variety of web pages (e.g. the EBI Clustalw server and the Pfam protein domain
database) and is also available as a general purpose alignment editor.
WWW: http://www.jalview.org
PR: 93054
Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar>
PR.
Thanks for contributing.
Since the acroread7 port is a somewhat important port for our users, I
will hand it over to emulation@ if no _active_ *committer* takes it
before the ports freeze.
While I'm here:
- fix a little nit in the csound port (I think the intention was to
create no backup file instead of creating one with a "-e" extension)
- set ARCH to i386 in the amd64 case for the acroread7 port. This
is a work-around to be able to install everything when a dependency
is not already installed (ARCH is read-only in sub-makes, so the
dependencies can't change it). This should be removed when the
dependencies are fixed or converted to use bsd.linux-rpm.mk. [1]
Not objected to by: portmgr (explicit: krion; silence: rest)
Maintainer timeout: ~4 months
Submitted by: Sangwoo Shim <sangwoos@gmail.com> [1]
PR: 87985 [1]
unnecessary PORTEPOCH bump)
- Update MASTER_SITES and WWW line, provide backup download site
- Come up with better port description
- Reset maintainer to ports@
- Uphold CXX and CXXFLAGS
- Clean up Makefile slightly
- Don't install yet another copy of GPL and texts in French
- Add SHA256 hash to distinfo
- Shared lib version and PORTREVISION bumb for all affected ports.
While I'm here:
- Remove USE_MESA knob where it was (35 ports).
It marked as depricated for 2 years.
PR: ports/90247
Submitted by: Ermal Lu?i <eri--@albabsd.org>
From: Tony Maher <anthony.maher@uts.edu.au>
To: Edwin Groothuis <edwin@FreeBSD.org>
Subject: Re: ports/91537: maths/xgobi - download site moved/maintainer addressupdate
Actually I need modify all my ports to use OptusNet rather than
Biolateral. Is there an easy way to do this or should I submit a
separate 1-line patch and PR for each port?
biology/crimap
biology/dna-qc
biology/flip
biology/primer3
biology/seqio
biology/wise
math/xgobi
net/generic-nqs
Submitted by: Tony Maher <anthony.maher@uts.edu.au>
L-Breeder is currently marked unfetchable:
http://people.freebsd.org/~fenner/portsurvey/biology.html#L-Breeder
So I tried to investigate the problem and I'm now submitting
my homework so it doesn't get lost.
This is what I noticed:
i) L-Breeder upstream sources have "stagnated for some time,
but now a new simplified version is available" (sic, from
the web site)
So, the fetch issue is resolved. And the pkg-descr is also
updated to reflect the new home page. However:
ii) L-Breeder is now called LBreeder. I have changed PORTNAME
to reflect this, although I don't know if this is the right
thing to do. Should the port be moved to biology/LBreeder?
Or perhaps just leaving PORTNAME pointing to the old name
and then work inside the Makefile to point the build/install
to the correct name?
iii) the sources have been reorganized so I have to update
the port's Makefile to reflect this. The attached patch
works for me under FreeBSD-4.11 (although it's possible
that I may have missed a dependency if I already have a
required library installed in my box. Sorry, I don't have
a tinderbox-like setup to test builds)
iv) the program does not have a version number, nor did I
find one by looking inside the sources. To avoid changing
too much the port I just left PORTVERSION at 1.0 and bumped
PORTREVISION to 6
Finally, do note that I am not a user of LBreeder, so I
cannot test the program myself. I just noticed that by
calling the executable I get a black X screen, that I can
quit by pressing 'q' as documented in Readme.txt, but I
can't tell myself if this is the expected behaviour. Nor
do I know how to use the example files. Caveat emptor.
PR: ports/90073
Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar>
Approved by: maintainer timeout
This patch adds a LATEST_LINK line in the Makefile to avoid
duplication with the 'p5-bioperl' port in the packages/Latest
directory.
PR: ports/89916
Submitted by: Mauricio Herrera Cuadra <mauricio@arareko.net>
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.
