recipe hictk

Blazing fast toolkit to work with .hic and .cool files

Homepage:

https://github.com/paulsengroup/hictk

Documentation:

https://hictk.readthedocs.io/en/stable/

License:

MIT

Recipe:

/hictk/meta.yaml

Links:

biotools: hictk, doi: 10.5281/zenodo.8214221

package hictk

versions:

2.0.1-0,  2.0.0-0,  1.0.0-2,  1.0.0-1,  1.0.0-0,  0.0.12-1,  0.0.12-0,  0.0.11-0,  0.0.10-0, 

2.0.1-0,  2.0.0-0,  1.0.0-2,  1.0.0-1,  1.0.0-0,  0.0.12-1,  0.0.12-0,  0.0.11-0,  0.0.10-0,  0.0.9-0,  0.0.8-0,  0.0.7-0,  0.0.6-0,  0.0.5-0,  0.0.4-0,  0.0.3-0,  0.0.2-0,  0.0.1-0

depends hdf5:

>=1.12

depends hdf5:

>=1.14.4,<1.14.5.0a0

depends libarchive:

>=3

depends libarchive:

>=3.7.4,<3.8.0a0

depends libarrow:

>=16

depends libarrow:

>=17.0.0,<17.1.0a0

depends libdeflate:

>=1

depends libdeflate:

>=1.22,<1.23.0a0

depends libgcc:

depends libgcc-ng:

>=13

depends libstdcxx:

depends libstdcxx-ng:

>=13

depends zstd:

>=1.5

depends zstd:

>=1.5.6,<1.6.0a0

requirements:

additional platforms:

linux-aarch64,  osx-arm64

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 hictk

and update with::

   mamba update hictk

To create a new environment, run:

mamba create --name myenvname hictk

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/hictk:<tag>

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

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