Fix #70: don't call logging.basicConfig() at import

[iskandr]

Fixes #70.

attribute_parsing.py, create_missing_features.py, and read_gtf.py each call logging.basicConfig(level=logging.INFO) at module import. That mutates the root logger (adds a handler, sets the root level to INFO) as an import side effect, which hijacks a downstream application's logging configuration and breaks pytest's caplog in downstream test suites.

Change

Per the Python logging HOWTO ("Configuring Logging for a Library"):

• Remove the three import-time logging.basicConfig(...) calls (keep each module's logger = logging.getLogger(__name__)).
• Attach a logging.NullHandler() to the top-level gtfparse logger in __init__.py, so importing gtfparse emits nothing and reconfigures nothing by default. Applications opt in to gtfparse's INFO logs via their own logging config.

Before / after

import logging; import gtfparse
print(logging.getLogger().handlers, logging.getLogger().level)
# before: [<StreamHandler <stderr> (NOTSET)>] 20   (root hijacked, level INFO)
# after : []                                    30   (untouched, default WARNING)

Tests

Full suite green (59 passed). No behavior change beyond logging side effects.

[coveralls]

Coverage Report for CI Build 28965821496

Coverage decreased (-0.02%) to 95.192%

Details

• Coverage decreased (-0.02%) from the base build.
• Patch coverage: No coverable lines changed in this PR.
• 8 coverage regressions across 3 files.

Uncovered Changes

No uncovered changes found.

Coverage Regressions

8 previously-covered lines in 3 files lost coverage.

File	Lines Losing Coverage	Coverage
read_gtf.py	4	95.93%
create_missing_features.py	3	88.89%
attribute_parsing.py	1	97.44%

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Coverage Stats

Relevant Lines:	208
Covered Lines:	198
Line Coverage:	95.19%
Coverage Strength:	0.95 hits per line

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💛 - Coveralls

[iskandr]

Closing as a duplicate of #71, which fixes the same issue (#70), and was merged to master and released in 2.7.2. Thanks!