#
# Borland Makefile for PHYLIP 3.69.
#
# You should not need to change anything, though if you want you could
# change one of first two (noncomment) statements to some directory locations
# that might be more useful.
# The archives when extracted put the source code into a directory .\src,
# and also puts the documentation web pages into .\exe, and makes a directory
# .\exe for the final executables.  Only change the definition of EXEDIR
# if you want something different from that structure.
#
# If it causes trouble in compiling, the CFLAGS statement below may alse need
# to be changed.
#
# To use the PHYLIP v3.69 Makefile, type
#   make install       to compile the whole package and then install
#                        the executables in $(EXEDIR), then remove the object
#                        files to save space
#   make all           to compile the whole package but not install it
#                        or remove the object files
#   make put           to move the executables into $(EXEDIR)
#   make clean         to remove all object files and executables from the
#                        current directory
#   make dnaml         to compile and link one program, (in this example,
#                        DnaML) and leave the executable and object files
#                        in the current directory (where the source code is).
#                        You will have to move the executable into the
#                        executables directory (e.g. "mv dnaml.exe")
#                        Note that the program name should be lower case.
#
# ----------------------------------------------------------------------------
#  (Starting here is the section where you may want to change things)
# ----------------------------------------------------------------------------
#
# these are the two statements we have been talking about:
# one of the reasons for changing them would be to put the executables and\or
# the documentation on a different file system.
# The default configuration is to have within the overall PHYLIP
# directory three subdirectories:  "src" for source code, "exe" for the
# executables, and "doc" for the documentation files.
#
# the following specifies the directory where the executables will be placed
EXEDIR  = ..\exe
#
# ----------------------------------------------------------------------------
#
# This is the CFLAGS statement:
#
# if these next statement say "-g"  and that causes trouble, remove the "-g"
# if the "-lX11" does not work (X compiling not working), you may want to
# remove that switch or fix it.
CFLAGS  = -DWIN32 -5 -O2 -k- 
#
#
#
#
# ----------------------------------------------------------------------------
#  (After this point there should not be any reason to change anything)
# ----------------------------------------------------------------------------
#
#  Specifies the C compiler.
CC        = bcc32 -O2 $(CFLAGS)
#
#
# Borland Objects
#
BOBJS=c0x32.obj    
BLIBS=import32.lib cw32.lib
#
#
# the list of programs
#
PROGS   =          clique.exe consense.exe contml.exe contrast.exe \
                   dnacomp.exe dnadist.exe dnainvar.exe dnaml.exe dnamlk.exe \
                   dnamove.exe dnapars.exe dnapenny.exe dolmove.exe \
                   dollop.exe dolpenny.exe drawgram.exe drawtree.exe \
                   factor.exe fitch.exe gendist.exe kitsch.exe mix.exe \
                   move.exe neighbor.exe pars.exe penny.exe proml.exe \
                   protdist.exe protpars.exe restdist.exe restml.exe \
                   retree.exe seqboot.exe treedist.exe promlk.exe
#
# general commands
#

a1b2c3d4:
	@echo ""
	@echo " To use the PHYLIP v3.69 Makefile, type"
	@echo "     make install       to compile the whole package and then install"
	@echo "                          the executables in $(EXEDIR), then remove the object"
	@echo "                          files to save space"
	@echo "     make all           to compile the whole package but not install it"
	@echo "                          or remove the object files"
	@echo "     make put           to move the executables into $(EXEDIR)"
	@echo "     make clean         to remove all object files and executables from the"
	@echo "                          current directory"
	@echo "     make dnaml         to compile and link one program, (in this example,"
	@echo "                          DnaML) and leave the executable and object files"
	@echo "                          in the current directory (where the source code is)."
	@echo "                          You will have to move the executable into the"
	@echo "                          executables directory (e.g. "mv dnaml.exe ..\exe")"
	@echo "                          Note that the program name should be lower case."
	@echo " "

# The following is so that a command like
# make dnaml 
# will actually do something usefull
clique: clique.exe
consense: consense.exe
contml: contml.exe
contrast: contrast.exe
dnacomp: dnacomp.exe
dnadist: dnadist.exe
dnainvar: dnainvar.exe
dnaml: dnaml.exe
dnamlk: dnamlk.exe
dnamove: dnamove.exe
dnapars: dnapars.exe
dnapenny: dnapenny.exe
dolmove: dolmove.exe
dollop: dollop.exe
dolpenny: dolpenny.exe
drawgram: drawgram.exe
drawtree: drawtree.exe
factor: factor.exe
fitch: fitch.exe
gendist: gendist.exe
kitsch: kitsch.exe
mix: mix.exe
move: move.exe
neighbor: neighbor.exe
pars: pars.exe
penny: penny.exe
proml: proml.exe
promlk: promlk.exe
protdist: protdist.exe
protpars: protpars.exe
restdist: restdist.exe
restml: restml.exe
retree: retree.exe
seqboot: seqboot.exe
treedist: treedist.exe

introduce:
	@echo "Building PHYLIP version 3.69"

all:        introduce $(PROGS)
	@echo "Finished compiling."

install:        all put clean
	@echo "Done."

put:
	@echo "Installing PHYLIP v3.69 binaries in $(EXEDIR)"
	@copy *.exe $(EXEDIR)
	@echo "Installing font files in $(EXEDIR)"
	@copy font* $(EXEDIR)
	@echo "Finished installation."

clean:
	@echo "Removing object files to save space"
	@del *.obj *.ilc *.ild *.ilf *.ils *.map *.res *.tds
	@echo "Finished removing object files.  Now will remove"
	@echo "executable files from the current directory, but not from the"
	@echo "executables directory.  (If some are not here, the makefile"
	@echo "will terminate with an error message but this is not a problem)"
	@echo ""
	@echo "Removing executables from this directory"
	@del $(PROGS)
	@echo "Finished cleanup."

#
# compile the support files with the shared functions
#

phylip.obj:        phylip.h
	$(CC) -c phylip.c

seq.obj:        seq.c phylip.h seq.h
	$(CC) -c seq.c

disc.obj:   disc.c phylip.h disc.h
	$(CC) -c disc.c

discrete.obj:        discrete.c discrete.h phylip.h
	$(CC) -c discrete.c

dollo.obj:        dollo.c phylip.h dollo.h
	$(CC) -c dollo.c

wagner.obj:        wagner.c phylip.h wagner.h
	$(CC) -c wagner.c

dist.obj:   dist.c phylip.h dist.h
	$(CC) -c dist.c

cont.obj:       cont.c cont.h phylip.h
	$(CC) -c cont.c

mlclock.obj:	mlclock.c mlclock.h phylip.h
	$(CC) -c mlclock.c

moves.obj:   moves.c phylip.h moves.h
	$(CC) -c moves.c

printree.obj:	printree.c printree.h phylip.h
	$(CC) -c printree.c


#
# compile the individual programs
#

clique.obj:       clique.c disc.h phylip.h
	$(CC) -c clique.c

clique.exe:       clique.obj clique.res disc.obj phylip.obj
	ilink32 $(BOBJS) clique.obj disc.obj phylip.obj ,clique.exe,, $(BLIBS) ,,clique.res

cons.obj:          cons.c cons.h phylip.h 
	$(CC) -c cons.c

consense.obj:     consense.c cons.c cons.h phylip.h
	$(CC) -c consense.c

consense.exe:     consense.obj consense.res phylip.obj cons.obj
	ilink32 $(BOBJS) consense.obj phylip.obj cons.obj ,consense.exe,, $(BLIBS) ,,consense.res

contml.obj:       contml.c cont.h phylip.h
	$(CC) -c contml.c

contml.exe:       contml.obj contml.res cont.obj phylip.obj
	ilink32 $(BOBJS) contml.obj cont.obj phylip.obj , contml.exe,,$(BLIBS) ,, contml.res 

contrast.obj:       contrast.c cont.h phylip.h
	$(CC) -c contrast.c

contrast.exe:       contrast.obj contrast.res cont.obj phylip.obj
	ilink32 $(BOBJS) contrast.obj cont.obj phylip.obj, contrast.exe,, $(BLIBS),,contrast.res

dnacomp.obj:      dnacomp.c seq.h phylip.h
	$(CC) -c dnacomp.c

dnacomp.exe:      dnacomp.obj seq.obj phylip.obj dnacomp.res
	ilink32 $(BOBJS) dnacomp.obj seq.obj phylip.obj, dnacomp.exe,, $(BLIBS),, dnacomp.res

dnadist.obj:      dnadist.c seq.h phylip.h
	$(CC) -c dnadist.c

dnadist.exe:      dnadist.obj seq.obj phylip.obj dnadist.res
	ilink32 $(BOBJS) dnadist.obj seq.obj phylip.obj,dnadist.exe,,$(BLIBS),, dnadist.res

dnainvar.obj:      dnainvar.c seq.h phylip.h
	$(CC) -c dnainvar.c

dnainvar.exe:      dnainvar.obj seq.obj phylip.obj dnainvar.res
	ilink32 $(BOBJS) dnainvar.obj seq.obj phylip.obj,dnainvar.exe,,$(BLIBS),, dnainvar.res

dnaml.obj:      dnaml.c seq.h phylip.h
	$(CC) -c dnaml.c

dnaml.exe:      dnaml.obj seq.obj phylip.obj dnaml.res
	ilink32 $(BOBJS) dnaml.obj seq.obj phylip.obj,dnaml.exe,,$(BLIBS),, dnaml.res 

dnamlk.obj:      dnamlk.c seq.h phylip.h mlclock.h printree.h
	$(CC) -c dnamlk.c

dnamlk.exe:      dnamlk.obj seq.obj phylip.obj mlclock.obj printree.obj dnamlk.res
	ilink32 $(BOBJS) dnamlk.obj seq.obj phylip.obj mlclock.obj printree.obj,dnamlk.exe,, $(BLIBS),, dnamlk.res 

dnamove.obj:      dnamove.c seq.h moves.h phylip.h
	$(CC) -c dnamove.c

dnamove.exe:      dnamove.obj seq.obj moves.obj phylip.obj dnamove.res
	ilink32 $(BOBJS) dnamove.obj seq.obj moves.obj phylip.obj,dnamove.exe,,$(BLIBS),, dnamove.res 

dnapenny.obj:      dnapenny.c seq.h phylip.h
	$(CC) -c dnapenny.c

dnapenny.exe:      dnapenny.obj seq.obj phylip.obj dnapenny.res
	ilink32 $(BOBJS) dnapenny.obj seq.obj phylip.obj,dnapenny.exe,,$(BLIBS),, dnapenny.res 

dnapars.obj:      dnapars.c seq.h phylip.h
	$(CC) -c dnapars.c

dnapars.exe:      dnapars.obj seq.obj phylip.obj dnapars.res
	ilink32 $(BOBJS) dnapars.obj seq.obj phylip.obj,dnapars.exe,,$(BLIBS),, dnapars.res

dolmove.obj:       dolmove.c disc.h moves.h dollo.h phylip.h
	$(CC) -c dolmove.c

dolmove.exe:       dolmove.obj disc.obj moves.obj dollo.obj phylip.obj dolmove.res
	ilink32 $(BOBJS) dolmove.obj disc.obj moves.obj dollo.obj phylip.obj,dolmove.exe,,$(BLIBS),, dolmove.res

dollop.obj:       dollop.c disc.h dollo.h phylip.h
	$(CC) -c dollop.c

dollop.exe:       dollop.obj disc.obj dollo.obj phylip.obj dollop.res
	ilink32 $(BOBJS) dollop.obj disc.obj dollo.obj phylip.obj,dollop.exe,,$(BLIBS),, dollop.res 

dolpenny.obj:       dolpenny.c disc.h dollo.h phylip.h
	$(CC) -c dolpenny.c

dolpenny.exe:       dolpenny.obj disc.obj dollo.obj phylip.obj dolpenny.res
	ilink32 $(BOBJS) dolpenny.obj disc.obj dollo.obj phylip.obj,dolpenny.exe,,$(BLIBS),, dolpenny.res

draw.obj:   draw.c phylip.h  draw.h
	$(CC) -c -DWIN32 draw.c

draw2.obj:   draw2.c draw.h phylip.h 
	$(CC) -c -DWIN32 draw2.c

drawgram.obj:     drawgram.c draw.h phylip.h
	$(CC) -c -DWIN32 drawgram.c

drawgram.exe:     drawgram.obj draw.obj draw2.obj phylip.obj drawgram.res
	ilink32 $(BOBJS) draw.obj draw2.obj drawgram.obj phylip.obj,drawgram.exe,,$(BLIBS),, drawgram.res 

drawtree.obj:     drawtree.c draw.h phylip.h
	$(CC) -c -DWIN32 drawtree.c

drawtree.exe:     drawtree.obj draw.obj draw2.obj phylip.obj drawtree.res
	ilink32 $(BOBJS) draw.obj draw2.obj drawtree.obj phylip.obj,drawtree.exe,,$(BLIBS),, drawtree.res 

factor.obj:       factor.c phylip.h
	$(CC) -c factor.c

factor.exe:       factor.obj phylip.obj factor.res
	ilink32 $(BOBJS) factor.obj phylip.obj, factor.exe,,$(BLIBS),,factor.res

fitch.obj:        fitch.c dist.h phylip.h
	$(CC) -c fitch.c

fitch.exe:        fitch.obj dist.obj phylip.obj fitch.res
	ilink32 $(BOBJS) fitch.obj dist.obj phylip.obj,fitch.exe,, $(BLIBS),,fitch.res

gendist.obj:      gendist.c phylip.h
	$(CC) -c gendist.c

gendist.exe:      gendist.obj phylip.obj gendist.res
	ilink32 $(BOBJS) gendist.obj phylip.obj,gendist.exe,,$(BLIBS),,gendist.res

kitsch.obj:        kitsch.c dist.h phylip.h
	$(CC) -c kitsch.c

kitsch.exe:        kitsch.obj dist.obj phylip.obj kitsch.res
	ilink32 $(BOBJS) kitsch.obj dist.obj phylip.obj,kitsch.exe,,$(BLIBS),,kitsch.res

mix.obj:        mix.c disc.h wagner.h phylip.h
	$(CC) -c mix.c

mix.exe:        mix.obj disc.obj wagner.obj phylip.obj mix.res
	ilink32 $(BOBJS) mix.obj disc.obj wagner.obj phylip.obj,mix.exe,,$(BLIBS),,mix.res

move.obj:        move.c disc.h moves.h wagner.h phylip.h
	$(CC) -c move.c

move.exe:        move.obj disc.obj moves.obj wagner.obj phylip.obj move.res
	ilink32 $(BOBJS) move.obj disc.obj moves.obj wagner.obj phylip.obj,move.exe,,$(BLIBS),,move.res

neighbor.obj:        neighbor.c dist.h phylip.h
	$(CC) -c neighbor.c

neighbor.exe:        neighbor.obj dist.obj phylip.obj neighbor.res
	ilink32 $(BOBJS) neighbor.obj dist.obj phylip.obj,neighbor.exe,,$(BLIBS),,neighbor.res

pars.obj:   pars.c discrete.c discrete.h phylip.h
	$(CC) -c pars.c

pars.exe: pars.obj discrete.obj pars.res phylip.obj
	ilink32 $(BOBJS) pars.obj discrete.obj phylip.obj,pars.exe,,$(BLIBS),,pars.res

penny.obj:  penny.c disc.h wagner.h phylip.h
	$(CC) -c penny.c

penny.exe:  penny.obj disc.obj wagner.obj phylip.obj penny.res
	ilink32 $(BOBJS) penny.obj disc.obj wagner.obj  phylip.obj,penny.exe,,$(BLIBS),,penny.res

promlk.obj: promlk.c seq.h phylip.h mlclock.h printree.h
	$(CC) -c promlk.c

promlk.exe: promlk.obj seq.obj phylip.obj mlclock.obj printree.obj promlk.res
	ilink32 $(BOBJS) promlk.obj seq.obj phylip.obj mlclock.obj printree.obj, promlk.exe,,$(BLIBS),,promlk.res

proml.obj:      proml.c seq.h phylip.h
	$(CC) -c proml.c

proml.exe:      proml.obj seq.obj phylip.obj proml.res
	ilink32 $(BOBJS) proml.obj seq.obj phylip.obj,proml.exe,,$(BLIBS),,proml.res


protdist.obj:      protdist.c seq.h phylip.h
	$(CC) -c protdist.c

protdist.exe:      protdist.obj seq.obj phylip.obj protdist.res
	ilink32 $(BOBJS) protdist.obj seq.obj phylip.obj,protdist.exe,,$(BLIBS),,protdist.res

protpars.obj: protpars.c seq.h phylip.h
	$(CC) -c protpars.c

protpars.exe: protpars.obj seq.obj phylip.obj protpars.res
	ilink32 $(BOBJS) protpars.obj seq.obj phylip.obj,protpars.exe,,$(BLIBS),,protpars.res

restdist.obj: restdist.c seq.h phylip.h
	 $(CC) -c restdist.c

restdist.exe: restdist.obj restdist.res seq.obj phylip.obj restdist.res
	ilink32 $(BOBJS) restdist.obj seq.obj phylip.obj,restdist.exe,,$(BLIBS),,restdist.res

restml.obj: restml.c seq.h phylip.h
	 $(CC) -c restml.c

restml.exe: restml.obj seq.obj phylip.obj restml.res
	ilink32 $(BOBJS) restml.obj seq.obj phylip.obj,restml.exe,,$(BLIBS),,restml.res

retree.obj:       retree.c moves.h phylip.h
	$(CC) -c retree.c

retree.exe:       retree.obj moves.obj phylip.obj retree.res
	ilink32 $(BOBJS) retree.obj moves.obj phylip.obj,retree.exe,,$(BLIBS),,retree.res

seqboot.obj:      seqboot.c phylip.h
	$(CC) -c seqboot.c

seqboot.exe:      seqboot.obj seq.obj phylip.obj seqboot.res
	ilink32 $(BOBJS) seqboot.obj seq.obj phylip.obj,seqboot.exe,,$(BLIBS),,seqboot.res

treedist.obj:     treedist.c cons.c cons.h phylip.h
	$(CC) -c treedist.c

treedist.exe:     treedist.obj phylip.obj cons.obj treedist.res
	ilink32 $(BOBJS) treedist.obj cons.obj phylip.obj,treedist.exe,,$(BLIBS),,treedist.res

protpars.res:     icons\protpars.rcb
	brcc32 icons\protpars.rcb -foprotpars.res

dnapars.res:     icons\dnapars.rcb
	brcc32 icons\dnapars.rcb -fodnapars.res

dnacomp.res:     icons\dnacomp.rcb
	brcc32 -fodnacomp.res icons\dnacomp.rcb

dnapenny.res:     icons\dnapenny.rcb
	brcc32 icons\dnapenny.rcb -fodnapenny.res

dnamove.res:     icons\dnamove.rcb
	brcc32 icons\dnamove.rcb -fo dnamove.res

dnainvar.res:     icons\dnainvar.rcb
	brcc32 icons\dnainvar.rcb -fodnainvar.res

protdist.res:     icons\protdist.rcb
	brcc32 icons\protdist.rcb -foprotdist.res

dnadist.res:     icons\dnadist.rcb
	brcc32 -fodnadist.res icons\dnadist.rcb

dnaml.res:     icons\dnaml.rcb
	brcc32 icons\dnaml.rcb -fodnaml.res

dnamlk.res:     icons\dnamlk.rcb
	brcc32 icons\dnaml.rcb -fodnamlk.res

promlk.res:   icons\promlk.rcb
	brcc32 icons\promlk.rcb -fopromlk.res

proml.res:     icons\proml.rcb
	brcc32 icons\proml.rcb -foproml.res

seqboot.res:     icons\seqboot.rcb
	brcc32 icons\seqboot.rcb -foseqboot.res

restdist.res:     icons\restdist.rcb
	brcc32 icons\restdist.rcb -forestdist.res

restml.res:     icons\restml.rcb
	brcc32 icons\restml.rcb -forestml.res

fitch.res:     icons\fitch.rcb
	brcc32 icons\fitch.rcb -fofitch.res

kitsch.res:     icons\kitsch.rcb
	brcc32 icons\kitsch.rcb -fokitsch.res

neighbor.res:     icons\neighbor.rcb
	brcc32 icons\neighbor.rcb -foneighbor.res

gendist.res:     icons\gendist.rcb
	brcc32 icons\gendist.rcb -fogendist.res

contml.res:     icons\contml.rcb
	brcc32 -focontml.res icons\contml.rcb

contrast.res:     icons\contrast.rcb
	brcc32 -focontrast.res icons\contrast.rcb

pars.res:     icons\pars.rcb
	brcc32 icons\pars.rcb -fopars.res

mix.res:     icons\mix.rcb
	brcc32 icons\mix.rcb -fomix.res

penny.res:     icons\penny.rcb
	brcc32 icons\penny.rcb -fopenny.res

move.res:     icons\move.rcb
	brcc32 icons\move.rcb -fomove.res

dollop.res:     icons\dollop.rcb
	brcc32 icons\dollop.rcb -fodollop.res

dolpenny.res:     icons\dolpenny.rcb
	brcc32 icons\dollop.rcb -fodolpenny.res

dolmove.res:     icons\dolmove.rcb
	brcc32 icons\dolmove.rcb -fodolmove.res

clique.res:     icons\clique.rcb
	brcc32 -foclique.res icons\clique.rcb

factor.res:     icons\factor.rcb
	 brcc32 icons\factor.rcb -fofactor.res

drawgram.res:     icons\drawgram.rcb
	brcc32 icons\drawgram.rcb -fodrawgram.res

drawtree.res:     icons\drawtree.rcb
	brcc32 icons\drawtree.rcb -fodrawtree.res

consense.res:     icons\consense.rcb
	brcc32 -foconsense.res icons\consense.rcb

treedist.res:     icons\treedist.rcb
	 brcc32 icons\treedist.rcb -fotreedist.res

retree.res:     icons\retree.rcb
	brcc32 icons\retree.rcb -foretree.res