assert_has_keys(show_json, "slug", "title", "id")
assert show_json["slug"] == "pagetoshow"
assert show_json["title"] == "MY PAGE"
assert show_json["content"] == "<p>Page!</p>"
assert show_json["content_format"] == "html"
[docs] def test_403_on_unowner_show(self):
response_json = self._create_valid_page_as("others_page_show@bx.psu.edu", "otherspageshow")
show_response = self._get(f"pages/{response_json['id']}")
self._assert_status_code_is(show_response, 403)
self._assert_error_code_is(show_response, error_codes.error_codes_by_name["USER_CANNOT_ACCESS_ITEM"])
[docs] def test_pdf_when_service_available(self):
configuration = self.dataset_populator.get_configuration()
can_produce_markdown = configuration["markdown_to_pdf_available"]
if not can_produce_markdown:
raise SkipTest("Skipping test because server does not implement markdown conversion to PDF")
page_request = self._test_page_payload(slug="md-page-to-pdf", content_format="markdown")
page_response = self._post("pages", page_request, json=True)
self._assert_status_code_is(page_response, 200)
page_id = page_response.json()["id"]
pdf_response = self._get(f"pages/{page_id}.pdf")
api_asserts.assert_status_code_is(pdf_response, 200)
assert "application/pdf" in pdf_response.headers["content-type"]
assert pdf_response.content[0:4] == b"%PDF"
[docs] def test_400_on_download_pdf_when_unsupported_content_format(self):
page_request = self._test_page_payload(slug="html-page-to-pdf", content_format="html")
page_response = self._post("pages", page_request, json=True)
self._assert_status_code_is(page_response, 200)
page_id = page_response.json()["id"]
pdf_response = self._get(f"pages/{page_id}.pdf")
self._assert_status_code_is(pdf_response, 400)
def _create_published_page_with_slug(self, slug, **kwd) -> Dict[str, Any]:
response = self.dataset_populator.new_page(slug=slug, **kwd)
response = self._make_public(response["id"])
return response
def _make_public(self, page_id: str) -> dict:
return self.dataset_populator.make_page_public(page_id)
def _share_with_user(self, page_id: str, user_id_or_email: str):
data = {"user_ids": [user_id_or_email]}
response = self._put(f"pages/{page_id}/share_with_users", data, json=True)
api_asserts.assert_status_code_is_ok(response)
def _index_raw(self, params: Optional[Dict[str, Any]] = None) -> Response:
index_response = self._get("pages", data=params or {})
return index_response
def _index(self, params: Optional[Dict[str, Any]] = None) -> List[Dict[str, Any]]:
index_response = self._index_raw(params)
self._assert_status_code_is(index_response, 200)
return index_response.json()
def _index_ids(self, params: Optional[Dict[str, Any]] = None) -> List[Dict[str, Any]]:
return [p["id"] for p in self._index(params)]
def _users_index_has_page_with_id(
self, has_id: Union[Dict[str, Any], str], params: Optional[Dict[str, Any]] = None
):
pages = self._index(params)
if isinstance(has_id, dict):
target_id = has_id["id"]
else:
target_id = has_id
return target_id in (_["id"] for _ in pages)