Support distancelaw CLI without fragment file; improve tests

[js2264]

This pull request primarily aims to allow hicstuff distancelaw --pairs ... without having to also pass a fragment file.

The PR also focuses on code cleanup and configuration improvements. In the Python code, it consolidates and simplifies multi-line statements, especially error handling and logging, into single lines for better readability. In the .pylintrc configuration, it updates and comments out some settings, and clarifies exception handling. No core logic or functionality is changed.

[js2264]

@copilot review this PR

[codecov]

Codecov Report

❌ Patch coverage is 52.61324% with 136 lines in your changes missing coverage. Please review.
✅ Project coverage is 65.08%. Comparing base (2f2145a) to head (7d5c216).
⚠️ Report is 7 commits behind head on master.

Files with missing lines	Patch %	Lines
hicstuff/distance_law.py	27.90%	62 Missing ⚠️
hicstuff/hicstuff.py	28.88%	32 Missing ⚠️
hicstuff/commands.py	62.50%	18 Missing ⚠️
hicstuff/io.py	70.45%	13 Missing ⚠️
hicstuff/pipeline.py	82.81%	11 Missing ⚠️

Additional details and impacted files

@@            Coverage Diff             @@
##           master      #95      +/-   ##
==========================================
+ Coverage   60.69%   65.08%   +4.39%     
==========================================
  Files          15       15              
  Lines        3414     3491      +77     
==========================================
+ Hits         2072     2272     +200     
+ Misses       1342     1219     -123     

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[Copilot]

@copilot review this PR

Here's a summary of the PR review findings and fixes applied:

Bugs found and fixed (commit 7ef52ef, 2a193ca):

1. import_distance_law couldn't parse files exported by the updated export_distance_law — the new ## header lines (version, metadata) caused a ParserError. Fixed by adding comment="#" to pd.read_csv so header lines are skipped on import.

2. get_ylim incompatible with NumPy ≥ 2.0 — np.where() returns a 1-D array, and int(array([5])) raises TypeError in NumPy 2.0+. Fixed by using explicit [0] indexing (int(min_index[0]), int(np.where(...)[0][0])). This was a pre-existing bug exposed by the new CLI test.

3. Spelling typo in get_ylim comment: Caluclate → Calculate.

No issues found with:

• The new get_pairs_distance_pos() and _get_chrom_info_from_pairs() functions — logic is sound
• The --frags optional change in commands.py — correct mutual-exclusion check with --dist-tbl
• The gzip support via hio.read_compressed — works correctly for both plain and .gz pairs files
• All 11 distance law tests now pass locally