Move python tool configurations to pyproject.toml, and add the python 3.11 classifier. (#9112)

python-package/.pylintrc

@@ -1,26 +0,0 @@
-[MASTER]
-
-ignore=tests
-
-extension-pkg-whitelist=numpy
-
-disable=unexpected-special-method-signature,too-many-nested-blocks,useless-object-inheritance,import-outside-toplevel,unsubscriptable-object,attribute-defined-outside-init
-
-dummy-variables-rgx=(unused|)_.*
-
-reports=no
-
-[BASIC]
-
-# Enforce naming convention
-const-naming-style=UPPER_CASE
-class-naming-style=PascalCase
-function-naming-style=snake_case
-method-naming-style=snake_case
-attr-naming-style=snake_case
-argument-naming-style=snake_case
-variable-naming-style=snake_case
-class-attribute-naming-style=snake_case
-
-# Allow single-letter variables
-variable-rgx=[a-zA-Z_][a-z0-9_]{0,30}$

python-package/pyproject.toml

@@ -9,13 +9,13 @@ build-backend = "packager.pep517"
 name = "xgboost"
 version = "2.0.0-dev"
 authors = [
-    {name = "Hyunsu Cho", email = "chohyu01@cs.washington.edu"},
+    { name = "Hyunsu Cho", email = "chohyu01@cs.washington.edu" },
-    {name = "Jiaming Yuan", email = "jm.yuan@outlook.com"}
+    { name = "Jiaming Yuan", email = "jm.yuan@outlook.com" }
 ]
 description = "XGBoost Python Package"
-readme = {file = "README.rst", content-type = "text/x-rst"}
+readme = { file = "README.rst", content-type = "text/x-rst" }
 requires-python = ">=3.8"
-license = {text = "Apache-2.0"}
+license = { text = "Apache-2.0" }
 classifiers = [
     "License :: OSI Approved :: Apache Software License",
     "Development Status :: 5 - Production/Stable",
@@ -24,7 +24,8 @@ classifiers = [
     "Programming Language :: Python :: 3",
     "Programming Language :: Python :: 3.8",
     "Programming Language :: Python :: 3.9",
-    "Programming Language :: Python :: 3.10"
+    "Programming Language :: Python :: 3.10",
+    "Programming Language :: Python :: 3.11"
 ]
 dependencies = [
     "numpy",
@@ -44,3 +45,39 @@ plotting = ["graphviz", "matplotlib"]
 pyspark = ["pyspark", "scikit-learn", "cloudpickle"]
 
 [tool.hatch.build.targets.wheel.hooks.custom]
+
+[tool.isort]
+profile = "black"
+
+[tool.mypy]
+ignore_missing_imports = true
+disallow_untyped_defs = true
+follow_imports = "silent"
+
+[tool.pylint.main]
+ignore = ["tests"]
+extension-pkg-whitelist = ["numpy"]
+disable = [
+    "attribute-defined-outside-init",
+    "import-outside-toplevel",
+    "too-many-nested-blocks",
+    "unexpected-special-method-signature",
+    "unsubscriptable-object",
+    "useless-object-inheritance"
+]
+dummy-variables-rgx = "(unused|)_.*"
+reports = false
+
+[tool.pylint.basic]
+# Enforce naming convention
+const-naming-style = "UPPER_CASE"
+class-naming-style = "PascalCase"
+function-naming-style = "snake_case"
+method-naming-style = "snake_case"
+attr-naming-style = "snake_case"
+argument-naming-style = "snake_case"
+variable-naming-style = "snake_case"
+class-attribute-naming-style = "snake_case"
+
+# Allow single-letter variables
+variable-rgx = "[a-zA-Z_][a-z0-9_]{0,30}$"

python-package/setup.cfg

@@ -1,7 +0,0 @@
-[metadata]
-description_file = README.rst
-
-[mypy]
-ignore_missing_imports = True
-disallow_untyped_defs = True
-follow_imports = silent

tests/ci_build/lint_python.py

@@ -1,227 +1,225 @@
 import argparse
 import os
+import pathlib
 import subprocess
 import sys
+from collections import Counter
 from multiprocessing import Pool, cpu_count
-from typing import Dict, Tuple
+from typing import Dict, List, Tuple
 
-from pylint import epylint
 from test_utils import PY_PACKAGE, ROOT, cd, print_time, record_time
 
-CURDIR = os.path.normpath(os.path.abspath(os.path.dirname(__file__)))
+
-SRCPATH = os.path.normpath(
+class LintersPaths:
-    os.path.join(CURDIR, os.path.pardir, os.path.pardir, "python-package")
+    """The paths each linter run on."""
-)
+
+    BLACK = (
+        # core
+        "python-package/",
+        # tests
+        "tests/python/test_config.py",
+        "tests/python/test_data_iterator.py",
+        "tests/python/test_dt.py",
+        "tests/python/test_predict.py",
+        "tests/python/test_quantile_dmatrix.py",
+        "tests/python/test_tree_regularization.py",
+        "tests/python-gpu/test_gpu_data_iterator.py",
+        "tests/test_distributed/test_with_spark/",
+        "tests/test_distributed/test_gpu_with_spark/",
+        # demo
+        "demo/json-model/json_parser.py",
+        "demo/guide-python/cat_in_the_dat.py",
+        "demo/guide-python/categorical.py",
+        "demo/guide-python/feature_weights.py",
+        "demo/guide-python/sklearn_parallel.py",
+        "demo/guide-python/spark_estimator_examples.py",
+        "demo/guide-python/individual_trees.py",
+        "demo/guide-python/quantile_regression.py",
+        "demo/guide-python/multioutput_regression.py",
+        # CI
+        "tests/ci_build/lint_python.py",
+        "tests/ci_build/test_r_package.py",
+        "tests/ci_build/test_utils.py",
+        "tests/ci_build/change_version.py",
+    )
+
+    ISORT = (
+        # core
+        "python-package/",
+        # tests
+        "tests/test_distributed/",
+        "tests/python/",
+        "tests/python-gpu/",
+        "tests/ci_build/",
+        # demo
+        "demo/",
+        # misc
+        "dev/",
+        "doc/",
+    )
+
+    MYPY = (
+        # core
+        "python-package/",
+        # tests
+        "tests/python/test_dt.py",
+        "tests/python/test_data_iterator.py",
+        "tests/python-gpu/test_gpu_data_iterator.py",
+        "tests/test_distributed/test_with_spark/test_data.py",
+        "tests/test_distributed/test_gpu_with_spark/test_data.py",
+        "tests/test_distributed/test_gpu_with_dask/test_gpu_with_dask.py",
+        # demo
+        "demo/json-model/json_parser.py",
+        "demo/guide-python/external_memory.py",
+        "demo/guide-python/cat_in_the_dat.py",
+        "demo/guide-python/feature_weights.py",
+        "demo/guide-python/individual_trees.py",
+        "demo/guide-python/quantile_regression.py",
+        "demo/guide-python/multioutput_regression.py",
+        # CI
+        "tests/ci_build/lint_python.py",
+        "tests/ci_build/test_r_package.py",
+        "tests/ci_build/test_utils.py",
+        "tests/ci_build/change_version.py",
+    )
+
+
+def check_cmd_print_failure_assistance(cmd: List[str]) -> bool:
+    if subprocess.run(cmd).returncode == 0:
+        return True
+
+    subprocess.run([cmd[0], "--version"])
+    msg = """
+Please run the following command on your machine to address the formatting error:
+
+    """
+    msg += " ".join(cmd)
+    print(msg, file=sys.stderr)
+    return False
 
 
 @record_time
+@cd(PY_PACKAGE)
 def run_black(rel_path: str, fix: bool) -> bool:
-    if fix:
+    cmd = ["black", "-q", os.path.join(ROOT, rel_path)]
-        cmd = ["black", "-q", rel_path]
+    if not fix:
-    else:
+        cmd += ["--check"]
-        cmd = ["black", "-q", "--check", rel_path]
-    ret = subprocess.run(cmd).returncode
-    if ret != 0:
-        subprocess.run(["black", "--version"])
-        msg = """
-Please run the following command on your machine to address the formatting error:
 
-        """
+    return check_cmd_print_failure_assistance(cmd)
-        msg += " ".join(cmd)
-        print(msg, file=sys.stderr)
-        return False
-    return True
 
 
 @record_time
+@cd(PY_PACKAGE)
 def run_isort(rel_path: str, fix: bool) -> bool:
-    if fix:
+    # Isort gets confused when trying to find the config file, so specified explicitly.
-        cmd = ["isort", f"--src={SRCPATH}", "--profile=black", rel_path]
+    cmd = ["isort", "--settings-path", PY_PACKAGE, os.path.join(ROOT, rel_path)]
-    else:
+    if not fix:
-        cmd = ["isort", f"--src={SRCPATH}", "--check", "--profile=black", rel_path]
+        cmd += ["--check"]
-    ret = subprocess.run(cmd).returncode
-    if ret != 0:
-        subprocess.run(["isort", "--version"])
-        msg = """
-Please run the following command on your machine to address the formatting error:
 
-        """
+    return check_cmd_print_failure_assistance(cmd)
-        msg += " ".join(cmd)
-        print(msg, file=sys.stderr)
-        return False
-    return True
 
 
 @record_time
 @cd(PY_PACKAGE)
 def run_mypy(rel_path: str) -> bool:
-    path = os.path.join(ROOT, rel_path)
+    cmd = ["mypy", os.path.join(ROOT, rel_path)]
-    ret = subprocess.run(["mypy", path])
+
-    if ret.returncode != 0:
+    return check_cmd_print_failure_assistance(cmd)
-        return False
-    return True
 
 
 class PyLint:
     """A helper for running pylint, mostly copied from dmlc-core/scripts."""
 
-    def __init__(self) -> None:
+    MESSAGE_CATEGORIES = {
-        self.pypackage_root = os.path.join(ROOT, "python-package/")
+        "Fatal",
-        self.pylint_cats = set(["error", "warning", "convention", "refactor"])
+        "Error",
-        self.pylint_opts = [
+        "Warning",
-            "--extension-pkg-whitelist=numpy",
+        "Convention",
-            "--rcfile=" + os.path.join(self.pypackage_root, ".pylintrc"),
+        "Refactor",
-        ]
+        "Information",
+    }
+    MESSAGE_PREFIX_TO_CATEGORY = {
+        category[0]: category for category in MESSAGE_CATEGORIES
+    }
 
-    def run(self, path: str) -> Tuple[Dict, str, str]:
+    @classmethod
-        (pylint_stdout, pylint_stderr) = epylint.py_run(
+    @cd(PY_PACKAGE)
-            " ".join([str(path)] + self.pylint_opts), return_std=True
+    def get_summary(cls, path: str) -> Tuple[str, Dict[str, int], str, str, bool]:
+        """Get the summary of pylint's errors, warnings, etc."""
+        ret = subprocess.run(["pylint", path], capture_output=True)
+        stdout = ret.stdout.decode("utf-8")
+
+        emap: Dict[str, int] = Counter()
+        for line in stdout.splitlines():
+            if ":" in line and (
+                category := cls.MESSAGE_PREFIX_TO_CATEGORY.get(
+                    line.split(":")[-2].strip()[0]
+                )
+            ):
+                emap[category] += 1
+
+        return path, emap, stdout, ret.stderr.decode("utf-8"), ret.returncode == 0
+
+    @staticmethod
+    def print_summary_map(result_map: Dict[str, Dict[str, int]]) -> int:
+        """Print summary of certain result map."""
+        if len(result_map) == 0:
+            return 0
+
+        ftype = "Python"
+        nfail = sum(map(bool, result_map.values()))
+        print(
+            f"====={len(result_map) - nfail}/{len(result_map)} {ftype} files passed check====="
         )
-        emap = {}
+        for fname, emap in result_map.items():
-        err = pylint_stderr.read()
+            if emap:
+                print(
+                    f"{fname}: {sum(emap.values())} Errors of {len(emap)} Categories map={emap}"
+                )
+        return nfail
 
-        out = []
+    @classmethod
-        for line in pylint_stdout:
+    def run(cls) -> bool:
-            out.append(line)
+        """Run pylint with parallelization on a batch of paths."""
-            key = line.split(":")[-1].split("(")[0].strip()
-            if key not in self.pylint_cats:
-                continue
-            if key not in emap:
-                emap[key] = 1
-            else:
-                emap[key] += 1
-
-        return {path: emap}, err, "\n".join(out)
-
-    def __call__(self) -> bool:
         all_errors: Dict[str, Dict[str, int]] = {}
 
-        def print_summary_map(result_map: Dict[str, Dict[str, int]]) -> int:
-            """Print summary of certain result map."""
-            if len(result_map) == 0:
-                return 0
-            ftype = "Python"
-            npass = sum(1 for x in result_map.values() if len(x) == 0)
-            print(f"====={npass}/{len(result_map)} {ftype} files passed check=====")
-            for fname, emap in result_map.items():
-                if len(emap) == 0:
-                    continue
-                print(
-                    f"{fname}: {sum(emap.values())} Errors of {len(emap)} Categories map={str(emap)}"
-                )
-            return len(result_map) - npass
-
-        all_scripts = []
-        for root, dirs, files in os.walk(self.pypackage_root):
-            for f in files:
-                if f.endswith(".py"):
-                    all_scripts.append(os.path.join(root, f))
-
         with Pool(cpu_count()) as pool:
-            error_maps = pool.map(self.run, all_scripts)
+            error_maps = pool.map(
-            for emap, err, out in error_maps:
+                cls.get_summary,
+                (os.fspath(file) for file in pathlib.Path(PY_PACKAGE).glob("**/*.py")),
+            )
+            for path, emap, out, err, succeeded in error_maps:
+                all_errors[path] = emap
+                if succeeded:
+                    continue
+
                 print(out)
                 if len(err) != 0:
                     print(err)
-                all_errors.update(emap)
 
-        nerr = print_summary_map(all_errors)
+        nerr = cls.print_summary_map(all_errors)
         return nerr == 0
 
 
 @record_time
 def run_pylint() -> bool:
-    return PyLint()()
+    return PyLint.run()
 
 
 @record_time
 def main(args: argparse.Namespace) -> None:
     if args.format == 1:
-        black_results = [
+        black_results = [run_black(path, args.fix) for path in LintersPaths.BLACK]
-            run_black(path, args.fix)
-            for path in [
-                # core
-                "python-package/",
-                # tests
-                "tests/python/test_config.py",
-                "tests/python/test_data_iterator.py",
-                "tests/python/test_dt.py",
-                "tests/python/test_predict.py",
-                "tests/python/test_quantile_dmatrix.py",
-                "tests/python/test_tree_regularization.py",
-                "tests/python-gpu/test_gpu_data_iterator.py",
-                "tests/ci_build/lint_python.py",
-                "tests/test_distributed/test_with_spark/",
-                "tests/test_distributed/test_gpu_with_spark/",
-                # demo
-                "demo/json-model/json_parser.py",
-                "demo/guide-python/cat_in_the_dat.py",
-                "demo/guide-python/categorical.py",
-                "demo/guide-python/feature_weights.py",
-                "demo/guide-python/sklearn_parallel.py",
-                "demo/guide-python/spark_estimator_examples.py",
-                "demo/guide-python/individual_trees.py",
-                "demo/guide-python/quantile_regression.py",
-                "demo/guide-python/multioutput_regression.py",
-                # CI
-                "tests/ci_build/lint_python.py",
-                "tests/ci_build/test_r_package.py",
-                "tests/ci_build/test_utils.py",
-                "tests/ci_build/change_version.py",
-            ]
-        ]
         if not all(black_results):
             sys.exit(-1)
 
-        isort_results = [
+        isort_results = [run_isort(path, args.fix) for path in LintersPaths.ISORT]
-            run_isort(path, args.fix)
-            for path in [
-                # core
-                "python-package/",
-                # tests
-                "tests/test_distributed/",
-                "tests/python/",
-                "tests/python-gpu/",
-                "tests/ci_build/",
-                # demo
-                "demo/",
-                # misc
-                "dev/",
-                "doc/",
-            ]
-        ]
         if not all(isort_results):
             sys.exit(-1)
 
     if args.type_check == 1:
-        if not all(
+        mypy_results = [run_mypy(path) for path in LintersPaths.MYPY]
-            run_mypy(path)
+        if not all(mypy_results):
-            for path in [
-                # core
-                "python-package/",
-                # demo
-                "demo/json-model/json_parser.py",
-                "demo/guide-python/external_memory.py",
-                "demo/guide-python/cat_in_the_dat.py",
-                "demo/guide-python/feature_weights.py",
-                "demo/guide-python/individual_trees.py",
-                "demo/guide-python/quantile_regression.py",
-                "demo/guide-python/multioutput_regression.py",
-                # tests
-                "tests/python/test_dt.py",
-                "tests/python/test_data_iterator.py",
-                "tests/python-gpu/test_gpu_data_iterator.py",
-                "tests/test_distributed/test_with_spark/test_data.py",
-                "tests/test_distributed/test_gpu_with_spark/test_data.py",
-                "tests/test_distributed/test_gpu_with_dask/test_gpu_with_dask.py",
-                # CI
-                "tests/ci_build/lint_python.py",
-                "tests/ci_build/test_r_package.py",
-                "tests/ci_build/test_utils.py",
-                "tests/ci_build/change_version.py",
-            ]
-        ):
-            subprocess.check_call(["mypy", "--version"])
             sys.exit(-1)
 
     if args.pylint == 1: