artemis 9_1 biology =0

A DNA sequence viewer and annotation tool
Maintained by: fernan@iib.unsam.edu.ar
Port Added: 22 Dec 2001 11:39:40
Also Listed In: java
License: not specified in port

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).

WWW: http://www.sanger.ac.uk/Software/Artemis/manual
WWW: http://www.sanger.ac.uk/Software/ACT/manual

CVSWeb : Sources : Main Web Site : Distfiles Availability : PortsMon

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NOTE: FreshPorts displays only required dependencies information. Optional dependencies are not covered.
Required To Run: java/jdk16
There are no ports dependent upon this port

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To install the port: cd /usr/ports/biology/artemis/ && make install clean
To add the package: pkg_add -r artemis

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Configuration Options

     No options to configure

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Master Sites:

http://www.sanger.ac.uk/Software/Artemis/v9/

ftp://ftp.sanger.ac.uk/pub/pathogens/software/artemis/v9/

ftp://ftp.FreeBSD.org/pub/FreeBSD/ports/distfiles/

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

- Get Rid MD5 support

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)

- 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)

BROKEN: Unfetchable

- Welcome X.org 7.2 \o/.
- Set X11BASE to ${LOCALBASE} for recent ${OSVERSION}.
- Bump PORTREVISION for ports intalling files in ${X11BASE}.

- Fix fetch problems

PR:             89971
Submitted by:   Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer)
Approved by:    clement (mentor)

Update to version 7

PR:             86196
Submitted by:   Tony Maher <anthony.maher@uts.edu.au>
Approved by:    maintainer

- Add 'java' category
- Remove incorrect (and unneeded) JAVA_RUN statement

PR:             78761
Submitted by:   me

- 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)

SIZEify (maintainer timeout)

Bump PORTREVISION on all ports that depend on gettext to aid with upgrading.

(Part 2)

De-pkg-comment.

Initial import of artemis 4.0    

15 vulnerabilities affecting 34 ports have been reported in the past 14 days

^* - modified, not new

All vulnerabilities