#
# makefile for fasta3, fasta3_t.  Use makefile.pvm for pvcompxx.

# switches for 64-bit addressing - AMD64
CC= cc -g -fast -xarch=amd64 -DSW_SSE2

# debugging options
#CC= cc -g -DDEBUG -xarch=amd64 -DSW_SSE2

# for SUNMP, use -DTHR_EXIT=thr_exit
# HZ=100 for Solaris x86
# Solaris X86 is little endian - be certain IS_BIG_ENDIAN is not defined

CFLAGS= -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DBIGMEM -DSFCHAR="':'" -DMAX_WORKERS=2 -DTHR_EXIT=thr_exit -DPROGRESS -DFASTA_setscope -DUSE_MMAP -DBIG_LIB64 -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DM10_CONS -DSAMP_STATS -DPGM_DOC
HFLAGS= -o
NFLAGS= -o

# use -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64
# for files > 2 GB

#for Sun pthreads (preferred, pthreads used on all other platforms)
THR_SUBS = pthr_subs2
THR_LIBS = -lpthread
THR_CC =

#for Sun threads (no longer necessary as Sun supports pthreads)
#THR_SUBS = uthr_subs2
#THR_LIBS = -lthread
#THR_CC =

LIB_M= -lmopt
XDIR = /seqprg/bin

DROPNFA_O = drop_nfa.o
DROPTFA_O = drop_tfa.o
DROPGSW_O = dropgsw.o smith_waterman_sse2.o
DROPRSS_O = dropnsw.o smith_waterman_sse2.o

# renamed (fasta34)  programs
include Makefile34m.common
# conventional (fasta3) names
# include Makefile.common