recipe pasta

An implementation of the PASTA (Practical Alignment using Sate and TrAnsitivity) algorithm

Homepage:

https://github.com/smirarab/pasta

License:

GPL3 / GPL-3.0-or-later

Recipe:

/pasta/meta.yaml

package pasta

versions:

1.9.2-2,  1.9.2-1,  1.9.2-0,  1.9.0-0,  1.7.8-4,  1.7.8-3,  1.7.8-2,  1.7.8-0,  0.2-0

depends clustalw:

>=2.1,<2.2.0a0

depends dendropy:

>=5.0.1,<6.0a0

depends fasttree:

>=2.1.11,<3.0a0

depends hmmer:

>=3.4,<3.5.0a0

depends mafft:

>=7.526,<8.0a0

depends muscle:

<4

depends openjdk:

depends pcre:

>=8.45,<9.0a0

depends prank:

>=170427,<170428.0a0

depends pymongo:

>=3.3.0

depends python:

>=3.10,<3.11.0a0

depends python_abi:

3.10.* *_cp310

depends raxml:

>=8.2.13,<9.0a0

requirements:

additional platforms:

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 pasta

and update with::

   mamba update pasta

To create a new environment, run:

mamba create --name myenvname pasta

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/pasta:<tag>

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

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