Index: head/biology/abyss/Makefile =================================================================== --- head/biology/abyss/Makefile (revision 550241) +++ head/biology/abyss/Makefile (revision 550242) @@ -1,38 +1,37 @@ # $FreeBSD$ PORTNAME= abyss -DISTVERSION= 2.2.4 -PORTREVISION= 1 +DISTVERSION= 2.2.5 CATEGORIES= biology MAINTAINER= yuri@FreeBSD.org COMMENT= Assembly By Short Sequences: parallel, paired-end sequence assembler LICENSE= GPLv3 LICENSE_FILE= ${WRKSRC}/LICENSE BROKEN_i386= result of comparison of constant 18446744073709551615 with expression of type 'size_t', see https://github.com/bcgsc/abyss/issues/310 BUILD_DEPENDS= ${LOCALBASE}/include/boost/version.hpp:devel/boost-libs \ ghc:lang/ghc \ pandoc:textproc/hs-pandoc # pandoc is required just for one man page: abyss-sealer LIB_DEPENDS= libffi.so:devel/libffi \ libgmp.so:math/gmp RUN_DEPENDS= bash:shells/bash \ gmake:devel/gmake USES= autoreconf compiler:c++11-lang gmake iconv:wchar_t localbase:ldflags shebangfix sqlite SHEBANG_FILES= bin/${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 OPTIONS_DEFINE= DOCS PORTDOCS= * .include Index: head/biology/abyss/distinfo =================================================================== --- head/biology/abyss/distinfo (revision 550241) +++ head/biology/abyss/distinfo (revision 550242) @@ -1,3 +1,3 @@ -TIMESTAMP = 1590829348 -SHA256 (bcgsc-abyss-2.2.4_GH0.tar.gz) = 0b3265506d448cad5bbfe16b7b3cbd88c51a9c02a96ce1ddcd0389836c317d5a -SIZE (bcgsc-abyss-2.2.4_GH0.tar.gz) = 1204110 +TIMESTAMP = 1601189184 +SHA256 (bcgsc-abyss-2.2.5_GH0.tar.gz) = 1b85e1fdfb49f1ed4e00201cc55e9ccec93f812335104751bbf24b46e1264453 +SIZE (bcgsc-abyss-2.2.5_GH0.tar.gz) = 1698962 Index: head/biology/abyss/pkg-descr =================================================================== --- head/biology/abyss/pkg-descr (revision 550241) +++ head/biology/abyss/pkg-descr (revision 550242) @@ -1,6 +1,6 @@ ABySS is a de novo, parallel, paired-end sequence assembler that is designed for short reads. The single-processor version is useful for assembling genomes up to 100 Mbases in size. The parallel version is implemented using MPI and is capable of assembling larger genomes. -WWW: http://www.bcgsc.ca/platform/bioinfo/software/abyss +WWW: https://www.bcgsc.ca/resources/software/abyss