File: test_utils.py

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# -*- coding: utf-8 -*-

"""Tests for utilities."""

import hashlib
import os
import tempfile
import unittest
from pathlib import Path

import numpy as np
import pandas as pd
import requests
from lxml import etree
from requests_file import FileAdapter

from pystow.utils import (
    HexDigestError,
    download,
    get_hexdigests_remote,
    getenv_path,
    mkdir,
    mock_envvar,
    n,
    name_from_url,
    read_tarfile_csv,
    read_zip_np,
    read_zipfile_csv,
    read_zipfile_xml,
    write_tarfile_csv,
    write_zipfile_csv,
    write_zipfile_np,
    write_zipfile_xml,
)

HERE = Path(__file__).resolve().parent
TEST_TXT = HERE.joinpath("resources", "test.txt")
TEST_TXT_MD5 = HERE.joinpath("resources", "test.txt.md5")
TEST_TXT_VERBOSE_MD5 = HERE.joinpath("resources", "test_verbose.txt.md5")
TEST_TXT_WRONG_MD5 = HERE.joinpath("resources", "test_wrong.txt.md5")

skip_on_windows = unittest.skipIf(
    os.name == "nt",
    reason="Funny stuff happens in requests with a file adapter on windows that adds line breaks",
)


class _Session(requests.sessions.Session):
    """A mock session."""

    def __init__(self):
        """Instantiate the patched session with an additional file adapter."""
        super().__init__()
        self.mount("file://", FileAdapter())


requests.sessions.Session = _Session


class TestUtils(unittest.TestCase):
    """Test utility functions."""

    def test_name_from_url(self):
        """Test :func:`name_from_url`."""
        data = [
            ("test.tsv", "https://example.com/test.tsv"),
            ("test.tsv", "https://example.com/deeper/test.tsv"),
            ("test.tsv.gz", "https://example.com/deeper/test.tsv.gz"),
        ]
        for name, url in data:
            with self.subTest(name=name, url=url):
                self.assertEqual(name, name_from_url(url))

    @skip_on_windows
    def test_file_values(self):
        """Test encodings."""
        for url, value in [
            (TEST_TXT, "this is a test file\n"),
            (TEST_TXT_MD5, "4221d002ceb5d3c9e9137e495ceaa647"),
            (TEST_TXT_VERBOSE_MD5, "MD5(text.txt)=4221d002ceb5d3c9e9137e495ceaa647"),
            (TEST_TXT_WRONG_MD5, "yolo"),
        ]:
            with self.subTest(name=url.name):
                self.assertEqual(value, requests.get(url.as_uri(), timeout=15).text)

    def test_mkdir(self):
        """Test for ensuring a directory."""
        with tempfile.TemporaryDirectory() as directory:
            directory = Path(directory)
            subdirectory = directory / "sd1"
            self.assertFalse(subdirectory.exists())

            mkdir(subdirectory, ensure_exists=False)
            self.assertFalse(subdirectory.exists())

            mkdir(subdirectory, ensure_exists=True)
            self.assertTrue(subdirectory.exists())

    def test_mock_envvar(self):
        """Test that environment variables can be mocked properly."""
        name, value = n(), n()

        self.assertNotIn(name, os.environ)
        with mock_envvar(name, value):
            self.assertIn(name, os.environ)
            self.assertEqual(value, os.getenv(name))
        self.assertNotIn(name, os.environ)

    def test_getenv_path(self):
        """Test that :func:`getenv_path` works properly."""
        envvar = n()

        with tempfile.TemporaryDirectory() as directory:
            directory = Path(directory)
            value = directory / n()
            default = directory / n()

            self.assertEqual(default, getenv_path(envvar, default))
            with mock_envvar(envvar, value.as_posix()):
                self.assertEqual(value, getenv_path(envvar, default))
            # Check that it goes back
            self.assertEqual(default, getenv_path(envvar, default))

    def test_compressed_io(self):
        """Test that the read/write to compressed folder functions work."""
        rows = [[1, 2], [3, 4], [5, 6]]
        columns = ["A", "B"]
        df = pd.DataFrame(rows, columns=columns)
        inner_path = "okay.tsv"

        data = [
            ("test.zip", write_zipfile_csv, read_zipfile_csv),
            ("test.tar.gz", write_tarfile_csv, read_tarfile_csv),
        ]
        for name, writer, reader in data:
            with self.subTest(name=name), tempfile.TemporaryDirectory() as directory:
                directory = Path(directory)
                path = directory / name
                self.assertFalse(path.exists())
                writer(df, path=path, inner_path=inner_path)
                self.assertTrue(path.exists())
                new_df = reader(path=path, inner_path=inner_path)
                self.assertEqual(list(df.columns), list(new_df.columns))
                self.assertEqual(df.values.tolist(), new_df.values.tolist())

    def test_xml_io(self):
        """Test that read/write for XML element tree works."""
        root = etree.Element("Doc")
        level1 = etree.SubElement(root, "S")
        main = etree.SubElement(level1, "Text")
        main.text = "Thanks for contributing an answer to Stack Overflow!"
        second = etree.SubElement(level1, "Tokens")
        level2 = etree.SubElement(second, "Token", word="low")

        level3 = etree.SubElement(level2, "Morph")
        second1 = etree.SubElement(level3, "Lemma")
        second1.text = "sdfs"
        second1 = etree.SubElement(level3, "info")
        second1.text = "qw"

        level4 = etree.SubElement(level3, "Aff")
        second1 = etree.SubElement(level4, "Type")
        second1.text = "sdfs"
        second1 = etree.SubElement(level4, "Suf")
        second1.text = "qw"

        tree = etree.ElementTree(root)
        inner_path = "okay.tsv"
        data = [
            ("test.zip", write_zipfile_xml, read_zipfile_xml),
        ]
        for name, writer, reader in data:
            with self.subTest(name=name), tempfile.TemporaryDirectory() as directory:
                directory = Path(directory)
                path = directory / name
                self.assertFalse(path.exists())
                writer(tree, path=path, inner_path=inner_path)
                self.assertTrue(path.exists())
                new_tree = reader(path=path, inner_path=inner_path)
                self.assertEqual(
                    etree.tostring(tree, pretty_print=True),
                    etree.tostring(new_tree, pretty_print=True),
                )

    def test_numpy_io(self):
        """Test IO with numpy."""
        arr = np.array([[0, 1], [2, 3]])
        inner_path = "okay.npz"
        with tempfile.TemporaryDirectory() as directory:
            directory = Path(directory)
            path = directory / "test.zip"
            write_zipfile_np(arr, inner_path=inner_path, path=path)
            reloaded_arr = read_zip_np(path=path, inner_path=inner_path)
            self.assertTrue(np.array_equal(arr, reloaded_arr))


class TestHashing(unittest.TestCase):
    """Tests for hexdigest checking."""

    def setUp(self) -> None:
        """Set up a test."""
        self.directory = tempfile.TemporaryDirectory()
        self.path = Path(self.directory.name).joinpath("test.tsv")

        md5 = hashlib.md5()  # noqa:S303,S324
        with TEST_TXT.open("rb") as file:
            md5.update(file.read())
        self.expected_md5 = md5.hexdigest()
        self.mismatching_md5_hexdigest = "yolo"
        self.assertNotEqual(self.mismatching_md5_hexdigest, self.expected_md5)

    def tearDown(self) -> None:
        """Tear down a test."""
        self.directory.cleanup()

    def test_hash_success(self):
        """Test checking actually works."""
        self.assertFalse(self.path.exists())
        download(
            url=TEST_TXT.as_uri(),
            path=self.path,
            hexdigests={
                "md5": self.expected_md5,
            },
        )

    @skip_on_windows
    def test_hash_remote_success(self):
        """Test checking actually works."""
        self.assertFalse(self.path.exists())
        download(
            url=TEST_TXT.as_uri(),
            path=self.path,
            hexdigests_remote={
                "md5": TEST_TXT_MD5.as_uri(),
            },
            hexdigests_strict=True,
        )
        self.assertTrue(self.path.exists())

    @skip_on_windows
    def test_hash_remote_verbose_success(self):
        """Test checking actually works."""
        self.assertFalse(self.path.exists())
        download(
            url=TEST_TXT.as_uri(),
            path=self.path,
            hexdigests_remote={
                "md5": TEST_TXT_VERBOSE_MD5.as_uri(),
            },
            hexdigests_strict=False,
        )
        self.assertTrue(self.path.exists())

    def test_hash_remote_verbose_failure(self):
        """Test checking actually works."""
        self.assertFalse(self.path.exists())
        with self.assertRaises(HexDigestError):
            download(
                url=TEST_TXT.as_uri(),
                path=self.path,
                hexdigests_remote={
                    "md5": TEST_TXT_VERBOSE_MD5.as_uri(),
                },
                hexdigests_strict=True,
            )

    def test_hash_error(self):
        """Test hash error on download."""
        self.assertFalse(self.path.exists())
        with self.assertRaises(HexDigestError):
            download(
                url=TEST_TXT.as_uri(),
                path=self.path,
                hexdigests={
                    "md5": self.mismatching_md5_hexdigest,
                },
            )

    def test_hash_remote_error(self):
        """Test hash error on download."""
        self.assertFalse(self.path.exists())
        with self.assertRaises(HexDigestError):
            download(
                url=TEST_TXT.as_uri(),
                path=self.path,
                hexdigests_remote={
                    "md5": TEST_TXT_WRONG_MD5.as_uri(),
                },
                hexdigests_strict=True,
            )

    def test_override_hash_error(self):
        """Test hash error on download."""
        self.path.write_text("test file content")

        self.assertTrue(self.path.exists())
        with self.assertRaises(HexDigestError):
            download(
                url=TEST_TXT.as_uri(),
                path=self.path,
                hexdigests={
                    "md5": self.expected_md5,
                },
                force=False,
            )

    def test_override_hash_remote_error(self):
        """Test hash error on download."""
        self.path.write_text("test file content")

        self.assertTrue(self.path.exists())
        with self.assertRaises(HexDigestError):
            download(
                url=TEST_TXT.as_uri(),
                path=self.path,
                hexdigests_remote={
                    "md5": TEST_TXT_MD5.as_uri(),
                },
                hexdigests_strict=True,
                force=False,
            )

    def test_force(self):
        """Test overwriting wrong file."""
        # now if force=True it should not bother with the hash check
        self.path.write_text("test file content")

        self.assertTrue(self.path.exists())
        download(
            url=TEST_TXT.as_uri(),
            path=self.path,
            hexdigests={
                "md5": self.expected_md5,
            },
            force=True,
        )

    @skip_on_windows
    def test_remote_force(self):
        """Test overwriting wrong file."""
        # now if force=True it should not bother with the hash check
        self.path.write_text("test file content")

        self.assertTrue(self.path.exists())
        download(
            url=TEST_TXT.as_uri(),
            path=self.path,
            hexdigests_remote={
                "md5": TEST_TXT_MD5.as_uri(),
            },
            hexdigests_strict=True,
            force=True,
        )

    def test_hexdigest_urls(self):
        """Test getting hex digests from URLs."""
        for url, strict in [
            (TEST_TXT_MD5, True),
            (TEST_TXT_MD5, False),
            (TEST_TXT_VERBOSE_MD5, False),
        ]:
            hexdigests = get_hexdigests_remote(
                {"md5": url.as_uri()},
                hexdigests_strict=strict,
            )
            self.assertEqual(
                "4221d002ceb5d3c9e9137e495ceaa647",
                hexdigests["md5"],
            )

        hexdigests = get_hexdigests_remote(
            {"md5": TEST_TXT_VERBOSE_MD5.as_uri()}, hexdigests_strict=True
        )
        self.assertNotEqual(
            "4221d002ceb5d3c9e9137e495ceaa647",
            hexdigests["md5"],
        )

        # Live test case
        # hexdigests = get_hexdigests_remote(
        #     {"md5": "https://ftp.ncbi.nlm.nih.gov/pubmed/baseline/pubmed22n0001.xml.gz.md5"},
        #     hexdigests_strict=False,
        # )
        # self.assertEqual(
        #     {
        #         "md5": "0f08d8f3947dde1f3bced5e1f450c0da",
        #     },
        #     hexdigests,
        # )