Fix line ending in `reverse_readfile/readline` in Windows #700

DanielYang59 · 2024-07-23T04:07:27Z

Summary

Fix line ending in reverse_readfile and reverse_readline in Windows, to fix Newlines incorrectly handled in reverse_readfile on windows #471
Docstring and typing tweaks

coderabbitai · 2024-07-23T04:07:31Z

Walkthrough

The recent changes enhance type hinting, improve file handling, and refine test clarity across the Monty codebase. Notable updates include better management of line endings, consistent use of constants, and clearer type ignore comments, all contributing to improved readability and maintainability.

Changes

Files	Change Summary
`src/monty/functools.py`, `src/monty/multiprocessing.py`, `src/monty/serialization.py`	Adjustments made to type ignore comments in type hinting for better clarity on ignored checks.
`src/monty/io.py`	Updates to file handling for consistent line endings using `os.linesep`, improved comments and docstrings, and added context management methods in `FileLock`.
`src/monty/itertools.py`	Minor modification in handling `numpy` import by removing a type ignore comment, simplifying type checking.
`tests/__init__.py`, `tests/test_collections.py`, `tests/test_io.py`, `tests/test_json.py`, `tests/test_os.py`, `tests/test_re.py`, `tests/test_tempfile.py`	Renaming of variables to uppercase constants (e.g., `test_dir` to `TEST_DIR`), enhancing code clarity and maintaining consistency.

Assessment against linked issues

Objective	Addressed	Explanation
Newlines incorrectly handled in `reverse_readfile` on Windows (#[471])	✅

🐇 In the code, a rabbit did hop,
With improvements, it won't stop!
Constants now hold their place,
Line endings fixed with grace.
Readability shines, oh what a delight,
Monty's code is now just right! 🌟

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DanielYang59 · 2024-07-23T04:17:32Z

tests/test_io.py

-try:
-    from pathlib import Path
-except ImportError:
-    Path = None  # type: ignore


I think it should be safe to remove this guard against pathlib now that we're requiring Python > 3.9 (also CI is testing latest Python). Let me know if there's other reasons that I'm not aware of.

monty/pyproject.toml

Line 12 in feb6e83

requires-python = ">=3.9"

… fix-reverse-read

codecov · 2024-07-23T11:00:36Z

Codecov Report

Attention: Patch coverage is 81.25000% with 6 lines in your changes missing coverage. Please review.

Project coverage is 80.93%. Comparing base (feb6e83) to head (73089d4).

Files	Patch %	Lines
src/monty/io.py	78.57%	5 Missing and 1 partial ⚠️

Additional details and impacted files

@@           Coverage Diff           @@
##           master     #700   +/-   ##
=======================================
  Coverage   80.93%   80.93%           
=======================================
  Files          27       27           
  Lines        1563     1563           
  Branches      353      353           
=======================================
  Hits         1265     1265           
  Misses        234      234           
  Partials       64       64

☔ View full report in Codecov by Sentry.
📢 Have feedback on the report? Share it here.

… fix-reverse-read

DanielYang59 · 2024-07-23T11:51:47Z

@coderabbitai review

coderabbitai · 2024-07-23T11:51:52Z

Actions performed

Review triggered.

Note: CodeRabbit is an incremental review system and does not re-review already reviewed commits. This command is applicable only when automatic reviews are paused.

coderabbitai

Actionable comments posted: 2

Review details

Configuration used: CodeRabbit UI
Review profile: CHILL

Commits

Files that changed from the base of the PR and between feb6e83 and 7a1ed12.

Files selected for processing (12)

src/monty/functools.py (2 hunks)
src/monty/io.py (11 hunks)
src/monty/itertools.py (1 hunks)
src/monty/multiprocessing.py (1 hunks)
src/monty/serialization.py (1 hunks)
tests/init.py (1 hunks)
tests/test_collections.py (1 hunks)
tests/test_io.py (2 hunks)
tests/test_json.py (2 hunks)
tests/test_os.py (2 hunks)
tests/test_re.py (2 hunks)
tests/test_tempfile.py (2 hunks)

Files skipped from review due to trivial changes (10)

src/monty/functools.py
src/monty/itertools.py
src/monty/multiprocessing.py
src/monty/serialization.py
tests/init.py
tests/test_collections.py
tests/test_json.py
tests/test_os.py
tests/test_re.py
tests/test_tempfile.py

Additional comments not posted (7)

tests/test_io.py (1)

4-17: LGTM!

The refactoring of file path handling and addition of docstrings improve readability and maintainability.

src/monty/io.py (6)

50-54: LGTM!

The use of set syntax for checking file extensions improves clarity and performance.

71-82: LGTM!

The changes ensure cross-platform compatibility by handling line endings using os.linesep.

Line range hint 145-169:
LGTM!

The changes ensure cross-platform compatibility by handling line endings using os.linesep.

Line range hint 191-235:
LGTM!

The changes improve clarity and resource management by adding type annotations and context management methods.

Line range hint 271-281:
No changes made to this function.

Skipping review comments.

Line range hint 1-3:
LGTM!

The adjustments to comments and docstrings improve readability and consistency.

tests/test_io.py

coderabbitai

Actionable comments posted: 0

Review details

Configuration used: CodeRabbit UI
Review profile: CHILL

Commits

Files that changed from the base of the PR and between 7a1ed12 and 2dfec96.

Files selected for processing (3)

src/monty/json.py (1 hunks)
tests/test_io.py (2 hunks)
tests/test_json.py (2 hunks)

Files skipped from review as they are similar to previous changes (2)

tests/test_io.py
tests/test_json.py

Additional comments not posted (1)

src/monty/json.py (1)
640-643: Ensure proper handling of pint module version retrieval.

The removal of # type: ignore comments indicates a shift towards stricter type checking. Ensure that the import_module function call and the assignment to d["@version"] handle cases where the pint module is not available or does not have a __version__ attribute.

Verification successful

Proper handling of pint module version retrieval is confirmed.

The import_module("pint") function call is properly handled with exception handling for both AttributeError and ImportError. This ensures that d["@version"] is set to None if the pint module is not available or does not have a __version__ attribute.

src/monty/json.py lines 640-643
Scripts executed

The following scripts were executed for the analysis:

Script:
#!/bin/bash
# Description: Verify the handling of the `pint` module version retrieval.

# Test: Search for the `import_module` function usage. Expect: Proper handling of missing `pint` module or `__version__` attribute.
rg --type python -A 5 $'import_module("pint")'
Length of output: 78

Script:
#!/bin/bash
# Description: Verify the handling of the `pint` module version retrieval.

# Test: Search for the `import_module` function usage. Expect: Proper handling of missing `pint` module or `__version__` attribute.
rg --type py -A 5 $'import_module("pint")'
Length of output: 43

Script:
#!/bin/bash
# Description: Verify the usage of `import_module` function in the codebase.

# Test: Search for the `import_module` function usage. Expect: Proper handling of module imports.
rg 'import_module' --type py -A 5
Length of output: 1627

DanielYang59 · 2024-07-24T01:43:09Z

@shyuep This one is ready for review. Thanks!

shyuep · 2024-07-24T02:05:20Z

Thanks

DanielYang59 · 2024-07-24T02:14:19Z

Thanks for reviewing!

DanielYang59 added 3 commits July 23, 2024 11:53

format and docstring tweaks

cf80cb5

use .rstrip()

25a41e0

more docstring tweaks

9342718

DanielYang59 and others added 3 commits July 23, 2024 12:10

some docstring tweaks

96ee909

remove guard again pathlib import

c4c3ba5

pre-commit auto-fixes

0c04f09

DanielYang59 commented Jul 23, 2024

View reviewed changes

DanielYang59 and others added 10 commits July 23, 2024 17:41

format tweak in unit test

0dc6421

use capital global var name test_dir

8a0eef3

add unit tests for line end

eb81e83

add docstring for tests

6fdfcff

pre-commit auto-fixes

42ab074

use specific ignore tag

823edee

Merge branch 'fix-reverse-read' of github.com:DanielYang59/monty into…

e6e7842

… fix-reverse-read

correct temp test file name

bb8edd9

update reverse_readfile to use os.linesep

aabf7b4

pre-commit auto-fixes

a228a28

DanielYang59 and others added 6 commits July 23, 2024 19:44

fix readline func and add unit test

231121c

Merge branch 'fix-reverse-read' of github.com:DanielYang59/monty into…

b4eb3cf

… fix-reverse-read

Merge branch 'fix-reverse-read' of github.com:DanielYang59/monty into…

5eb2d9a

… fix-reverse-read

remove issue from merge

18d0b50

pre-commit auto-fixes

44a2302

remove debug files

7a1ed12

DanielYang59 changed the title ~~Fix line ending in reverse_readfile in Windows~~ Fix line ending in reverse_readfile/readline in Windows Jul 23, 2024

coderabbitai bot reviewed Jul 23, 2024

View reviewed changes

tests/test_io.py Outdated Show resolved Hide resolved

tests/test_io.py Outdated Show resolved Hide resolved

fix var name

73089d4

DanielYang59 added 2 commits July 24, 2024 09:28

Merge branch 'master' into fix-reverse-read

8e4817e

remove unused ignore tag

2dfec96

DanielYang59 marked this pull request as ready for review July 24, 2024 01:36

coderabbitai bot reviewed Jul 24, 2024

View reviewed changes

shyuep merged commit bec8915 into materialsvirtuallab:master Jul 24, 2024
8 checks passed

DanielYang59 deleted the fix-reverse-read branch July 24, 2024 02:14

DanielYang59 mentioned this pull request Sep 3, 2024

Outcar class returns empty magnetization attribute when parsing OUTCAR file on Windows operating system materialsproject/pymatgen#4033

Open

coderabbitai bot mentioned this pull request Sep 19, 2024

Fix line ending handling in reverse_readfile/readline across OS, and not skipping empty lines #712

Merged

3 tasks

coderabbitai bot mentioned this pull request Oct 20, 2024

Declare required and optional dependency #714

Merged

coderabbitai bot mentioned this pull request Dec 8, 2024

zopen changes: forbid implicit binary/text mode, signature change, default UTF-8 encoding in text mode, drop .z support after one-year #730

Merged

2 tasks

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Fix line ending in `reverse_readfile/readline` in Windows #700

Fix line ending in `reverse_readfile/readline` in Windows #700

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DanielYang59 commented Jul 24, 2024

Fix line ending in reverse_readfile/readline in Windows #700

Fix line ending in reverse_readfile/readline in Windows #700

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DanielYang59 commented Jul 24, 2024

Fix line ending in `reverse_readfile/readline` in Windows #700

Fix line ending in `reverse_readfile/readline` in Windows #700

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