recipe gemini

a lightweight db framework for disease and population genetics.

Homepage:

https://github.com/arq5x/gemini

License:

MIT License

Recipe:

/gemini/meta.yaml

Links:

biotools: GEMINI, doi: 10.1371/journal.pcbi.1003153

package gemini

versions:

0.30.2-6,  0.30.2-5,  0.30.2-4,  0.30.2-3,  0.30.2-2,  0.30.2-1,  0.30.2-0,  0.30.1-0,  0.20.1-7, 

0.30.2-6,  0.30.2-5,  0.30.2-4,  0.30.2-3,  0.30.2-2,  0.30.2-1,  0.30.2-0,  0.30.1-0,  0.20.1-7,  0.20.1-6,  0.20.1-5,  0.20.1-4,  0.20.1-3,  0.20.1-2,  0.20.1-1,  0.20.1-0,  0.20.0-0,  0.20.0a0-0,  0.19.2a-2,  0.19.2a-1,  0.19.2a-0,  0.19.1-3,  0.19.1-2,  0.19.1-1,  0.19.1-0,  0.19.0-0,  0.18.3-1,  0.18.2-1,  0.18.1-3,  0.18.1-2,  0.18.1-1,  0.18.0-8,  0.18.0-7,  0.18.0-6,  0.18.0-5,  0.18.0-4,  0.18a-4,  0.17.3dev1-4,  0.17.3dev1-3,  0.17.3dev0-2,  0.17.3dev0-1

depends bcolz:

depends bottle:

depends bx-python:

>=0.11.0,<0.12.0a0

depends cyvcf2:

>0.6.5

depends cyvcf2:

>=0.30.28,<0.31.0a0

depends geneimpacts:

depends grabix:

depends inheritance:

depends ipyparallel:

depends ipython-cluster-helper:

depends jinja2:

depends libgcc-ng:

>=12

depends networkx:

depends numexpr:

depends numpy:

>=1.21.6,<2.0a0

depends openpyxl:

depends pandas:

depends pybedtools:

>=0.10.0,<0.11.0a0

depends pysam:

>=0.22

depends pysam:

>=0.22.0,<0.23.0a0

depends python:

>=3.8,<3.9.0a0

depends python-snappy:

depends python_abi:

3.8.* *_cp38

depends pyyaml:

depends scipy:

depends snappy:

>=1.2.0,<1.3.0a0

depends sqlalchemy:

depends unidecode:

depends wget:

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 gemini

and update with::

   mamba update gemini

To create a new environment, run:

mamba create --name myenvname gemini

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/gemini:<tag>

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

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