recipe dfast

DDBJ Fast Annotation and Submission Tool - Prokaryotic genome annotation pipeline

Homepage:

https://dfast.nig.ac.jp

Developer docs:

https://github.com/nigyta/dfast_core

License:

GPL / GPLv3

Recipe:

/dfast/meta.yaml

Links:

biotools: dfast, doi: 10.1093/bioinformatics/btx713

package dfast

versions:

1.3.2-0,  1.3.1-0,  1.3.0-0,  1.2.21-0,  1.2.20-0,  1.2.19-1,  1.2.19-0,  1.2.18-2,  1.2.18-1, 

1.3.2-0,  1.3.1-0,  1.3.0-0,  1.2.21-0,  1.2.20-0,  1.2.19-1,  1.2.19-0,  1.2.18-2,  1.2.18-1,  1.2.18-0,  1.2.17-0,  1.2.16-0,  1.2.15-1,  1.2.15-0,  1.2.14-0,  1.2.13-1,  1.2.13-0,  1.2.12-0,  1.2.11-0,  1.2.10-0,  1.2.7-0,  1.2.6-1,  1.2.6-0,  1.2.5-0,  1.2.4-0,  1.2.3-2,  1.2.3-1,  1.2.3-0

depends aragorn:

depends barrnap:

depends biopython:

depends blast:

>=2.6.0

depends ghostx:

depends hmmer:

>=3.1b2

depends libgcc-ng:

>=12

depends libstdcxx-ng:

>=12

depends libzlib:

>=1.2.13,<2.0a0

depends metagene_annotator:

>=1.0

depends openjdk:

depends plasmidfinder:

>=2.1.6

depends python:

>=3.7

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 dfast

and update with::

   mamba update dfast

To create a new environment, run:

mamba create --name myenvname dfast

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/dfast:<tag>

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

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