recipe syri

Synteny and rearrangement identifier between whole-genome assemblies

Homepage:

https://github.com/schneebergerlab/syri

License:

MIT License

Recipe:

/syri/meta.yaml

package syri

versions:

1.6.3-2,  1.6.3-1,  1.6.3-0,  1.6-1,  1.6-0,  1.5.4-0,  1.5.3-0

depends libgcc-ng:

>=12

depends libstdcxx-ng:

>=12

depends longestrunsubsequence:

depends mummer4:

depends numpy:

>=1.21.2

depends numpy:

>=1.24.4,<2.0a0

depends pandas:

>=1.2.4

depends psutil:

>=5.8

depends pulp:

depends pysam:

>=0.16.0.1

depends python:

>=3.8,<3.9.0a0

depends python-igraph:

>=0.9.1

depends python_abi:

3.8.* *_cp38

depends scipy:

>=1.6.2

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 syri

and update with::

   mamba update syri

To create a new environment, run:

mamba create --name myenvname syri

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/syri:<tag>

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

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