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Pull requests list

Run tests with sanitizers and the debug allocator, use PyMem_Raw instead of malloc-family
#4791 by michaelfm1211 was merged Aug 26, 2024 Loading…
3 tasks done
14
Improve clusterbuster motif parsing
#4790 by ghuls was merged Aug 12, 2024 Loading…
3 tasks done
8
Improve minimal meme format parsing
#4787 by ghuls was merged Aug 9, 2024 Loading…
2 tasks done
2
Updated line join and end cap settings for Bio.Phylo matplotlib phylogenetic trees
#4786 by doenjon was merged Sep 23, 2024 Loading…
3 tasks done
1
2
FOGSAA PairwiseAligner implementation
#4784 by michaelfm1211 was merged Oct 17, 2024 Loading…
3 tasks done
1
21
Deprecate ProteinAnalysis.get_amino_acids_percent() and create ProteinAnalysis.amino_acids_percent
#4783 by michaelfm1211 was merged Jul 31, 2024 Loading…
3 tasks done
1
4
Don't allow comments at the beginning of Fasta files
#4780 by mdehoon was merged Sep 5, 2024 Loading…
3 tasks done
36
4775: raise warnings instead of errors if dashes are not in the expected places for dates
#4779 by tanhevg was merged Dec 31, 2024 Loading…
2 of 3 tasks
1
2
Create Dockerfile
#4778 by sbassi was closed Jul 29, 2024 Loading…
2 of 3 tasks
2
Pattern search algorithms
#4774 by laiarubiio was closed Dec 31, 2024 Loading…
2 of 3 tasks
2
remove deprecated attribute from Bio.Nexus
#4772 by mdehoon was merged Jul 27, 2024 Loading…
3 tasks done
Support reverse complementing RNA motifs.
#4771 by ghuls was merged Jul 19, 2024 Loading…
3 tasks done
1
Fix assertAlmostEqual calls in tests, when checking for very small nu…
#4770 by ghuls was merged Jul 19, 2024 Loading…
3 tasks done
1
[pre-commit.ci] autoupdate
#4767 by pre-commit-ci bot was merged Jul 3, 2024 Loading…
3
Sphinx 3.7.3 update
#4763 by peterjc was merged Jun 28, 2024 Loading…
3 tasks done
1
Apply pyupgrade to modernise some type annotations now using Python 3.9+
#4762 by peterjc was merged Jun 27, 2024 Loading…
3 tasks done
Tweak black settings as dropped Python 3.8
#4761 by peterjc was merged Jun 26, 2024 Loading…
3 tasks done
Deprecate SCOP CGI search, drop test.
#4760 by peterjc was merged Jun 26, 2024 Loading…
3 tasks done
1
Apply scipy function name change
#4759 by peterjc was merged Jun 26, 2024 Loading…
3 tasks done
1
Standardize on 'import numpy as np' throughout the codebase
#4757 by ghost was merged Jun 27, 2024 Loading…
1
4
Add rid and rtoe attributes to qblast
#4756 by mdehoon was merged Jun 25, 2024 Loading…
3 tasks done
1
Configure build-time dependencies
#4755 by covracer was closed Jun 25, 2024 Loading…
3 tasks done
1
5
Relax test_phenotype_fit.py test precision here
#4754 by peterjc was merged Jun 25, 2024 Loading…
3 tasks done
2
Improve logging and handling of PDB writing errors. Enhancement
#4753 by JoaoRodrigues was merged Jun 26, 2024 Loading…
2 tasks done
1
4
Fix for 64bit Windows - RuntimeError buffer has unexpected item byte size (8, expected 4) #4751
#4752 by mdehoon was merged Jun 24, 2024 Loading…
3 tasks done
8
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