Port details |
- artemis DNA sequence viewer and annotation tool
- 17.0.1.11 biology =2 17.0.1.11Version of this port present on the latest quarterly branch.
- Maintainer: yuri@FreeBSD.org
- Port Added: 2001-12-22 11:39:40
- Last Update: 2022-09-07 21:58:51
- Commit Hash: fb16dfe
- People watching this port, also watch:: jdictionary, py311-Automat, py311-python-gdsii, py39-PyOpenGL, p5-Sane
- Also Listed In: java
- License: GPLv3
- WWW:
- https://www.sanger.ac.uk/science/tools/artemis
- Description:
- Artemis is a DNA sequence viewer and annotation tool that allows
visualisation of sequence features and the results of analyses within
the context of the sequence, and its six-frame translation. Artemis is
written in Java, reads EMBL or GENBANK format sequences and feature
tables, and can work on sequences of any size.
ACT (Artemis Comparison Tool) is a DNA sequence comparison viewer based
on Artemis. It can open two or more sequences (and their
annotations/features) together with their comparisons (usually the
result of running blastn or tblastx searches).
- ¦ ¦ ¦ ¦
- Manual pages:
- FreshPorts has no man page information for this port.
- pkg-plist: as obtained via:
make generate-plist - Dependency lines:
-
- artemis>0:biology/artemis
- To install the port:
- cd /usr/ports/biology/artemis/ && make install clean
- To add the package, run one of these commands:
- pkg install biology/artemis
- pkg install artemis
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.- PKGNAME: artemis
- Flavors: there is no flavor information for this port.
- distinfo:
- TIMESTAMP = 1528734532
SHA256 (sanger-pathogens-artemis-v17.0.1-11-g3e43d27e_GH0.tar.gz) = a490d4b76bfdd8a531d22f2e0495e8c2c6e8efad18e6a9a0043ac425c7ab16dc
SIZE (sanger-pathogens-artemis-v17.0.1-11-g3e43d27e_GH0.tar.gz) = 77195529
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:
-
- java : java/openjdk8
- gmake>=4.3 : devel/gmake
- Runtime dependencies:
-
- bash : shells/bash
- java : java/openjdk8
- There are no ports dependent upon this port
Configuration Options:
- No options to configure
- Options name:
- biology_artemis
- USES:
- gmake shebangfix
- 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 |
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) |
17.0.1.11 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 ) |
17.0.1.11 20 Jul 2022 14:20:57 |
Tobias C. Berner (tcberner) |
biology: remove 'Created by' lines
A big Thank You to the original contributors of these ports:
* Aaron Dalton <aaron@FreeBSD.org>
* Akinori MUSHA aka knu <knu@idaemons.org>
* Andrey Zakhvatov
* Bob Zimmermann <rpz@cse.wustl.edu>
* Camson Huynh <chuynh@biolateral.com.au>
* Dan Siercks <dsiercks@uwm.edu>
* Fernan Aguero <fernan@iib.unsam.edu.ar>
* Hannes Hauswedell <h2+fbsdports@fsfe.org>
* J. Bacon <jwb@FreeBSD.org>
* Jason Bacon <jwb@FreeBSD.org>
* Jeremy <karlj000@unbc.ca> (Only the first 15 lines of the commit message are shown above ) |
17.0.1.11 06 Apr 2021 14:31:07 |
Mathieu Arnold (mat) |
Remove # $FreeBSD$ from Makefiles. |
17.0.1.11 26 Nov 2019 21:46:13 |
jkim |
Clean up after java/openjdk6 and java/openjdk6-jre removal
java/openjdk6 support was removed from Mk/bsd.java.mk (r512662) and
java/openjdk6 and java/openjdk6-jre were removed from the ports tree
(r512663). Now this patch completely removes remaining stuff from the
ports tree.
PR: 241953 (exp-run)
Reviewed by: glewis
Approved by: portmgr (antoine)
Differential Revision: https://reviews.freebsd.org/D22342 |
17.0.1.11 11 Jun 2018 17:45:57 |
yuri |
biology/artemis: Update 9 -> 17.0.1-11
Port changes:
* Take maintainership
* Change to github
* Change to DISTVERSION
* Add LICENSE
* Depends on bash
* Add USES=gmake
* Remove NO_BUILD: needs to build jars from java files
* Update the post-extract target
* Change do-install to do minimal installation
* Update WWW |
9_2 13 Oct 2017 11:14:32 |
bapt |
Remove dead master sites |
9_2 21 Apr 2017 16:28:25 |
amdmi3 |
- Fix shebangs
- Add NO_ARCH
- Switch to relative links |
9_1 21 Oct 2016 12:51:41 |
mat |
${RM} already has -f.
PR: 213570
Submitted by: mat
Exp-run by: antoine
Sponsored by: Absolight |
9_1 11 Mar 2015 14:41:54 |
amdmi3 |
- Add empty directory to plist |
9_1 20 Oct 2014 07:10:48 |
bapt |
Cleanup plist |
9_1 20 Jan 2014 23:06:48 |
bapt |
Support stage |
9_1 20 Sep 2013 15:55:44 |
bapt |
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology) |
9_1 10 Dec 2012 11:25:28 |
bapt |
Decommissioning java 1.5 (EOLed since October 2009):
suppress any reference to USE_JAVA= 1.5+ (part1) |
9_1 01 Oct 2012 14:45:17 |
tabthorpe |
- Reassign to the heap at maintainer's request |
9_1 21 Jul 2011 05:03:02 |
linimon |
Now that the Java 1.3 and Java 1.4 ports are deprecated and will expire soon,
remove support for them from bsd.java.mk. As Jikes is not available in Java 1.5
or higher, remove it from bsd.java.mk too (suggested by hq@) and from the ports
which used it (only occurences were USE_JIKES=no). Support for the Blackdown VM
is also removed, as it is not available in Java 1.5 and higher.
Also remove the mapping from Java 1.1-1.4 to Java 1.5+ in bsd.java.mk to detect
old, broken ports; therefore bump the minimal value of JAVA_VERSION to 1.5.
While here, replace static values of JAVA_VERSION in files/*.in by
%%JAVA_VERSION%% .
PR: ports/158969
Submitted by: rene
Tested on: pointyhat-west -exp |
9_1 19 Mar 2011 12:38:54 |
miwi |
- Get Rid MD5 support |
9_1 06 Jun 2008 13:08:29 |
edwin |
Bump portrevision due to upgrade of devel/gettext.
The affected ports are the ones with gettext as a run-dependency
according to ports/INDEX-7 (5007 of them) and the ones with USE_GETTEXT
in Makefile (29 of them).
PR: ports/124340
Submitted by: edwin@
Approved by: portmgr (pav) |
9 08 Jul 2007 11:47:58 |
rafan |
- Update to version 9
- Don't install CVS directories which are going to be removed
in next release
PR: ports/113831
Submitted by: Thomas Abthorpe <thomas at goodking.ca>
Approved by: maintainer timeout (20 days) |
7_2 26 May 2007 21:03:05 |
kris |
BROKEN: Unfetchable |
7_2 19 May 2007 20:32:57 |
flz |
- Welcome X.org 7.2 \o/.
- Set X11BASE to ${LOCALBASE} for recent ${OSVERSION}.
- Bump PORTREVISION for ports intalling files in ${X11BASE}. |
7_1 05 Dec 2005 16:57:26 |
tdb |
- Fix fetch problems
PR: 89971
Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer)
Approved by: clement (mentor) |
7 20 Sep 2005 14:59:28 |
hq |
Update to version 7
PR: 86196
Submitted by: Tony Maher <anthony.maher@uts.edu.au>
Approved by: maintainer |
6 20 Mar 2005 14:43:55 |
hq |
- Add 'java' category
- Remove incorrect (and unneeded) JAVA_RUN statement
PR: 78761
Submitted by: me |
6 12 Mar 2005 08:01:19 |
sem |
- Update to version 6
- Pass maintainership to submitter
PR: ports/76219
Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar>
Approved by: maintainer timeout (2 monthes) |
4.0_1 31 Mar 2004 03:12:58 |
trevor |
SIZEify (maintainer timeout) |
4.0_1 04 Feb 2004 05:21:48 |
marcus |
Bump PORTREVISION on all ports that depend on gettext to aid with upgrading.
(Part 2) |
4.0 21 Feb 2003 11:01:38 |
knu |
De-pkg-comment. |
22 Dec 2001 14:39:40 |
kevlo |
Initial import of artemis 4.0 |