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Port details
biojava Open-source Java tools for processing biological data
1.7,1 biology Deleted on this many watch lists=2 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 Version of this port present on the latest quarterly branch.
Broken BROKEN: Does not build
Deprecated DEPRECATED: Broken for more than 6 months
Expired This port expired on: 2017-08-23
Ignore IGNORE: is marked as broken: Does not build
There is no maintainer for this port.
Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2000-10-10 08:14:04
Last Update: 2017-08-23 11:33:26
SVN Revision: 448603
People watching this port, also watch:: jdictionary
Also Listed In: java
License: not specified in port
Description:
Homepage    cgit ¦ GitHub ¦ GitHub ¦ GitLab ¦ SVNWeb
pkg-plist: as obtained via: make generate-plist
There is no configure plist information for this port.
Dependency lines:
  • biojava>0:biology/biojava
No installation instructions:
This port has been deleted.
PKGNAME: biojava
Flavors: there is no flavor information for this port.
distinfo:

Packages (timestamps in pop-ups are UTC):
biojava
ABIlatestquarterly
FreeBSD:11:aarch64pkg-falloutpkg-fallout
FreeBSD:11:amd64pkg-falloutpkg-fallout
FreeBSD:11:armv61.7,1pkg-fallout
FreeBSD:11:i386pkg-falloutpkg-fallout
FreeBSD:11:mipspkg-falloutpkg-fallout
FreeBSD:11:mips64pkg-falloutpkg-fallout
FreeBSD:12:aarch64pkg-falloutpkg-fallout
FreeBSD:12:amd64pkg-falloutpkg-fallout
FreeBSD:12:armv6pkg-falloutpkg-fallout
FreeBSD:12:armv7pkg-falloutpkg-fallout
FreeBSD:12:i386pkg-falloutpkg-fallout
FreeBSD:12:mipspkg-falloutpkg-fallout
FreeBSD:12:mips64pkg-falloutpkg-fallout
FreeBSD:12:powerpc64pkg-falloutpkg-fallout
FreeBSD:13:aarch64pkg-falloutpkg-fallout
FreeBSD:13:amd64pkg-falloutpkg-fallout
FreeBSD:13:armv6pkg-falloutpkg-fallout
FreeBSD:13:armv7pkg-falloutpkg-fallout
FreeBSD:13:i386pkg-falloutpkg-fallout
FreeBSD:13:mipspkg-falloutpkg-fallout
FreeBSD:13:mips64pkg-falloutpkg-fallout
FreeBSD:13:powerpc64pkg-falloutpkg-fallout
FreeBSD:13:riscv64pkg-falloutpkg-fallout
FreeBSD:14:aarch64pkg-falloutpkg-fallout
FreeBSD:14:amd64pkg-falloutpkg-fallout
FreeBSD:14:armv6pkg-falloutpkg-fallout
FreeBSD:14:armv7pkg-falloutpkg-fallout
FreeBSD:14:i386pkg-falloutpkg-fallout
FreeBSD:14:mipspkg-falloutpkg-fallout
FreeBSD:14:mips64pkg-falloutpkg-fallout
FreeBSD:14:powerpc64pkg-falloutpkg-fallout
FreeBSD:14:riscv64pkg-falloutpkg-fallout
 

Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Build dependencies:
  1. java : java/openjdk8
  2. ant : devel/apache-ant
Runtime dependencies:
  1. java : java/openjdk8
There are no ports dependent upon this port

Configuration Options:
Options name:
FreshPorts was unable to extract/find any pkg message

Master Sites:
Expand this list (1 items)
Collapse this list.
  1. http://www.biojava.org/download/bj17/all/
Collapse this list.
Port Moves
  • port deleted on 2017-08-23
    REASON: Has expired: Broken for more than 6 months

Number of commits found: 39

Commit History - (may be incomplete: for full details, see links to repositories near top of page)
CommitCreditsLog message
1.7,1
23 Aug 2017 11:33:26
Revision:448603Original commit files touched by this commit
rene search for other commits by this committer
Remove expired ports:
2017-08-23 games/plee-the-bear: Broken for more than 6 months
2017-08-23 x11-themes/kde-icons-umicons: Broken for more than 6 months
2017-08-23 lang/bigloo: Broken for more than 6 months
2017-08-23 audio/linux-neroaaccodec: Broken for more than 6 months
2017-08-23 x11-themes/kde-icons-dark-glass: Broken for more than 6 months
2017-08-23 misc/fortune-mod-ferengi_rules_of_acquisition: Broken for more than 6
months
2017-08-23 misc/fortune-mod-culmea-culmilor: Broken for more than 6 months
2017-08-23 misc/xyzcmd: Broken for more than 6 months
2017-08-23 russian/fortuneru: Broken for more than 6 months
2017-08-23 security/bdc: Broken for more than 6 months
2017-08-23 x11-themes/kde-icons-icosx: Broken for more than 6 months
2017-08-23 devel/insight: Broken for more than 6 months
2017-08-23 devel/gdb66: Broken for more than 6 months
2017-08-23 biology/biojava: Broken for more than 6 months
2017-08-23 games/xroach: Broken for more than 6 months
1.7,1
22 Jul 2017 11:01:38
Revision:446387Original commit files touched by this commit
antoine search for other commits by this committer
Deprecate ports BROKEN for more than 6 months
1.7,1
28 Oct 2016 01:49:40
Revision:424800Original commit files touched by this commit
wen search for other commits by this committer
- Mark it BROKEN
- Reset maintainer to ports@
1.7,1
19 Jul 2016 11:04:14
Revision:418767Original commit files touched by this commit
mat search for other commits by this committer
When there is a do-install target, do not use a post-install target, do
everything at once.  Sometime, rename post-install into a options helper
target.

I did not fix ports that were such a mess that I could not figure out
what they really wanted to do.  I also did not change ports that had
some version of an auto-plist code in post-install, for the same reason.

With hat:	portmgr
Sponsored by:	Absolight
1.7,1
19 May 2016 10:21:25
Revision:415498Original commit files touched by this commit
amdmi3 search for other commits by this committer
- Fix trailing whitespace in pkg-descrs, categories [a-f]*

Approved by:	portmgr blanket
1.7,1
01 Jun 2014 10:37:23
Revision:356092Original commit files touched by this commit
ohauer search for other commits by this committer
- add stage support
1.7,1
08 Mar 2014 16:39:01
Revision:347521Original commit files touched by this commit
antoine search for other commits by this committer
Unbreak
1.7,1
07 Mar 2014 15:52:40
Revision:347402Original commit files touched by this commit
bapt search for other commits by this committer
Convert b* to USES=zip
1.7,1
21 Feb 2014 13:35:26
Revision:345397Original commit files touched by this commit
ehaupt search for other commits by this committer
Remove trailing whitespaces from category biology
1.7,1
10 Feb 2014 13:54:28
Revision:343634Original commit files touched by this commit
ehaupt search for other commits by this committer
According to the Porter's Handbook (5.12.2.3.) default options must be added to
OPTIONS_DEFINE. This policy has been implemented only recently that's why we
have many ports violating this policy.

This patch adds the default options specified in the Porter's Handbook to
OPTIONS_DEFINE where they are being used. Ports maintained by
gnome@FreeBSD.org, kde@FreeBSD.org and x11@FreeBSD.org have been excluded.

Approved by:    portmgr (bapt)
1.7,1
03 Jan 2014 15:46:52
Revision:338550Original commit files touched by this commit
adamw search for other commits by this committer
Convert biology to MDOCS and MEXAMPLES
1.7,1
20 Sep 2013 15:55:44
Revision:327709Original commit files touched by this commit
bapt search for other commits by this committer
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology)
1.7,1
11 Dec 2012 07:26:39
Revision:308665Original commit files touched by this commit
bapt search for other commits by this committer
Remove hardcoded extract dependency on diablo-jdk16, directly use USE_ZIP
instead given that jar files are just zip files, remove hardcoded do extract
target.

Reported by:	linimon, matthew
1.7,1
10 Dec 2012 13:18:29
Revision:308604Original commit files touched by this commit
bapt search for other commits by this committer
Decommissioning java 1.5 (EOLed since October 2009):
suppress any reference to JAVA_VERSION=	1.5+ (part2)
1.7,1
29 Jul 2012 11:17:04
Original commit files touched by this commit
cs search for other commits by this committer
Fix typos in COMMENT

Approved by:	portmgr@ (implicit)
1.7,1
19 Mar 2011 12:38:54
Original commit files touched by this commit
miwi search for other commits by this committer
- Get Rid MD5 support
1.7,1
01 May 2009 09:33:42
Original commit files touched by this commit
miwi search for other commits by this committer
- Update to 1.7
- Pass maintainership to submitter

PR:             134056
Submitted by:   Wen Heping <wenheping@gmail.com>
1.5.b2_2,1
08 Dec 2008 06:43:50
Original commit files touched by this commit
linimon search for other commits by this committer
Reset nemoliu due to maintainer-timeouts and no response to email.

Hat:    portmgr
1.5.b2_2,1
06 Jun 2008 13:08:29
Original commit files touched by this commit
edwin search for other commits by this committer
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)
1.5.b2_1,1
19 May 2007 20:32:57
Original commit files touched by this commit
flz search for other commits by this committer
- Welcome X.org 7.2 \o/.
- Set X11BASE to ${LOCALBASE} for recent ${OSVERSION}.
- Bump PORTREVISION for ports intalling files in ${X11BASE}.
1.5.b2,1
30 Apr 2007 06:27:41
Original commit files touched by this commit
nemoliu search for other commits by this committer
Use my @FreeBSD.org address.

Approved by:    delphij (mentor)
1.5.b2,1
27 Mar 2007 08:01:54
Original commit files touched by this commit
miwi search for other commits by this committer
- Update to 1.5-beta2
- Pass maintainership to submitter

PR:             110621
Submitted by:   Nemo Liu<nemoliu@gmail.com>
1.5.b,1
11 Feb 2007 01:23:35
Original commit files touched by this commit
kris search for other commits by this committer
Schedule these broken ports for removal on 2007-04-10 if they are still
broken at that time and no fix has been submitted.
1.5.b,1
05 Feb 2007 00:08:52
Original commit files touched by this commit
kris search for other commits by this committer
BROKEN: Does not build
1.5.b,1
13 Dec 2006 12:56:01
Original commit files touched by this commit
linimon search for other commits by this committer
Reset whitekid@gmail.com after timeouts and no response to email.

Hat:            portmgr
1.5.b,1
21 Nov 2006 22:35:28
Original commit files touched by this commit
thierry search for other commits by this committer
- Upgrade to the latest beta and unbreak;

- Add a regression-test target;

- Fix plist for WITHOUT_SAMPLES.

PR:             ports/104685
Approved by:    maintainer's time-out (1 month)
1.30
02 Sep 2006 16:51:10
Original commit files touched by this commit
kris search for other commits by this committer
Schedule these broken ports for termination on 2006-12-01
1.30
22 Apr 2006 22:09:45
Original commit files touched by this commit
kris search for other commits by this committer
BROKEN: Does not compile
1.30
22 Jan 2006 08:20:34
Original commit files touched by this commit
edwin search for other commits by this committer
SHA256ify

Approved by:    krion@
1.30
22 Nov 2004 15:47:58
Original commit files touched by this commit
vs search for other commits by this committer
- Update biology/biojava to 1.30
- Install javadoc and example files
- Assign maintainership to submitter

PR:             ports/73391
Submitted by:   Cheng-Dae Choe
Add. reviewing: hq@
1.01
27 Jan 2004 20:51:07
Original commit files touched by this commit
trevor search for other commits by this committer
Add SIZE.
1.01
02 Nov 2003 02:48:09
Original commit files touched by this commit
edwin search for other commits by this committer
ports with possibly unreachable MAINTAINERs
*** addresses that seem to be dead:

PR:             ports/58694
Submitted by:   Oliver Eikemeier <eikemeier@fillmore-labs.com>
1.01
22 Oct 2003 09:29:55
Original commit files touched by this commit
osa search for other commits by this committer
Cosmetic fix: use %%DOCSDIR%% macro.
No functionally changes.

Submitted by:   Oleg Karachevtsev <ok@etrust.ru>
A part of PR:   57992
1.01
19 Oct 2003 02:26:52
Original commit files touched by this commit
kris search for other commits by this committer
Don't remove share/java/classes system directory.
1.01
21 Feb 2003 11:01:38
Original commit files touched by this commit
knu search for other commits by this committer
De-pkg-comment.
1.01
16 Jun 2002 01:08:49
Original commit files touched by this commit
glewis search for other commits by this committer
Unbreak this port:

. Fix dependencies to be in sync with the recent JDK ports renaming.
. Replace MASTER_SITES with a location that actually contains the
  source.
. Fix the packing list.

Note that there is a much newer version of this application available,
but that is beyond the scope of what I was trying to do (just fix the
JDK dependency), as is the last two items.
20 Nov 2001 23:29:38
commit hash:fp1.20977@dev.null.freshports.orgcommit hash:fp1.20977@dev.null.freshports.orgcommit hash:fp1.20977@dev.null.freshports.orgcommit hash:fp1.20977@dev.null.freshports.org files touched by this commit
lioux search for other commits by this committer
Style police: WWW tags should either end in a file/script or TRAILING /; Fix the
later case    
08 Jul 2001 19:15:34
commit hash:fp1.15991@dev.null.freshports.orgcommit hash:fp1.15991@dev.null.freshports.orgcommit hash:fp1.15991@dev.null.freshports.orgcommit hash:fp1.15991@dev.null.freshports.org files touched by this commit
ijliao search for other commits by this committer
Add NOPORTDOCS support to pkg-plist    
10 Oct 2000 12:14:04
commit hash:fp1.4935@dev.null.freshports.orgcommit hash:fp1.4935@dev.null.freshports.orgcommit hash:fp1.4935@dev.null.freshports.orgcommit hash:fp1.4935@dev.null.freshports.org files touched by this commit
jeh search for other commits by this committer
Initial import of biology/biojava    

Number of commits found: 39