recipe goldrush

Linear-time de novo long read assembler, from the Bioinformatics Technology Lab

Homepage:

https://github.com/bcgsc/goldrush

License:

GPL-3.0

Recipe:

/goldrush/meta.yaml

package goldrush

versions:

1.2.2-0,  1.2.1-3,  1.2.1-2,  1.2.1-1,  1.2.1-0,  1.2.0-0,  1.1.2-0,  1.1.1-2,  1.1.1-1, 

1.2.2-0,  1.2.1-3,  1.2.1-2,  1.2.1-1,  1.2.1-0,  1.2.0-0,  1.1.2-0,  1.1.1-2,  1.1.1-1,  1.1.1-0,  1.1.0-1,  1.1.0-0,  1.0.3-1,  1.0.3-0,  1.0.2-1,  1.0.2-0,  1.0.1-0,  1.0.0-0,  0.9.3-0

depends _openmp_mutex:

>=4.5

depends bc:

depends btllib:

>=1.6.2

depends btllib:

>=1.7.3,<2.0a0

depends gperftools:

depends libdivsufsort:

>=2.0.2,<2.1.0a0

depends libgcc:

>=13

depends libstdcxx:

>=13

depends make:

depends minimap2:

>=2.17

depends ntlink:

>=1.3.0

depends numpy:

>=1.22.4

depends python:

>=3.9,<3.10.0a0

depends python_abi:

3.9.* *_cp39

depends snakemake:

depends tigmint:

>=1.2.6

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 goldrush

and update with::

   mamba update goldrush

To create a new environment, run:

mamba create --name myenvname goldrush

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/goldrush:<tag>

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

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