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8 days ago c5c57af padix-key:issue-888 pull_request

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#896
padix-key:issue-888
8 days ago
CPU Simulation
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Suggested base runs: •
98 total
benchmark_create_kmers
benchmarks/sequence/align/benchmark_kmer.py
232.4 µs
benchmark_decode
benchmarks/sequence/benchmark_alphabet.py
3.4 ms
benchmark_match_table[KmerTable-11*11*1*1***111]
benchmarks/sequence/align/benchmark_kmers.py
15 ms
benchmark_encode
benchmarks/sequence/benchmark_alphabet.py
183.1 µs
benchmark_match_table[KmerTable-None]
benchmarks/sequence/align/benchmark_kmers.py
15.2 ms
benchmark_get_a3m_alignments
benchmarks/sequence/benchmark_fasta.py
577.5 ms
benchmark_score_threshold_rule[11*11*1*1***111]
benchmarks/sequence/align/benchmark_kmers.py
2 s
benchmark_get_sequences[fasta_path0-NucleotideSequence]
benchmarks/sequence/benchmark_fasta.py
184.5 ms
benchmark_score_threshold_rule[None]
benchmarks/sequence/align/benchmark_kmers.py
2 s
benchmark_get_sequences[fasta_path1-ProteinSequence]
benchmarks/sequence/benchmark_fasta.py
8.8 ms
test_pickle_and_unpickle[BucketKmerTable(10000)-11*11*1*1***111]
benchmarks/sequence/align/benchmark_kmers.py
7.4 ms
benchmark_clustering[neighbor_joining]
benchmarks/sequence/benchmark_phylo.py
623.5 µs
test_pickle_and_unpickle[BucketKmerTable(10000)-None]
benchmarks/sequence/align/benchmark_kmers.py
7.4 ms
benchmark_clustering[upgma]
benchmarks/sequence/benchmark_phylo.py
489 µs
test_pickle_and_unpickle[KmerTable-11*11*1*1***111]
benchmarks/sequence/align/benchmark_kmers.py
38.8 ms
benchmark_structural_alphabet_methods[to_3di]
benchmarks/structure/benchmark_alphabet.py
9.9 ms
test_pickle_and_unpickle[KmerTable-None]
benchmarks/sequence/align/benchmark_kmers.py
39 ms
benchmark_structural_alphabet_methods[to_protein_blocks]
benchmarks/structure/benchmark_alphabet.py
6.9 ms
benchmark_align_multiple
benchmarks/sequence/align/benchmark_multiple.py
20.2 s
benchmark_bond_list_creation
benchmarks/structure/benchmark_bonds.py
816.9 µs
benchmark_align_pairwise[align_banded]
benchmarks/sequence/align/benchmark_pairwise.py
28.7 ms
benchmark_concatenate
benchmarks/structure/benchmark_bonds.py
317.4 µs
benchmark_align_pairwise[align_local_gapped]
benchmarks/sequence/align/benchmark_pairwise.py
77.2 ms
benchmark_connect[connect_via_distances]
benchmarks/structure/benchmark_bonds.py
26 ms
benchmark_align_pairwise[align_optimal]
benchmarks/sequence/align/benchmark_pairwise.py
381.5 ms
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