recipe pbh5tools

A swiss-army knife for interrogating PacBio® HDF5 files (cmp.h5, bas.h5).






package pbh5tools

(downloads) docker_pbh5tools



depends h5py:


depends libgcc-ng:


depends numpy:


depends pbcore:


depends python:


depends python_abi:

2.7.* *_cp27mu

depends setuptools:



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 pbh5tools

and update with::

   mamba update pbh5tools

To create a new environment, run:

mamba create --name myenvname pbh5tools

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 `pbh5tools/tags`_ for valid values for ``<tag>``)

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