01:04 Yuri Victorovich (yuri) 

biology/py-scikit-bio: update 0.5.9 → 0.6.0

Reported by:	portscout

    74f10ca

07:02 Yuri Victorovich (yuri) 

biology/py-scikit-bio: Update 0.5.8 → 0.5.9

Reported by:	portscout

    0f9f8aa

19:34 Rene Ladan (rene) 

all: remove explicit versions in USES=python for "3.x+"

The logic in USES=python will automatically convert this to 3.8+ by
itself.

Adjust two ports that only had Python 3.7 mentioned but build fine
on Python 3.8 too.

finance/quickfix: mark BROKEN with PYTHON

libtool: compile:  c++ -DHAVE_CONFIG_H -I. -I../.. -I -I. -I.. -I../.. -I../C++
-DLIBICONV_PLUG -DPYTHON_MAJOR_VERSION=3 -Wno-unused-variable
-Wno-maybe-uninitialized -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong
-fno-strict-aliasing -DLIBICONV_PLUG -Wall -ansi
-Wno-unused-command-line-argument -Wpointer-arith -Wwrite-strings
-Wno-overloaded-virtual -Wno-deprecated-declarations -Wno-deprecated -std=c++0x
-MT _quickfix_la-QuickfixPython.lo -MD -MP -MF
.deps/_quickfix_la-QuickfixPython.Tpo -c QuickfixPython.cpp  -fPIC -DPIC -o
.libs/_quickfix_la-QuickfixPython.o
warning: unknown warning option '-Wno-maybe-uninitialized'; did you mean
'-Wno-uninitialized'? [-Wunknown-warning-option]
QuickfixPython.cpp:175:11: fatal error: 'Python.h' file not found
          ^~~~~~~~~~
1 warning and 1 error generated.

Reviewed by:	portmgr, vishwin, yuri
Differential Revision:	<https://reviews.freebsd.org/D40568>

    3d9a815

23:55 Po-Chuan Hsieh (sunpoet) 

www/py-cachecontrol: Fix port

- Use lowercase PORTNAME
- Fix WWW
- Fix LICENSE
- Fix FILECACHE and REDIS options: add missing RUN_DEPENDS
- Bump PORTREVISION for package change

PR:		266640
Approved by:	maintainer (timeout, 3+ months)

    315936a

09:09 Gerald Pfeifer (gerald) 

*: Bump PORTREVISIONs for math/mpc update to 1.3.1

    8d3e020

15:30 Yuri Victorovich (yuri) 

biology/py-scikit-bio: Update 0.5.7 → 0.5.8

Reported by:	portscout

    1797986

06:05 Yuri Victorovich (yuri) 

biology/py-scikit-bio: Update 0.5.7 → 0.5.7

Reported by:	portscout

    9f5d0a6

15:58 Dmitry Marakasov (amdmi3) 

*/*: rename CHEESESHOP to PYPI in MASTER_SITES

PR:			267994
Differential revision:	D37518
Approved by:		bapt

    77d6847

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

22:56 Yuri Victorovich (yuri) 

biology/py-scikit-bio: Broken on aarch64

Reported by:	fallout

    45c4e1c

17:11 Piotr Kubaj (pkubaj) 

biology/py-scikit-bio: drop unnecessary USE_GCC on powerpc64

    52e4676

12:09 Piotr Kubaj (pkubaj) 

biology/py-scikit-bio: build with clang on powerpc64le

    a3f5e20

19:09 Yuri Victorovich (yuri) 

biology/py-scikit-bio: Update 0.5.6 -> 0.5.7

Reported by:	portscout

    1aa4b19

18:36 Stefan Eßer (se) 

Update CONFLICTS definitions in categories a* to c*

Update the CONFLICTS definitions of ports in the following categories:

- accessibility
- archivers
- audio
- benchmarks
- biology
- cad
- chinese
- comms
- converters

An attempt has been made to use generic conflicts patterns that do not
have to be updated whenever a new version of a conflicting port is
added to the ports system.

There is a misunderstanding that the port being built/installed has to
be omitted from the conflicts pattern. This is not true - the port
being built is implicitly non-conflicting due to logic in bsd.port.mk.

Approved by:	portmgr (implicit)

    bdd2d4a

08:09 Mathieu Arnold (mat) 

One more small cleanup, forgotten yesterday.
Reported by:	lwhsu

    cf118cc

14:31 Mathieu Arnold (mat) 

Remove # $FreeBSD$ from Makefiles.

    305f148

10:38 pkubaj 

biology/py-scikit-bio: fix build on powerpc64

GCC is also necessary on powerpc64:
In file included from skbio/alignment/_ssw_wrapper.c:626:
In file included from skbio/alignment/_lib/ssw.h:17:
In file included from /usr/lib/clang/11.0.1/include/emmintrin.h:13:
In file included from /usr/lib/clang/11.0.1/include/xmmintrin.h:13:
/usr/lib/clang/11.0.1/include/mmintrin.h:50:12: error: invalid conversion
between vector type '__m64' (vector of 1 'long long' value) and integer type
'int' of different size
    return (__m64)__builtin_ia32_vec_init_v2si(__i, 0);

 

01:21 pkubaj 

biology/py-scikit-bio: fix build on powerpc64le

Use GCC:
In file included from skbio/alignment/_ssw_wrapper.c:626:
In file included from skbio/alignment/_lib/ssw.h:17:
In file included from /usr/lib/clang/11.0.1/include/emmintrin.h:13:
In file included from /usr/lib/clang/11.0.1/include/xmmintrin.h:13:
/usr/lib/clang/11.0.1/include/mmintrin.h:50:12: error: invalid conversion
between vector type '__m64' (vector of 1 'long long' value) and integer type
'int' of different size
    return (__m64)__builtin_ia32_vec_init_v2si(__i, 0);

 

07:16 adamw 

Add education virtual category

PR:		248402
Submitted by:	PauAmma

 

23:16 yuri 

biology/py-scikit-bio: Fix build on the i386 architecture

Reported by:	fallout
MFH:		2020Q3

 

12:50 dbaio 

devel/ipython: Update to 7.17.0

IPython 7.17+ supports Python 3.7 and above, following NEP 29.
Update consumers to use Python >= 3.7 (avoid break bulk -a).

Changelog:	https://ipython.readthedocs.io/en/latest/whatsnew/version7.html?highlight=7.17#ipython-7-17

Approved by:	dbaio (python, maintainer)

 

02:29 yuri 

biology/py-scikit-bio: Fix license

 

02:28 yuri 

biology/py-scikit-bio: Remove bogus lines

 

02:25 yuri 

New port: biology/py-scikit-bio: Data structures, algorithms, educational
resources for bioinformatics