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CPLUSPLUS = g++
CC = gcc
# Location of Xerces XML parser library:
XERCES_INC = -ISpines
# XERCES_LIB = -L$(LIB) -lxerces-c1_5_1-ia64-gcc411 -lpthread -lrt
SYS_OPT +=
SYS_INCS +=
SYS_LINK +=
SYS_LIBS +=
SYS_WARN += -ansi -pedantic
# compiler options controlling C++ dialects:
# for compiling
SYS_LANG += -fno-nonansi-builtins
# compiler options controlling C++ dialects:
# for optimization and code-generation
# compiler options to request or suppress warnings:
# warnings not implied by -Wall and -Wextra
SYS_WARN += -Wsign-promo -Woverloaded-virtual
# the ctor-dtor-privacy flag is buggy in 4.1.1
ifneq ($(GPP_VERSION),4.1.1)
SYS_WARN += -Wctor-dtor-privacy
endif
# preprocessor options (for additional warnings)
SYS_WARN += -Wendif-labels
# For more stringent checks, add the following options:
# SYS_WARN += -Wunused
# overrides -Wno-unused (i.e. standard -Wall)
# warns against unused functions, labels, parameters, variables and values
# SYS_WARN += -Wfloat-equal
# warns against floating point (in)equality comparisons
# SYS_WARN += -Wwrite-strings
# warns against code that can try to write into a string constant
# SYS_WARN += -Wold-style-cast
# warns against old-style (C-style) casts to non-void types in C++ programs
# SYS_WARN += -Wformat=2
# equivalent to -Wformat -Wformat-nonliteral -Wformat-security -Wformat-y2k
# -Wformat-nonliteral issues a warning if the format string (to printf, scanf, etc)
# is not a literal string and so cannot be checked
# -Wformat-security issues a warning against using format functions that represent
# security problems, such as a nonliteral format string with
# no format arguments
# -Wformat-y2k issues a warning against strftime format which may yield
# a two-digit year
#endif
# For specific object files, suppress warnings from the assembler, all of
# which are (at the moment) the "Additional NOP may be neccessary to work
# around Itanium A/B step errata" warnings, which don't apply to Itanium 2
# processors. These lines should be removed from this Makefile if they ever
# provide a fix to remove or suppress that warning specifically.
# Since this file is included before anything other targets are defined, the first
# target in this file is the default target if "make" is called without specifying
# a target. So, we "forward declare" the target "all", which is defined later in
# Makefile_targets.
all:
assemble/PullApart.o: assemble/PullApart.cc
@ mkdir -p $(OBJ)/${@D}
$(CPLUSPLUS) $(CPPC) -Wa,-W -c $(SRC)/$*.cc -o $(OBJ)/$*.o
assembly/display/PsSuperRegion.o: assembly/display/PsSuperRegion.cc
@ mkdir -p $(OBJ)/${@D}
$(CPLUSPLUS) $(CPPC) -Wa,-W -c $(SRC)/$*.cc -o $(OBJ)/$*.o
mapped/MarkerHitMgr.o: mapped/MarkerHitMgr.cc
@ mkdir -p $(OBJ)/${@D}
$(CPLUSPLUS) $(CPPC) -Wa,-W -c $(SRC)/$*.cc -o $(OBJ)/$*.o
MergeReads.o: MergeReads.cc
@ mkdir -p $(OBJ)/${@D}
$(CPLUSPLUS) $(CPPC) -Wa,-W -c $(SRC)/$*.cc -o $(OBJ)/$*.o
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