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non port: biology/jellyfish/Makefile
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Number of commits found: 11

Sun, 29 Jul 2018
[ 22:18 gerald ] Original commit   Revision:475857
475857 Mk/bsd.ruby.mk
475857 accessibility/atkmm/Makefile
475857 archivers/brotli/Makefile
475857 archivers/c-blosc/Makefile
475857 archivers/innoextract/Makefile
475857 archivers/kf5-karchive/Makefile
475857 archivers/lazperf/Makefile
475857 archivers/libpar2/Makefile
475857 archivers/paq/Makefile
475857 archivers/pxz/Makefile

(Only the first 10 of 1480 ports in this commit are shown above. View all ports for this commit)
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
Wed, 31 Jan 2018
[ 01:07 jwb ] Original commit   Revision:460452
460452 audio/praat/Makefile
460452 biology/bowtie/Makefile
460452 biology/bwa/Makefile
460452 biology/cd-hit/Makefile
460452 biology/cdbfasta/Makefile
460452 biology/fastool/Makefile
460452 biology/fastx-toolkit/Makefile
460452 biology/gmap/Makefile
460452 biology/jellyfish/Makefile
460452 biology/libgtextutils/Makefile

(Only the first 10 of 56 ports in this commit are shown above. View all ports for this commit)
Multiple ports:
Change maintainer email bacon4000@gmail.com to jwb@FreeBSD.org
Remove Created by comments for same user

Approved by: jrm (mentor)
Differential Revision:  https://reviews.freebsd.org/D14128
Sun, 10 Sep 2017
[ 20:55 gerald ] Original commit   Revision:449591
449591 accessibility/atkmm/Makefile
449591 archivers/brotli/Makefile
449591 archivers/c-blosc/Makefile
449591 archivers/kf5-karchive/Makefile
449591 archivers/libpar2/Makefile
449591 archivers/paq/Makefile
449591 archivers/pxz/Makefile
449591 archivers/py-brotli/Makefile
449591 archivers/rvm/Makefile
449591 astro/geographiclib/Makefile

(Only the first 10 of 1201 ports in this commit are shown above. View all ports for this commit)
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
Sat, 1 Apr 2017
[ 15:23 gerald ] Original commit   Revision:437439
437439 archivers/kf5-karchive/Makefile
437439 archivers/paq/Makefile
437439 archivers/pxz/Makefile
437439 archivers/py-brotli/Makefile
437439 archivers/rvm/Makefile
437439 astro/geographiclib/Makefile
437439 astro/gpstk/Makefile
437439 astro/kstars/Makefile
437439 astro/libosmium/Makefile
437439 astro/nightfall/Makefile

(Only the first 10 of 1118 ports in this commit are shown above. View all ports for this commit)
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
Sun, 1 Jan 2017
[ 03:45 sunpoet ] Original commit   Revision:430235
430235 archivers/zstd/Makefile
430235 astro/libosmium/Makefile
430235 audio/gnuspeechsa/Makefile
430235 audio/lastfm-desktop/Makefile
430235 audio/sooperlooper/Makefile
430235 audio/teamspeak3-server/Makefile
430235 benchmarks/clpeak/Makefile
430235 biology/jellyfish/Makefile
430235 biology/seqtools/Makefile
430235 cad/freecad/Makefile

(Only the first 10 of 161 ports in this commit are shown above. View all ports for this commit)
Remove BROKEN_FreeBSD_9

Approved by:	portmgr (blanket)
Mon, 19 Dec 2016
[ 16:52 jrm ] Original commit   Revision:428954
428954 biology/jellyfish/Makefile
428954 biology/jellyfish/distinfo
428954 biology/jellyfish/pkg-plist
biology/jellyfish: Update to version 2.2.6

Upstream changes since version 2.2.4:
- Fix compilation warnings/errors with newer version of gcc (5.3 & 6.1).
- Fix bug in parsing function that made it stop on sequences that consist
  of only empty lines.
- New methods in bindings to enumerate the mers of a string.

Approved by:	AMDmi3 (mentor)
Differential Revision:	https://reviews.freebsd.org/D8204
Fri, 11 Nov 2016
[ 09:31 linimon ] Original commit   Revision:425879
425879 benchmarks/libmicro/Makefile
425879 benchmarks/nosqlbench/Makefile
425879 biology/jellyfish/Makefile
425879 biology/muscle/Makefile
425879 biology/p5-AcePerl/Makefile
425879 biology/plinkseq/Makefile
425879 science/gchemutils/Makefile
425879 science/simlib/Makefile
Mark various leaf ports broken on aarch64, and, where appropriate, other
tier-2 archs.

Approved by:	portmgr (tier-2 blanket)
Fri, 21 Oct 2016
[ 15:21 mat ] Original commit   Revision:424427
424427 archivers/lhasa/Makefile
424427 archivers/liblz4/Makefile
424427 archivers/minizip/Makefile
424427 archivers/unadf/Makefile
424427 audio/libaacplus/Makefile
424427 audio/libadplug/Makefile
424427 audio/libmikmod/Makefile
424427 audio/libmikmod/files
424427 audio/libtremor/Makefile
424427 audio/libxmp/Makefile

(Only the first 10 of 354 ports in this commit are shown above. View all ports for this commit)
Use USES=pathfix where applicable.

PR:		213195
Submitted by:	mat
Exp-run by:	antoine
Sponsored by:	Absolight
Differential Revision:	https://reviews.freebsd.org/D8093
Fri, 1 Apr 2016
[ 13:29 mat ] Original commit   Revision:412344
412344 Mk/Uses/gecko.mk
412344 Mk/bsd.fpc.mk
412344 Mk/bsd.gecko.mk
412344 Mk/bsd.port.mk
412344 accessibility/accerciser/Makefile
412344 accessibility/at-spi/Makefile
412344 accessibility/at-spi2-atk/Makefile
412344 accessibility/at-spi2-core/Makefile
412344 accessibility/caribou/Makefile
412344 accessibility/dasher/Makefile

(Only the first 10 of 1009 ports in this commit are shown above. View all ports for this commit)
Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.

With hat:	portmgr
Sponsored by:	Absolight
Tue, 29 Mar 2016
[ 20:55 amdmi3 ] Original commit   Revision:412137
412137 biology/jellyfish/Makefile
- Use more appropriate BROKEN instead of IGNORE

PR:		208367
Submitted by:	bacon4000@gmail.com (maintainer)
Suggested by:	rakuco
Thu, 24 Mar 2016
[ 13:53 amdmi3 ] Original commit   Revision:411785
411785 biology/Makefile
411785 biology/jellyfish
411785 biology/jellyfish/Makefile
411785 biology/jellyfish/distinfo
411785 biology/jellyfish/files
411785 biology/jellyfish/files/patch-include_jellyfish_file__header.hpp
411785 biology/jellyfish/pkg-descr
411785 biology/jellyfish/pkg-plist
Jellyfish is a tool for fast, memory-efficient counting of k-mers in DNA.
A k-mer is a substring of length k, and counting the occurrences of all such
substrings is a central step in many analyses of DNA sequence. JELLYFISH can
count k-mers quickly by using an efficient encoding of a hash table and by
exploiting the "compare-and-swap" CPU instruction to increase parallelism.

WWW: http://www.genome.umd.edu/jellyfish.html

PR:		207929
Submitted by:	bacon4000@gmail.com

Number of commits found: 11

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