recipe swipe

Tool for performing rapid local alignment searches in amino acid or nucleotide sequence databases. It is a highly optimized implementation of the Smith-Waterman algoritm using SIMD parallel computing technology available on common CPUs.

Homepage:

http://dna.uio.no/swipe

Developer docs:

https://github.com/torognes/swipe

License:

GPL / AGPL-3.0

Recipe:

/swipe/meta.yaml

Links:

biotools: swipe, doi: 10.1186/1471-2105-12-221

package swipe

(downloads) docker_swipe

versions:
2.1.1-5,  2.1.1-4,  2.1.1-3,  2.1.1-2,  2.1.1-1,  2.1.1-0,  2.1.0-2,  2.1.0-1,  2.1.0-0, 

2.1.1-5,  2.1.1-4,  2.1.1-3,  2.1.1-2,  2.1.1-1,  2.1.1-0,  2.1.0-2,  2.1.0-1,  2.1.0-0,  2.0.12-1,  2.0.12-0

depends libgcc:

>=13

depends libstdcxx:

>=13

depends openmpi:

>=4.1.6,<5.0a0

depends tbb:

>=2021.13.0

requirements:

additional platforms:

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install swipe

and update with::

   mamba update swipe

To create a new environment, run:

mamba create --name myenvname swipe

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

   docker pull quay.io/biocontainers/swipe:<tag>

(see `swipe/tags`_ for valid values for ``<tag>``)

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/swipe/README.html)