Source: spaln
Version: 3.0.2+dfsg-2
Tags: patch upstream
User: [email protected]
Usertags: ftcbfs
spaln fails to cross build from source, because lists -l flags for
linking libraries in Makefile dependencies. Doing so invokes a behavior
where make looks up the library using a built-in library search path.
This path is architecture-dependent and is one reason for make not being
Multi-Arch: foreign. In any case, make does not succeed at looking up
e.g. -lz as it tries /usr/lib/${DEB_BUILD_MULTIARCH} but not
/usr/lib/${DEB_HOST_MULTIARCH} where it would actually reside.
Generally, listing such dependencies bears little benefit. I'm attaching
a patch that splits out these flags from the CLIB, SLIB and ULIB
variables into a LIBRARIES variable such that they can still be passed
to the compiler but not listed as target dependencies. Once applying it
spaln cross builds successfully. Please consider applying it and also
forwarding it upstream as it benefits other cross compilation
distributions such as Yocto or PtxDist.
Helmut
--- spaln-3.0.2+dfsg.orig/src/Makefile.in
+++ spaln-3.0.2+dfsg/src/Makefile.in
@@ -23,7 +23,8 @@
PROG = $(PROG_B) $(PROG_A) $(PROG_F)
STDH = stdtype.h
-CLIB = clib.a -lpthread -lm -lz
+LIBRARIES = -lpthread -lm -lz
+CLIB = clib.a
SLIB = sblib.a $(CLIB)
ULIB = ublib.a $(SLIB)
@@ -88,36 +89,36 @@
ls $(SRC) $(HDR)
spaln: spaln.cc blksrc.o $(SLIB)
- $(CXX) -o $@ spaln.cc blksrc.o $(SLIB) $(ILIB) $(LDFLAGS)
+ $(CXX) -o $@ spaln.cc blksrc.o $(SLIB) $(ILIB) $(LIBRARIES) $(LDFLAGS)
sortgrcd: sortgrcd.cc $(SLIB)
- $(CXX) -o $@ sortgrcd.cc $(SLIB) $(ILIB) $(LDFLAGS)
+ $(CXX) -o $@ sortgrcd.cc $(SLIB) $(ILIB) $(LIBRARIES) $(LDFLAGS)
makdbs: makdbs.cc dbs.h seq.h bitpat.h $(SLIB)
- $(CXX) -o $@ makdbs.cc $(SLIB) $(ILIB) $(LDFLAGS)
+ $(CXX) -o $@ makdbs.cc $(SLIB) $(ILIB) $(LIBRARIES) $(LDFLAGS)
makmdm: makmdm.cc mdm.h $(CLIB)
- $(CXX) -o $@ makmdm.cc $(CLIB) $(ILIB) $(LDFLAGS)
+ $(CXX) -o $@ makmdm.cc $(CLIB) $(ILIB) $(LIBRARIES) $(LDFLAGS)
dvn: dvn.cc autocomp.h $(ULIB)
- $(CXX) -o $@ dvn.cc $(ULIB) $(ILIB)
+ $(CXX) -o $@ dvn.cc $(ULIB) $(ILIB) $(LIBRARIES)
exinpot: exinpot.cc codepot.h utilseq.h eijunc.h $(SLIB)
- $(CXX) -o $@ exinpot.cc $(SLIB) $(ILIB)
+ $(CXX) -o $@ exinpot.cc $(SLIB) $(ILIB) $(LIBRARIES)
kmers: kmers.cc $(SLIB)
- $(CXX) -o $@ kmers.cc $(SLIB) $(ILIB)
+ $(CXX) -o $@ kmers.cc $(SLIB) $(ILIB) $(LIBRARIES)
npssm: npssm.cc $(SLIB)
- $(CXX) -o $@ npssm.cc $(SLIB) $(ILIB)
+ $(CXX) -o $@ npssm.cc $(SLIB) $(ILIB) $(LIBRARIES)
rdn: rdn.cc $(ULIB)
- $(CXX) -o $@ rdn.cc $(ULIB) $(ILIB)
+ $(CXX) -o $@ rdn.cc $(ULIB) $(ILIB) $(LIBRARIES)
utn: utn.o $(ULIB)
- $(CXX) -o $@ utn.o $(ULIB) $(ILIB)
+ $(CXX) -o $@ utn.o $(ULIB) $(ILIB) $(LIBRARIES)
compild: compild.cc calcserv.h ildpdf.o $(CLIB)
- $(CXX) -o compild compild.cc ildpdf.o $(CLIB) -lm -lgsl -lgslcblas
+ $(CXX) -o compild compild.cc ildpdf.o $(CLIB) $(LIBRARIES) -lm -lgsl -lgslcblas
decompild: decompild.o ildpdf.o fitild.o $(CLIB)
- $(CXX) -o decompild decompild.o ildpdf.o fitild.o $(CLIB) -lgsl -lgslcblas
+ $(CXX) -o decompild decompild.o ildpdf.o fitild.o $(CLIB) $(LIBRARIES) -lgsl -lgslcblas
fitild: fitild.cc ildpdf.o $(CLIB)
- $(CXX) -o $@ -DMAIN fitild.cc ildpdf.o $(CLIB) \
+ $(CXX) -o $@ -DMAIN fitild.cc ildpdf.o $(CLIB) $(LIBRARIES) \
-L/usr/local/lib -lm -lgsl -lgslcblas
plotild: plotild.cc ildpdf.o $(CLIB)
- $(CXX) -o plotild plotild.cc ildpdf.o $(CLIB) -lm -lgsl -lgslcblas
+ $(CXX) -o plotild plotild.cc ildpdf.o $(CLIB) $(LIBRARIES) -lm -lgsl -lgslcblas
clib.o: clib.cc stdtype.h
iolib.o: iolib.cc stdtype.h
