Commit History - (may be incomplete: see SVNWeb link above for full details) |
Date | By | Description |
20 Jul 2022 14:20:57 6.6.0_6 |
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 ) |
29 Oct 2021 09:50:18 6.6.0_6 |
Stefan Eßer (se)  |
*/*: Remove redundant '-[0-9]*' from CONFLICTS
The conflict checks compare the patterns first against the package
names without version (as reported by "pkg query "%n"), then - if
there was no match - agsinst the full package names including the
version (as reported by "pkg query "%n-%v").
Many CONFLICTS definitions used patterns like "bash-[0-9]*" to filter
for the bash package in any version. But that pattern is functionally
identical with just "bash".
Approved by: portmgr (blanket) |
24 Sep 2021 21:34:20 6.6.0_6 |
Jason W. Bacon (jwb)  |
biology/emboss: Add "emboss" command in ${LOCALBASE}/bin
Standard emboss commands are installed under a special prefix because
of multiple conflicts. The emboss command turns the standard commands
into subcommands, so no special PATH is needed.
/usr/local/emboss/bin/needle [args]
can be run as
emboss needle [args] |
06 Sep 2021 15:13:03 6.6.0_5 |
Jason W. Bacon (jwb)  |
biology/emboss: Put emboss-shell in default PATH
PREFIX is overridden by default in the port Makefile, so PREFIX/bin
is not normally in PATH. The purpose of emboss-shell is to prepend
PREFIX/bin to PATH to give access to emboss tools.
Also fix tcsh detection.
PR: 258316 |
06 Sep 2021 14:21:44 6.6.0_5 |
Jason W. Bacon (jwb)  |
biology/emboss: Add emboss-shell: Run subshell with proper PATH
Also silence portlint and stage-qa warnings
PR: 258316
Approved by: wen |
06 Apr 2021 14:31:07 6.6.0_4 |
Mathieu Arnold (mat)  |
Remove # $FreeBSD$ from Makefiles. |
04 May 2020 21:31:39
6.6.0_4 |
dinoex  |
- update libgd to 2.3.0
- new option RAQM
- resurrect deprecated gdlib-config
- bump dependend ports |
07 Nov 2019 20:20:00
6.6.0_3  |
zeising  |
Sprinkle more USES=xorg |
13 Aug 2019 16:00:39
6.6.0_3 |
mat  |
Convert to UCL & cleanup pkg-message (categories a-c) |
20 Jul 2016 09:33:32
6.6.0_3 |
dinoex  |
- update libgd to 2.2.2
- new MASTER_SITES
- add security patch
PR: 210913
Submitted by: Piotr Kubaj
MFH: 2016Q3
Security: CVE-2015-8874
Security: CVE-2016-3074
Security: http://www.openwall.com/lists/oss-security/2016/07/12/4 |
19 May 2016 11:09:14
6.6.0_2 |
amdmi3  |
- Fix trailing whitespace in pkg-messages
Approved by: portmgr blanket |
19 May 2016 10:21:25
6.6.0_2 |
amdmi3  |
- Fix trailing whitespace in pkg-descrs, categories [a-f]*
Approved by: portmgr blanket |
01 Apr 2016 13:29:17
6.6.0_2 |
mat  |
Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.
With hat: portmgr
Sponsored by: Absolight |
18 Mar 2015 21:52:20
6.6.0_2 |
bapt  |
Fix packaging as a user (pkg already takes care of credentials)
Strip binaries |
25 Dec 2014 20:54:43
6.6.0_1 |
bapt  |
Bump portrevision after png update |
25 Dec 2014 19:04:27
6.6.0 |
antoine  |
Change libpng15.so to libpng.so in LIB_DEPENDS to prepare the upgrade |
20 Oct 2014 07:10:48
6.6.0 |
bapt  |
Cleanup plist |
09 Jun 2014 11:21:53
6.6.0 |
olgeni  |
Remove indefinite articles and trailing periods from COMMENT, plus
minor COMMENT typos and surrounding whitespace fixes. Categories A-C.
CR: D196
Approved by: portmgr (bapt) |
05 Jun 2014 03:28:07
6.6.0 |
miwi  |
- Update to 6.6.0
- Stage support
PR: 190508
Submitted by: Muhammad Moinur Rahman |
05 May 2014 09:45:37
6.2.0_3 |
bapt  |
Convert all :U to :tu and :L to :tl
Since FreeBSD 8.4 and FreeBSD 9.1 make(1) do support :tu and :tl as a
replacement for :U and :L (which has been marked as deprecated)
bmake which is the default on FreeBSD 10+ only support by default
:tu/:tl a hack has been added at the time to support :U and :L to ease
migration. This hack is now not necessary anymore
Note that this makes the ports tree incompatible with make(1) from
FreeBSD 8.3 or earlier
With hat: portmgr |
11 Dec 2013 14:43:51
6.2.0_3 |
bapt  |
In preparation for making libtool generate libraries with a sane name, fix all
LIB_DEPENDS in biology |
20 Sep 2013 15:55:44
6.2.0_3 |
bapt  |
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology) |
09 Aug 2013 14:05:53
6.2.0_3  |
dinoex  |
- update libdg to 2.1.0 |
09 Jul 2013 21:49:36
6.2.0_2 |
bapt  |
Convert from USE_MOTIF to USES=motif
While here:
- trim headers
- Remove indefinite article from comment
- convert USE_GMAKE to USES=gmake |
01 Oct 2012 14:55:55
6.2.0_2 |
wen  |
- Take maintainership |
01 Oct 2012 14:45:17
6.2.0_2 |
tabthorpe  |
- Reassign to the heap at maintainer's request |
01 Jun 2012 05:26:28
6.2.0_2 |
dinoex  |
- update png to 1.5.10 |
22 Oct 2011 23:50:23
6.2.0_1 |
eadler  |
- remove maintainer tags from pkg-descr
Approved by: portmgr
Approved by: bapt (mentor) |
02 Jul 2011 11:33:17
6.2.0_1 |
miwi  |
- kick MD5 |
02 May 2011 12:44:53
6.2.0_1 |
makc  |
Bump PORTREVISION after open-mofit update |
04 Dec 2010 07:34:27
6.2.0 |
ade  |
Sync to new bsd.autotools.mk |
07 Apr 2010 01:16:50
6.2.0 |
wen  |
- Update to 6.2.0
Submitted by: Wen Heping(myself)
Approved by: maintainer(via Email) |
28 Mar 2010 06:47:48
6.0.1_3 |
dinoex  |
- update to 1.4.1
Reviewed by: exp8 run on pointyhat
Supported by: miwi |
05 Feb 2010 11:46:55
6.0.1_2 |
dinoex  |
- update to jpeg-8 |
14 Aug 2009 08:33:22
6.0.1_1 |
miwi  |
- Update MASTER_SITES
PR: 137750
Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) |
02 Aug 2009 19:36:34
6.0.1_1 |
mezz  |
-Repocopy devel/libtool15 -> libtool22 and libltdl15 -> libltdl22.
-Update libtool and libltdl to 2.2.6a.
-Remove devel/libtool15 and devel/libltdl15.
-Fix ports build with libtool22/libltdl22.
-Bump ports that depend on libltdl22 due to shared library version change.
-Explain what to do update in the UPDATING.
It has been tested with GNOME2, XFCE4, KDE3, KDE4 and other many wm/desktop
and applications in the runtime.
With help: marcus and kwm
Pointyhat-exp: a few times by pav
Tested by: pgollucci, "Romain Tartière" <romain@blogreen.org>, and
a few MarcusCom CVS users. Also, I might have missed a few.
Repocopy by: marcus
Approved by: portmgr |
31 Jul 2009 13:57:52
6.0.1_1 |
dinoex  |
- bump all port that indirectly depends on libjpeg and have not yet been bumped
or updated
Requested by: edwin |
14 Mar 2009 15:16:07
6.0.1 |
miwi  |
- Force commit to correct the entry
- Update to 6.0.1
PR: 132504
Submitted by: Wen Heping <wenheping@gmail.com>
Approved by: maintainer |
14 Mar 2009 15:14:45
6.0.1 |
miwi  |
- Update to 0.1.24
PR: 132527
Submitted by: Wen Heping <wenheping@gmail.com>
Approved by: maintainer |
17 Apr 2008 17:06:49
5.0.0 |
pav  |
- Replace SF with second working master site
Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) |
17 Apr 2008 01:31:23
5.0.0 |
rafan  |
- It seems that upstream removes their distfiles from sourceforge, so add
the download site pointed by their webpage as first choice.
Noticed by: pointyhat via pav |
13 Apr 2008 07:22:21
5.0.0 |
rafan  |
- Update to 5.0.0
PR: ports/122437
Submitted by: Fernan Aguero <fernan at iib.unsam.edu.ar> (maintainer) |
13 Apr 2008 07:21:16
3.0.0_2 |
rafan  |
- Sort pkg-plist before updating to 5.0.0
PR: ports/122437
Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) |
23 Mar 2008 16:44:09
3.0.0_2 |
miwi  |
- Remove USE_XLIB/USE_X_PREFIX/USE_XPM in favor of USE_XORG
- Bump PORTREVISION
Approved by: portmgr (xorg cleanup) |
19 May 2007 20:32:57
3.0.0_1 |
flz  |
- Welcome X.org 7.2 \o/.
- Set X11BASE to ${LOCALBASE} for recent ${OSVERSION}.
- Bump PORTREVISION for ports intalling files in ${X11BASE}. |
31 Mar 2006 09:43:22
3.0.0 |
thierry  |
For EMBOSS:
This patch brings EMBOSS up to date with the current version.
i. The patches included in files/ are bugfixes for files in
EMBOSS-3.0.0 that appeared after the release. They are
documented in ftp://emboss.open-bio.org/pub/EMBOSS/fixes/README
This is just 'for the record' so that we remember to remove these
patches in the next update.
ii. EMBOSS is now installed by default in LOCALBASE/emboss
This is to avoid CONFLICTS with other ports that install files
with the same names. Installing EMBOSS to another PREFIX is also
possible. (Only the first 15 lines of the commit message are shown above ) |
23 Feb 2006 10:40:45
2.10.0_1 |
ade  |
Conversion to a single libtool environment.
Approved by: portmgr (kris) |
02 Feb 2006 23:12:05
2.10.0 |
marcus  |
Remove CONFLICTS with nss. |
22 Jan 2006 08:20:34
2.10.0 |
edwin  |
SHA256ify
Approved by: krion@ |
15 Nov 2005 06:52:12
2.10.0 |
ade  |
Mass-conversion to the USE_AUTOTOOLS New World Order. The code present
in bsd.autotools.mk essentially makes this a no-op given that all the
old variables set a USE_AUTOTOOLS_COMPAT variable, which is parsed in
exactly the same way as USE_AUTOTOOLS itself.
Moreover, USE_AUTOTOOLS has already been extensively tested by the GNOME
team -- all GNOME 2.12.x ports use it.
Preliminary documentation can be found at:
http://people.FreeBSD.org/~ade/autotools.txt
which is in the process of being SGMLized before introduction into the
Porters Handbook.
Light blue touch-paper. Run. |
29 May 2005 18:26:05
2.10.0 |
pav  |
- Update to 2.10.0
PR: ports/81579
Submitted by: "Choe, Cheng-Dae" <whitekid@gmail.com>
Approved by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) |
11 Feb 2005 21:11:51
2.9.0 |
sem  |
- Add (or fix) CONFLICTS line. The ports install bin/digest.
Approved by: portmgr (krion) |
26 Nov 2004 01:11:43
2.9.0 |
sem  |
- Update to 2.9.0
- Pass maintainership to submitter
PR: ports/74333
Submitted by: Fernan Aguero <fernan(at)iib.unsam.edu.ar> |
26 Nov 2004 00:25:38
2.4.1_3 |
kris  |
Add missing files |
20 Nov 2004 07:40:43
2.4.1_3 |
linimon  |
With portmgr hat on, reset inactive maintainer. |
23 Jun 2004 08:20:21
2.4.1_3 |
vs  |
Fix MASTER_SITES:
- add trailing slash
- ftp.ebi.ac.uk only has 2.8.0
PR: ports/67427
Submitted by: Roman Neuhauser
Approved by: maintainer timeout |
04 Feb 2004 05:21:48
2.4.1_3 |
marcus  |
Bump PORTREVISION on all ports that depend on gettext to aid with upgrading.
(Part 2) |
20 Nov 2003 15:06:15
2.4.1_2 |
trevor  |
Define USE_PERL5_BUILD, not erroneous USE_PERL.
Submitted by: Oliver Eikemeier |
20 Nov 2003 13:51:47
2.4.1_2 |
trevor  |
Define USE_PERL to make Perl available for (mostly deprecated)
"perl -pi -e" construction. |
18 Aug 2003 16:15:11
2.4.1_2 |
nork  |
o Main modification
graphics/gd(based on 1.8.4) -> graphics/gd1
graphics/gd2(based on 2.0.15) -> graphics/gd
graphics/p5-GD(based on 1.41) -> graphics/p5-GD1
graphics/p5-GD2(based on 2.07) -> graphics/p5-GD
japanese/gd -> japanese/gd1
japanese/gd2 -> japanese/gd
o Include some feature
WITH_XPM(w/, w/o WITHOUT_X11)
o Chase this modification
o Fix build error [1]
PR: ports/54540
Submitted by: Ports Fury
Approved by: maintainer (blanket)
Reported by: bento via kris [1] |
08 Aug 2003 04:40:47
2.4.1_1 |
kris  |
This port is scheduled for removal on Nov 7 2003 if it is still broken at
that time and no PRs have been submitted to fix it. If you are interested
in saving this port, please send your patches to the maintainer. If the
maintainer is unresponsive or the port has no maintainer, then please
submit them via send-pr. |
07 Aug 2003 09:29:17
2.4.1_1 |
kris  |
BROKEN: Checksum mismatch |
11 Jul 2003 18:16:14
2.4.1_1 |
nork  |
o Change library name from libgd to libgd1.
o Do not install everything except headers and libraries
(to avoid conflicting with graphics/gd2)
o Fix dependency on new libgd1(for many ports).
PR: ports/54100
Submitted by: Ports Fury |
07 Mar 2003 05:56:43
2.4.1 |
ade  |
Clear moonlight beckons.
Requiem mors pacem pkg-comment,
And be calm ports tree.
E Nomini Patri, E Fili, E Spiritu Sancti. |
27 Sep 2002 08:58:19
2.4.1 |
wjv  |
- Unbreak fetching of distfiles. (Needs update as soon as freeze is over.)
Submitted by: kris, bento
Approved by: Implicitly by first rule of ports freeze, I hope! |
20 Sep 2002 20:45:20
2.4.1 |
kris  |
BROKEN: Does not fetch |
05 Jul 2002 10:09:32
2.4.1 |
wjv  |
- Update to version 2.4.1
- Unmark BROKEN
- Start adding support for Jemboss Java-based GUI (not active yet)
PR: 40198 ; many private requests
Submitted by: Tilman Linneweh <tilman@arved.de> (2.4.1 update) |
17 May 2002 09:24:32
2.2.0 |
kris  |
BROKEN: incorrect checksums |
25 Mar 2002 09:19:21
2.2.0 |
sobomax  |
Add USE_SUBMAKE, where it might be necessary. |
18 Jan 2002 14:04:04  |
wjv  |
- Update to version 2.2.0 - Update included EMBASSY package EMNU - Fix a
long-standing bug in Makefile that would preclude PKGMESSAGE from being
generated properly - Consider this an interim update merely to track the
latest version - more work is required to activate the newly included
"Jemboss" Java GUI interface |
03 Aug 2001 12:32:42  |
wjv  |
- Update port to version 2.0.1 - Add two new EMBASSY applications, MEME and
HMMER. |
11 Jul 2001 14:58:12  |
wjv  |
Remove obsolete pointer to online documentation. |
11 Jul 2001 14:33:34  |
wjv  |
Update package's URL; my email address. |
27 Jun 2001 11:15:02  |
wjv  |
Updating my email address in my remaining ports. |
15 Jun 2001 13:11:33  |
wjv  |
Update to 1.13.3; remove bogus file. |
30 May 2001 15:34:57  |
kevlo  |
Update to version 1.13.1 |
07 May 2001 13:18:58  |
jeh  |
Update the EMBOSS suite (biology/emboss) to version 1.12.0 |
12 Mar 2001 10:33:50  |
nbm  |
Update the EMBOSS suite to v1.11.0 |
28 Feb 2001 15:58:11  |
kevlo  |
Update to version 1.10.1 |
20 Feb 2001 15:51:34  |
kevlo  |
Update to version 1.10.0 |
12 Feb 2001 10:01:08  |
knu  |
Chase graphics/gd's shlib version bump. |
29 Jan 2001 15:48:01  |
kevlo  |
- Update EMBOSS (biology/emboss) from 1.9.0 to 1.9.1 - Update the EMBASSY
package EMNU from 1.0.2 to 1.0.3 - Merged the four pkg-plist* files into one
|
24 Jan 2001 11:36:38  |
kevlo  |
Upgrade to version 1.9.0 |
04 Dec 2000 13:00:08  |
roam  |
Update distfiles' checksums after the distfiles have been rerolled yet again
without changing names or versions. Also add a new MASTER_SITE. |
30 Nov 2000 20:13:30  |
roam  |
Distfile tarballs were rerolled without notice due to a minor bug. |
28 Nov 2000 01:43:40  |
jeh  |
- Update port biology/emboss from 1.7.0 to 1.8.0 |
19 Nov 2000 03:06:48  |
jeh  |
Make nolonger support :U. Fix to compensate for that. |
13 Nov 2000 13:49:46  |
jeh  |
- This is a fairly extensive rework of this port. - "EMBASSY" applications are
third party tools which have been adapted to function as part of EMBOSS, but
which are not included with the base EMBOSS distribution for licensing or
other reasons. This new version of the EMBOSS port now contains the three
current EMBASSY applications as well, and during installation the user is
presented with a dialog(1) menu to |
13 Nov 2000 13:48:50  |
jeh  |
- This is a fairly extensive rework of this port. - "EMBASSY" applications are
third party tools which have been adapted to function as part of EMBOSS, but
which are not included with the base EMBOSS distribution for licensing or
other reasons. This new version of the EMBOSS port now contains the three
current EMBASSY applications as well, and during installation the user is
presented with a dialog(1) menu to choose which of these should be
isntalled. |
01 Nov 2000 11:54:56  |
jeh  |
Make portlint happy, remove a space |
01 Nov 2000 11:49:08  |
jeh  |
Update to version 1.7.0 |
10 Oct 2000 05:54:36  |
kevlo  |
- Update to 1.6.0 - Reorder packing list |
08 Oct 2000 00:23:30  |
asami  |
Convert category biology to new layout. |
22 Sep 2000 11:24:52  |
kris  |
Add USE_XLIB |
08 Sep 2000 11:07:13  |
nbm  |
Upgrade to 1.5.0 |
07 Sep 2000 15:02:53  |
nbm  |
Update to emboss 1.4.0. |
21 Aug 2000 11:07:37  |
sobomax  |
USE_LIBTOOL implies GNU_CONFIGURE, so remove redundant GNU_CONFIGURE lines. |
12 Aug 2000 17:15:48  |
nbm  |
Update to emboss 1.1.0, fixing some style bugs too. |
31 Jul 2000 20:13:54  |
nbm  |
Add emboss, the European Molecular Biology Open Software Suite |