recipe dysgu

A collection of tools for calling structural variants using short or long reads

Homepage:

https://github.com/kcleal/dysgu

License:

MIT / MIT

Recipe:

/dysgu/meta.yaml

package dysgu

versions:

1.6.7-0,  1.6.6-0,  1.6.5-1,  1.6.5-0,  1.6.4-1,  1.6.4-0,  1.6.2-0,  1.6.1-0,  1.6.0-1, 

1.6.7-0,  1.6.6-0,  1.6.5-1,  1.6.5-0,  1.6.4-1,  1.6.4-0,  1.6.2-0,  1.6.1-0,  1.6.0-1,  1.6.0-0,  1.5.0-1,  1.5.0-0,  1.4.2-0,  1.4.0-0,  1.3.16-0

depends bzip2:

>=1.0.8,<2.0a0

depends click:

>=8.0

depends cython:

depends htslib:

>=1.12

depends htslib:

>=1.20,<1.22.0a0

depends libcurl:

>=8.8.0,<9.0a0

depends libgcc:

>=12

depends libstdcxx:

>=12

depends libzlib:

>=1.2.13,<2.0a0

depends lightgbm:

depends networkx:

>=2.4

depends numpy:

>=1.18

depends numpy:

>=1.21,<3

depends openssl:

>=3.3.2,<4.0a0

depends pandas:

>=1.2

depends pysam:

>=0.22

depends pysam:

>=0.22.1,<0.23.0a0

depends python:

>=3.10,<3.11.0a0

depends python-edlib:

>=1.3.9.0inf.1,<2.0a0

depends python_abi:

3.10.* *_cp310

depends scikit-learn:

>=0.22

depends scipy:

>1.7

depends sortedcontainers:

depends wheel:

depends xz:

>=5.2.6,<6.0a0

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 dysgu

and update with::

   mamba update dysgu

To create a new environment, run:

mamba create --name myenvname dysgu

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/dysgu:<tag>

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

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Link to this page

Render an 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/dysgu/README.html)