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|
UNAME := $(shell uname)
ifeq ($(UNAME), Linux)
# For Linux, add a couple extra warnings
#
# trying to strike the right balance on error/warning
# handling is difficult, but here we make most everthing
# an error, but allow unused results and variables for the
# time being.
#
# Disable format-truncation check because StringBasics specifically tests
# to make sure snprintf truncates as expected.
USER_WARNINGS ?= -Wno-format-truncation $(shell if [ X$(CCVERSION) \> X4.2.0 ] ; then echo " -Wno-strict-overflow" ; fi)
# USER_WARNINGS ?= -Werror $(shell if [ X$(CCVERSION) \> X4.2.0 ] ; then echo " -Wno-strict-overflow" ; fi)
#-Wno-strict-overflow
# -Wno-unused-variable $(shell if [ X$(CCVERSION) \> X4.2.0 ] ; then echo " -Wno-unused-result" ; fi)
endif
ifeq ($(UNAME), Darwin)
# Mac OS, nothing to add.
# -Wall contain -Wunused-variable and -Wunused-result from 'man gcc'
endif
#USER_COMPILE_VARS = -D_NO_PHONEHOME
TOOLBASE=\
BaseAsciiMap \
BaseQualityHelper \
BaseUtilities \
BasicHash \
BgzfFileType \
BgzfFileTypeRecovery \
CharBuffer \
Chromosome \
Cigar \
CigarRoller \
Error \
ErrorHandler \
FileType \
FortranFormat \
GenomeSequence \
GenotypeLists \
glfHandler \
GzipFileType \
GzipHeader \
Hash \
IndexBase \
Input \
InputFile \
IntArray \
IntHash \
LongLongCounter \
MapFunction \
MathMatrix \
MathVector \
MemoryAllocators \
MemoryInfo \
MemoryMapArray \
MemoryMap \
MiniDeflate \
NonOverlapRegions \
Parameters \
PedigreeAlleleFreq \
Pedigree \
PedigreeDescription \
PedigreeFamily \
PedigreeGlobals \
PedigreePerson \
PhoneHome \
QuickIndex \
Random \
ReferenceSequence \
SmithWaterman \
Sort \
STLUtilities \
StatGenStatus \
StringAlias \
StringArray \
StringBasics \
StringHash \
StringMap \
Tabix \
UncompressedFileType
SRCONLY=\
PedigreeLoader.cpp \
PedigreeTrim.cpp \
PedigreeTwin.cpp
HDRONLY= \
Constant.h \
CSG_MD5.h \
Generic.h \
GenomeSequenceHelpers.h \
GreedyTupleAligner.h \
InplaceMerge.h \
LongHash.h \
LongInt.h \
MathConstant.h \
PackedVector.h \
PedigreeAlleles.h \
Performance.h \
ReusableVector.h \
SimpleStats.h \
TrimSequence.h \
UnitTest.h
include ../Makefiles/Makefile.lib
CPP_TESTS := $(shell grep -l 'if defined(TEST)' *cpp)
selftest:
@for i in $(CPP_TESTS); do \
if [ "XXX$$i" = XXX ] ;\
then \
continue; \
fi;\
(echo "building in self test $$i"; g++ -DTEST -D__STDC_LIMIT_MACROS -o test_$$i $$i -L. -lcsg -lm -lz -lssl ; ./test_$$i) ; \
if [ $$? -ne 0 ] ; \
then \
echo "make stopped because of errors." ; \
break ; \
fi \
done
|
