padix-key:issue-865 - Branch - biotite-dev/biotite

Fix #865

#866

Comparing

padix-key:issue-865

(

07e2660

) with

main

(

2018578

)

Untouched: 63

Benchmarks

63 total

benchmark_kmer_decomposition[None]

benchmarks/sequence/align/benchmark_kmers.py

148.7 µs148 µs

benchmark_match_table[BucketKmerTable(10000)-11*11*1*1***111]

benchmarks/sequence/align/benchmark_kmers.py

12.9 ms12.9 ms

benchmark_match_table[KmerTable-11*11*1*1***111]

benchmarks/sequence/align/benchmark_kmers.py

15.2 ms15.1 ms

benchmark_get_structure[cif-True]

benchmarks/structure/benchmark_pdbx.py

124.5 ms124.2 ms

benchmark_get_structure[bcif-True]

benchmarks/structure/benchmark_pdbx.py

81.5 ms81.3 ms

benchmark_superimpose[superimpose_homologs]

benchmarks/structure/benchmark_superimpose.py

28.4 ms28.4 ms

benchmark_structural_alphabet_methods[to_protein_blocks]

benchmarks/structure/benchmark_alphabet.py

7 ms7 ms

benchmark_match[BucketKmerTable(10000)-11*11*1*1***111]

benchmarks/sequence/align/benchmark_kmers.py

625.4 µs624.4 µs

benchmark_get_structure[bcif-False]

benchmarks/structure/benchmark_pdbx.py

18.4 ms18.4 ms

benchmark_match_kmer_selection[KmerTable-11*11*1*1***111]

benchmarks/sequence/align/benchmark_kmers.py

457.4 µs456.9 µs

benchmark_get_sequences[fasta_path0-NucleotideSequence]

benchmarks/sequence/benchmark_fasta.py

185.1 ms184.9 ms

benchmark_match[BucketKmerTable(10000)-None]

benchmarks/sequence/align/benchmark_kmers.py

574.3 µs573.7 µs

benchmark_match[KmerTable-None]

benchmarks/sequence/align/benchmark_kmers.py

491.7 µs491.2 µs

benchmark_score_threshold_rule[11*11*1*1***111]

benchmarks/sequence/align/benchmark_kmers.py

2 s2 s

benchmark_get_a3m_alignments

benchmarks/sequence/benchmark_fasta.py

576.2 ms575.7 ms

benchmark_structural_alphabet_methods[to_3di]

benchmarks/structure/benchmark_alphabet.py

10 ms9.9 ms

benchmark_match_table[BucketKmerTable(10000)-None]

benchmarks/sequence/align/benchmark_kmers.py

13 ms13 ms

benchmark_indexing_from_kmers[11*11*1*1***111-BucketKmerTable(100000)]

benchmarks/sequence/align/benchmark_kmers.py

10.2 ms10.2 ms

benchmark_match_kmer_selection[BucketKmerTable(10000)-11*11*1*1***111]

benchmarks/sequence/align/benchmark_kmers.py

540.2 µs539.9 µs

benchmark_indexing_from_kmer_selection[11*11*1*1***111-BucketKmerTable(100000)]

benchmarks/sequence/align/benchmark_kmers.py

9.2 ms9.1 ms

benchmark_indexing_from_kmer_selection[11*11*1*1***111-KmerTable]

benchmarks/sequence/align/benchmark_kmers.py

12.3 ms12.3 ms

benchmark_indexing_from_sequences[None-BucketKmerTable(100000)]

benchmarks/sequence/align/benchmark_kmers.py

9.5 ms9.5 ms

benchmark_match_kmer_selection[KmerTable-None]

benchmarks/sequence/align/benchmark_kmers.py

459.2 µs459 µs

benchmark_serialize_pdbx[bcif]

benchmarks/structure/benchmark_pdbx.py

111.7 ms111.7 ms

benchmark_superimpose[superimpose_without_outliers]

benchmarks/structure/benchmark_superimpose.py

17.3 ms17.3 ms

Commits

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Base

main

2018578

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Fix #865

07e2660

20 hours ago

by padix-key

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