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1.4
date	2006.05.07.16.52.33;	author sem;	state dead;
branches;
next	1.3;

1.3
date	2006.02.10.09.37.02;	author lawrance;	state Exp;
branches;
next	1.2;

1.2
date	2001.05.07.12.16.33;	author jeh;	state Exp;
branches;
next	1.1;

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


desc
@@


1.4
log
@- Update to 34.t25.d6

PR:		ports/96063
Submitted by:	maintainer
@
text
@--- Makefile.orig	Thu Feb  9 12:03:37 2006
+++ Makefile	Thu Feb  9 12:07:21 2006
@@@@ -7,7 +7,7 @@@@
 # in dropnfa.c  (wrp 3/19/1998)
 #
 
-CC= gcc -g -O3
+#CC= gcc -g -O3
 #CC=gcc -Wall -pedantic -ansi -g -O
 #CC = gcc -g -DDEBUG
 #CC= /opt/parasoft/bin.linux2/insure -g -pg -DDEBUG
@@@@ -21,7 +21,7 @@@@
 #CFLAGS= -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DSFCHAR="'|'" -c -DMAX_WORKERS=2 -DTHR_EXIT=pthread_exit -DPROGRESS -DSUPERFAMNUM -DUSE_MMAP -D_REENTRANT -DBIG_LIB64 -D_LARGE_FILE_SOURCE -DUSE_FSEEKO -D_FILE_OFFSET_BITS=64 -DHAS_INTTYPES -DSAMP_STATS
 
 # standard options
-CFLAGS= -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DSFCHAR="':'" -c -DMAX_WORKERS=2 -DTHR_EXIT=pthread_exit -DPROGRESS -DFASTA_HOST='"wrpx00.bioch.virginia.edu/fasta/cgi"' -DUSE_MMAP -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC
+CFLAGS+= -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DSFCHAR="':'" -c -DMAX_WORKERS=2 -DTHR_EXIT=pthread_exit -DPROGRESS -DFASTA_HOST='"wrpx00.bioch.virginia.edu/fasta/cgi"' -DUSE_MMAP -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC
 # -I/usr/local/include/mysql -DMYSQL_DB 
 #
 #(for mySQL databases)  (also requires change to Makefile34.common)
@@@@ -35,10 +35,10 @@@@
 
 # for Linux
 THR_SUBS = pthr_subs2
-THR_LIBS = -lpthread
+#THR_LIBS = -lpthread
 THR_CC =
 
-XDIR = /seqprg/bin
+XDIR = ${PREFIX}/bin
 
 DROPNFA_O = drop_nfa.o
 DROPGSW_O = dropgsw.o
@


1.3
log
@Update to 34.t25.d4.

PR:		ports/93052
Submitted by:	Fernan Aguero <fernan@@iib.unsam.edu.ar> (maintainer)
@
text
@@


1.2
log
@Updata biology/fasta3 to version 33.t08.d4

PR:		27176
Submitted by:	Johann Visagie <johann@@egenetics.com> MAINTAINER
@
text
@d1 5
a5 3
--- Makefile.orig	Mon May  7 11:36:23 2001
+++ Makefile	Mon May  7 11:40:36 2001
@@@@ -12,13 +12,13 @@@@
d7 12
a18 7
 # use -DBIG_LIB64 to generate 64-bit offsets in map_db .xin files
 
-CC= cc -O -std1
+#CC= cc -O -std1
 #CC= insure -g -DDEBUG
 #CC= cc -g -DDEBUG -std1
 #CC= gcc -g -Wall
d20 2
a21 9
 # standard line for normal searching
-CFLAGS= -DM10_CONS -DUNIX -DTIMES -DHZ=60 -DBIGMEM -DMAX_WORKERS=4 -DTHR_EXIT=pthread_exit -DPROGRESS -DFASTA_HOST='"fasta.bioch.virginia.edu/fasta/cgi"' -DIS_LITTLE_ENDIAN -DUSE_MMAP
+CFLAGS+= -DM10_CONS -DUNIX -DTIMES -DHZ=60 -DBIGMEM -DMAX_WORKERS=4 -DTHR_EXIT=pthread_exit -DPROGRESS -DFASTA_HOST='"fasta.bioch.virginia.edu/fasta/cgi"' -DIS_LITTLE_ENDIAN -DUSE_MMAP
 # -I/usr/local/include/mysql -DMYSQL_DB 
 #(for mySQL databases)  (also requires change to Makefile33.common)
 
@@@@ -32,11 +32,15 @@@@
 HFLAGS= -o
 NFLAGS= -o
d23 4
a26 4
-#for DEC Unix V4.0 
 THR_SUBS = pthr_subs
-THR_LIBS = -threads
+THR_LIBS = -pthread
d29 1
a29 13
+#for DEC Unix V4.0 
+#THR_SUBS = pthr_subs
+#THR_LIBS = -threads
+#THR_CC =
+#
 #for Sun
 #THR_SUBS = uthr_subs
 #THR_LIBS = -lthread
@@@@ -53,9 +57,9 @@@@
 #THR_LIBS = -lpthreads
 #THR_CC =
 
-XDIR = /seqprg/slib/bin
d32 2
a33 6
 # renamed (fasta33)  programs
-include Makefile33.common
+#include Makefile33.common
 # conventional (fasta3) names
-#include Makefile.common
+include Makefile.common
@


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
@d1 2
a2 2
--- Makefile.orig	Mon Jan 29 13:44:28 2001
+++ Makefile	Mon Jan 29 14:08:43 2001
d14 2
a15 2
-CFLAGS= -DM10_CONS -DUNIX -DTIMES -DHZ=60 -DBIGMEM -DMAX_WORKERS=4 -DTHR_EXIT=pthread_exit -DPROGRESS -DFASTA_HOST='"fasta.bioch.virginia.edu/fasta/cgi"' -DIS_LITTLE_ENDIAN
+CFLAGS+= -DM10_CONS -DUNIX -DTIMES -DHZ=60 -DBIGMEM -DMAX_WORKERS=4 -DTHR_EXIT=pthread_exit -DPROGRESS -DFASTA_HOST='"fasta.bioch.virginia.edu/fasta/cgi"' -DIS_LITTLE_ENDIAN
d33 1
a33 1
+
d46 1
a46 1
+# include Makefile33.common
@

