34368937367
78%
master: 67%

Ran 09 Sep 2026 03:32PM UTC

Jobs 3

Files 216

Run time 13min

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Committed 09 Sep 2026 03:14PM UTC coverage: 72.634% (+3.5%) from 69.099%

Build # 34368937367

Build Type

push

github

Committed by

cokelaer

Commit Message

Fix multiple import and initialization issues

- bedtools.py: Initialize missing attributes (thresholds, feature_list, step, apply_threshold_after_merging) on empty FilteredGenomeCov object to prevent AttributeError
- fastq.py: Fix buf_size undercounting for "+\n" separator (2 bytes, not 1) to enable proper buffer flushing
- multiqc/pairtools.py: Remove unused config import (F401)
- test/test_bedtools.py: Remove unused os, tempfile imports
- test/test_pdb.py: Remove unused os, tempfile, pytest, parse_pdb imports
- test/test_taxonomy.py: Handle bioservices ServiceUnavailable import compatibility across versions

Coverage Stats

18545 of 25532 relevant lines covered (72.63%)

2.18 hits per line

Coverage Regressions

Lines	Coverage	∆	File
71	84.23	2.8%	sequana/bamtools.py
43	94.07	1.26%	sequana/bedtools.py
36	76.92	76.92%	sequana/phylo.py
31	92.59	-0.27%	sequana/fastq.py
24	76.06	-0.15%	sequana/scripts/coverage.py
17	85.0	3.89%	sequana/viz/venn.py
14	60.66	-9.34%	sequana/scripts/main/fastq.py
3	91.74	0.0%	sequana/salmon.py
2	86.18	0.0%	sequana/enrichment/panther.py
1	87.1	-0.65%	sequana/taxonomy.py
1	90.91	0.0%	sequana/utils/checker.py

Jobs

ID	Job ID	Ran	Files	Coverage
1	34368937367.1	09 Sep 2026 03:32PM UTC	216	72.61
2	34368937367.2	09 Sep 2026 03:33PM UTC	216	72.63
3	34368937367.3	09 Sep 2026 03:35PM UTC	216	72.63

cokelaer / sequana / 34368937367
78%
master: 67%

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cokelaer / sequana / 34368937367 78% master: 67%

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cokelaer / sequana / 34368937367
78%
master: 67%

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