[ 17:01 antoine  ]

• 528058 audio/abraca/Makefile
• 528058 audio/ardour5/Makefile
• 528058 audio/cplay/Makefile
• 528058 audio/cpp-xmms2/Makefile
• 528058 audio/exaile/Makefile
• 528058 audio/p5-xmms2/Makefile
• 528058 benchmarks/glmark2/Makefile
• 528058 biology/haplohseq/Makefile
• 528058 biology/tophat/Makefile
• 528058 cad/lepton-eda/Makefile

Deprecate some ports using deprecated version of python

With hat:	portmgr

[ 17:53 jbeich  ]

• 519824 archivers/innoextract/Makefile
• 519824 archivers/tardy/Makefile
• 519824 astro/libkgeomap/Makefile
• 519824 astro/libosmium/Makefile
• 519824 audio/ardour/Makefile
• 519824 audio/ardour5/Makefile
• 519824 audio/clementine-player/Makefile
• 519824 audio/cpp-xmms2/Makefile
• 519824 audio/csound/Makefile
• 519824 audio/faust-lv2/Makefile

devel/boost-*: update to 1.72.0

Changes:	http://www.boost.org/users/history/version_1_72_0.html
PR:		241449
Exp-run by:	antoine
Differential Revision:	https://reviews.freebsd.org/D22136

[ 00:49 jwb  ]

• 512997 biology/Makefile
• 512997 biology/tophat
• 512997 biology/tophat/Makefile
• 512997 biology/tophat/distinfo
• 512997 biology/tophat/files
• 512997 biology/tophat/files/patch-configure
• 512997 biology/tophat/files/patch-src-samtools-0.1.18-Makefile
• 512997 biology/tophat/files/patch-src_Makefile.in
• 512997 biology/tophat/files/tophat-test
• 512997 biology/tophat/pkg-descr

biology/tophat: Fast splice junction mapper for RNA-Seq reads

TopHat is a fast splice junction mapper for RNA-Seq reads. It aligns RNA-Seq
reads to mammalian-sized genomes using the ultra high-throughput short read
aligner Bowtie, and then analyzes the mapping results to identify splice
junctions between exons.

Note:

TopHat has been Superseded by HISAT2 and is no longer maintained upstream.
This port is provided mainly for revisiting old studies where TopHat was used.