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Author: Andreas Tille <tille@debian.org>
Last-Update: 2022-09-29
Origin: https://lists.debian.org/debian-med/2022/09/msg00053.html
Description: Make sure all symbols of libhts will be really found
FIXME: It would be more elegant to specify libhts.a at the *correct* position rather than force it twice.
Even better would be dynamic linking since we are creating libhts.so as well
--- htslib.orig/Makefile
+++ htslib/Makefile
@@ -525,13 +525,13 @@
$(CC) $(LDFLAGS) -o $@ annot-tsv.o libhts.a $(LIBS) -lpthread
bgzip: bgzip.o libhts.a
- $(CC) $(LDFLAGS) -o $@ bgzip.o libhts.a $(LIBS) -lpthread
+ $(CC) $(LDFLAGS) -o $@ bgzip.o libhts.a $(LIBS) libhts.a -lpthread
htsfile: htsfile.o libhts.a
- $(CC) $(LDFLAGS) -o $@ htsfile.o libhts.a $(LIBS) -lpthread
+ $(CC) $(LDFLAGS) -o $@ htsfile.o libhts.a $(LIBS) libhts.a -lpthread
tabix: tabix.o libhts.a
- $(CC) $(LDFLAGS) -o $@ tabix.o libhts.a $(LIBS) -lpthread
+ $(CC) $(LDFLAGS) -o $@ tabix.o libhts.a $(LIBS) libhts.a -lpthread
annot-tsv.o: annot-tsv.c config.h $(htslib_hts_h) $(htslib_hts_defs_h) $(htslib_khash_str2int_h) $(htslib_kstring_h) $(htslib_kseq_h) $(htslib_bgzf_h) $(htslib_regidx_h) $(textutils_internal_h)
bgzip.o: bgzip.c config.h $(htslib_bgzf_h) $(htslib_hts_h) $(htslib_hfile_h)
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