Remove expired leaf port:

2007-01-07 biology/coalesce: distfile disappeared from homepage

Actually the software is still available at:
http://evolution.gs.washington.edu/lamarc/coalesce.html, but it is
not supported by the authors. Last version is from 1995 and
biology/fluctuate can be used instead.

8 files changed, 1 insertions, 79 deletions

diff --git a/CVSROOT/modules b/CVSROOT/modules
index 888c03be3add..48bb5d9c943f 100644
--- a/CVSROOT/modules
+++ b/CVSROOT/modules
@@ -1356,7 +1356,6 @@ cnet		ports/net/cnet
 cnews		ports/news/cnews
 cnslock		ports/x11/cnslock
 cnupm		ports/net/cnupm
-coalesce	ports/biology/coalesce
 cobf		ports/devel/cobf
 coccinella	ports/net-im/coccinella
 cocktail	ports/devel/cocktail
diff --git a/MOVED b/MOVED
index bed80c5e4173..244aad6fd433 100644
--- a/MOVED
+++ b/MOVED
@@ -2727,3 +2727,4 @@ x11-fm/xfce4-fm||2007-01-22|got obsolete by xfce 4.4 update
 x11-wm/xfce4-systray||2007-01-22|got obsolete by xfce 4.4 update
 russian/rispell||2007-01-23|Has expired: does not work with current textproc/ispell, use rus-ispell port istead
 audio/mp3encode||2007-01-25|Has expired: is unfetchable and has no homepage
+biology/coalesce||2007-01-25|Has expired: Not supported by the authors. Last version is from 1995. Use biology/fluctuate instead.
diff --git a/biology/Makefile b/biology/Makefile
index 0c43bb94a2a1..974605303798 100644
--- a/biology/Makefile
+++ b/biology/Makefile
@@ -15,7 +15,6 @@
     SUBDIR += blast
     SUBDIR += boinc-simap
     SUBDIR += clustalw
-    SUBDIR += coalesce
     SUBDIR += blat
     SUBDIR += chemeq
     SUBDIR += crimap
diff --git a/biology/coalesce/Makefile b/biology/coalesce/Makefile
deleted file mode 100644
index 34b1bbcc55ec..000000000000
--- a/biology/coalesce/Makefile
+++ /dev/null
@@ -1,33 +0,0 @@
-# New ports collection makefile for:	coalesce
-# Date created:		6 August 2001
-# Whom:	      		Johann Visagie <wjv@FreeBSD.org>
-#
-# $FreeBSD$
-#
-
-PORTNAME=	coalesce
-PORTVERSION=	1.50
-CATEGORIES=	biology
-MASTER_SITES=	ftp://evolution.genetics.washington.edu/pub/lamarc/coalesce/
-DISTNAME=	${PORTNAME}1.5b
-EXTRACT_SUFX=	.tar.Z
-
-MAINTAINER=	ports@FreeBSD.org
-COMMENT=	A program to fit population models
-
-DEPRECATED=	distfile disappeared from homepage
-EXPIRATION_DATE=	2007-01-07
-
-NO_WRKSUBDIR=	yes
-ALL_TARGET=	${PORTNAME}
-
-do-install:
-	@ ${INSTALL_PROGRAM} ${WRKSRC}/${PORTNAME} ${PREFIX}/bin/
-
-post-install:
-.if !defined(NOPORTDOCS)
-	@ ${MKDIR} ${DOCSDIR}
-	@ ${INSTALL_DATA} ${WRKSRC}/*.doc ${DOCSDIR}/
-.endif
-
-.include <bsd.port.mk>
diff --git a/biology/coalesce/distinfo b/biology/coalesce/distinfo
deleted file mode 100644
index 478671f7f8e3..000000000000
--- a/biology/coalesce/distinfo
+++ /dev/null
@@ -1,3 +0,0 @@
-MD5 (coalesce1.5b.tar.Z) = feea2925ac514e644c53c27c497f4081
-SHA256 (coalesce1.5b.tar.Z) = 69ac160f39d6f5475f7d16f5f00db225cbac3a7e8801c0d199fc06b06eeb8f64
-SIZE (coalesce1.5b.tar.Z) = 73319
diff --git a/biology/coalesce/files/patch-Makefile b/biology/coalesce/files/patch-Makefile
deleted file mode 100644
index ca16d8fbea20..000000000000
--- a/biology/coalesce/files/patch-Makefile
+++ /dev/null
@@ -1,25 +0,0 @@
---- Makefile.orig	Thu Feb 29 18:00:09 1996
-+++ Makefile	Mon Aug  6 16:32:10 2001
-@@ -1,20 +1,9 @@
- LIBS    = -lm
- BINDIR  = ./bin
--CFLAGS  = -g
--CC        = cc $(CFLAGS)
-+CFLAGS += -g
- DCC     = gcc -g -DDMALLOC_FUNC_CHECK -ansi -pedantic
- DLIBS   = -lm -L/usr/local/lib -ldmalloc
--# -O
- PROGS   =          coalesce fluctuate
- 
- coalesce :  coalesce.c constants.h lamarc.h
--	$(CC) coalesce.c $(LIBS) -o coalesce
--
--modellike.o : modellike.c
--	$(CC) -c modellike.c
--
--fluctuate.o : fluctuate.c
--	$(CC) -c fluctuate.c
--
--fluctuate : fluctuate.o modellike.o
--	$(CC) fluctuate.o modellike.o $(LIBS) -o fluctuate
-+	$(CC) $(CFLAGS) coalesce.c $(LIBS) -o coalesce
diff --git a/biology/coalesce/pkg-descr b/biology/coalesce/pkg-descr
deleted file mode 100644
index 42961b73dd85..000000000000
--- a/biology/coalesce/pkg-descr
+++ /dev/null
@@ -1,12 +0,0 @@
-Coalesce fits the model which has a single population of constant size, and
-estimates 4Nu, where N is the effective population size and u is the neutral
-mutation rate per site
-
-Coalesce forms part of the Lamarc (Likelihood Analysis with Metropolis
-Algorithm using Random Coalescence) suite.  See:
-
-  http://evolution.genetics.washington.edu/lamarc.html
-
-WWW:    http://evolution.genetics.washington.edu/lamarc/recombine.html
-
--- Johann Visagie <wjv@FreeBSD.org>
diff --git a/biology/coalesce/pkg-plist b/biology/coalesce/pkg-plist
deleted file mode 100644
index 3d66316d6716..000000000000
--- a/biology/coalesce/pkg-plist
+++ /dev/null
@@ -1,4 +0,0 @@
-bin/coalesce
-%%PORTDOCS%%%%DOCSDIR%%/coalesce.doc
-%%PORTDOCS%%%%DOCSDIR%%/errors.doc
-%%PORTDOCS%%@dirrm %%DOCSDIR%%