biology/abyss: Update 2.1.5 -> 2.2.3

Reported by:	portscout

biology/abyss/Makefile

@@ -1,13 +1,8 @@
 # $FreeBSD$
 
 PORTNAME=	abyss
-DISTVERSION=	2.1.5
-PORTREVISION=	6
+DISTVERSION=	2.2.3
 CATEGORIES=	biology
-MASTER_SITES=	http://www.bcgsc.ca/platform/bioinfo/software/${PORTNAME}/releases/${DISTVERSION}/
-
-PATCH_SITES=	https://github.com/bcgsc/${PORTNAME}/commit/
-PATCHFILES=	25eb9d2a914fb211fdfe04fcda5593f29fd23ff5.patch:-p1
 
 MAINTAINER=	yuri@FreeBSD.org
 COMMENT=	Assembly By Short Sequences: parallel, paired-end sequence assembler
@@ -24,11 +19,13 @@ LIB_DEPENDS=	libffi.so:devel/libffi \
 RUN_DEPENDS=	bash:shells/bash \
 		gmake:devel/gmake
 
-USES=		compiler:c++11-lang gmake iconv:wchar_t localbase:ldflags shebangfix sqlite
-SHEBANG_FILES=	bin/${PORTNAME}-*
+USES=		autoreconf compiler:c++11-lang gmake iconv:wchar_t localbase:ldflags shebangfix sqlite
+SHEBANG_FILES=	bin/${PORTNAME}-* DataBase/abyss-db-txt
 SHEBANG_LANG=	make
 make_OLD_CMD=	/usr/bin/make
 make_CMD=	${PREFIX}/bin/gmake
+USE_GITHUB=	yes
+GH_ACCOUNT=	bcgsc
 GNU_CONFIGURE=	yes
 CONFIGURE_ARGS=	--without-sparsehash # configure fails to find std::hash, reported to the ML: https://groups.google.com/forum/#!topic/trans-abyss/SZDBKR5bKxs
 

biology/abyss/distinfo

@@ -1,5 +1,3 @@
-TIMESTAMP = 1561103807
-SHA256 (abyss-2.1.5.tar.gz) = 65bfc8241e6ff5adf7601ae4ae93a75e3db86d6bff5d593c75aaff7f0ef41757
-SIZE (abyss-2.1.5.tar.gz) = 1201318
-SHA256 (25eb9d2a914fb211fdfe04fcda5593f29fd23ff5.patch) = 93ad66c42610c4fba8cfbe256a2ab689bf4a76974c3b97a9e1094863614ad934
-SIZE (25eb9d2a914fb211fdfe04fcda5593f29fd23ff5.patch) = 1701
+TIMESTAMP = 1578886491
+SHA256 (bcgsc-abyss-2.2.3_GH0.tar.gz) = c7b93290b2ccffcf2f3ca42262621c636108f6dbc21f5684ebeeb4f682200675
+SIZE (bcgsc-abyss-2.2.3_GH0.tar.gz) = 1203318

biology/abyss/pkg-plist

@@ -45,7 +45,6 @@ bin/abyss-overlap
 bin/abyss-paired-dbg
 bin/abyss-pe
 bin/abyss-samtoafg
-bin/abyss-samtobreak
 bin/abyss-scaffold
 bin/abyss-sealer
 bin/abyss-stack-size