# $Id: Makefile.linux_icc 499 2011-01-28 10:20:04Z wrp $
#
# makefile for fasta3, fasta3_t using the Intel icc compiler
#
# This file is designed for 64-bit Linux systems.
# -D_LARGEFILE64_SOURCE and # -DBIG_LIB64 require a 64-bit linux system.

SHELL=/bin/bash

CC= icc -g -O3
LIB_DB=
#CC = icc -g -DDEBUG
#LIB_DB=-lz

#CC=gcc -Wall -pedantic -ansi -g -O
#CC= /usr/local/parasoft/bin/insure -g -DDEBUG

# EBI uses the following with pgcc, -O3 does not work:
# CC= pgcc -O2 -pipe -mcpu=pentiumpro -march=pentiumpro -fomit-frame-pointer

# this file works for x86 LINUX

# standard options
CFLAGS= -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DFASTA_HOST='"your_fasta_host_here"' -DUSE_MMAP -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DPGM_DOC -DBIG_LIB64 -DSAMP_STATS

# -I/usr/local/include/mysql -DMYSQL_DB 
#
#(for mySQL databases)  (also requires change to Makefile36.common)

LIB_M = -lm
#LIB_M = -L/usr/local/lib/mysql -lmysqlclient -lm
# for mySQL databases

HFLAGS= -o
NFLAGS= -o

# for Linux
THR_SUBS = pthr_subs2
THR_LIBS = -lpthread
THR_CC =

BIN = ../bin
XDIR = /seqprg/bin

# set up files for SSE2/Altivec acceleration
#
include ../make/Makefile.sse_alt

# no acceleration
#
DROPGSW_O = $(DROPGSW_NA_O)
DROPLAL_O = $(DROPLAL_NA_O)
DROPGNW_O = $(DROPGNW_NA_O)
DROPLNW_O = $(DROPLNW_NA_O)

# renamed (fasta36)  programs
include ../make/Makefile36m.common
# conventional (fasta3) names
# include ../make/Makefile.common

