Import biology/cdhit as cdhit-4.6.4.
Packaged in pkgsrc-wip by Jason Bacon.

CD-HIT is a very widely used program for clustering and comparing protein or
nucleotide sequences.


(leot)

CD-HIT is a very widely used program for clustering and comparing protein or
nucleotide sequences.

# $NetBSD: Makefile,v 1.1 2015/10/12 16:48:08 leot Exp $
#
###########################################################
#               Generated by fbsd2pkg                     #
###########################################################

DISTNAME=	cdhit-4.6.4
CATEGORIES=	biology
MASTER_SITES=	${MASTER_SITE_GITHUB:=weizhongli/}
GITHUB_TAG=	V${PKGVERSION_NOREV}

MAINTAINER=	jwbacon@tds.net
HOMEPAGE=	http://weizhong-lab.ucsd.edu/cd-hit/
COMMENT=	Clustering and comparing protein or nucleotide sequences
LICENSE=	gnu-gpl-v2

USE_LANGUAGES=	c++
USE_TOOLS+=	bash:run gmake perl
REPLACE_PERL=	*.pl

# Restore default overridden by GITHUB_TAG
WRKSRC=		${WRKDIR}/${DISTNAME}

SUBST_CLASSES+=		compiler
SUBST_STAGE.compiler=	post-patch
SUBST_MESSAGE.compiler=	Fixing hardcoded compiler name
SUBST_FILES.compiler=	${MAKE_FILE}
SUBST_SED.compiler=	-e 's|g++|${CXX:Q}|g'

SUBST_CLASSES+=		bash
SUBST_STAGE.bash=	post-patch
SUBST_MESSAGE.bash=	Fixing bash path
SUBST_FILES.bash=	cd-hit-2d-para.pl cd-hit-para.pl
SUBST_SED.bash=		-e 's|/bin/bash|${PREFIX}/bin/bash|g'

MAKE_FLAGS+=		openmp=yes PREFIX=${DESTDIR}${PREFIX}/bin

DOCDIR=			${PREFIX}/share/doc/cdhit
INSTALLATION_DIRS+=	bin ${DOCDIR}

post-install:
	${INSTALL_DATA} ${WRKSRC}/doc/cdhit-user-guide.pdf ${DESTDIR}${DOCDIR}

.include "../../mk/bsd.pkg.mk"

@comment $NetBSD: PLIST,v 1.1 2015/10/12 16:48:08 leot Exp $
bin/cd-hit
bin/cd-hit-2d
bin/cd-hit-2d-para.pl
bin/cd-hit-454
bin/cd-hit-div
bin/cd-hit-div.pl
bin/cd-hit-est
bin/cd-hit-est-2d
bin/cd-hit-para.pl
bin/clstr2tree.pl
bin/clstr2txt.pl
bin/clstr2xml.pl
bin/clstr_cut.pl
bin/clstr_merge.pl
bin/clstr_merge_noorder.pl
bin/clstr_quality_eval.pl
bin/clstr_quality_eval_by_link.pl
bin/clstr_reduce.pl
bin/clstr_renumber.pl
bin/clstr_rep.pl
bin/clstr_reps_faa_rev.pl
bin/clstr_rev.pl
bin/clstr_select.pl
bin/clstr_select_rep.pl
bin/clstr_size_histogram.pl
bin/clstr_size_stat.pl
bin/clstr_sort_by.pl
bin/clstr_sort_prot_by.pl
bin/clstr_sql_tbl.pl
bin/clstr_sql_tbl_sort.pl
bin/make_multi_seq.pl
bin/plot_2d.pl
bin/plot_len1.pl
share/doc/cdhit/cdhit-user-guide.pdf

$NetBSD: distinfo,v 1.1 2015/10/12 16:48:08 leot Exp $

SHA1 (cdhit-4.6.4.tar.gz) = 3606a8200e62ac60c9dd782a57bec426256e6fa8
RMD160 (cdhit-4.6.4.tar.gz) = a94a29103393dded87000173d8eb4ec1a1e0614f
Size (cdhit-4.6.4.tar.gz) = 1148426 bytes