recipe bowtie

An ultrafast memory-efficient short read aligner

Homepage:

https://github.com/BenLangmead/bowtie

License:

Artistic-2.0-only

Recipe:

/bowtie/meta.yaml

Links:

biotools: bowtie, doi: 10.1186/gb-2009-10-3-r25

package bowtie

versions:

1.3.1-6,  1.3.1-5,  1.3.1-4,  1.3.1-3,  1.3.1-2,  1.3.1-1,  1.3.1-0,  1.3.0-2,  1.3.0-1, 

1.3.1-6,  1.3.1-5,  1.3.1-4,  1.3.1-3,  1.3.1-2,  1.3.1-1,  1.3.1-0,  1.3.0-2,  1.3.0-1,  1.3.0-0,  1.2.3-2,  1.2.3-1,  1.2.3-0,  1.2.2-1,  1.2.2-0,  1.2.1.1-0,  1.2.0-0,  1.1.2-2,  1.1.2-1,  1.1.2-0,  1.1.1-0,  1.0.0-1,  1.0.0-0

depends libgcc-ng:

>=12

depends libstdcxx-ng:

>=12

depends libzlib:

>=1.2.13,<1.3.0a0

depends perl:

depends python:

>=3.10,<3.11.0a0

depends python_abi:

3.10.* *_cp310

depends tbb:

>=2021.9.0

depends zlib:

requirements:

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 bowtie

and update with::

   mamba update bowtie

To create a new environment, run:

mamba create --name myenvname bowtie

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/bowtie:<tag>

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

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