recipe shorah/1.99.2

The Short Reads Assembly into Haplotypes (ShoRAH) program for inferring viral haplotypes from NGS data

Homepage:

https://github.com/cbg-ethz/shorah

License:

GPL3 / GPLv3

Recipe:

/shorah/1.99.2/meta.yaml

Links:

biotools: shorah

package shorah

(downloads) docker_shorah

versions:
1.99.2-8,  1.99.2-7,  1.99.2-6,  1.99.2-5,  1.99.2-4,  1.99.2-3,  1.99.2-2,  1.99.2-1,  1.99.2-0, 

1.99.2-8,  1.99.2-7,  1.99.2-6,  1.99.2-5,  1.99.2-4,  1.99.2-3,  1.99.2-2,  1.99.2-1,  1.99.2-0,  1.99.1-1,  1.99.1-0,  1.99.0-8,  1.99.0-7,  1.99.0-6,  1.99.0-5,  1.99.0-4,  1.99.0-3,  1.99.0-2,  1.99.0-1,  1.99.0-0,  1.1.3-11,  1.1.3-10,  1.1.3-9,  1.1.3-8,  1.1.3-7,  1.1.3-6,  1.1.3-5,  1.1.3-4,  1.1.3-2,  1.1.3-1,  1.1.3-0,  1.1.2-0,  1.1.1-0,  1.1.0-2,  1.1.0-1,  1.1.0-0,  1.0.0-2,  1.0.0-1,  1.0.0-0

depends biopython:

depends htslib:

>=1.17,<1.21.0a0

depends libgcc-ng:

>=12

depends libstdcxx-ng:

>=12

depends libzlib:

>=1.2.13,<1.3.0a0

depends numpy:

depends python:

>=3.10,<3.11.0a0

depends python_abi:

3.10.* *_cp310

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 shorah

and update with::

   mamba update shorah

To create a new environment, run:

mamba create --name myenvname shorah

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/shorah:<tag>

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

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