[pre-commit.ci] pre-commit autoupdate

.github/ISSUE_TEMPLATE/enhancement.md

@@ -8,7 +8,7 @@ ______________________________________________________________________
 #### Is your feature request related to a problem?
 
 Provide a description of what the problem is, e.g. "I wish I could use pytask-r to do
-\[...\]".
+[...]".
 
 #### Describe the solution you'd like
 

.pre-commit-config.yaml

@@ -1,6 +1,6 @@
 repos:
 -   repo: https://github.com/pre-commit/pre-commit-hooks
-    rev: v4.6.0
+    rev: v5.0.0
     hooks:
     -   id: check-added-large-files
         args: ['--maxkb=100']
@@ -18,7 +18,7 @@ repos:
     -   id: python-use-type-annotations
     -   id: text-unicode-replacement-char
 -   repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: v0.4.2
+    rev: v0.11.2
     hooks:
       - id: ruff
       - id: ruff-format
@@ -27,7 +27,7 @@ repos:
     hooks:
     -   id: refurb
 -   repo: https://github.com/executablebooks/mdformat
-    rev: 0.7.17
+    rev: 0.7.22
     hooks:
     -   id: mdformat
         additional_dependencies: [
@@ -36,7 +36,7 @@ repos:
         ]
         args: [--wrap, "88"]
 - repo: https://github.com/codespell-project/codespell
-  rev: v2.2.6
+  rev: v2.4.1
   hooks:
     -   id: codespell
 -   repo: meta

src/pytask_r/serialization.py

@@ -11,7 +11,7 @@
 from pytask import PTask
 from pytask import PTaskWithPath
 
-__all__ = ["create_path_to_serialized", "serialize_keyword_arguments", "SERIALIZERS"]
+__all__ = ["SERIALIZERS", "create_path_to_serialized", "serialize_keyword_arguments"]
 
 _HIDDEN_FOLDER = ".pytask/pytask-r"
 

tests/conftest.py

@@ -15,7 +15,7 @@
 
 
 parametrize_parse_code_serializer_suffix = pytest.mark.parametrize(
-    "parse_config_code, serializer, suffix",
+    ("parse_config_code", "serializer", "suffix"),
     [
         (
             "library(jsonlite); args <- commandArgs(trailingOnly=TRUE); "
@@ -92,6 +92,6 @@ def invoke(self, *args, **kwargs):
             return super().invoke(*args, **kwargs)
 
 
-@pytest.fixture()
+@pytest.fixture
 def runner():
     return CustomCliRunner()

tests/test_collect.py

@@ -4,12 +4,13 @@
 
 import pytest
 from pytask import Mark
+
 from pytask_r.collect import _parse_r_mark
 from pytask_r.collect import r
 from pytask_r.serialization import SERIALIZERS
 
 
-@pytest.mark.unit()
+@pytest.mark.unit
 @pytest.mark.parametrize(
     ("args", "kwargs", "expectation", "expected"),
     [
@@ -43,7 +44,7 @@ def test_r(args, kwargs, expectation, expected):
         assert result == expected
 
 
-@pytest.mark.unit()
+@pytest.mark.unit
 @pytest.mark.parametrize(
     (
         "mark",

tests/test_config.py

@@ -4,7 +4,7 @@
 from pytask import build
 
 
-@pytest.mark.end_to_end()
+@pytest.mark.end_to_end
 def test_marker_is_configured(tmp_path):
     session = build(paths=tmp_path)
     assert "r" in session.config["markers"]

tests/test_execute.py

@@ -9,13 +9,13 @@
 from pytask import Task
 from pytask import build
 from pytask import cli
-from pytask_r.execute import pytask_execute_task_setup
 
+from pytask_r.execute import pytask_execute_task_setup
 from tests.conftest import needs_rscript
 from tests.conftest import parametrize_parse_code_serializer_suffix
 
 
-@pytest.mark.unit()
+@pytest.mark.unit
 def test_pytask_execute_task_setup(monkeypatch):
     """Make sure that the task setup raises errors."""
     # Act like r is installed since we do not test this.
@@ -33,7 +33,7 @@ def test_pytask_execute_task_setup(monkeypatch):
 
 
 @needs_rscript
-@pytest.mark.end_to_end()
+@pytest.mark.end_to_end
 @parametrize_parse_code_serializer_suffix
 @pytest.mark.parametrize("depends_on", ["'in_1.txt'", "['in_1.txt', 'in_2.txt']"])
 def test_run_r_script(  # noqa: PLR0913
@@ -70,7 +70,7 @@ def task_run_r_script(produces = Path("out.txt")): ...
 
 
 @needs_rscript
-@pytest.mark.end_to_end()
+@pytest.mark.end_to_end
 @parametrize_parse_code_serializer_suffix
 def test_run_r_script_w_task_decorator(
     runner, tmp_path, parse_config_code, serializer, suffix
@@ -100,7 +100,7 @@ def run_r_script(): ...
 
 
 @needs_rscript
-@pytest.mark.end_to_end()
+@pytest.mark.end_to_end
 @parametrize_parse_code_serializer_suffix
 def test_raise_error_if_rscript_is_not_found(
     tmp_path, monkeypatch, parse_config_code, serializer, suffix
@@ -132,7 +132,7 @@ def task_run_r_script(): ...
 
 
 @needs_rscript
-@pytest.mark.end_to_end()
+@pytest.mark.end_to_end
 @parametrize_parse_code_serializer_suffix
 def test_run_r_script_w_saving_workspace(
     runner, tmp_path, parse_config_code, serializer, suffix
@@ -167,7 +167,7 @@ def task_run_r_script(): ...
 
 
 @needs_rscript
-@pytest.mark.end_to_end()
+@pytest.mark.end_to_end
 @parametrize_parse_code_serializer_suffix
 def test_run_r_script_w_wrong_cmd_option(
     runner, tmp_path, parse_config_code, serializer, suffix
@@ -202,7 +202,7 @@ def task_run_r_script(): ...
 
 
 @needs_rscript
-@pytest.mark.end_to_end()
+@pytest.mark.end_to_end
 def test_run_r_script_w_custom_serializer(runner, tmp_path):
     task_source = """
     import pytask
@@ -232,7 +232,7 @@ def task_run_r_script(): ...
 
 
 @needs_rscript
-@pytest.mark.end_to_end()
+@pytest.mark.end_to_end
 def test_run_r_script_fails_w_multiple_markers(runner, tmp_path):
     task_source = """
     import pytask
@@ -252,7 +252,7 @@ def task_run_r_script(): ...
 
 
 @needs_rscript
-@pytest.mark.end_to_end()
+@pytest.mark.end_to_end
 def test_run_r_script_with_capital_extension(runner, tmp_path):
     task_source = """
     import pytask
@@ -280,7 +280,7 @@ def task_run_r_script(): ...
 
 
 @needs_rscript
-@pytest.mark.end_to_end()
+@pytest.mark.end_to_end
 @parametrize_parse_code_serializer_suffix
 def test_run_r_script_w_nested_inputs(
     runner, tmp_path, parse_config_code, serializer, suffix

tests/test_normal_execution_w_plugin.py

@@ -9,7 +9,7 @@
 from pytask import cli
 
 
-@pytest.mark.end_to_end()
+@pytest.mark.end_to_end
 @pytest.mark.parametrize(
     "dependencies",
     [(), ("in.txt",), ("in_1.txt", "in_2.txt")],

tests/test_parallel.py

@@ -25,7 +25,7 @@
 
 
 @needs_rscript
-@pytest.mark.end_to_end()
+@pytest.mark.end_to_end
 @parametrize_parse_code_serializer_suffix
 def test_parallel_parametrization_over_source_files_w_loop(
     runner, tmp_path, parse_config_code, serializer, suffix
@@ -69,7 +69,7 @@ def task_execute_r_script():
 
 
 @needs_rscript
-@pytest.mark.end_to_end()
+@pytest.mark.end_to_end
 @parametrize_parse_code_serializer_suffix
 def test_parallel_parametrization_over_source_file_w_loop(
     runner, tmp_path, parse_config_code, serializer, suffix
@@ -106,7 +106,7 @@ def execute_r_script():
 
 
 @needs_rscript
-@pytest.mark.end_to_end()
+@pytest.mark.end_to_end
 @parametrize_parse_code_serializer_suffix
 @pytest.mark.xfail(reason="@task does not support partialed functions.")
 def test_parallel_parametrization_over_source_file_w_loop_and_lambda(

tests/test_parametrize.py

@@ -11,7 +11,7 @@
 
 
 @needs_rscript
-@pytest.mark.end_to_end()
+@pytest.mark.end_to_end
 @parametrize_parse_code_serializer_suffix
 def test_parametrized_execution_of_r_script_w_loop(
     runner, tmp_path, parse_config_code, serializer, suffix
@@ -53,7 +53,7 @@ def task_run_r_script():
 
 
 @needs_rscript
-@pytest.mark.end_to_end()
+@pytest.mark.end_to_end
 @parametrize_parse_code_serializer_suffix
 def test_parametrize_r_options_and_product_paths_w_loop(
     runner, tmp_path, parse_config_code, serializer, suffix