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staden-lg/src/bap/makefile-solaris
starsareintherose f8b7bfff1b init
2021-12-04 05:07:58 +00:00

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# Makefile for staden X programs (Sun version)
# --------------------------------------------
# This makefile generates the following staden programs which
# run under xterm (normal, `N') and those which run directly under X.
NPROGS= mep nip pip bap sap sip splitp1 splitp2 splitp3 sethelp convert_project
LPROGS= nipl pip sipl
XPROGS= xmep xnip xpip xbap xsap xsip
PROGS= $(NPROGS) $(LPROGS) $(XPROGS)
#
# ``Interesting'' suffices that make needs to know about
#
.SUFFIXES: .a $(SUFFIXES)
#
# Directories
#
SRC=.
STADENSRC=$(SRC)/../staden
STADENBIN=$(STADENSRC)
TEDSRC=$(SRC)/../ted
TEDBIN=$(STADENBIN)
OSPSRC=$(SRC)/osp-bits
OSPBIN=$(OSPSRC)
MISCSRC=$(SRC)/../Misc
MISCBIN=$(MISCSRC)
# Use the ted sources compiled for staden executables
INCLUDES= -I$(SRC) -I$(STADENSRC) -I$(TEDSRC) -I$(OSPSRC) -I$(MISCSRC) -I/usr/openwin/include
#
# Compilers and flags
#
# debug on
CC= gcc
GCCWARNINGS = -Wreturn-type -Wunused -Wswitch -Wcomment -Wformat
CFLAGS= -g -ansi -pedantic $(GCCWARNINGS) $(INCLUDES)
F77= f77
FFLAGS= -ansi -g -Nx500 #-C
LD = f77
SPRO = /opt/SUNWspro/SC2.0.1
LDFLAGS = -Bstatic -g \
-L/opt/cygnus-sol2-1.1/lib/gcc-lib/sparc-sun-solaris2/cygnus-2.0.2 \
-L$(SPRO) -L/usr/ccs/lib -L/usr/ucblib -L/usr/openwin/lib
LIBS = -lm -lucb -lelf -Bdynamic -ldl -Bstatic -lsocket -lnsl -lintl -lgcc
FLIBS = -lV77 -lF77 -lM77
XLIBS = -lXaw -lXt -lXmu -lXext -lX11
LFLAGS = $(FLIBS) $(LIBS)
XLFLAGS = $(FLIBS) $(XLIBS) $(LIBS)
# For stdargs on the Sun when not using gcc
#GNULIB = /usr/local/lib/gcc-gnulib
#
# Avoid compilation of objects in remote directories
#
$(STADENBIN)/%.o : $(STADENSRC)/%.f
$(STADENBIN)/%.o : $(STADENSRC)/%.c
$(TEDBIN)/%.o : $(TEDSRC)/%.f
$(TEDBIN)/%.o : $(TEDSRC)/%.c
#
# Sequence library handling routines
#
SEQLIB=\
$(STADENBIN)/seqlibsubs.o
#
# The C objects, needed by every X program
#
CCORE=\
$(STADENBIN)/postscript.o\
$(STADENBIN)/Graph.o\
$(STADENBIN)/plotLog.o\
$(STADENBIN)/help.o\
$(STADENBIN)/dialogues.o\
$(STADENBIN)/userfacecom.o\
$(STADENBIN)/xmenu.o\
$(STADENBIN)/locks.o\
$(STADENBIN)/mcspec.o\
$(STADENBIN)/helpnmenu.o\
$(STADENBIN)/FtoC.o
COBJS=\
$(STADENBIN)/main.o\
$(CCORE)
COBJS2=\
xbapmain.o\
$(CCORE)
#
# Common objects, needed by every program
#
COMMONOBJSB=\
$(STADENBIN)/fmain.o\
$(STADENBIN)/seeme.o\
$(STADENBIN)/nxspec.o\
$(STADENBIN)/userface.o\
$(STADENBIN)/userfacecom.o\
$(STADENBIN)/nxhelpmenu.o\
$(STADENBIN)/helpnmenu.o\
$(STADENBIN)/FtoC.o\
$(STADENBIN)/subs89.a
COMMONOBJS=\
$(COMMONOBJSB)\
$(STADENBIN)/postscript.o
SCOMMONOBJS=\
$(COMMONOBJSB)
XCOMMONOBJS=\
$(STADENBIN)/seeme.o\
$(STADENBIN)/xspec.o\
$(STADENBIN)/subs89.a\
$(COBJS)
XCOMMONOBJS2=\
$(STADENBIN)/seeme.o\
$(STADENBIN)/xspec.o\
$(STADENBIN)/subs89.a\
$(COBJS2)
#
# Building the programs
# This should be just a linking phase because all of the object
# files and library files are generated using implicit rules.
# We use the fortran compiler to do linking.
#
GIP=\
$(STADENBIN)/gip.o
GIPOBJS=\
$(GIP)\
$(SCOMMONOBJS)
gip: $(GIPOBJS)
$(LD) $(LDFLAGS) -o $@ $(GIPOBJS) $(LFLAGS)
MEP=\
$(STADENBIN)/mep.o\
$(STADENBIN)/mepsub.o\
$(STADENBIN)/asubs89.a\
$(STADENBIN)/plot92.a
MEPOBJS=\
$(MEP)\
$(STADENBIN)/mepmen.o\
$(COMMONOBJS)\
$(STADENBIN)/pl4010.o
XMEPOBJS=\
$(MEP)\
$(STADENBIN)/xmepSpec.o\
$(XCOMMONOBJS)\
$(STADENBIN)/plX.o\
$(STADENBIN)/textOutput.o
mep: $(MEPOBJS)
$(LD) $(LDFLAGS) -o $@ $(MEPOBJS) $(LFLAGS)
xmep: $(XMEPOBJS)
$(LD) $(LDFLAGS) -o $@ $(XMEPOBJS) $(XLFLAGS)
NIP=\
$(STADENBIN)/nip.o\
$(STADENBIN)/patternn.a\
$(STADENBIN)/patternnc.a\
$(STADENBIN)/anals89.a\
$(STADENBIN)/asubs89.a\
$(STADENBIN)/plot92.a $(SEQLIB)
NIPOBJS=\
$(NIP)\
$(STADENBIN)/nipmen.o\
$(COMMONOBJS)\
$(STADENBIN)/pl4010.o
XNIPOBJS=\
$(NIP)\
$(STADENBIN)/xnipSpec.o\
$(XCOMMONOBJS)\
$(STADENBIN)/plX.o\
$(STADENBIN)/textOutput.o
nip: $(NIPOBJS)
$(LD) $(LDFLAGS) -o $@ $(NIPOBJS) $(LFLAGS)
xnip: $(XNIPOBJS)
$(LD) $(LDFLAGS) -o $@ $(XNIPOBJS) $(XLFLAGS)
NIPL=\
$(STADENBIN)/nipl.o\
$(STADENBIN)/patternnc.a\
$(STADENBIN)/anals89.a\
$(STADENBIN)/asubs89.a\
$(SEQLIB)
NIPLOBJS=\
$(NIPL)\
$(SCOMMONOBJS)
nipl: $(NIPLOBJS)
$(LD) $(LDFLAGS) -o $@ $(NIPLOBJS) $(LFLAGS)
PIP=\
$(STADENBIN)/pip.o\
$(STADENBIN)/analps89.a\
$(STADENBIN)/patternp.a\
$(STADENBIN)/patternpc.a\
$(STADENBIN)/asubs89.a\
$(STADENBIN)/plot92.a\
$(SEQLIB)
PIPOBJS=\
$(PIP)\
$(STADENBIN)/pipmen.o\
$(COMMONOBJS)\
$(STADENBIN)/pl4010.o
XPIPOBJS=\
$(PIP)\
$(STADENBIN)/xpipSpec.o\
$(XCOMMONOBJS)\
$(STADENBIN)/plX.o\
$(STADENBIN)/textOutput.o
pip: $(PIPOBJS)
$(LD) $(LDFLAGS) -o $@ $(PIPOBJS) $(LFLAGS)
xpip:$(XPIPOBJS)
$(LD) $(LDFLAGS) -o $@ $(XPIPOBJS) $(XLFLAGS)
PIPL=\
$(STADENBIN)/pipl.o\
$(STADENBIN)/patternpc.a\
$(STADENBIN)/analps89.a\
$(STADENBIN)/asubs89.a\
$(SEQLIB)
PIPLOBJS=\
$(PIPL)\
$(SCOMMONOBJS)
pipl: $(PIPLOBJS)
$(LD) $(LDFLAGS) -o $@ $(PIPLOBJS) $(LFLAGS)
#
# Trace manager objects
#
STDTEDFILES=\
$(TEDBIN)/seq.o\
$(TEDBIN)/seqIOABI.o\
$(TEDBIN)/seqIOALF.o\
$(TEDBIN)/seqIOSCF.o\
$(TEDBIN)/seqIOPlain.o\
$(TEDBIN)/opp.o\
$(TEDBIN)/fpoint.o\
$(TEDBIN)/mach-io.o
TMANOBJS=\
$(STADENBIN)/tman_main.o\
$(STADENBIN)/tman_display.o\
$(STADENBIN)/tman_traceDisplay.o\
$(STADENBIN)/tman_basesDisplay.o\
$(STADENBIN)/tman_context.o\
$(STADENBIN)/tman_gadgets.o\
$(STDTEDFILES)
OSPOBJS=\
$(OSPBIN)/analysis.o\
$(OSPBIN)/our_allo.o\
$(OSPBIN)/paramIOX.o\
$(OSPBIN)/paramIO.o\
$(OSPBIN)/get_scores.o\
$(OSPBIN)/utils.o\
mess.o\
$(GNULIB)
XHACK=\
$(STADENBIN)/SmeLine.o
EDITOR=\
$(XHACK)\
$(STADENBIN)/xsapConEdit.o\
contigEditor.o\
$(STADENBIN)/edUtils.o\
$(STADENBIN)/undo.o\
$(STADENBIN)/Sheet.o\
$(STADENBIN)/select.o\
$(STADENBIN)/extend.o\
$(STADENBIN)/searchUtils.o\
edMenu.o\
oligo.o\
oligocom.o\
subclone.o\
myparams.o\
$(STADENBIN)/trans.o\
$(MISCBIN)/misc.a
TAGEDITOR=\
$(STADENBIN)/tagEditor.o\
$(STADENBIN)/tagdbparse.o\
tagU2.o\
$(STADENBIN)/tagU1.o
BAP=\
bap.o\
dbsysnew.o\
dbsyscommon.o\
actf.o\
dstrand.o\
oligo_sel.o\
llin.o\
guk.o\
$(STADENBIN)/asubs89.a\
$(STADENBIN)/plot92.a
BAPOBJS=\
$(BAP)\
$(COMMONOBJS)\
$(STADENBIN)/pl4010.o\
$(STADENBIN)/conEdit.o\
tagU2.o\
$(OSPBIN)/analysis.o\
$(OSPBIN)/our_allo.o\
$(OSPBIN)/get_scores.o\
$(OSPBIN)/utils.o\
mess.o\
baponly.o\
oligocom.o
XBAPOBJS=\
$(BAP)\
$(XCOMMONOBJS2)\
$(STADENBIN)/plX.o\
$(STADENBIN)/textOutput.o\
$(EDITOR)\
$(TMANOBJS)\
$(TAGEDITOR)\
$(OSPOBJS)
bap: $(BAPOBJS)
$(LD) $(LDFLAGS) -o $@ $(BAPOBJS) $(LFLAGS)
xbap: $(XBAPOBJS)
$(LD) $(LDFLAGS) -o $@ $(XBAPOBJS) $(XLFLAGS)
convert_project: $(STADENBIN)/cvt.o
$(CC) $(CFLAGS) -o $@ $(STADENBIN)/cvt.o
SAP=\
sap.o\
dbsyscommon.o\
dbsysold.o\
$(STADENBIN)/asubs89.a\
$(STADENBIN)/plot92.a
SAPOBJS=\
$(SAP)\
$(STADENBIN)/sapmen.o\
$(COMMONOBJS)\
$(STADENBIN)/pl4010.o
XSAPOBJS=\
$(SAP)\
$(STADENBIN)/xsapSpec.o\
$(XCOMMONOBJS)\
$(STADENBIN)/plX.o\
$(STADENBIN)/textOutput.o
sap: $(SAPOBJS)
$(LD) $(LDFLAGS) -o $@ $(SAPOBJS) $(LFLAGS)
xsap: $(XSAPOBJS)
$(LD) $(LDFLAGS) -o $@ $(XSAPOBJS) $(XLFLAGS)
SAPF=\
$(STADENBIN)/sapf.o\
$(STADENBIN)/dbsyscommon.o\
$(STADENBIN)/dbsysold.o\
$(STADENBIN)/asubs89.a\
$(STADENBIN)/plot92.a
SAPFOBJS=\
$(SAPF)\
$(STADENBIN)/sapmen.o\
$(COMMONOBJS)\
$(STADENBIN)/pl4010.o
sapf: $(SAPFOBJS)
$(LD) $(LDFLAGS) -o $@ $(SAPFOBJS) $(LFLAGS)
SIP=\
$(STADENBIN)/sip.o\
$(STADENBIN)/dias89.a\
$(STADENBIN)/plot92.a\
$(SEQLIB)
SIPOBJS=\
$(SIP)\
$(STADENBIN)/sipmen.o\
$(COMMONOBJS)\
$(STADENBIN)/pl4010.o
XSIPOBJS=\
$(SIP)\
$(STADENBIN)/xsipSpec.o\
$(XCOMMONOBJS)\
$(STADENBIN)/plX.o\
$(STADENBIN)/textOutput.o
sip: $(SIPOBJS)
$(LD) $(LDFLAGS) -o $@ $(SIPOBJS) $(LFLAGS)
xsip: $(XSIPOBJS)
$(LD) $(LDFLAGS) -o $@ $(XSIPOBJS) $(XLFLAGS)
SIPL=\
$(STADENBIN)/sipl.o\
$(STADENBIN)/dias89.a\
$(SEQLIB)
SIPLOBJS=\
$(SIPL)\
$(SCOMMONOBJS)
sipl: $(SIPLOBJS)
$(LD) $(LDFLAGS) -o $@ $(SIPLOBJS) $(LFLAGS)
SETHELP=\
$(STADENBIN)/sethelp.o
SETHELPOBJS=\
$(SETHELP)\
$(SCOMMONOBJS)
sethelp: $(SETHELPOBJS)
$(LD) $(LDFLAGS) -o $@ $(SETHELPOBJS) $(LFLAGS)
SPLITP1=\
$(STADENBIN)/splitp1.o
SPLITP1OBJS=\
$(SPLITP1)\
$(SCOMMONOBJS)
splitp1: $(SPLITP1OBJS)
$(LD) $(LDFLAGS) -o $@ $(SPLITP1OBJS) $(LFLAGS)
SPLITP2=\
$(STADENBIN)/splitp2.o
SPLITP2OBJS=\
$(SPLITP2)\
$(SCOMMONOBJS)
splitp2: $(SPLITP2OBJS)
$(LD) $(LDFLAGS) -o $@ $(SPLITP2OBJS) $(LFLAGS)
SPLITP3=\
$(STADENBIN)/splitp3.o
SPLITP3OBJS=\
$(SPLITP3)\
$(SCOMMONOBJS)
splitp3: $(SPLITP3OBJS)
$(LD) $(LDFLAGS) -o $@ $(SPLITP3OBJS) $(LFLAGS)
#
# Files requiring simple FORTRAN compilation (thing.f -> thing.o)
#
%.o: $(SRC)/%.f
$(F77) $(FFLAGS) -c $<
#
# Files requiring simple C compilation (thing.c -> thing.o)
#
%.o: %.c
$(CC) $(CFLAGS) -c $<
%.o: $(SRC)/%.c
$(CC) $(CFLAGS) -c $<
#
# The UNIX library (archive) mechanism is fairly weak so the following
# procedure is used to generate libraries.
# * split the source file up into files which each contain
# a single function or subroutine
# * compile each of those files
# * insert the object files individually into the library
# Each library is built by using a temporary directory.
# The fortran compilations must be done sequentially in order to
# avoid filling up the (small on this machine) /tmp directory
# with compiler debugging information.
#
%.a: $(SRC)/%.f
BINDIR=`pwd`; \
cd $(SRC); \
SRCDIR=`pwd`; \
TMPDIR=/tmp/staden$$$$; \
if test ! -d $$TMPDIR; \
then mkdir $$TMPDIR; \
fi; \
cd $$TMPDIR; \
rm -f *.f *.o; \
fsplit $$SRCDIR/`expr $< : '.*/\(.*\)' \| $<`; \
$(F77) $(FFLAGS) -c *.f; \
rm *.f; \
rm -f $$BINDIR/$@; \
ar rcv $$BINDIR/$@ *.o; \
ranlib $$BINDIR/$@; \
rm *.o; \
cd $$BINDIR; \
rm -r $$TMPDIR
all: $(NPROGS) $(XPROGS) $(LPROGS)
nprogs: $(NPROGS)
xprogs: $(XPROGS)
lprogs: $(LPROGS)
clean:
rm -f $(PROGS) *.o *.a *~
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