recipe abromics_galaxy_json_extractor

Tool to convert Galaxy AMR output to abromics project



Developer docs:





package abromics_galaxy_json_extractor

(downloads) docker_abromics_galaxy_json_extractor


depends _libgcc_mutex:

depends _openmp_mutex:

depends biopython:

depends bzip2:

depends ca-certificates:

depends ld_impl_linux-64:

depends libblas:

depends libcblas:

depends libffi:

depends libgcc-ng:

depends libgfortran-ng:

depends libgfortran5:

depends libgomp:

depends liblapack:

depends libnsl:

depends libopenblas:

depends libsqlite:

depends libstdcxx-ng:

depends libzlib:

depends ncurses:

depends numpy:

depends openssl:

depends pandas:

depends pip:

depends python:

depends python-dateutil:

depends python-tzdata:

depends python_abi:

depends pytz:

depends readline:

depends setuptools:

depends six:

depends tk:

depends tzdata:

depends wheel:

depends xz:



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 abromics_galaxy_json_extractor

and update with::

   mamba update abromics_galaxy_json_extractor

To create a new environment, run:

mamba create --name myenvname abromics_galaxy_json_extractor

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<tag>

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

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