Source: genometester Version: 4.0+git20200511.91cecb5+dfsg-1 Tags: patch upstream User: [email protected] Usertags: ftcbfs
genometester fails to cross build from source in a surprising way. It's a compilation failure, but upon closer inspection the notable difference is that the cross build used g++ whereas the native build used gcc. dh_auto_build overrides CXX, which is the standard variable for the C++ compiler, but the upstream Makefile sets it to gcc. This also means that the native build presently passes CXXFLAGS to the C compiler, which may presently work but fail later. I suggest using the standard variables with standard meanings. Once doing so it readily cross builds. I'm attaching a patch (for forky) for your convenience. Helmut
--- genometester-4.0+git20200511.91cecb5+dfsg.orig/src/Makefile +++ genometester-4.0+git20200511.91cecb5+dfsg/src/Makefile @@ -1,7 +1,7 @@ # Project: GenomeTester v4.0 VERSION = 4.0 -CXX = gcc +CC = gcc # C Files @@ -127,42 +127,42 @@ INCS = -I. BINS = glistmaker glistquery glistcompare -#CXXFLAGS = $(INCS) $(DEBUGFLAGS) -Wall -CXXFLAGS += $(INCS) $(RELEASEFLAGS) -Wall $(LDFLAGS) +#CFLAGS = $(INCS) $(DEBUGFLAGS) -Wall +CFLAGS += $(INCS) $(RELEASEFLAGS) -Wall $(LDFLAGS) .PHONY: all all-before all-after clean clean-custom all: all-before $(BINS) all-after glistmaker: $(LISTMAKER_SOURCES) - $(CXX) $(LISTMAKER_SOURCES) -o glistmaker $(LIBS) $(CXXFLAGS) + $(CC) $(LISTMAKER_SOURCES) -o glistmaker $(LIBS) $(CFLAGS) glistmaker2: $(LISTMAKER2_SOURCES) - $(CXX) $(LISTMAKER2_SOURCES) -o glistmaker2 $(LIBS) $(DEBUGFLAGS) -Wall + $(CC) $(LISTMAKER2_SOURCES) -o glistmaker2 $(LIBS) $(DEBUGFLAGS) -Wall glistquery: $(LISTQUERY_SOURCES) - $(CXX) $(LISTQUERY_SOURCES) -o glistquery $(LIBS) $(CXXFLAGS) + $(CC) $(LISTQUERY_SOURCES) -o glistquery $(LIBS) $(CFLAGS) glistcompare: $(LISTCOMPARE_SOURCES) - $(CXX) $(LISTCOMPARE_SOURCES) -o glistcompare $(LIBS) $(CXXFLAGS) + $(CC) $(LISTCOMPARE_SOURCES) -o glistcompare $(LIBS) $(CFLAGS) gdistribution: $(GDISTRIBUTION_SOURCES) - $(CXX) $(GDISTRIBUTION_SOURCES) -o gdistribution $(LIBS) $(CXXFLAGS) + $(CC) $(GDISTRIBUTION_SOURCES) -o gdistribution $(LIBS) $(CFLAGS) gmer_counter: $(GMER_COUNTER_SOURCES) - $(CXX) $(GMER_COUNTER_SOURCES) -o gmer_counter $(LIBS) $(CXXFLAGS) -Wall + $(CC) $(GMER_COUNTER_SOURCES) -o gmer_counter $(LIBS) $(CFLAGS) -Wall gmer_caller: $(GMER_CALLER_SOURCES) - $(CXX) $(GMER_CALLER_SOURCES) -o gmer_caller $(LIBS) $(CXXFLAGS) -Wall + $(CC) $(GMER_CALLER_SOURCES) -o gmer_caller $(LIBS) $(CFLAGS) -Wall gassembler: $(GASSEMBLER_SOURCES) - $(CXX) $(GASSEMBLER_SOURCES) -o gassembler $(LIBS) $(CXXFLAGS) -Wall + $(CC) $(GASSEMBLER_SOURCES) -o gassembler $(LIBS) $(CFLAGS) -Wall distro: $(DISTRO_SOURCES) - $(CXX) $(DISTRO_SOURCES) -o distro $(LIBS) $(CXXFLAGS) -Wall + $(CC) $(DISTRO_SOURCES) -o distro $(LIBS) $(CFLAGS) -Wall aleq: $(ALEQ_SOURCES) - $(CXX) $(ALEQ_SOURCES) -o aleq $(LIBS) $(CXXFLAGS) -Wall + $(CC) $(ALEQ_SOURCES) -o aleq $(LIBS) $(CFLAGS) -Wall clean: clean-custom rm -f *.o $(BINS) --- genometester-4.0+git20200511.91cecb5+dfsg.orig/src/Makefile.gmer +++ genometester-4.0+git20200511.91cecb5+dfsg/src/Makefile.gmer @@ -1,7 +1,7 @@ # Project: GMER Caller VERSION = 1.0 -CXX = gcc +CC = gcc # C Files @@ -37,18 +37,18 @@ INCS = -I. BINS = gmer_counter gmer_caller -#CXXFLAGS = $(INCS) $(DEBUGFLAGS) -Wall -CXXFLAGS = $(INCS) $(RELEASEFLAGS) -Wall +#XFLAGS = $(INCS) $(DEBUGFLAGS) -Wall +CFLAGS = $(INCS) $(RELEASEFLAGS) -Wall .PHONY: all all-before all-after clean clean-custom all: all-before $(BINS) all-after gmer_counter: $(GMERCOUNTER_SOURCES) - $(CXX) $(GMERCOUNTER_SOURCES) -o gmer_counter $(LIBS) $(CXXFLAGS) -Wall + $(CC) $(GMERCOUNTER_SOURCES) -o gmer_counter $(LIBS) $(CFLAGS) -Wall gmer_caller: $(GMER_CALLER_SOURCES) - $(CXX) $(GMER_CALLER_SOURCES) -o gmer_caller $(LIBS) $(CXXFLAGS) -Wall + $(CC) $(GMER_CALLER_SOURCES) -o gmer_caller $(LIBS) $(CFLAGS) -Wall dist: $(GMERCOUNTER_SOURCES) $(GMER_CALLER_SOURCES) mkdir fastgt_$(VERSION);
