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	v2_0:1.1.1.1
	BARNHARDT:1.1.1;
locks; strict;
comment	@# @;


1.19
date	2012.11.17.05.54.51;	author svnexp;	state Exp;
branches;
next	1.18;

1.18
date	2012.10.01.14.55.55;	author wen;	state Exp;
branches;
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1.17
date	2012.10.01.14.45.16;	author tabthorpe;	state Exp;
branches;
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1.16
date	2009.02.01.08.17.14;	author pgollucci;	state Exp;
branches;
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1.15
date	2004.11.25.22.58.29;	author sem;	state Exp;
branches;
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1.14
date	2004.11.25.22.35.52;	author sem;	state Exp;
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1.13
date	2004.11.20.08.09.45;	author linimon;	state Exp;
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1.12
date	2003.03.07.05.56.42;	author ade;	state Exp;
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1.11
date	2002.07.11.10.52.14;	author wjv;	state Exp;
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1.10
date	2001.08.22.13.18.10;	author wjv;	state Exp;
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1.9
date	2001.07.05.08.58.12;	author wjv;	state Exp;
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1.8
date	2001.07.04.12.16.13;	author wjv;	state Exp;
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1.7
date	2000.04.08.22.04.37;	author mharo;	state Exp;
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1.6
date	2000.01.29.20.01.35;	author mharo;	state Exp;
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1.5
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1.4
date	99.03.08.20.23.39;	author fenner;	state Exp;
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1.2
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1.1
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1.1.1.1
date	98.07.12.23.30.02;	author steve;	state Exp;
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desc
@@


1.19
log
@Switch exporter over
@
text
@# Created by: barnhart@@genetics.wustl.edu
# $FreeBSD: head/biology/hmmer/Makefile 305131 2012-10-01 14:55:55Z wen $

PORTNAME=	hmmer
PORTVERSION=	2.3.2
CATEGORIES=	biology
MASTER_SITES=	ftp://selab.janelia.org/pub/software/hmmer/CURRENT/

MAINTAINER=	wen@@FreeBSD.org
COMMENT=	Profile hidden Markov models for biological sequence analysis

GNU_CONFIGURE=	yes
USE_PERL5=	yes
CONFIGURE_ARGS+=--enable-threads --enable-lfs

DOCFILES=	00README COPYRIGHT INSTALL LICENSE NOTES Userguide.pdf
EXAMPLES=	7LES_DROME amino.null globins50.msf nucleic.pri rrm.sto \
		Artemia.fa amino.pri globins630.fa pkinase.sto RU1A_HUMAN \
		fn3.sto nucleic.null rrm.hmm
MAN1=		hmmalign.1 hmmbuild.1 hmmcalibrate.1 hmmconvert.1 hmmemit.1 \
		hmmer.1 hmmfetch.1 hmmindex.1 hmmpfam.1 hmmsearch.1

.if defined(WITH_PVM)
CONFIGURE_ENV+=		PVM_ROOT="${LOCALBASE}/lib/pvm" PVM_ARCH="FREEBSD"
CONFIGURE_ARGS+=	--with-pvm
BUILD_DEPENDS+=		pvm:${PORTSDIR}/net/pvm
.endif

post-install:
.if !defined(NOPORTDOCS)
	@@ ${MKDIR} ${DOCSDIR}
.for docfile in ${DOCFILES}
	@@ ${INSTALL_DATA} ${WRKSRC}/${docfile} ${DOCSDIR}
.endfor
.endif
	@@ ${MKDIR} ${EXAMPLESDIR}
.for example in ${EXAMPLES}
	@@ ${INSTALL_DATA} ${WRKSRC}/tutorial/${example} ${EXAMPLESDIR}
.endfor
.if !defined(BATCH)
	@@ ${CAT} ${PKGMESSAGE}
.endif

.include <bsd.port.mk>
@


1.18
log
@SVN rev 305131 on 2012-10-01 14:55:55Z by wen

- Take maintainership
@
text
@d2 1
a2 1
# $FreeBSD$
@


1.17
log
@SVN rev 305130 on 2012-10-01 14:45:16Z by tabthorpe

- Reassign to the heap at maintainer's request
@
text
@d9 1
a9 1
MAINTAINER=	ports@@FreeBSD.org
@


1.16
log
@- Update download locations, update WWW

Reported by:    -fetch-original pointyhat run
@
text
@d1 1
a1 4
# New ports collection Makefile for: hmmer
# Date created:		June 29 1998
# Whom:			barnhart@@genetics.wustl.edu
#
a2 1
#
d9 1
a9 1
MAINTAINER=	fernan@@iib.unsam.edu.ar
@


1.15
log
@- Remove a junk white space.
@
text
@d11 1
a11 1
MASTER_SITES=	ftp://ftp.genetics.wustl.edu/pub/eddy/hmmer/${PORTVERSION}/
@


1.14
log
@- Update to 2.3.2
- Add WITH_PVM knob
- Pass maintainership to submitter

PR:		ports/74331
Submitted by:	Fernan Aguero <fernan(at)iib.unsam.edu.ar>
@
text
@d25 1
a25 1
		hmmer.1 hmmfetch.1 hmmindex.1 hmmpfam.1 hmmsearch.1 
@


1.13
log
@With portmgr hat on, reset inactive maintainer.  These ports are now up
for adoption.
@
text
@d9 1
a9 2
PORTVERSION=	2.2.g
PORTREVISION=	1
d11 1
a11 2
MASTER_SITES=	ftp://ftp.genetics.wustl.edu/pub/eddy/hmmer/${VERSIONSTRING}/
DISTNAME=	${PORTNAME}-${VERSIONSTRING}
d13 1
a13 1
MAINTAINER=	ports@@FreeBSD.org
d18 1
a18 1
VERSIONSTRING=	${PORTVERSION:C|\.([^.]*)$|\1|}
d20 12
a31 5
DOCFILES=	00README COPYRIGHT NOTES Userguide.pdf
MAN1=		afetch.1 alistat.1 hmmalign.1 hmmbuild.1 hmmcalibrate.1 \
		hmmconvert.1 hmmemit.1 hmmer.1 hmmfetch.1 hmmindex.1 \
		hmmpfam.1 hmmsearch.1 seqstat.1 sfetch.1 shuffle.1 \
		sreformat.1
d40 4
@


1.12
log
@Clear moonlight beckons.
Requiem mors pacem pkg-comment,
And be calm ports tree.

E Nomini Patri, E Fili, E Spiritu Sancti.
@
text
@d15 1
a15 1
MAINTAINER=	wjv@@FreeBSD.org
@


1.11
log
@- Add patch that will, for -CURRENT only, change:  -pthread -> -lc_r
- Bump $PORTREVISION

Prompted by:	Various questions from Rune Linding <linding@@EMBL-Heidelberg.DE>
@
text
@d16 1
@


1.10
log
@- Update port to version 2.2g
@
text
@d5 1
a5 1
# $FreeBSD: ports/biology/hmmer/Makefile,v 1.9 2001/07/05 08:58:12 wjv Exp $
d10 1
@


1.9
log
@- General clean-up of port.
- Install PDF and HTML documentation.
- Take over maintainership.

Approved by:	Silence from previous maintainer; no objections from -ports
@
text
@d5 1
a5 1
# $FreeBSD: ports/biology/hmmer/Makefile,v 1.8 2001/07/04 12:16:13 wjv Exp $
d9 1
a9 1
PORTVERSION=	2.1.1
d11 2
a12 2
MASTER_SITES=	ftp://ftp.genetics.wustl.edu/pub/eddy/hmmer/
EXTRACT_SUFX=	.tar.Z
d18 1
d20 5
a24 5
MAN1=		hmmalign.1 hmmbuild.1 hmmcalibrate.1 hmmconvert.1 hmmemit.1 \
		hmmer.1 hmmpfam.1 hmmsearch.1 hmmfetch.1 hmmindex.1 alistat.1 \
		getseq.1 seqstat.1 sreformat.1

HMMER_DOCDIR=	${PREFIX}/share/doc/${PORTNAME}
d28 4
a31 4
	@@ ${MKDIR} ${HMMER_DOCDIR}
	@@ ${INSTALL_DATA} ${WRKSRC}/Userguide/Userguide.pdf ${HMMER_DOCDIR}
	@@ ${INSTALL_DATA} ${WRKSRC}/Userguide/Userguide.ps ${HMMER_DOCDIR}
	@@ ${TAR} xzfC ${WRKSRC}/Userguide/hmmer-html.tar.Z ${HMMER_DOCDIR}
@


1.8
log
@- Add %%PORTDOCS%% support to pkg-plist.
- $INSTALL_MAN -> $INSTALL_DATA in Makefile where appropriate.

PR:		28668
Submitted by:	Patrick Li <pat@@databits.net>
@
text
@d5 1
a5 1
# $FreeBSD: ports/biology/hmmer/Makefile,v 1.7 2000/04/08 22:04:37 mharo Exp $
d14 1
a14 1
MAINTAINER=	barnhart@@genetics.wustl.edu
d17 1
a18 1
USE_PERL5=	yes
d23 1
a23 6
post-build:
	@@ strip ${WRKSRC}/binaries/*
	@@ make test

test:
	@@(cd ${WRKSRC}; make check)
d27 4
a30 2
	${MKDIR} ${PREFIX}/share/doc/hmmer
	${INSTALL_DATA} ${WRKSRC}/Userguide/Userguide.ps ${PREFIX}/share/doc/hmmer
d32 1
d34 1
@


1.7
log
@update with the new PORTNAME/PORTVERSION variables
@
text
@d5 1
a5 1
# $FreeBSD: ports/biology/hmmer/Makefile,v 1.6 2000/01/29 20:01:35 mharo Exp $
d33 1
a33 1
	${INSTALL_MAN} ${WRKSRC}/Userguide/Userguide.ps ${PREFIX}/share/doc/hmmer
@


1.6
log
@fix some pkg/MESSAGE stuff
@
text
@a1 1
# Version required:	2.0
d5 1
a5 1
# $FreeBSD: ports/biology/hmmer/Makefile,v 1.5 1999/08/25 04:47:57 obrien Exp $
d8 2
a9 1
DISTNAME=	hmmer-2.1.1
@


1.5
log
@Change Id->FreeBSD.
@
text
@d6 1
a6 1
# $FreeBSD$
d35 1
a35 1
	@@ ${CAT} ${PKGDIR}/MESSAGE
@


1.4
log
@Upgrade to 2.1.1

PR:		ports/10228
Submitted by:	Michael Haro mharo@@area51.fremont.ca.us
@
text
@d6 1
a6 1
# $Id: Makefile,v 1.3 1999/01/02 00:12:17 asami Exp $
@


1.3
log
@Change *_DEPENDS on lang/perl5 to USE_PERL5 so we won't have any
dependencies to perl5 in -current.  This might cause some unwanted
perl5 installations on -stable (if it was originally RUN_DEPENDS,
perl5 will now be installed during build too, etc.), but its lifetime
is limited anyway.
@
text
@d6 1
a6 1
# $Id: Makefile,v 1.2 1998/12/09 22:35:04 billf Exp $
d9 1
a9 1
DISTNAME=	hmmer-2.0
d11 1
a11 1
MASTER_SITES=	ftp://ftp.genetics.wustl.edu/pub/eddy/hmmer/oldversions/2.0/
d16 2
d19 3
a21 3
MAN1=		hmmalign.1 hmmbuild.1 hmmcalibrate.1 hmmconvert.1 hmmemit.1 hmmer.1 hmmpfam.1 hmmsearch.1

WRKSRC=		${WRKDIR}/build/${DISTNAME}
d28 1
a28 1
	@@(cd ${WRKSRC}; make test)
@


1.2
log
@Update MASTER_SITES.

Thanks To:	Fenner's portsurvey and ftpsearch.lycos.com
@
text
@d6 1
a6 1
# $Id: Makefile,v 1.1.1.1 1998/07/12 23:30:02 steve Exp $
d16 1
a16 2
BUILD_DEPENDS=	perl:${PORTSDIR}/lang/perl5

@


1.1
log
@Initial revision
@
text
@d6 1
a6 1
# $Id$
d11 1
a11 1
MASTER_SITES=	ftp://ftp.genetics.wustl.edu/pub/eddy/hmmer/
@


1.1.1.1
log
@Initial import of hmmer version 2.0.
Profile hidden Markov models for biological sequence analysis.

PR:		7120
Submitted by:	Matthew Jason Euclid Barnhart <barnhart@@sequencer.wustl.edu>
@
text
@@
