head	1.30;
access;
symbols
	RELEASE_8_3_0:1.27
	RELEASE_9_0_0:1.27
	RELEASE_7_4_0:1.27
	RELEASE_8_2_0:1.27
	RELEASE_6_EOL:1.26
	RELEASE_8_1_0:1.26
	RELEASE_7_3_0:1.26
	RELEASE_8_0_0:1.26
	RELEASE_7_2_0:1.24
	RELEASE_7_1_0:1.23
	RELEASE_6_4_0:1.23
	RELEASE_5_EOL:1.23
	RELEASE_7_0_0:1.21
	RELEASE_6_3_0:1.21
	PRE_XORG_7:1.21
	RELEASE_4_EOL:1.20
	RELEASE_6_2_0:1.19
	RELEASE_6_1_0:1.13
	RELEASE_5_5_0:1.13
	RELEASE_6_0_0:1.12
	RELEASE_5_4_0:1.12
	RELEASE_4_11_0:1.12
	RELEASE_5_3_0:1.12
	RELEASE_4_10_0:1.10
	RELEASE_5_2_1:1.9
	RELEASE_5_2_0:1.9
	RELEASE_4_9_0:1.8
	RELEASE_5_1_0:1.8
	RELEASE_4_8_0:1.8
	RELEASE_5_0_0:1.7
	RELEASE_4_7_0:1.7
	RELEASE_4_6_2:1.7
	RELEASE_4_6_1:1.7
	RELEASE_4_6_0:1.7
	RELEASE_5_0_DP1:1.7
	RELEASE_4_5_0:1.7
	RELEASE_4_4_0:1.7
	RELEASE_4_3_0:1.4;
locks; strict;
comment	@# @;


1.30
date	2012.11.17.05.54.51;	author svnexp;	state Exp;
branches;
next	1.29;

1.29
date	2012.10.01.14.55.55;	author wen;	state Exp;
branches;
next	1.28;

1.28
date	2012.10.01.14.45.16;	author tabthorpe;	state Exp;
branches;
next	1.27;

1.27
date	2011.01.26.20.26.36;	author beat;	state Exp;
branches;
next	1.26;

1.26
date	2009.08.23.15.47.37;	author makc;	state Exp;
branches;
next	1.25;

1.25
date	2009.06.09.07.53.37;	author itetcu;	state Exp;
branches;
next	1.24;

1.24
date	2009.02.23.16.12.23;	author amdmi3;	state Exp;
branches;
next	1.23;

1.23
date	2008.04.10.08.09.10;	author clsung;	state Exp;
branches;
next	1.22;

1.22
date	2008.03.30.05.07.36;	author rafan;	state Exp;
branches;
next	1.21;

1.21
date	2007.03.09.11.26.13;	author miwi;	state Exp;
branches;
next	1.20;

1.20
date	2006.10.31.09.02.04;	author miwi;	state Exp;
branches;
next	1.19;

1.19
date	2006.06.09.19.18.08;	author pav;	state Exp;
branches;
next	1.18;

1.18
date	2006.06.05.21.18.23;	author erwin;	state Exp;
branches;
next	1.17;

1.17
date	2006.05.24.16.55.46;	author sem;	state Exp;
branches;
next	1.16;

1.16
date	2006.05.21.21.32.08;	author kris;	state Exp;
branches;
next	1.15;

1.15
date	2006.05.07.16.52.33;	author sem;	state Exp;
branches;
next	1.14;

1.14
date	2006.03.20.22.23.24;	author pav;	state Exp;
branches;
next	1.13;

1.13
date	2006.02.10.09.37.02;	author lawrance;	state Exp;
branches;
next	1.12;

1.12
date	2004.07.01.03.02.23;	author linimon;	state Exp;
branches;
next	1.11;

1.11
date	2004.06.21.21.27.11;	author kris;	state Exp;
branches;
next	1.10;

1.10
date	2004.02.21.19.31.10;	author kris;	state Exp;
branches;
next	1.9;

1.9
date	2003.11.15.20.13.21;	author marcus;	state Exp;
branches;
next	1.8;

1.8
date	2003.03.07.05.56.41;	author ade;	state Exp;
branches;
next	1.7;

1.7
date	2001.07.03.09.08.26;	author wjv;	state Exp;
branches;
next	1.6;

1.6
date	2001.06.27.10.14.49;	author wjv;	state Exp;
branches;
next	1.5;

1.5
date	2001.05.07.12.16.33;	author jeh;	state Exp;
branches;
next	1.4;

1.4
date	2001.03.22.09.04.47;	author sobomax;	state Exp;
branches;
next	1.3;

1.3
date	2001.03.12.10.24.38;	author nbm;	state Exp;
branches;
next	1.2;

1.2
date	2001.03.08.14.39.07;	author sf;	state Exp;
branches;
next	1.1;

1.1
date	2001.02.11.16.28.59;	author jeh;	state Exp;
branches;
next	;


desc
@@


1.30
log
@Switch exporter over
@
text
@# Created by: Johann Visagie <johann@@egenetics.com>
# $FreeBSD: head/biology/fasta3/Makefile 305131 2012-10-01 14:55:55Z wen $

PORTNAME=	fasta3
PORTVERSION=	36.3.2
CATEGORIES=	biology
MASTER_SITES=	http://faculty.virginia.edu/wrpearson/fasta/fasta36/
DISTNAME=	fasta-${PORTVERSION}

MAINTAINER=	wen@@FreeBSD.org
COMMENT=	A collection of programs for searching DNA and protein databases

NO_CDROM=	May not be sold or incorporated into a commercial product
WRKSRC=		${WRKDIR}/${DISTNAME}
BUILD_WRKSRC=	${WRKSRC}/src
INSTALL_WRKSRC=	${BUILD_WRKSRC}
SUB_FILES=	pkg-message
MAKEFILE=	Makefile.freebsd

XDIR=		${PREFIX}/bin
FASTA_HOST!=	/usr/bin/uname -n

MAKE_ENV+=	THR_LIBS=${PTHREAD_LIBS} XDIR=${XDIR} \
		FASTA_HOST='"${FASTA_HOST}"'

FASTA3_DOCS=	README.versions fasta3x.me fasta3x.doc \
		fasta20.doc fasta_func.doc readme.* fasta.defaults \
		fasta.options fasta_versions.html changes*.html
DATA=		data/*.mat
EXAMPLES=	seq/*.aa seq/*.lc seq/*.seq seq/*.lib

MAN1=		fasta36.1 fastf3.1 fasts3.1 prss3.1 map_db.1 ps_lav.1
MLINKS=		fasta36.1 tfasta35.1 fasta36.1 fastx35.1 fasta36.1 tfastx35.1 \
		fasta36.1 fasty35.1 fasta36.1 tfasty35.1 fasta36.1 ssearch35.1 \
		fasta36.1 fastf35.1 fasta36.1 fasts35.1 fasta36.1 tfasts35.1 \
		fasta36.1 fastm35.1 fasta36.1 tfastf35.1 fasta36.1 ggsearch35.1 \
		fasta36.1 lalign35.1 fasta36.1 prss35.1 fasta36.1 prfx35.1
PLIST_SUB=	VER=${PORTVERSION:R:R}

post-patch:
	@@ ${CP} ${WRKSRC}/make/${MAKEFILE} ${BUILD_WRKSRC}/
post-install:
	${INSTALL_PROGRAM} ${WRKSRC}/bin/* ${PREFIX}/bin/
	${INSTALL_DATA} ${WRKSRC}/conf/fastlibs ${PREFIX}/etc/fastlibs.sample
	@@ ${MKDIR} ${DATADIR}
.for data in ${DATA}
	${INSTALL_DATA} ${WRKSRC}/${data} ${DATADIR}
.endfor
	@@ ${MKDIR} ${EXAMPLESDIR}
.for ex in ${EXAMPLES}
	${INSTALL_DATA} ${WRKSRC}/${ex} ${EXAMPLESDIR}
.endfor
.for manpage in ${MAN1}
	${INSTALL_MAN} ${WRKSRC}/doc/${manpage} ${MAN1PREFIX}/man/man1/
.endfor
.if !defined(NOPORTDOCS)
	@@ ${MKDIR} ${DOCSDIR}
	${INSTALL_DATA} ${WRKSRC}/README ${DOCSDIR}
	${INSTALL_DATA} ${WRKSRC}/COPYRIGHT ${DOCSDIR}
	${INSTALL_DATA} ${WRKSRC}/FASTA_LIST ${DOCSDIR}
.for docfile in ${FASTA3_DOCS}
	@@ ${INSTALL_DATA} ${WRKSRC}/doc/${docfile} ${DOCSDIR}
.endfor
.endif
	@@ ${CAT} ${PKGMESSAGE}

.include <bsd.port.mk>
@


1.29
log
@SVN rev 305131 on 2012-10-01 14:55:55Z by wen

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


1.28
log
@SVN rev 305130 on 2012-10-01 14:45:16Z by tabthorpe

- Reassign to the heap at maintainer's request
@
text
@d10 1
a10 1
MAINTAINER=	ports@@FreeBSD.org
@


1.27
log
@- Update to 36.3.2 to fix distfile fetching on pointyhat

PR:		ports/154267
Submitted by:	Fernan Aguero <fernan AT iib.unsam.edu.ar> (maintainer)
Feature safe:	yes
@
text
@d1 1
a1 5
# ex:ts=8
# New ports collection makefile for:	fasta3
# Date created:		29 January 2001
# Whom:	      		Johann Visagie <johann@@egenetics.com>
#
a2 1
#
d10 1
a10 1
MAINTAINER=	fernan@@iib.unsam.edu.ar
@


1.26
log
@Update to 35.4.9

PR:		ports/137991
Submitted by:	Fernan Aguero (maintainer)
@
text
@d10 1
a10 1
PORTVERSION=	35.4.9
d12 1
a12 1
MASTER_SITES=	http://faculty.virginia.edu/wrpearson/fasta/fasta3/
d37 6
a42 6
MAN1=		fasta35.1 map_db.1 ps_lav.1 pvcomp.1
MLINKS=		fasta35.1 tfasta35.1 fasta35.1 fastx35.1 fasta35.1 tfastx35.1  \
		fasta35.1 fasty35.1  fasta35.1 tfasty35.1 fasta35.1 ssearch35.1 \
		fasta35.1 fastf35.1 fasta35.1 fasts35.1 fasta35.1 tfasts35.1 \
		fasta35.1 fastm35.1 fasta35.1 tfastf35.1 fasta35.1 ggsearch35.1 \
		fasta35.1 lalign35.1 fasta35.1 prss35.1 fasta35.1 prfx35.1
@


1.25
log
@- Update to 35.4.7 [1]
- Obey PREFIX [2]

Submitted by:	maintainer [1] [2]
Reported by:	QATty [2]
@
text
@d10 1
a10 1
PORTVERSION=	35.4.7
@


1.24
log
@- Update to 35.4.4

PR:		132007
Submitted by:	Fernan Aguero <fernan at iib dot unsam dot edu dot ar> (maintainer)
@
text
@d10 1
a10 1
PORTVERSION=	35.4.4
d37 1
a37 2
MAN1=		fasta35.1 fastf3.1 fasts3.1 map_db.1 prss3.1 ps_lav.1 \
		pvcomp.1
d41 1
a41 1
		fasta35.1 fastm35.1 fasta35.1 fastf35.1 fasta35.1 ggsearch35.1 \
d59 1
a59 1
	@@ ${INSTALL_MAN} ${WRKSRC}/doc/${manpage} ${MAN1PREFIX}/man/man1/
@


1.23
log
@- Update to 35.3.6

PR:		ports/122607
Submitted by:	maintainer (Fernan Aguero)
@
text
@d10 1
a10 1
PORTVERSION=	35.3.6
d20 2
d31 13
a43 9
FASTA3_DOCS=	README COPYRIGHT FASTA_LIST fasta3x.me fasta3x.doc \
		fasta20.doc fasta_func.doc readme.* fasta.defaults
DATA=		*.mat
EXAMPLES=	*.aa *.lc *.seq

MAN1=		fasta3.1 fastf3.1 fasts3.1 map_db.1 prss3.1
MLINKS=		fasta3.1 tfasta3.1 fasta3.1 fastx3.1  fasta3.1 tfastx3.1  \
		fasta3.1 fasty3.1  fasta3.1 tfasty3.1 fasta3.1 ssearch3.1 \
		fastf3.1 tfastf3.1 fasts3.1 tfasts3.1
d46 2
d49 2
a50 1
	${INSTALL_DATA} ${WRKSRC}/fastlibs ${PREFIX}/etc/fastlibs.sample
d60 1
a60 1
	@@ ${INSTALL_MAN} ${WRKSRC}/${manpage} ${MAN1PREFIX}/man/man1/
d64 3
d68 1
a68 1
	@@ ${INSTALL_DATA} ${WRKSRC}/${docfile} ${DOCSDIR}
@


1.22
log
@- Update to 35.3.5
- Switch to .tar.gz distfile so that we don't define our do-extract
- While I'm here, using substitution for version numbers in pkg-plist
  for easier upgrade

PR:		ports/121690
Submitted by:	Wen heping <wenheping at gmail.com>
Approved by:	maintainer timeout (2 weeks)
@
text
@d10 1
a10 1
PORTVERSION=	35.3.5
d12 1
a12 1
MASTER_SITES=	http://faculty.virginia.edu/wrpearson/fasta/
@


1.21
log
@- Update to 34.26.2

PR:             110079
Submitted by:   Fernan Aguero<fernan@@iib.unsam.edu.ar> (maintainer)
@
text
@d10 1
a10 1
PORTVERSION=	34.26.2
d12 1
a12 1
MASTER_SITES=	ftp://ftp.virginia.edu/pub/fasta/
a13 1
EXTRACT_SUFX=	.shar.Z
d19 1
a19 1
WRKSRC=		${WRKDIR}/${PORTNAME}
d38 1
a38 7

do-extract:
	@@ ${RM} -rf ${WRKDIR}
	@@ ${MKDIR} ${WRKSRC}
	@@ for file in ${EXTRACT_ONLY}; do \
	  cd ${WRKSRC} && (${GZCAT} ${DISTDIR}/$${file} | ${SH} >/dev/null); \
	done
@


1.20
log
@- Update to 34.t26.b3

PR:		ports/104508
Submitted by:	Fernan Aguero <fernan@@iib.unsam.edu.ar> (maintainer)
@
text
@d10 1
a10 1
PORTVERSION=	34.t26.b3
d12 2
a13 4
MASTER_SITES=	ftp://ftp.virginia.edu/pub/fasta/ \
		${MASTER_SITE_LOCAL}
MASTER_SITE_SUBDIR=	pav
DISTNAME=	fasta${PORTVERSION:S/.//g}
@


1.19
log
@- Update to 34.t25.d9

PR:		ports/98761
Submitted by:	Fernan Aguero <fernan@@iib.unsam.edu.ar> (maintainer)
@
text
@d10 1
a10 1
PORTVERSION=	34.t25.d9
@


1.18
log
@- Update to 34.t25.d8 [1]
- While I'm here, pet portlint [2]

PR:		98398 [1]
Submitted by:	miwi [1], self [2]
Approved by:	maintainer [1]
@
text
@d10 1
a10 1
PORTVERSION=	34.t25.d8
d14 1
a14 1
MASTER_SITE_SUBDIR=	sem
@


1.17
log
@- update to 34.t25.d7
- add MASTER_SITE_LOCAL as a second master site

PR:		ports/97310
Submitted by:	maintainer
@
text
@d10 1
a10 1
PORTVERSION=	34.t25.d7
d21 1
a21 1
NO_CDROM=	"May not be sold or incorporated into a commercial product"
@


1.16
log
@BROKEN: Unfetchable
@
text
@d10 1
a10 1
PORTVERSION=	34.t25.d6
d12 3
a14 1
MASTER_SITES=	ftp://ftp.virginia.edu/pub/fasta/
a20 2
BROKEN=		Unfetchable

a48 3
post-extract:
	@@ cp ${FILESDIR}/Makefile.freebsd ${WRKSRC}

@


1.15
log
@- Update to 34.t25.d6

PR:		ports/96063
Submitted by:	maintainer
@
text
@d19 2
@


1.14
log
@- Update to 34.t25.d5

PR:		ports/94741
Submitted by:	Fernan Aguero <fernan@@iib.unsam.edu.ar> (maintainer)
@
text
@d10 1
a10 1
PORTVERSION=	34.t25.d5
d22 1
d24 5
a28 1
MAKE_ENV+=	THR_LIBS=${PTHREAD_LIBS}
d47 3
@


1.13
log
@Update to 34.t25.d4.

PR:		ports/93052
Submitted by:	Fernan Aguero <fernan@@iib.unsam.edu.ar> (maintainer)
@
text
@d10 1
a10 1
PORTVERSION=	34.t25.d4
@


1.12
log
@Chase mastersite and fix checksum to unbreak.  (Changes are inclusion of a
logfile, one Linux-only change, and one change in a test script).  Assign
submitter as new maintainer as current one has not responded to PRs for
some time.

PR:		ports/68199
Submitted by:	Fernan Aguero <fernan at iib dot unsam dot edu dot ar>
@
text
@d1 1
d10 1
a10 1
PORTVERSION=	33.t08.d4
d17 1
a17 1
COMMENT=	A collection of programs for searching DNA and protein databases, v3
d19 10
a28 6
NO_CDROM=	May not be sold or incorporated into a commercial product
WRKSRC=		${WRKDIR}/fasta3
PKGMESSAGE=	${WRKDIR}/pkg-message
FASTA3_DOCDIR=	${PREFIX}/share/doc/fasta3
FASTA3_DOCS=	00README.1st README COPYRIGHT fasta3x.me fasta3x.doc \
		readme.*
d43 9
a51 1
	@@ ${INSTALL_DATA} ${WRKSRC}/fastlibs ${PREFIX}/etc/fastlibs.sample
d56 1
a56 1
	@@ ${MKDIR} ${FASTA3_DOCDIR}
d58 1
a58 1
	@@ ${INSTALL_DATA} ${WRKSRC}/${docfile} ${FASTA3_DOCDIR}
a60 2
.if !defined(BATCH)
	@@ ${SED} -e 's#%%PREFIX%%#${PREFIX}#' ${.CURDIR}/pkg-message > ${PKGMESSAGE}
a61 1
.endif
@


1.11
log
@Set an expiry date of 2004-08-20 for these BROKEN/IGNORE/FORBIDDEN
ports.  They will be removed on or after that date if they are still
broken and no fix has been submitted to GNATS.
@
text
@d11 1
a11 1
MASTER_SITES=	http://ftp.virginia.edu/pub/fasta/
d15 1
a15 1
MAINTAINER=	wjv@@FreeBSD.org
a16 4

BROKEN=		"Checksum mismatch"
EXPIRATION_DATE=2004-08-20
DEPRECATED=	${BROKEN}
@


1.10
log
@BROKEN: Checksum mismatch
@
text
@d19 2
@


1.9
log
@unPERLify by using REINPLACE_CMD and SED where appropriate.

PR:		47654
Submitted by:	Simon 'portlint' Schubert <corecode@@corecode.ath.cx>
@
text
@d18 2
@


1.8
log
@Clear moonlight beckons.
Requiem mors pacem pkg-comment,
And be calm ports tree.

E Nomini Patri, E Fili, E Spiritu Sancti.
@
text
@d49 1
a49 1
	@@ ${PERL} -pe 's#%%PREFIX%%#${PREFIX}#' pkg-message > ${PKGMESSAGE}
@


1.7
log
@Replace erroneous usage of INSTALL_MAN with INSTALL_DATA.

PR:		28666
Submitted by:	Patrick Li <pat@@databits.net>
@
text
@d5 1
a5 1
# $FreeBSD: ports/biology/fasta3/Makefile,v 1.6 2001/06/27 10:14:49 wjv Exp $
d16 1
@


1.6
log
@Updating my email address in my remaining ports.

Prompted by:	vanilla
@
text
@d5 1
a5 1
# $FreeBSD: ports/biology/fasta3/Makefile,v 1.5 2001/05/07 12:16:33 jeh Exp $
d44 1
a44 1
	@@ ${INSTALL_MAN} ${WRKSRC}/${docfile} ${FASTA3_DOCDIR}
@


1.5
log
@Updata biology/fasta3 to version 33.t08.d4

PR:		27176
Submitted by:	Johann Visagie <johann@@egenetics.com> MAINTAINER
@
text
@d5 1
a5 1
# $FreeBSD: ports/biology/fasta3/Makefile,v 1.4 2001/03/22 09:04:47 sobomax Exp $
d15 1
a15 1
MAINTAINER=	johann@@egenetics.com
@


1.4
log
@Update to 33.t08.d3.

Submitted by:	maintainer
@
text
@d5 1
a5 1
# $FreeBSD$
d9 1
a9 1
PORTVERSION=	33.t08.d3
@


1.3
log
@- A small bugfix lead to a rerelease without a version number change.
- Bumped PORTREVISION.

Submitted by:	Johann Visagie <johann@@egenetics.com>
PR:		25725
@
text
@d5 1
a5 1
# $FreeBSD: ports/biology/fasta3/Makefile,v 1.2 2001/03/08 14:39:07 sf Exp $
d9 1
a9 2
PORTVERSION=	33.t08.d2
PORTREVISION=	1
@


1.2
log
@update to 33.t08.d2.

PR:		25609
Submitted by:	maintainer
@
text
@d5 1
a5 1
# $FreeBSD: ports/biology/fasta3/Makefile,v 1.1 2001/02/11 16:28:59 jeh Exp $
d10 1
@


1.1
log
@- New port: biology/fasta3, which comprises the FASTA3 suite of DNA and
  protein sequence search programs
- FASTA3 updates only some of the elements of FASTA2, which is why I have
  submitted ports of both versions (as biology/fasta and biology/fasta3)

PR:		24716
Submitted by:	Johann Visagie <johann@@egenetics.com>
@
text
@d5 1
a5 1
# $FreeBSD$
d9 1
a9 1
PORTVERSION=	33.t08
@

