# makefile for DOS version of fasta programs
# copyright (c) 1987 William R. Pearson
#

#sun (bsd)
#CC= cc
#CFLAGS= -O -DBIGMEM -Dstrchr=index
#LFLAGS= -lm -o
#NRAND= nrand
#HZ=60

# MSDOS TURBO C commands
#CC= bcc -mm -w-rvl -w-pro -3 -O
CC= bcc32 -WC -w-rvl -w-pro -3 -O
#CFLAGS= -IC:\bc45\include -DFAR_PTR -DALLOCN0 -DMSDOS 
CFLAGS= -IC:\bc45\include -DBIGMEM -DALLOCN0 -DMSDOS -DGAP_OPEN
#CL= bcc -mm
CL= bcc32 -WC
LFLAGS= -LC:\bc45\lib
NRAND= nrand
HZ=100

.c.obj:
	$(CC) $(CFLAGS) -c $<

all32 : align.exe align0.exe lfasta.exe lalign.exe plalign.exe garnier.exe chofas.exe grease.exe psgrease.exe 

fasta.exe : ifastaf.obj apam.obj zgmata.obj f_band.obj l_band.obj g_band.obj llmax.obj scaleswf.obj nxgetaa.obj ndispn.obj time.obj getopt.obj
	$(CL)  $(LFLAGS) -efasta.exe ifastaf.obj zgmata.obj scaleswf.obj nxgetaa.obj ndispn.obj @fasta.rsp

tfasta.exe : tfasta.obj faatran.obj apam.obj zgmata.obj f_band.obj l_band.obj g_band.obj scaleswf.obj tnxgetaa.obj ndispn.obj time.obj getopt.obj
	$(CL)  $(LFLAGS) -etfasta.exe tfasta.obj faatran.obj zgmata.obj scaleswf.obj tnxgetaa.obj ndispn.obj @fasta.rsp

ssearch.exe : ssearch.obj apam.obj sgmata.obj llmax.obj scalesws.obj nxgetaa.obj ndispn.obj time.obj getopt.obj 
	$(CL)  $(LFLAGS) -essearch.exe ssearch.obj sgmata.obj scalesws.obj nxgetaa.obj  ndispn.obj @ssrch.rsp

lfasta.exe : lfasta.obj zlgmata.obj ll_band.obj g_band.obj apam.obj lfgetaa.obj ndispn.obj crck.obj time.obj getopt.obj
	$(CL)  $(LFLAGS) -elfasta.exe lfasta.obj zlgmata.obj ndispn.obj crck.obj @lfasta.rsp

plfasta.exe : plfasta.obj plgmata.obj ll_band.obj g_band.obj lfgetaa.obj ttdispn.obj apam.obj crck.obj time.obj getopt.obj
	$(CL) $(LFLAGS) -eplfasta plfasta.obj plgmata.obj ttdispn.obj crck.obj @lfasta.rsp graphics.lib

prdf.exe : prdf.obj apam.obj zgmata.obj f_band.obj $(NRAND).obj lfgetaa.obj getopt.obj time.obj rweibull.obj
	$(CL)  $(LFLAGS) -eprdf.exe prdf.obj zgmata.obj f_band.obj apam.obj time.obj getopt.obj $(NRAND).obj lfgetaa.obj rweibull.obj

prss.exe : prss.obj apam.obj sgmata.obj $(NRAND).obj lfgetaa.obj time.obj getopt.obj rweibull.obj
	$(CL) $(LFLAGS) -eprss.exe prss.obj apam.obj sgmata.obj $(NRAND).obj lfgetaa.obj time.obj getopt.obj rweibull.obj

relate.exe : relate.obj apam.obj lfgetaa.obj time.obj
	$(CL) $(LFLAGS) -erelate.exe relate.obj apam.obj lfgetaa.obj time.obj getopt.obj

align.exe : align.obj apam.obj llmax.obj lfgetaa.obj ndispn.obj time.obj getopt.obj
	$(CL)  $(LFLAGS) -ealign.exe align.obj apam.obj llmax.obj lfgetaa.obj ndispn.obj time.obj getopt.obj

align0.exe : align.obj apam.obj llmax0.obj lfgetaa.obj ndispn.obj time.obj
	$(CL)  $(LFLAGS) -ealign0.exe align.obj apam.obj llmax0.obj lfgetaa.obj ndispn.obj time.obj getopt.obj

lalign.exe : lalign.obj apam.obj lsim2.obj lfgetaa.obj ndispn.obj ag_stats.obj time.obj getopt.obj
	$(CL) $(LFLAGS) -elalign.exe lalign.obj apam.obj lsim2.obj lfgetaa.obj ndispn.obj ag_stats.obj time.obj getopt.obj

plalign.exe : plalign.obj apam.obj plsim2.obj lfgetaa.obj ps_dispn.obj ag_stats.obj time.obj getopt.obj
	$(CC)  $(LFLAGS) -eplalign.exe plalign.obj apam.obj plsim2.obj @pll.rsp

lfasta.obj : fffasta.c upam.gbl
	$(CC)  $(CFLAGS) -DLFASTA -olfasta.obj -c fffasta.c

plfasta.obj : fffasta.c upam.gbl
	$(CC)  $(CFLAGS) -DLFASTA -DTPLOT -oplfasta.obj -c fffasta.c

ifastaf.obj : fffasta.c upam.gbl
	$(CC)  $(CFLAGS) -DMAXSAV=10 -oifastaf.obj -c fffasta.c

ssearch.obj : ssearch.c upam.gbl
	$(CC)  $(CFLAGS) -ossearch.obj -c ssearch.c

tsearch.obj : ssearch.c upam.gbl
	$(CC)  $(CFLAGS) -DTFASTA -otsearch.obj -c ssearch.c

tfasta.obj : fffasta.c upam.gbl
	$(CC)  $(CFLAGS) -DTFASTA -DMAXSAV=10 -otfasta.obj -c fffasta.c

prdf.obj : prdf.c upam.gbl
	$(CC)  $(CFLAGS) -c -DMAXSAV=10 prdf.c

prss.obj : prss.c upam.gbl
	$(CC)  $(CFLAGS) -c prss.c

align.obj : align.c upam.gbl
	$(CC) $(CFLAGS) -c align.c

lalign.obj : lalign.c upam.gbl

plalign.obj : lalign.c upam.gbl
	$(CC) $(CFLAGS) -DTPLOT -oplalign.obj -c lalign.c

lsim2.obj   : lsim2.c

plsim2.obj   : lsim2.c
	$(CC) $(CFLAGS) -DTPLOT -oplsim2.obj -c lsim2.c

llmax.obj : llmax.c

llmax0.obj : llmax0.c

faatran.obj : upam.gbl aamap.gbl uascii.gbl

pam.obj : uascii.gbl upam.gbl

zlgmata.obj : zzlgmata.c zzgmata.gbl upam.gbl
	$(CC)  $(CFLAGS) -DLFASTA -ozlgmata.obj -c zzlgmata.c

sgmata.obj : zzlgmata.c zzgmata.gbl upam.gbl
	$(CC)  $(CFLAGS) -DSMATCH -osgmata.obj -c zzlgmata.c

plgmata.obj : zzlgmata.c zzgmata.gbl upam.gbl
	$(CC)  $(CFLAGS) -DLFASTA -DTPLOT -oplgmata.obj -c zzlgmata.c

zgmata.obj : zzlgmata.c  zzgmata.gbl upam.gbl
	$(CC)  $(CFLAGS) -ozgmata.obj -c zzlgmata.c

zggmata.obj : zzlgmata.c zzgmata.gbl upam.gbl
	$(CC)  $(CFLAGS) -DGLOBAL -ozggmata.obj -c zzlgmata.c

g_band.obj : g_band.c

l_band.obj : l_band.c

ll_band.obj : l_band.c
	$(CC) $(CFLAGS) -DLFASTA -oll_band.obj -c l_band.c

nxgetaa.obj : nxgetaa.c upam.gbl uascii.gbl altlib.h
	$(CC) $(CFLAGS) -DSFCHAR=':' -c  nxgetaa.c

lfgetaa.obj : nxgetaa.c upam.gbl uascii.gbl
	$(CC) $(CFLAGS) -DNOLIB -olfgetaa.obj -c nxgetaa.c

tnxgetaa.obj : nxgetaa.c upam.gbl uascii.gbl
	$(CC) $(CFLAGS) -DTFASTA -DSFCHAR=':' -otnxgetaa -c nxgetaa.c

ndispn.obj : upam.gbl

ps_dispn.obj : ps_dispn.c upam.gbl

time.obj : time.c
	$(CC) $(CFLAGS) -DHZ=$(HZ) -c time.c

grease.exe : grease.obj lfgetaa.obj
	$(CL) $(LFLAGS) -egrease.exe grease.obj lfgetaa.obj

psgrease.exe : tgrease.obj lfgetaa.obj ps_plotsub.obj
	$(CL) $(LFLAGS)  -epsgrease.exe tgrease.obj lfgetaa.obj ps_plotsub.obj

bestscor.exe : bestscor.obj apam.obj lfgetaa.obj getopt.obj
	$(CC) $(LFLAGS) bestscor.obj apam.obj lfgetaa.obj getopt.obj

garnier.exe : garnier.obj lfgetaa.obj
	$(CL) $(LFLAGS) garnier.obj lfgetaa.obj

garnier.obj : garnier.h

findp.exe : findp.obj qsubs.obj
	$(CL) $(LFLAGS) -efindp findp.obj qsubs.obj

findp.obj : findp.c find.gbl

qsubs.obj : qsubs.c qsubs.h

chofas.exe : chofas.obj lfgetaa.obj
	$(CC) $(LFLAGS) -echofas.exe chofas.obj lfgetaa.obj

fromgb.exe : fromgb.obj
	$(CC) $(LFLAGS) -efromgb.exe fromgb.obj

aacomp.exe : aacomp.obj
	$(CC) $(LFLAGS) -eaacomp.exe aacomp.obj

scaleswf.obj : scalesws.c
	$(CC) $(CFLAGS) -DFASTA_BEST  -oscaleswf.obj -c scalesws.c

scalesws.obj : scalesws.c
	$(CC) $(CFLAGS) -oscalesws.obj -c scalesws.c 

f_band.obj : f_band.c zzgmata.gbl upam.gbl
	$(CC)  $(CFLAGS) -c f_band.c

getopt.obj : getopt.c
	$(CC)  $(CFLAGS) -c getopt.c

ag_stats.obj : ag_stats.c
	$(CC)  $(CFLAGS) -c ag_stats.c

apam.obj : apam.c
	$(CC)  $(CFLAGS) -c apam.c

ps_plotsub.obj : ps_plotsub.c