non port: biology/iqtree/Makefile |
Number of commits found: 39 |
Tuesday, 5 Sep 2023
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02:45 Joseph Mingrone (jrm)
biology/iqtree: Update to 2.2.2.7
Changes: https://github.com/iqtree/iqtree2/releases/tag/v2.2.2.7
Sponsored by: The FreeBSD Foundation
8a1ec0d |
Sunday, 23 Apr 2023
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09:09 Gerald Pfeifer (gerald)
*: Bump PORTREVISIONs for math/mpc update to 1.3.1
8d3e020 |
Wednesday, 7 Sep 2022
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21:10 Stefan Eßer (se)
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)
b7f0544 |
Friday, 12 Aug 2022
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14:46 Dima Panov (fluffy)
*/*: bump all consumers after recent boost upgrade
4cf39de |
Sunday, 22 May 2022
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20:17 Dima Panov (fluffy)
devel/boost-all: bump all library consumers after boost upgrade
PR: 246106
b082b3d |
Wednesday, 7 Apr 2021
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08:09 Mathieu Arnold (mat)
One more small cleanup, forgotten yesterday.
Reported by: lwhsu
cf118cc |
Tuesday, 6 Apr 2021
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14:31 Mathieu Arnold (mat)
Remove # $FreeBSD$ from Makefiles.
305f148 |
Tuesday, 12 Jan 2021
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18:12 jrm
biology/iqtree: Remove USES=compiler:openmp, fix amd64 clang++ build
- USES=compiler:openmp still forces building with GCC. This is no longer
necessary on tier 1 platforms, which have openmp in base.
- Mark broken on i386, because base clang doesn't have 64 bit atomic
functions for i386 (see bug 230888).
PR: 247753, 252379
Submitted by: cmt (based on)
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Saturday, 12 Dec 2020
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17:04 thierry
- Upgrade math/eigen3 to 3.3.8;
- Add some dependencies which might be detected by Find_Package but not
registered;
- Bump PORTREVISION of consumers.
PR: 250833
Submitted by: /me
Approved by: tcberner@ (KDE / maintainer) + exp-run
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Saturday, 30 May 2020
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18:43 jrm
biology/iqtree: Update to version 2.0.6
Upstream changes: https://github.com/Cibiv/IQ-TREE/releases/tag/v2.0.6
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Thursday, 28 May 2020
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00:27 jrm
biology/iqtree: Update to version 2.0.5
Upstream changes: https://github.com/Cibiv/IQ-TREE/releases/tag/v2.0.5
While here, incorporate portfmt suggestions.
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Saturday, 2 May 2020
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20:32 jrm
biology/iqtree: Update to version 2.0.4
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Tuesday, 27 Aug 2019
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01:19 jrm
biology/iqtree: Update to version 1.6.12
Upstream changes: https://github.com/Cibiv/IQ-TREE/releases/tag/v1.6.12
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Friday, 26 Jul 2019
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20:46 gerald
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
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Monday, 24 Jun 2019
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21:47 jrm
biology/iqtree: Update to version 1.6.11
Upstream changes: https://github.com/Cibiv/IQ-TREE/releases/tag/v1.6.11
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Thursday, 21 Feb 2019
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14:33 jrm
biology/iqtree: Update to version 1.6.10
Upstream changes: https://github.com/Cibiv/IQ-TREE/releases/tag/v1.6.10
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Thursday, 27 Dec 2018
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18:34 jrm
biology/iqtree: switch to outsource cmake build
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Wednesday, 26 Dec 2018
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09:06 tcberner
Update math/eigen3 to 3.3.7
- http://eigen.tuxfamily.org/index.php?title=ChangeLog#Eigen_3.3.6
- http://eigen.tuxfamily.org/index.php?title=ChangeLog#Eigen_3.3.7
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Tuesday, 25 Dec 2018
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20:25 tcberner
Change cmake default behaviour to outsource.
Ports that build out of source now simply can use "USES=cmake"
instead of "USES=cmake:outsource". Ports that fail to build
out of source now need to specify "USES=cmake:insource".
I tried to only set insource where explictely needed.
PR: 232038
Exp-run by: antoine
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Sunday, 23 Dec 2018
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13:21 jrm
biology/iqtree: Update to version 1.6.9
Upstream changes: https://github.com/Cibiv/IQ-TREE/releases/tag/v1.6.9
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Wednesday, 12 Dec 2018
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01:35 gerald
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
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Sunday, 28 Oct 2018
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22:00 jrm
biology/iqtree: Update to version 1.6.8
Upstream release notes:
https://github.com/Cibiv/IQ-TREE/releases/tag/v1.6.8
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Tuesday, 16 Oct 2018
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13:49 jrm
biology/iqtree: Update to version 1.6.7.1
Upstream changes: https://github.com/Cibiv/IQ-TREE/releases/tag/v1.6.7.1
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Monday, 27 Aug 2018
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01:20 jrm
biology/iqtree: Update to version 1.6.7
Upstream changes: https://github.com/Cibiv/IQ-TREE/releases/tag/v1.6.7
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Sunday, 29 Jul 2018
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22:18 gerald
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
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Sunday, 8 Jul 2018
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21:15 jrm
biology/iqtree: Update to version 1.6.6
Upstream changes: https://github.com/Cibiv/IQ-TREE/releases/tag/v1.6.6
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Monday, 18 Jun 2018
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01:48 linimon
Mark ports broken on powerpc64, categories a-c.
While here, pet portlint and do some other cleanup.
Approved by: portmgr (tier-2 blanket)
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Friday, 11 May 2018
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16:57 jrm
biology/iqtree: Update to version 1.6.5
Upstream changes: https://github.com/Cibiv/IQ-TREE/releases/tag/v1.6.5
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Monday, 30 Apr 2018
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16:37 jrm
biology/iqtree: Update to version 1.6.4
Upstream changes: https://github.com/Cibiv/IQ-TREE/releases/tag/v1.6.4
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Friday, 23 Mar 2018
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01:22 jrm
biology/iqtree: Update to version 1.6.3
Upstream changes: https://github.com/Cibiv/IQ-TREE/releases/tag/v1.6.3
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Saturday, 10 Mar 2018
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17:46 gerald
Bump PORTREVISIONs of all users of math/mpc that we just updated to
version 1.1.0 (via revision 464079).
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Saturday, 3 Mar 2018
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03:15 jrm
biology/iqtree: Update to version 1.6.2
Upstream changes: http://www.iqtree.org/release/v1.6.2
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Tuesday, 2 Jan 2018
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16:49 tcberner
New USES=eigen
Usage:
USES=eigen:<version>[,<type>]
version: 2 or 3 (required)
type: build (default), run
For example:
USES=eigen:2,build,run
will add a BUILD- and RUN_DEPENDS on math/eigen2, and
USES=eigen:3
will add a BUILD_DEPENDS on math/eigen3.
* Convert the existing ports to use it
- biology/iqtree: remove run time dependency (seemed not to be needed)
- graphics/movit: remove run time dependency (seemed not to be needed)
- science/avogadro: add run time dependeny (installed cmake file requires it
to be present)
Reviewed by: rakuco, mat
Differential Revision: https://reviews.freebsd.org/D13702
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Friday, 29 Dec 2017
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17:14 jrm
biology/iqtree: Fix distinfo after upstream re-released v1.6.1
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Thursday, 28 Dec 2017
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18:37 jrm
biology/iqtree: Update to version 1.6.1
Upstream changes: https://github.com/Cibiv/IQ-TREE/releases
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Monday, 11 Dec 2017
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07:18 linimon
Mark several ports newly broken on arm.
While here, pet portlint.
Approved by: portmgr (tier-2 blanket)
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Monday, 6 Nov 2017
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14:24 mat
Fix USE_GITHUB usage.
Sponsored by: Absolight
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Saturday, 21 Oct 2017
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17:40 jrm
biology/iqtree: Add EXAMPLES option and fix mess with installation of
example files in first commit
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16:57 jrm
New port, biology/iqtree: Efficient phylogenomic software
WWW: http://www.iqtree.org/
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Number of commits found: 39 |