- update to 34.t25.d7

- add MASTER_SITE_LOCAL as a second master site

PR:		ports/97310
Submitted by:	maintainer

biology/fasta3/Makefile

@@ -7,17 +7,17 @@
 #
 
 PORTNAME=	fasta3
-PORTVERSION=	34.t25.d6
+PORTVERSION=	34.t25.d7
 CATEGORIES=	biology
-MASTER_SITES=	ftp://ftp.virginia.edu/pub/fasta/
+MASTER_SITES=	ftp://ftp.virginia.edu/pub/fasta/ \
+		${MASTER_SITE_LOCAL}
+MASTER_SITE_SUBDIR=	sem
 DISTNAME=	fasta${PORTVERSION:S/.//g}
 EXTRACT_SUFX=	.shar.Z
 
 MAINTAINER=	fernan@iib.unsam.edu.ar
 COMMENT=	A collection of programs for searching DNA and protein databases
 
-BROKEN=		Unfetchable
-
 NO_CDROM=	"May not be sold or incorporated into a commercial product"
 WRKSRC=		${WRKDIR}/${PORTNAME}
 SUB_FILES=	pkg-message
@@ -46,9 +46,6 @@ do-extract:
 	  cd ${WRKSRC} && (${GZCAT} ${DISTDIR}/$${file} | ${SH} >/dev/null); \
 	done
 
-post-extract:
-	@ cp ${FILESDIR}/Makefile.freebsd ${WRKSRC}
-
 post-install:
 	${INSTALL_DATA} ${WRKSRC}/fastlibs ${PREFIX}/etc/fastlibs.sample
 	@ ${MKDIR} ${DATADIR}

biology/fasta3/distinfo

@@ -1,3 +1,3 @@
-MD5 (fasta34t25d6.shar.Z) = 462419371d55afd787043d2104c461cc
-SHA256 (fasta34t25d6.shar.Z) = 409abdf657931cb07ea2ae38587d9387d418436662f1c1b889a3829302656449
-SIZE (fasta34t25d6.shar.Z) = 798483
+MD5 (fasta34t25d7.shar.Z) = e809d321f2577c02550a4e0364a92494
+SHA256 (fasta34t25d7.shar.Z) = 94545124dfdb5f590bdb38da62d074db8b5696ab6e0ccbe5e0e821d1894c88fe
+SIZE (fasta34t25d7.shar.Z) = 811798

biology/fasta3/files/Makefile.freebsd

@@ -1,67 +0,0 @@
-#
-# Makefile for building fasta3 on FreeBSD
-#
-# Fernan Aguero - <fernan@iib.unsam.edu.ar>
-
-# we take care of doing variable assignment using the '?=' and '+='
-# operators to preserve the value of variables if they are already
-# defined. In FreeBSD this happens when fasta3 is build from the port or
-# when the user has set these variables -- most notably CC and/or CFLAGS
-# -- in /etc/make.conf
-
-# Compiler executable, and optional flags
-CC?=		gcc
-CFLAGS?=	-g -O2
-
-# your FASTA host
-FASTA_HOST?=	"your_fasta_host"
-
-# common CFLAGS. These are the set of CFLAGS that are always used
-COMMON_CFLAGS=	-DSHOWSIM -DUNIX -DTIMES -DHZ=100 -c -DMAX_WORKERS=2 \
-		-DTHR_EXIT=pthread_exit -DPROGRESS -DUSE_MMAP -D_REENTRANT \
-		-D_LARGE_FILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO \
-		-DHAS_INTTYPES -DSAMP_STATS
-
-# standard options, these will be added to the common CFLAGS if
-# selected below
-STANDARD_CFLAGS=	-DSFCHAR="':'" -DFASTA_HOST='${FASTA_HOST}' \
-			-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -DPGM_DOC
-
-# options for superfamily validations, these will be added to the common
-# CFLAGS if selected below
-SUPERFAMILY_CFLAGS=	-DSFCHAR="'|'" -DSUPERFAMNUM -DBIG_LIB64
-
-# here we define CFLAGS to be the sum of common flags plus a subset of
-# optional flags that define our intended use.
-# The default standard flags are selected by default, although the user
-# can override this if s/he wants
-CFLAGS+=	${COMMON_CFLAGS} ${STANDARD_CFLAGS}
-
-XDIR?=		/usr/local/bin
-
-LIB_M+=		-lm
-
-HFLAGS+=	-o
-NFLAGS+=	-o
-
-
-
-# FreeBSD users BEWARE! Different threading models ahead!
-
-# The threading model has changed along the way from FreeBSD-4 to
-# FreeBSD-6. If you're building fasta3 on your own, you will need to
-# adjust this accordingly. The default works in FreeBSD-6x (currently
-# the recommended major version for use in production). Or better yet,
-# use the biology/fasta3 port from the ports collection, which will use
-# the correct threading library for your OSVERSION
-
-THR_SUBS?=	pthr_subs2
-THR_LIBS?=	-lpthread
-THR_CC?=	
-
-DROPNFA_O = drop_nfa.o
-DROPGSW_O = dropgsw.o
-DROPRSS_O = dropnsw.o
-DROPTFA_O = drop_tfa.o
-
-include Makefile34m.common