| Port details |
- py-dna-features-viewer Python library to visualize DNA features, e.g. GenBank or Gff files
- 3.1.3_1 biology
 =2      3.1.3Version of this port present on the latest quarterly branch. - Maintainer: jwb@FreeBSD.org
- Port Added: 2022-02-03 12:42:05
- Last Update: 2025-03-08 04:05:21
- Commit Hash: 06a08e6
- People watching this port, also watch:: jdictionary, py311-Automat, py311-python-gdsii, py311-PyOpenGL, p5-Sane
- Also Listed In: python
- License: MIT
- WWW:
- https://github.com/Edinburgh-Genome-Foundry/DnaFeaturesViewer
- Description:
- DNA Features Viewer is a Python library to visualize DNA features, e.g.
from GenBank or Gff files.
DNA Features Viewer can plot sequence maps linearly or circularly, with
or without nucleotide sequence and amino-acid sequences. The plotter
automatically produces clear plots even for sequences with many
overlapping features and long labels. The library plays well with
Matplotlib and Biopython, and the figures can be saved in different
formats (PNG, JPEG, SVG, PDF), e.g. for report generation or LIMS
interfaces.
  ¦  ¦  ¦  ¦ 
- Manual pages:
- FreshPorts has no man page information for this port.
- pkg-plist: as obtained via:
make generate-plist - There is no configure plist information for this port.
- Dependency lines:
-
- ${PYTHON_PKGNAMEPREFIX}dna-features-viewer>0:biology/py-dna-features-viewer@${PY_FLAVOR}
- To install the port:
- cd /usr/ports/biology/py-dna-features-viewer/ && make install clean
- To add the package, run one of these commands:
- pkg install biology/py-dna-features-viewer
- pkg install py311-dna-features-viewer
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 py311-dna-features-viewer listed in the above command, you can pick from the names under the Packages section.- PKGNAME: py311-dna-features-viewer
- Package flavors (<flavor>: <package>)
- py311: py311-dna-features-viewer
- distinfo:
- TIMESTAMP = 1698839049
SHA256 (dna_features_viewer-3.1.3.tar.gz) = 7af179ab1b3c0dedd09e9e667cbd0fb804721ecbfc0cb4d0dda8a165437b3919
SIZE (dna_features_viewer-3.1.3.tar.gz) = 40331
Packages (timestamps in pop-ups are UTC):
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Build dependencies:
-
- py311-setuptools>=63.1.0 : devel/py-setuptools@py311
- python3.11 : lang/python311
- Test dependencies:
-
- python3.11 : lang/python311
- Runtime dependencies:
-
- py311-matplotlib>=3 : math/py-matplotlib@py311
- py311-biopython>0 : biology/py-biopython@py311
- py311-bcbio-gff>0 : biology/py-bcbio-gff@py311
- py311-packaging>0 : devel/py-packaging@py311
- python3.11 : lang/python311
- There are no ports dependent upon this port
Configuration Options:- No options to configure
- Options name:
- biology_py-dna-features-viewer
- USES:
- python
- FreshPorts was unable to extract/find any pkg message
- Master Sites:
|
| Commit History - (may be incomplete: for full details, see links to repositories near top of page) |
| Commit | Credits | Log message |
|---|
3.1.3_1
08 Mar 2025 04:05:21
 |
Charlie Li (vishwin) |
python: bump all USE_PYTHON=distutils consumers after RUN_DEPENDS removal
Any missed ports, feel free to bump.
Any ports that need setuptools at runtime can have the devel/py-setuptools
manually added back to RUN_DEPENDS, but understand that this practice
is deprecated; see CHANGES for details. |
3.1.3
21 Feb 2025 13:04:08
|
Jason W. Bacon (jwb) |
Multiple biology ports: Replace pypi homepage with github
portscout apparently can't work with PYPI homepages |
3.1.3
04 Nov 2023 22:11:34
|
Jason W. Bacon (jwb) |
biology/py-dna-features-viewer: Update to 3.1.3
Latest biopython and matplotlib compatibility
Changes:
https://github.com/Edinburgh-Genome-Foundry/DnaFeaturesViewer/releases
Reported by: portscout |
3.1.2_1
23 Apr 2023 09:09:58
|
Gerald Pfeifer (gerald) |
*: Bump PORTREVISIONs for math/mpc update to 1.3.1 |
3.1.2
17 Mar 2023 17:55:54
|
Jason W. Bacon (jwb) |
biology/py-dna-features-viewer: Update to 3.1.2
Fixes compatibility with biophython 1.80 |
3.1.1
11 Jan 2023 15:58:34
|
Dmitry Marakasov (amdmi3) |
*/*: rename CHEESESHOP to PYPI in MASTER_SITES
PR: 267994
Differential revision: D37518
Approved by: bapt |
07 Sep 2022 21:58:51
|
Stefan Eßer (se) |
Remove WWW entries moved into port Makefiles
Commit b7f05445c00f has added WWW entries to port Makefiles based on
WWW: lines in pkg-descr files.
This commit removes the WWW: lines of moved-over URLs from these
pkg-descr files.
Approved by: portmgr (tcberner) |
3.1.1
07 Sep 2022 21:10:59
|
Stefan Eßer (se) |
Add WWW entries to port Makefiles
It has been common practice to have one or more URLs at the end of the
ports' pkg-descr files, one per line and prefixed with "WWW:". These
URLs should point at a project website or other relevant resources.
Access to these URLs required processing of the pkg-descr files, and
they have often become stale over time. If more than one such URL was
present in a pkg-descr file, only the first one was tarnsfered into
the port INDEX, but for many ports only the last line did contain the
port specific URL to further information.
There have been several proposals to make a project URL available as
a macro in the ports' Makefiles, over time.
(Only the first 15 lines of the commit message are shown above  ) |
3.1.1
08 May 2022 12:48:38
|
Jason W. Bacon (jwb) |
biology/py-dna-features-viewer: Update to 3.1.1
python 3.9 compatibility
Changes: https://github.com/Edinburgh-Genome-Foundry/DnaFeaturesViewer/tags
Reported by: portscout |
3.1.0_2
12 Feb 2022 15:12:39
|
Jason W. Bacon (jwb) |
biology/py-dna-features-viewer: Add missing dependency
py-packaging not mentioned in setup.py, but runtime errors thrown
without it. |
3.1.0_1
03 Feb 2022 20:11:38
|
Jason W. Bacon (jwb) |
biology/py-dna-features-viewer: Add py-bcbio-gff dep
Needed to automatically extract features from GFF files |
3.1.0
03 Feb 2022 12:37:38
|
Jason W. Bacon (jwb) |
biology/py-dna-features-viewer: Python lib to visualize DNA features
DNA Features Viewer is a Python library to visualize DNA features, e.g.
from GenBank or Gff files.
DNA Features Viewer can plot sequence maps linearly or circularly, with
or without nucleotide sequence and amino-acid sequences. The plotter
automatically produces clear plots even for sequences with many
overlapping features and long labels. The library plays well with
Matplotlib and Biopython, and the figures can be saved in different
formats (PNG, JPEG, SVG, PDF), e.g. for report generation or LIMS
interfaces. |
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