biology/gff2ps0.98l

biology/gff2ps: drop maintainership

Remove WWW entries moved into port Makefiles

Commit b7f05445c00f has added WWW entries to port Makefiles based on
WWW: lines in pkg-descr files.

This commit removes the WWW: lines of moved-over URLs from these
pkg-descr files.

Approved by:		portmgr (tcberner)

Add WWW entries to port Makefiles

It has been common practice to have one or more URLs at the end of the
ports' pkg-descr files, one per line and prefixed with "WWW:". These
URLs should point at a project website or other relevant resources.

Access to these URLs required processing of the pkg-descr files, and
they have often become stale over time. If more than one such URL was
present in a pkg-descr file, only the first one was tarnsfered into
the port INDEX, but for many ports only the last line did contain the
port specific URL to further information.

There have been several proposals to make a project URL available as
a macro in the ports' Makefiles, over time.

This commit implements such a proposal and moves one of the WWW: entries
of each pkg-descr file into the respective port's Makefile. A heuristic
attempts to identify the most relevant URL in case there is more than
one WWW: entry in some pkg-descr file. URLs that are not moved into the
Makefile are prefixed with "See also:" instead of "WWW:" in the pkg-descr
files in order to preserve them.

There are 1256 ports that had no WWW: entries in pkg-descr files. These
ports will not be touched in this commit.

The portlint port has been adjusted to expect a WWW entry in each port
Makefile, and to flag any remaining "WWW:" lines in pkg-descr files as
deprecated.

Approved by:		portmgr (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>
  *  Johann Visagie <johann@egenetics.com>
  *  Johann Visagie <wjv@FreeBSD.org>
  *  Mauricio Herrera Cuadra <mauricio@arareko.net>
  *  Motomichi Matsuzaki <mzaki@biol.s.u-tokyo.ac.jp>
  *  Motomichi Matsuzaki <mzaki@e-mail.ne.jp>
  *  Motomichi Matsuzaki <mzaki@m.u-tokyo.ac.jp>
  *  Motomichi Matsuzaki <mzaki@niid.go.jp>
  *  Po-Chuan Hsieh <sunpoet@FreeBSD.org>
  *  Razi Khaja <razi@genet.sickkids.on.ca>
  *  Reed A. Cartwright <cartwright@asu.edu>
  *  Ryo MIYAMOTO
  *  Ryo MIYAMOTO <rmiya@cc.hirosaki-u.ac.jp>
  *  Sangwoo Shim <sangwoos@gmail.com>
  *  Sunpoet Po-Chuan Hsieh <sunpoet@FreeBSD.org>
  *  Tassilo Philipp <tphilipp@potion-studios.com>
  *  Tony Maher
  *  Tony Maher <tonym@biolateral.com.au>
  *  Wen Heping <wen@FreeBSD.org>
  *  Wen Heping <wenheping@gmail.com>
  *  Yonatan <onatan@gmail.com>
  *  Yuri Victorovich <yuri@rawbw.com>
  *  ballen
  *  barnhart@genetics.wustl.edu
  *  camson@bilateral.com.au
  *  chuynh@biolateral.com.au
  *  dbader@eece.unm.edu
  *  frankch@waru.life.nthu.edu.tw
  *  h2
  *  lentferj
  *  maho@FreeBSD.org
  *  mzaki@biol.s.u-tokyo.ac.jp
  *  tonym
  *  wen@FreeBSD.org

With hat:	portmgr

Remove # $FreeBSD$ from Makefiles.

Fix spelling mistakes, typos, poor wording, hyphenation, jargonisms, contractions, "<portname> is ..." cases, missing Oxford commas, and other miscellaneous style bugs in the COMMENT line.

biology/gff2ps: update 0.98d to 0.98l

adopt port.

Approved by:	araujo (mentor)
Differential Revision:	https://reviews.freebsd.org/D18591

Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.

With hat:	portmgr
Sponsored by:	Absolight

Convert LICENSE= "GPLxx # or later" to "GPLxx+"

Approved by:	portmgr blanket

Fix ports that confused the meaning of WRKDIR and WRKSRC.

PR:		204056
Submitted by:	mat
Reviewed by:	bapt
Sponsored by:	Absolight
Differential Revision:	https://reviews.freebsd.org/D2735

Convert ports to use the options helpers in categories [abc]*, and minor fixes.

Sponsored by:	Absolight
Differential Revision:	https://reviews.freebsd.org/D3412?

Add staging support

Add NO_STAGE all over the place in preparation for the staging support (cat: biology)

. NOPORTDOCS -> PORT_OPTIONS:MDOCS; . trim Makefile headers.

- Update MASTER_SITES and WWW: line - Add LICENSE - Support PLIST_FILES

PR:		164985
Submitted by:	Ports Fury

- 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)

Reset chuynh@biolateral.com.au: address bounces.

Hat:		portmgr

. change dependencies: shells/bash2 -> shells/bash; . bump PORTREVISION (RUN_DEPENDS changes); . for converters/konwert:   - introduce PATCHLEVEL to be used instead of PORTREVISION at filenames;   - update to new PATCHLEVEL=11.

PR:		107000 [1], 107046 [2], 107106 [3], 107114 [4]
Submitted by:	bsam (me)
Approved by:	all maintainers timeout three and a half week:
		mij at bitchx.it             [1]
		j.koopmann at seceidos.de    [2]
		chuynh at biolateral.com.au  [3]
		alexs at snark.rinet.ru      [4]

- Update to 0.98d

PR:		ports/103408
Submitted by:	chinsan
Approved by:	maintainer (timeout)

Remove USE_REINPLACE from all categories starting with B

SHA256ify

Approved by:    krion@

[PATCH] biology/gff2ps distsite fix

couple distfiles with their respective urls to reduce time and traffic

PR:		ports/67430
Submitted by:	Roman Neuhauser <neuhauser@chello.cz>

SIZEify (maintainer timeout)

Cosmetic fix: use %%DOCSDIR%% macro. No functionally changes.

Submitted by:	Oleg Karachevtsev <ok@etrust.ru>
A part of PR:	57992

De-pkg-comment.

PERL -> REINPLACE Noticed on: bento

- Install documentation - Update WWW:

PR:		34889
Submitted by:	maintainer

Add gff2ps 0.97b, converts gff-formated genomic data-sets to PostScript.

PR:		32920
Submitted by:	Camson Huynh <chuynh@biolateral.com.au>