recipe ppanggolin

PPanGGOLiN: Depicting microbial species diversity via a Partitioned PanGenome Graph

Homepage:

https://github.com/labgem/PPanGGOLiN

Documentation:

https://ppanggolin.readthedocs.io

License:

CeCiLL 2.1

Recipe:

/ppanggolin/meta.yaml

package ppanggolin

versions:

2.2.3-0,  2.2.2-1,  2.2.2-0,  2.2.1-2,  2.2.1-1,  2.2.1-0,  2.2.0-0,  2.1.2-1,  2.1.2-0, 

2.2.3-0,  2.2.2-1,  2.2.2-0,  2.2.1-2,  2.2.1-1,  2.2.1-0,  2.2.0-0,  2.1.2-1,  2.1.2-0,  2.1.1-0,  2.1.0-0,  2.0.5-1,  2.0.5-0,  2.0.4-0,  2.0.3-0,  2.0.2-0,  2.0.1-0,  1.2.105-1,  1.2.105-0,  1.2.74-1,  1.2.74-0,  1.2.63-1,  1.2.63-0,  1.2.61-0,  1.2.46-1,  1.2.46-0,  1.1.136-1,  1.1.136-0,  1.1.131-0,  1.1.96-0,  1.1.85-1,  1.1.85-0,  1.1.72-0,  1.0.13-0,  1.0.1-0,  1.0.0-0,  v0.3.88-1,  v0.3.88-0

depends aragorn:

1.*

depends bokeh:

>=3.0.0,<4.0.0

depends dataclasses:

0.8.*

depends gmpy2:

>=2.0.0,<3.0.0

depends infernal:

1.*

depends libgcc:

>=13

depends mafft:

7.*

depends mmseqs2:

15.*

depends networkx:

>=3.0.0,<4.0.0

depends numpy:

>1.24.0,<2.0.0

depends pandas:

>=2.0.0,<3.0.0

depends plotly:

>=5.0.0,<6.0.0

depends pyrodigal:

>=3.0.0,<4.0.0

depends pytables:

>=3.0.0,<4.0.0

depends python_abi:

3.12.* *_cp312

depends scipy:

>=1.0.0,<2.0.0

depends tqdm:

>=4.0.0,<5.0.0

requirements:

additional platforms:

linux-aarch64,  osx-arm64

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 ppanggolin

and update with::

   mamba update ppanggolin

To create a new environment, run:

mamba create --name myenvname ppanggolin

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/ppanggolin:<tag>

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

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