recipe zol

zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters.

Homepage:

https://github.com/Kalan-Lab/zol

License:

BSD / BSD-3-Clause license

Recipe:

/zol/meta.yaml

package zol

versions:

1.5.5-0,  1.5.4-0,  1.5.3-0,  1.5.2-0,  1.5.1-1,  1.5.1-0,  1.5.0-0,  1.4.12-0,  1.4.11-0, 

1.5.5-0,  1.5.4-0,  1.5.3-0,  1.5.2-0,  1.5.1-1,  1.5.1-0,  1.5.0-0,  1.4.12-0,  1.4.11-0,  1.4.10-1,  1.4.10-0,  1.4.9-1,  1.4.9-0,  1.4.8-0,  1.4.7-0,  1.4.5-0,  1.4.4-0,  1.4.3-0,  1.4.2-0,  1.4.1-0,  1.3.20-0,  1.3.19-0,  1.3.18-0,  1.3.17-0,  1.3.16-0,  1.3.15-0,  1.3.14-0,  1.3.12-0,  1.3.11-0,  1.3.10-0,  1.3.9-0,  1.3.8-0,  1.3.7-0,  1.3.6-0,  1.3.5-0,  1.3.4-0,  1.3.3-0,  1.3.2-0,  1.3.1-0,  1.2.8-0,  1.2.7-0

depends axel:

depends bioconductor-ggtree:

depends biopython:

depends cd-hit:

depends codoff:

depends colour:

depends diamond:

>=2.1.7

depends ete3:

depends fasttree:

depends gravis:

depends gzip:

depends hmmer:

>=3.0.0

depends hyphy:

>=2.5.14

depends libgcc:

>=12

depends libstdcxx:

>=12

depends mcl:

depends miniprot:

0.13.*

depends muscle:

>=5.0

depends ncbi-genome-download:

depends pal2nal:

>=14.1

depends pandas:

>=2.0

depends pomegranate:

>=1.0.0

depends prodigal:

depends prodigal-gv:

depends pyhmmer:

depends pyrodigal:

depends python:

>=3.10,<3.11.0a0

depends python_abi:

3.10.* *_cp310

depends r-base:

depends r-cowplot:

depends r-gggenes:

depends r-ggplot2:

depends r-gridextra:

depends rich-argparse:

depends scikit-learn:

depends skani:

>=0.2.2

depends slclust:

depends tqdm:

depends trimal:

depends xlsxwriter:

>=3.0.3

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 zol

and update with::

   mamba update zol

To create a new environment, run:

mamba create --name myenvname zol

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/zol:<tag>

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

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