recipe cassiopee

scan an input genomic sequence (dna/rna/protein) and search for a subsequence with exact match or allowing substitutions (Hamming distance) and/or insertion/deletions

Homepage:

https://github.com/osallou/cassiopee-c

License:

GPL-3+

Recipe:

/cassiopee/meta.yaml

package cassiopee

versions:

1.0.9-6,  1.0.9-5,  1.0.9-4,  1.0.9-3,  1.0.9-2,  1.0.9-1,  1.0.9-0,  1.0.5-2,  1.0.5-1, 

1.0.9-6,  1.0.9-5,  1.0.9-4,  1.0.9-3,  1.0.9-2,  1.0.9-1,  1.0.9-0,  1.0.5-2,  1.0.5-1,  1.0.5-0

depends boost:

>=1.78.0,<1.78.1.0a0

depends bzip2:

>=1.0.8,<2.0a0

depends glog:

>=0.6.0,<0.7.0a0

depends icu:

>=70.1,<71.0a0

depends libgcc-ng:

>=12

depends libstdcxx-ng:

>=12

depends libzlib:

>=1.2.13,<1.3.0a0

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 cassiopee

and update with::

   mamba update cassiopee

To create a new environment, run:

mamba create --name myenvname cassiopee

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/cassiopee:<tag>

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

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