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non port: biology/fasttree/Makefile

Number of commits found: 18

Wednesday, 7 Sep 2022
21:10 Stefan E├čer (se) search for other commits by this committer
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)
commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52 commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52 commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52 commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52 b7f0544
Wednesday, 27 Apr 2022
13:22 Piotr Kubaj (pkubaj) search for other commits by this committer
biology/fasttree: check for omp.h on all architectures
commit hash: cf150ef9e2f6547b609c43a05365b66d8f5f5104 commit hash: cf150ef9e2f6547b609c43a05365b66d8f5f5104 commit hash: cf150ef9e2f6547b609c43a05365b66d8f5f5104 commit hash: cf150ef9e2f6547b609c43a05365b66d8f5f5104 cf150ef
Tuesday, 15 Jun 2021
08:41 Piotr Kubaj (pkubaj) search for other commits by this committer
biology/fasttree: fix build on armv7

Same issue as with powerpc.
commit hash: 5240cba2437ed1f3f59eab2052420b13a448b621 commit hash: 5240cba2437ed1f3f59eab2052420b13a448b621 commit hash: 5240cba2437ed1f3f59eab2052420b13a448b621 commit hash: 5240cba2437ed1f3f59eab2052420b13a448b621 5240cba
Thursday, 10 Jun 2021
12:25 Piotr Kubaj (pkubaj) search for other commits by this committer
biology/fasttree: fix build on powerpc

LLVM on powerpc doesn't have libomp.
Same issue happens on armv6 and armv7 but someone has to test whether doing the
same for those architectures is enough.
commit hash: 0a618235c76d379d40ae3087e19a8de0068c2221 commit hash: 0a618235c76d379d40ae3087e19a8de0068c2221 commit hash: 0a618235c76d379d40ae3087e19a8de0068c2221 commit hash: 0a618235c76d379d40ae3087e19a8de0068c2221 0a61823
Wednesday, 7 Apr 2021
08:09 Mathieu Arnold (mat) search for other commits by this committer
One more small cleanup, forgotten yesterday.
Reported by:	lwhsu
commit hash: cf118ccf875508b9a1c570044c93cfcc82bd455c commit hash: cf118ccf875508b9a1c570044c93cfcc82bd455c commit hash: cf118ccf875508b9a1c570044c93cfcc82bd455c commit hash: cf118ccf875508b9a1c570044c93cfcc82bd455c cf118cc
Tuesday, 6 Apr 2021
14:31 Mathieu Arnold (mat) search for other commits by this committer
Remove # $FreeBSD$ from Makefiles.
commit hash: 305f148f482daf30dcf728039d03d019f88344eb commit hash: 305f148f482daf30dcf728039d03d019f88344eb commit hash: 305f148f482daf30dcf728039d03d019f88344eb commit hash: 305f148f482daf30dcf728039d03d019f88344eb 305f148
Monday, 11 Jan 2021
16:58 jwb search for other commits by this committer
biology/fasttree: Drop dependency on gcc

Simply remove compiler:openmp
Builds with base compiler on amd64, i386, and powerpc64 12.x-RELEASE

PR:             port/247753, ports/252379
Original commitRevision:561229 
Friday, 26 Jul 2019
20:46 gerald search for other commits by this committer
Bump PORTREVISION for ports depending on the canonical version of GCC
as defined in Mk/bsd.default-versions.mk which has moved from GCC 8.3
to GCC 9.1 under most circumstances now after revision 507371.

This includes ports
 - with USE_GCC=yes or USE_GCC=any,
 - with USES=fortran,
 - using Mk/bsd.octave.mk which in turn features USES=fortran, and
 - with USES=compiler specifying openmp, nestedfct, c11, c++0x, c++11-lang,
   c++11-lib, c++14-lang, c++17-lang, or gcc-c++11-lib
plus, everything INDEX-11 shows with a dependency on lang/gcc9 now.

PR:		238330
Original commitRevision:507372 
Wednesday, 12 Dec 2018
01:35 gerald search for other commits by this committer
Bump PORTREVISION for ports depending on the canonical version of GCC
defined via Mk/bsd.default-versions.mk which has moved from GCC 7.4 t
GCC 8.2 under most circumstances.

This includes ports
 - with USE_GCC=yes or USE_GCC=any,
 - with USES=fortran,
 - using Mk/bsd.octave.mk which in turn features USES=fortran, and
 - with USES=compiler specifying openmp, nestedfct, c11, c++0x, c++11-lang,
   c++11-lib, c++14-lang, c++17-lang, or gcc-c++11-lib
plus, as a double check, everything INDEX-11 showed depending on lang/gcc7.

PR:		231590
Original commitRevision:487272 
Sunday, 29 Jul 2018
22:18 gerald search for other commits by this committer
Bump PORTREVISION for ports depending on the canonical version of GCC
in the ports tree (via Mk/bsd.default-versions.mk and lang/gcc) which
has now moved from GCC 6 to GCC 7 by default.

This includes ports
 - featuring USE_GCC=yes or USE_GCC=any,
 - featuring USES=fortran,
 - using Mk/bsd.octave.mk which in turn features USES=fortran, and those
 - with USES=compiler specifying one of openmp, nestedfct, c11, c++0x,
   c++11-lib, c++11-lang, c++14-lang, c++17-lang, or gcc-c++11-lib.

PR:		222542
Original commitRevision:475857 
Sunday, 18 Mar 2018
13:38 linimon search for other commits by this committer
Mark the latest version broken on armvX.  Note: 2.1.8.3 built ok.

Approved by:	portmgr (tier-2 blanket)
Original commitRevision:464907 
Saturday, 10 Mar 2018
17:46 gerald search for other commits by this committer
Bump PORTREVISIONs of all users of math/mpc that we just updated to
version 1.1.0 (via revision 464079).
Original commitRevision:464084 
Tuesday, 5 Dec 2017
03:03 jwb search for other commits by this committer
biology/fasttree: update to version 2.1.10

Approved by:	jrm
Differential Revision:	https://reviews.freebsd.org/D8187
Original commitRevision:455562 
Sunday, 10 Sep 2017
20:55 gerald search for other commits by this committer
Bump PORTREVISION for ports depending on the canonical version of GCC
(via Mk/bsd.default-versions.mk and lang/gcc) which has moved from
GCC 5.4 to GCC 6.4 under most circumstances.

This includes ports
 - with USE_GCC=yes or USE_GCC=any,
 - with USES=fortran,
 - using Mk/bsd.octave.mk which in turn features USES=fortran, and
 - with USES=compiler specifying openmp, nestedfct, c++11-lib, c++11-lang,
   c++14-lang, c++0x, c11, or gcc-c++11-lib.

PR:		219275
Original commitRevision:449591 
Saturday, 1 Apr 2017
15:23 gerald search for other commits by this committer
Bump PORTREVISIONs for ports depending on the canonical version of GCC and
lang/gcc which have moved from GCC 4.9.4 to GCC 5.4 (at least under some
circumstances such as versions of FreeBSD or platforms).

This includes ports
 - with USE_GCC=yes or USE_GCC=any,
 - with USES=fortran,
 - using using Mk/bsd.octave.mk which in turn has USES=fortran, and
 - with USES=compiler specifying openmp, nestedfct, c++11-lib, c++14-lang,
   c++11-lang, c++0x, c11, or gcc-c++11-lib.

PR:		216707
Original commitRevision:437439 
Sunday, 20 Nov 2016
09:38 gerald search for other commits by this committer
Bump PORTREVISIONS for ports depending on the canonical version of GCC and
lang/gcc which have moved from GCC 4.8.5 to GCC 4.9.4 (at least under some
circumstances such as versions of FreeBSD or platforms).

In particular that is ports with USE_GCC=yes, USE_GCC=any, or one of
gcc-c++11-lib, openmp, nestedfct, c++11-lib as well as c++14-lang,
c++11-lang, c++0x, c11 requested via USES=compiler.
Original commitRevision:426566 
Friday, 11 Dec 2015
08:48 miwi search for other commits by this committer
- Update maintainer mail address
- Update/Remove MASTER_SITE

PR:		204755
Submitted by:	 jwbacon@tds.net (maintainer)
Approved by:	mat (mentor)
Differential Revision:	D4493
Original commitRevision:403506 
Friday, 25 Sep 2015
18:34 rm search for other commits by this committer
FastTree infers approximately-maximum-likelihood phylogenetic trees from
alignments of nucleotide or protein sequences. FastTree can handle alignments
with up to a million of sequences in a reasonable amount of time and memory.

WWW: http://www.microbesonline.org/fasttree/

PR:		203295
Submitted by:	Jason Bacon <jwbacon@tds.net>
Original commitRevision:397848 

Number of commits found: 18