FreshPorts -- The Place For Ports If you buy from Amazon USA, please support us by using this link.
Follow us
Blog
Twitter

Port details
ruby-bio Integrated environment for Bioinformatics written in Ruby
1.5.0 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
Maintainer: mauricio@arareko.net search for ports maintained by this maintainer
Port Added: 24 Oct 2001 03:21:52
Also Listed In: ruby
License: GPLv2 RUBY
BioRuby project aims to implement integrated environment for
Bioinformatics by using Ruby.

WWW: http://bioruby.org/
SVNWeb : Homepage : PortsMon

To install the port: cd /usr/ports/biology/ruby-bio/ && make install clean
To add the package: pkg install ruby21-bio

PKGNAME: ruby21-bio


NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.

Build dependencies:
  1. ruby21 : lang/ruby21
Runtime dependencies:
  1. ruby21 : lang/ruby21
Patch dependencies:
  1. ruby21 : lang/ruby21
Extract dependencies:
  1. ruby21 : lang/ruby21
There are no ports dependent upon this port

Configuration Options
===> The following configuration options are available for ruby21-bio-1.5.0:
     BDB4=off: bdb4 support for faster flat file indexing
     DOCS=on: Build and/or install documentation
     MYSQL=off: MySQL database support
     PGSQL=off: PostgreSQL database support
     XMLPARSER=off: xmlparser support for faster Blast processing
===> Use 'make config' to modify these settings

USES:
shebangfix

Master Sites:
  1. http://bioruby.org/archive/
  2. http://distcache.FreeBSD.org/ports-distfiles/ruby/

Number of commits found: 39

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
01 Apr 2016 13:29:17
Original commit files touched by this commit  1.5.0
Revision:412344
mat search for other commits by this committer
Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.

With hat:	portmgr
Sponsored by:	Absolight
31 Mar 2016 17:36:55
Original commit files touched by this commit  1.5.0
Revision:412278
amdmi3 search for other commits by this committer
- Update to 1.5.0

PR:		208351
Submitted by:	wen@FreeBSD.org
Approved by:	mauricio@arareko.net (maintainer)
17 Jan 2016 07:06:25
Original commit files touched by this commit  1.4.1
Revision:406285
swills search for other commits by this committer
mark ports that don't work with Ruby 2.3

PR:		205774
10 Oct 2015 23:15:16
Original commit files touched by this commit  1.4.1
Revision:399072
sunpoet search for other commits by this committer
- Fix typo

Approved by:	portmgr (blanket)
03 Sep 2015 16:23:37
Original commit files touched by this commit  1.4.1
Revision:395991
sunpoet search for other commits by this committer
- Add LICENSE
- Add NO_ARCH
- Use BROKEN_RUBY22
- While I'm here, use single space after WWW:

Approved by:	portmgr (blanket)
With hat:	ruby
17 Aug 2015 14:20:41
Original commit files touched by this commit  1.4.1
Revision:394508
mat search for other commits by this committer
Remove UNIQUENAME and LATEST_LINK.

UNIQUENAME was never unique, it was only used by USE_LDCONFIG and now,
we won't have conflicts there.

Use PKGBASE instead of LATEST_LINK in PKGLATESTFILE, the *only* consumer
is pkg-devel, and it works just fine without LATEST_LINK as pkg-devel
has the correct PKGNAME anyway.

Now that UNIQUENAME is gone, OPTIONSFILE is too. (it's been called
OPTIONS_FILE now.)

Reviewed by:	antoine, bapt
Exp-run by:	antoine
Sponsored by:	Absolight
Differential Revision:	https://reviews.freebsd.org/D3336
03 Apr 2015 13:50:39
Original commit files touched by this commit  1.4.1
Revision:383123
swills search for other commits by this committer
biology/ruby-bio: mark broken with ruby 2.2
20 Oct 2014 07:10:48
Original commit files touched by this commit  1.4.1
Revision:371237
bapt search for other commits by this committer
Cleanup plist
21 Sep 2014 13:44:59
Original commit files touched by this commit  1.4.1
Revision:368754
dinoex search for other commits by this committer
- any version for RUN_DEPENDS
21 Sep 2014 09:51:18
Original commit files touched by this commit  1.4.1
Revision:368736
dinoex search for other commits by this committer
- update RUN_DEPENDS for rubygems-dbi
07 Apr 2014 13:01:27
Original commit files touched by this commit  1.4.1
Revision:350461
bapt search for other commits by this committer
Support stage
15 Jan 2014 22:52:28
Original commit files touched by this commit  1.4.1
Revision:339846
bapt search for other commits by this committer
Reduce over inclusion of bsd.port.mk
20 Sep 2013 15:55:44
Original commit files touched by this commit  1.4.1
Revision:327709
bapt search for other commits by this committer
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology)
18 Mar 2013 06:55:42
Original commit files touched by this commit  1.4.1
Revision:314532
jgh search for other commits by this committer
- adoption of optionsNG
- trim historical header

Approved by:	portmgr (miwi)
30 Dec 2010 23:08:47
Original commit files touched by this commit  1.4.1
pgollucci search for other commits by this committer
- Fix pkg-plist, got the wrong version before

Reported by:    pointyhat via pav
27 Dec 2010 15:11:50
Original commit files touched by this commit  1.4.1
pgollucci search for other commits by this committer
- Update to 1.4.1
- Remove MD5

PR:             ports/153394
Submitted by:   myself (pgollucci)
Approved by:    mauricio@arareko.net (maintainer)
Sponsored by:   RideCharge Inc. / TaxiMagic
08 Jun 2010 00:18:54
Original commit files touched by this commit  1.4.0
pgollucci search for other commits by this committer
- Update to 1.4.0
- Sort pkg-plist
- seperate NOPORTDOCS and NOPORTEXAMPLES
24 Oct 2007 01:38:51
Original commit files touched by this commit  1.1.0
clsung search for other commits by this committer
- Update to 1.1.0

PR:             ports/117369
Submitted by:   Motomichi Matsuzaki <mzaki_AT_e-mail dot ne dot jp>
Approved by:    maintainer (Mauricio Herrera Cuadra)
25 Apr 2006 22:09:29
Original commit files touched by this commit  1.0.0
pav search for other commits by this committer
- Update to 1.0.0
- Provide OPTIONS
- Take maintainership

PR:             ports/94123
Submitted by:   Mauricio Herrera Cuadra <mauricio@arareko.net>
24 Nov 2005 00:04:00
Original commit files touched by this commit  0.6.2
pav search for other commits by this committer
- Add SHA256
11 Nov 2005 01:18:01
Original commit files touched by this commit  0.6.2
linimon search for other commits by this committer
With portmgr hat on, reset maintainership of knu's ports since he has
been inactive more than 6 months.  We hope to see him back sometime.
25 Dec 2004 17:52:46
Original commit files touched by this commit  0.6.2
knu search for other commits by this committer
Update to 0.6.2.
06 Jul 2004 14:31:55
Original commit files touched by this commit  0.5.3
vs search for other commits by this committer
Fix distsite

PR:             ports/67473
Submitted by:   Roman Neuhauser
Approved by:    maintainer timeout
29 May 2004 23:03:53
Original commit files touched by this commit  0.5.3
pav search for other commits by this committer
- Update WWW
22 Mar 2004 15:05:32
Original commit files touched by this commit  0.5.3
knu search for other commits by this committer
Add SIZE data.

Submitted by:   trevor
14 Oct 2003 22:25:59
Original commit files touched by this commit  0.5.3
knu search for other commits by this committer
Update to 0.5.3.
22 Aug 2003 22:53:54
Original commit files touched by this commit  0.5.2
knu search for other commits by this committer
Update to 0.5.2.
29 Jul 2003 06:44:28
Original commit files touched by this commit  0.5.1
knu search for other commits by this committer
Update to 0.5.1.
26 Jun 2003 03:34:44
Original commit files touched by this commit  0.5.0
knu search for other commits by this committer
Update to 0.5.0.
18 Feb 2003 04:22:03
Original commit files touched by this commit  0.4.0
knu search for other commits by this committer
De-pkg-comment.
29 Jan 2003 10:45:59
Original commit files touched by this commit  0.4.0
knu search for other commits by this committer
Update to 0.4.0.
06 Oct 2002 20:59:13
Original commit files touched by this commit  0.3.9
knu search for other commits by this committer
Use RUBY_MOD*.
03 Aug 2002 07:02:10
Original commit files touched by this commit  0.3.9
knu search for other commits by this committer
Update to 0.3.9.
07 Jul 2002 18:21:43
Original commit files touched by this commit  0.3.8
knu search for other commits by this committer
Update to 0.3.8.
10 Apr 2002 18:37:18
Original commit files touched by this commit  0.3.6
knu search for other commits by this committer
Update to 0.3.6.
12 Mar 2002 23:12:04
Original commit files touched by this commit
knu search for other commits by this committer
Update to 0.3.5.
21 Dec 2001 21:25:16
files touched by this commit
knu search for other commits by this committer
Update to 0.3.3.    
28 Nov 2001 13:46:31
files touched by this commit
knu search for other commits by this committer
Update to 0.3.2.    
24 Oct 2001 07:21:52
files touched by this commit
knu search for other commits by this committer
Add ruby-bio (BioRuby), an integrated environment for Bioinformatics   written
in Ruby.    

Number of commits found: 39

Login
User Login
Create account

Servers and bandwidth provided by
New York Internet, SuperNews, and RootBSD

This site
What is FreshPorts?
About the authors
Issues
FAQ
How big is it?
The latest upgrade!
Privacy
Forums
Blog
Contact

Search
Enter Keywords:
 
more...

Latest Vulnerabilities
ImageMagickMay 06
ImageMagick-nox11May 06
ImageMagick7May 06
ImageMagick7-nox11May 06
janssonMay 04
gitlabMay 03
libksbaMay 03
libressl*May 03
libressl-devel*May 03
linux-c6-openssl*May 03
openssl*May 03
php55May 03
php55-bcmathMay 03
php55-exifMay 03
php55-gdMay 03

14 vulnerabilities affecting 65 ports have been reported in the past 14 days

* - modified, not new

All vulnerabilities


Ports
Home
Categories
Deleted ports
Sanity Test Failures
Newsfeeds

Statistics
Graphs
NEW Graphs (Javascript)
Traffic

Calculated hourly:
Port count 25997
Broken 283
Deprecated 64
Ignore 550
Forbidden 0
Restricted 203
No CDROM 86
Vulnerable 53
Expired 25
Set to expire 52
Interactive 0
new 24 hours 5
new 48 hours8
new 7 days19
new fortnight43
new month107

Servers and bandwidth provided by
New York Internet, SuperNews, and RootBSD
Valid HTML, CSS, and RSS.
Copyright © 2000-2014 Dan Langille. All rights reserved.