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Port details
py-ont-fast5-api Interface to HDF5 files in Oxford Nanopore .fast5 format
4.0.2 biology on this many watch lists=0 search for ports that depend on this port Find issues related to this port Report an issue related to this port View this port on Repology. pkg-fallout 4.0.0Version of this port present on the latest quarterly branch.
Maintainer: jwb@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2021-08-13 13:36:06
Last Update: 2022-03-25 16:37:29
Commit Hash: fad5d17
Also Listed In: python
License: MPL20
Description:
SVNWeb : git : Homepage
pkg-plist: as obtained via: make generate-plist
There is no configure plist information for this port.
Dependency lines:
  • ${PYTHON_PKGNAMEPREFIX}ont-fast5-api>0:biology/py-ont-fast5-api@${PY_FLAVOR}
To install the port:
cd /usr/ports/biology/py-ont-fast5-api/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/py-ont-fast5-api
  • pkg install py38-ont-fast5-api
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.NOTE: This is a Python port. Instead of py38-ont-fast5-api listed in the above command, you can pick from the names under the Packages section.
PKGNAME: py38-ont-fast5-api
Package flavors (<flavor>: <package>)
  • py38: py38-ont-fast5-api
distinfo:
Packages (timestamps in pop-ups are UTC):
py38-ont-fast5-api
ABIlatestquarterly
FreeBSD:11:aarch64--
FreeBSD:11:amd644.0.0-
FreeBSD:11:armv6--
FreeBSD:11:i3864.0.0-
FreeBSD:11:mips--
FreeBSD:11:mips64--
FreeBSD:12:aarch64-4.0.2
FreeBSD:12:amd64-4.0.2
FreeBSD:12:armv6--
FreeBSD:12:armv7--
FreeBSD:12:i386-4.0.2
FreeBSD:12:mips--
FreeBSD:12:mips64--
FreeBSD:12:powerpc64--
FreeBSD:13:aarch64-4.0.2
FreeBSD:13:amd64-4.0.2
FreeBSD:13:armv6--
FreeBSD:13:armv7-4.0.2
FreeBSD:13:i386-4.0.2
FreeBSD:13:mips--
FreeBSD:13:mips64--
FreeBSD:13:powerpc64--
FreeBSD:14:aarch64--
FreeBSD:14:amd64--
FreeBSD:14:armv6--
FreeBSD:14:armv74.0.2-
FreeBSD:14:i386--
FreeBSD:14:mips--
FreeBSD:14:mips64--
FreeBSD:14:powerpc64--
 
py39-ont-fast5-api
ABIlatestquarterly
FreeBSD:11:aarch64--
FreeBSD:11:amd64--
FreeBSD:11:armv6--
FreeBSD:11:i386--
FreeBSD:11:mips--
FreeBSD:11:mips64--
FreeBSD:12:aarch64--
FreeBSD:12:amd644.0.2-
FreeBSD:12:armv6--
FreeBSD:12:armv7--
FreeBSD:12:i3864.0.2-
FreeBSD:12:mips--
FreeBSD:12:mips64--
FreeBSD:12:powerpc64--
FreeBSD:13:aarch644.0.2-
FreeBSD:13:amd644.0.2-
FreeBSD:13:armv6--
FreeBSD:13:armv7--
FreeBSD:13:i3864.0.2-
FreeBSD:13:mips--
FreeBSD:13:mips64--
FreeBSD:13:powerpc64--
FreeBSD:14:aarch644.0.2-
FreeBSD:14:amd644.0.2-
FreeBSD:14:armv6--
FreeBSD:14:armv7--
FreeBSD:14:i3864.0.2-
FreeBSD:14:mips--
FreeBSD:14:mips64--
FreeBSD:14:powerpc64--
 

Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Build dependencies:
  1. py38-setuptools>0 : devel/py-setuptools@py38
  2. python3.8 : lang/python38
Runtime dependencies:
  1. py38-numpy>=1.16,1<1.21,1 : math/py-numpy@py38
  2. py38-h5py>=2.2.0 : science/py-h5py@py38
  3. py38-six>0 : devel/py-six@py38
  4. py38-progressbar>0 : misc/py-progressbar@py38
  5. py38-setuptools>0 : devel/py-setuptools@py38
  6. python3.8 : lang/python38
Library dependencies:
  1. libvbz_hdf_plugin.so : archivers/vbz-compression
This port is required by:
for Run
  1. biology/biostar-tools

Configuration Options:
Options name:

USES:

FreshPorts was unable to extract/find any pkg message
Master Sites:
Expand this list (1 items)
Collapse this list.
  1. https://codeload.github.com/nanoporetech/ont_fast5_api/tar.gz/release_4.0.2?dummy=/
Collapse this list.

Number of commits found: 2

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
25 Mar 2022 16:37:29
 files touched by this commit commit hash:fad5d1754c6cacc578077dfa752196f3db3271f7  4.0.2
Jason W. Bacon (jwb) search for other commits by this committer
biology/py-ont-fast5-api: Update to 4.0.2

Minor bug fix release

Also disabled install of test directory, which was not properly
installed under the package subdir and caused a conflict as a result

PR:             262759
13 Aug 2021 13:34:09
 files touched by this commit commit hash:5797d6a3298ebfe3990db73084f34ed935911efa  4.0.0
Jason W. Bacon (jwb) search for other commits by this committer
biology/py-ont-fast5-api: Interface to Oxford Nanopore .fast5 files

The ont_fast5_api is a simple interface to HDF5 files of the Oxford
Nanopore .fast5 file format. It provides:

    o Implementation of the fast5 file schema using h5py library
    o Methods to interact with and reflect the fast5 file schema
    o Tools to convert between multi_read and single_read formats
    o Tools to compress/decompress raw data in files

Number of commits found: 2