cdhit: Imported in pkgsrc as biology/cdhit

[Leonardo Taccari <leot%NetBSD.org@localhost>]

Module Name:	pkgsrc-wip
Committed By:	Leonardo Taccari <leot%NetBSD.org@localhost>
Pushed By:	leot
Date:		Mon Oct 12 18:51:13 2015 +0200
Changeset:	f7ff51b6cd628cf6fff026e81a89ea8c2464c3d2

Modified Files:
	Makefile
Removed Files:
	cdhit/DESCR
	cdhit/Makefile
	cdhit/PLIST
	cdhit/distinfo

Log Message:
cdhit: Imported in pkgsrc as biology/cdhit

To see a diff of this commit:
https://wip.pkgsrc.org/cgi-bin/gitweb.cgi?p=pkgsrc-wip.git;a=commitdiff;h=f7ff51b6cd628cf6fff026e81a89ea8c2464c3d2

Please note that diffs are not public domain; they are subject to the
copyright notices on the relevant files.

diffstat:
 Makefile       |  1 -
 cdhit/DESCR    |  2 --
 cdhit/Makefile | 44 --------------------------------------------
 cdhit/PLIST    | 35 -----------------------------------
 cdhit/distinfo |  5 -----
 5 files changed, 87 deletions(-)

diffs:
diff --git a/Makefile b/Makefile
index 2a7e16d..3fae327 100644
--- a/Makefile
+++ b/Makefile
@@ -291,7 +291,6 @@ SUBDIR+=	cb2bib
 SUBDIR+=	ccrypt
 SUBDIR+=	cddlib
 SUBDIR+=	cde
-SUBDIR+=	cdhit
 SUBDIR+=	cdogs
 SUBDIR+=	cdpr
 SUBDIR+=	cedet
diff --git a/cdhit/DESCR b/cdhit/DESCR
deleted file mode 100644
index 06848d6..0000000
--- a/cdhit/DESCR
+++ /dev/null
@@ -1,2 +0,0 @@
-CD-HIT is a very widely used program for clustering and comparing protein or
-nucleotide sequences.
diff --git a/cdhit/Makefile b/cdhit/Makefile
deleted file mode 100644
index 212885d..0000000
--- a/cdhit/Makefile
+++ /dev/null
@@ -1,44 +0,0 @@
-# $NetBSD: Makefile,v 1.1 2015/09/18 13:44:08 outpaddling 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@localhost
-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"
diff --git a/cdhit/PLIST b/cdhit/PLIST
deleted file mode 100644
index 387d03d..0000000
--- a/cdhit/PLIST
+++ /dev/null
@@ -1,35 +0,0 @@
-@comment $NetBSD$
-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
diff --git a/cdhit/distinfo b/cdhit/distinfo
deleted file mode 100644
index d94bff4..0000000
--- a/cdhit/distinfo
+++ /dev/null
@@ -1,5 +0,0 @@
-$NetBSD$
-
-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