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########################################################################
# Generic command-line makefile for NCBI applications
#
# This assumes the following variables are set in a file called "ncbi.mk"
# which is included by this one. In this case it resides in a directory
# set by the environment variable "NCBI"
#
# NCBI_CC = default compiler to use
# NCBI_CFLAGS1 = default compiler switches (not optimization)
# NCBI_LDFLAGS1 = default compiler switches when linking (not optimization)
# NCBI_OPTFLAG = default optimization (-O)
# NCBI_INCDIR = default toolkit include paths
# NCBI_LIBDIR = default toolkit library paths
# NCBI_ALTLIB = debugging toolkit library paths
# NCBI_VIBFLAG = additional include paths/defines for Vibrant apps
# NCBI_VIBLIBS = additional libraries needed to link Vibrant apps
# NCBI_OTHERLIBS = additional libraries needed to link the system
#
# This enables platform independent makefiles for ncbi toolkit apps. You
# can change any default behavior by setting the variable on the command
# line.
#
# Use gcc complier. "make NCBI_CC=gcc" or "make CC=gcc"
# Change optimization to debug
# "make NCBI_OPTFLAG="-g" NCBI_LIBPATH=$NCBI_ALTLIB"
# or
# "make OPTFLAG="-g" LIBPATH=$NCBI_ALTLIB"
#
# You can also change the behavior permanently in the makefile by changing
# the assignment of the internal variable to the one from the include
# file:
#
# Use gcc compiler.
# Change CC=$(NCBI_CC)
# To CC=gcc
# in the makefile itself
#
# Make debugging version
# OPTFLAG=-g
# LIBPATH=$(NCBI_ALTLIB)
#
# You need to specify the EXE and SRC symbols
#
#######################################################################
#
# default flags for compiling and loading
#
#######################################################################
include $(NCBI)/ncbi.mk
CC = $(NCBI_CC)
#CC = lint
#CC = purify cc -xildoff
CFLAGS1 = $(NCBI_CFLAGS1)
LDFLAGS1 = $(NCBI_LDFLAGS1)
OPTFLAG = -g -D DEBUG_DDV
OTHERLIBS = $(NCBI_OTHERLIBS)
VIBLIBS= $(NCBI_VIBLIBS)
VIBFLAG= $(NCBI_VIBFLAG)
INCPATH = $(NCBI_INCDIR)
LIBPATH = $(NCBI_ALTLIB)
# DEF = -DINTERNAL_NCBI_SEQUIN -DSALSA_DEBUG
SRC = algorend.o cn3dentr.o cn3dmain.o cn3dmatn.o cn3dmesh.o cn3dmodl.o \
cn3dmsel.o cn3dmsg.o cn3dopen.o cn3dsave.o cn3dshim.o \
cn3dwin.o cn3dxprt.o seqcons.o cn3dstyl.o
EXE = Cn3D
CFLAGS = $(CFLAGS1) $(OPTFLAG) -I. -I$(INCPATH) $(VIBFLAG) $(DEF)
LDFLAGS = -I. -I$(INCPATH) $(OPTFLAG) -L../lib -L$(LIBPATH) $(VIBFLAG) $(DEF)
# all NCBI libraries aliased for easy access here
LIB1 = -lncbi
LIB2 = -lncbiobj
LIB3 = -lncbicdr
LIB4 = -lvibrant
LIB5 = -lncbiacc
LIB6 = -lnetcli
LIB7 = -lnetentr
LIB8 = -lncbiNacc
LIB9 = -lncbiCacc
# LIB10 is reserved for NCSA socket library
#LIB10 =
LIB11 = -lncbimla
LIB12 = -lncbitax1
LIB13 = -lncbiid0
LIB18 = -lncbibls2
LIB19 = -lncbispel
LIB20 = -lncbidesk
LIB21 = -lncbibls2
LIB22 = -lncbimmdb
LIB23 = -lncbitool
LIB29 = -lncbitxc1
LIB31 = -lvibnet
LIB33 = -lsmartnet
LIB36 = -lncbitree
LIB41 = -lncbiid1
## To clean out the directory without removing make
##
## Implicit actions
##
## if need a .o, compile the .c
##
.KEEP_STATE:
.c.o :
$(CC) $(CFLAGS) $<
#####################################################################
##
## Here is where you set up your own things to make
##
#####################################################################
## Default thing to make will be "all"
##
all : $(EXE)
## make individual applications and components
##
$(EXE) : $(SRC)
$(CC) -o $(EXE) $(LDFLAGS) $(SRC) $(LIB31) $(LIB20) $(LIB41) -lnetblast $(LIB22) \
$(LIB8) $(LIB7) $(LIB6) $(LIB3) $(LIB4) $(LIB23) $(LIB2) $(LIB1) \
$(NCBI_VIBLIBS) $(LIB36) $(NCBI_OTHERLIBS)
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