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LCSvec

Longest Common Subsequence/Substring (LCS) solving package for vectors.

Why LCSvec

While looking for fast implementations solving the Longest Common Subsequence and Longest Common Substring (i.e. Contiguous Subsequence) (LCCS) problems, I only found pieces of code for strings, while I needed something working for vectors of integers. Yet, string LCS implementations 1) work at the character level, which might not be suitable for certain use-cases where one wants to work at word or sentence level; 2) only work with strings, other modalities will not work and might not be designed to be converted to bytes.

LCSvec aims to solve this gap by providing user-friendly and fast implementations of the LCS and LCCS problems for vectors. It works with numpy, pytorch, tensorflow and jax arrays/tensors! The code is written in C++ and the methods are bind with Python with nanobind for optimal performances.

Example

You can install the package with pip: pip install lcsvec. Here we will use numpy, the usage for other deep learning libraries is the same.

from lcsvec import lccs, lccs_length, lcs, lcs_length
import numpy as np

seq1 = np.arange(0, 12)
seq2 = np.array([8, 0, 1, 2, 8, 2, 3, 4, 5, 6], dtype=np.int64)

lcs_ = lcs(seq1, seq2)  # [0, 1, 2, 3, 4, 5, 6]
lcs_len = lcs_length(seq1, seq2)  # 7, more efficient than calling len(lcs(seq1, seq2))

lccs = lccs(seq1, seq2)  # [2, 3, 4, 5, 6]
lccs_len = lccs_length(seq1, seq2)  # 5, more efficient than calling len(lccs(seq1, seq2))

TODOs

  • implement lccs with suffix tree;
  • batch methods, i.e. supporting 2D arrays;
  • batch methods with any number of dimensions (nD array) and add a dim argument;
  • make it work with an unlimited number of sequences, and set dim and pad_token as kwargs only;

Project links

Key dates

PyPI data
Data sourced directly from PyPI's database.
  • Released:
Latest release

2 maintainers

PyPI data
Data sourced directly from PyPI's database.
Avatar for NathanFradet from gravatar.com NathanFradet Avatar for Natooz from gravatar.com Natooz

Credits

Author/Maintainer: Nathan Fradet

License

Apache Software License (Apache License Version 2.0, January 2004 http://www.apache.org/licenses/ TERMS AND CONDITIONS FOR U...)

Requires

Python >=3.8

Tags

lcs

Classifiers

Metadata

Project links

Key dates

PyPI data
Data sourced directly from PyPI's database.
  • Released:
Latest release

2 maintainers

PyPI data
Data sourced directly from PyPI's database.
Avatar for NathanFradet from gravatar.com NathanFradet Avatar for Natooz from gravatar.com Natooz

Credits

Author/Maintainer: Nathan Fradet

License

Apache Software License (Apache License Version 2.0, January 2004 http://www.apache.org/licenses/ TERMS AND CONDITIONS FOR U...)

Requires

Python >=3.8

Tags

lcs

Classifiers

Release files for lcsvec 0.0.1

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Source distribution (sdist)

Source distribution for lcsvec 0.0.1
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Built distributions (wheels)

Table of built distributions (wheels) for lcsvec 0.0.1
File
lcsvec-0.0.1-pp39-pypy39_pp73-win_amd64.whl 49.2 kB Without provenance PyPy 3.9 PyPy 3.9 7.3 Windows x86-64 Details
lcsvec-0.0.1-pp39-pypy39_pp73-manylinux_2_28_x86_64.manylinux_2_24_x86_64.whl 45.6 kB Without provenance PyPy 3.9 PyPy 3.9 7.3 Linux glibc 2.24+ x86-64, Linux glibc 2.28+ x86-64 Details
lcsvec-0.0.1-pp39-pypy39_pp73-manylinux_2_28_aarch64.manylinux_2_24_aarch64.whl 43.2 kB Without provenance PyPy 3.9 PyPy 3.9 7.3 Linux glibc 2.28+ ARM64, Linux glibc 2.24+ ARM64 Details
lcsvec-0.0.1-pp39-pypy39_pp73-macosx_10_9_x86_64.whl 43.3 kB Without provenance PyPy 3.9 PyPy 3.9 7.3 macOS 10.9+ x86-64 Details
lcsvec-0.0.1-cp312-cp312-win_amd64.whl 49.8 kB Without provenance CPython 3.12 CPython 3.12 Windows x86-64 Details
lcsvec-0.0.1-cp312-cp312-win32.whl 44.9 kB Without provenance CPython 3.12 CPython 3.12 Windows x86-32 Details
lcsvec-0.0.1-cp312-cp312-musllinux_1_2_x86_64.whl 130.2 kB Without provenance CPython 3.12 CPython 3.12 Linux musl 1.2+ x86-64 Details
lcsvec-0.0.1-cp312-cp312-musllinux_1_2_aarch64.whl 126.3 kB Without provenance CPython 3.12 CPython 3.12 Linux musl 1.2+ ARM64 Details
lcsvec-0.0.1-cp312-cp312-manylinux_2_28_x86_64.manylinux_2_24_x86_64.whl 45.9 kB Without provenance CPython 3.12 CPython 3.12 Linux glibc 2.24+ x86-64, Linux glibc 2.28+ x86-64 Details
lcsvec-0.0.1-cp312-cp312-manylinux_2_28_aarch64.manylinux_2_24_aarch64.whl 43.4 kB Without provenance CPython 3.12 CPython 3.12 Linux glibc 2.28+ ARM64, Linux glibc 2.24+ ARM64 Details
lcsvec-0.0.1-cp312-cp312-macosx_11_0_arm64.whl 43.0 kB Without provenance CPython 3.12 CPython 3.12 macOS 11.0+ ARM64 Details
lcsvec-0.0.1-cp312-cp312-macosx_10_9_x86_64.whl 44.5 kB Without provenance CPython 3.12 CPython 3.12 macOS 10.9+ x86-64 Details
lcsvec-0.0.1-cp311-cp311-win_amd64.whl 51.0 kB Without provenance CPython 3.11 CPython 3.11 Windows x86-64 Details
lcsvec-0.0.1-cp311-cp311-win32.whl 46.1 kB Without provenance CPython 3.11 CPython 3.11 Windows x86-32 Details
lcsvec-0.0.1-cp311-cp311-musllinux_1_2_x86_64.whl 132.7 kB Without provenance CPython 3.11 CPython 3.11 Linux musl 1.2+ x86-64 Details
lcsvec-0.0.1-cp311-cp311-musllinux_1_2_aarch64.whl 128.4 kB Without provenance CPython 3.11 CPython 3.11 Linux musl 1.2+ ARM64 Details
lcsvec-0.0.1-cp311-cp311-manylinux_2_28_x86_64.manylinux_2_24_x86_64.whl 48.3 kB Without provenance CPython 3.11 CPython 3.11 Linux glibc 2.28+ x86-64, Linux glibc 2.24+ x86-64 Details
lcsvec-0.0.1-cp311-cp311-manylinux_2_28_aarch64.manylinux_2_24_aarch64.whl 45.9 kB Without provenance CPython 3.11 CPython 3.11 Linux glibc 2.28+ ARM64, Linux glibc 2.24+ ARM64 Details
lcsvec-0.0.1-cp311-cp311-macosx_11_0_arm64.whl 45.0 kB Without provenance CPython 3.11 CPython 3.11 macOS 11.0+ ARM64 Details
lcsvec-0.0.1-cp311-cp311-macosx_10_9_x86_64.whl 46.6 kB Without provenance CPython 3.11 CPython 3.11 macOS 10.9+ x86-64 Details
lcsvec-0.0.1-cp310-cp310-win_amd64.whl 51.2 kB Without provenance CPython 3.10 CPython 3.10 Windows x86-64 Details
lcsvec-0.0.1-cp310-cp310-win32.whl 46.1 kB Without provenance CPython 3.10 CPython 3.10 Windows x86-32 Details
lcsvec-0.0.1-cp310-cp310-musllinux_1_2_x86_64.whl 132.9 kB Without provenance CPython 3.10 CPython 3.10 Linux musl 1.2+ x86-64 Details
lcsvec-0.0.1-cp310-cp310-musllinux_1_2_aarch64.whl 128.5 kB Without provenance CPython 3.10 CPython 3.10 Linux musl 1.2+ ARM64 Details
lcsvec-0.0.1-cp310-cp310-manylinux_2_28_x86_64.manylinux_2_24_x86_64.whl 48.5 kB Without provenance CPython 3.10 CPython 3.10 Linux glibc 2.24+ x86-64, Linux glibc 2.28+ x86-64 Details
lcsvec-0.0.1-cp310-cp310-manylinux_2_28_aarch64.manylinux_2_24_aarch64.whl 46.1 kB Without provenance CPython 3.10 CPython 3.10 Linux glibc 2.28+ ARM64, Linux glibc 2.24+ ARM64 Details
lcsvec-0.0.1-cp310-cp310-macosx_11_0_arm64.whl 45.1 kB Without provenance CPython 3.10 CPython 3.10 macOS 11.0+ ARM64 Details
lcsvec-0.0.1-cp310-cp310-macosx_10_9_x86_64.whl 46.7 kB Without provenance CPython 3.10 CPython 3.10 macOS 10.9+ x86-64 Details
lcsvec-0.0.1-cp39-cp39-win_amd64.whl 51.5 kB Without provenance CPython 3.9 CPython 3.9 Windows x86-64 Details
lcsvec-0.0.1-cp39-cp39-win32.whl 46.5 kB Without provenance CPython 3.9 CPython 3.9 Windows x86-32 Details
lcsvec-0.0.1-cp39-cp39-musllinux_1_2_x86_64.whl 132.9 kB Without provenance CPython 3.9 CPython 3.9 Linux musl 1.2+ x86-64 Details
lcsvec-0.0.1-cp39-cp39-musllinux_1_2_aarch64.whl 128.5 kB Without provenance CPython 3.9 CPython 3.9 Linux musl 1.2+ ARM64 Details
lcsvec-0.0.1-cp39-cp39-manylinux_2_28_x86_64.manylinux_2_24_x86_64.whl 48.5 kB Without provenance CPython 3.9 CPython 3.9 Linux glibc 2.28+ x86-64, Linux glibc 2.24+ x86-64 Details
lcsvec-0.0.1-cp39-cp39-manylinux_2_28_aarch64.manylinux_2_24_aarch64.whl 46.1 kB Without provenance CPython 3.9 CPython 3.9 Linux glibc 2.28+ ARM64, Linux glibc 2.24+ ARM64 Details
lcsvec-0.0.1-cp39-cp39-macosx_11_0_arm64.whl 45.1 kB Without provenance CPython 3.9 CPython 3.9 macOS 11.0+ ARM64 Details
lcsvec-0.0.1-cp39-cp39-macosx_10_9_x86_64.whl 46.7 kB Without provenance CPython 3.9 CPython 3.9 macOS 10.9+ x86-64 Details
lcsvec-0.0.1-cp38-cp38-win_amd64.whl 51.5 kB Without provenance CPython 3.8 CPython 3.8 Windows x86-64 Details
lcsvec-0.0.1-cp38-cp38-win32.whl 46.4 kB Without provenance CPython 3.8 CPython 3.8 Windows x86-32 Details
lcsvec-0.0.1-cp38-cp38-musllinux_1_2_x86_64.whl 132.9 kB Without provenance CPython 3.8 CPython 3.8 Linux musl 1.2+ x86-64 Details
lcsvec-0.0.1-cp38-cp38-musllinux_1_2_aarch64.whl 128.4 kB Without provenance CPython 3.8 CPython 3.8 Linux musl 1.2+ ARM64 Details
lcsvec-0.0.1-cp38-cp38-manylinux_2_28_x86_64.manylinux_2_24_x86_64.whl 48.5 kB Without provenance CPython 3.8 CPython 3.8 Linux glibc 2.28+ x86-64, Linux glibc 2.24+ x86-64 Details
lcsvec-0.0.1-cp38-cp38-manylinux_2_28_aarch64.manylinux_2_24_aarch64.whl 46.0 kB Without provenance CPython 3.8 CPython 3.8 Linux glibc 2.28+ ARM64, Linux glibc 2.24+ ARM64 Details
lcsvec-0.0.1-cp38-cp38-macosx_11_0_arm64.whl 45.1 kB Without provenance CPython 3.8 CPython 3.8 macOS 11.0+ ARM64 Details
lcsvec-0.0.1-cp38-cp38-macosx_10_9_x86_64.whl 46.8 kB Without provenance CPython 3.8 CPython 3.8 macOS 10.9+ x86-64 Details

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