Author: Andreas Tille <tille@debian.org>
Last-Update: Thu, 29 Sep 2022 13:39:16 +0200
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

--- a/Makefile
+++ b/Makefile
@@ -486,13 +486,13 @@ htscodecs/htscodecs/rANS_static32x16pr_a
 htscodecs/htscodecs/rANS_static32x16pr_sse4.o htscodecs/htscodecs/rANS_static32x16pr_sse4.pico: TARGET_CFLAGS = $(HTS_CFLAGS_SSE4)
 
 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
 
 bgzip.o: bgzip.c config.h $(htslib_bgzf_h) $(htslib_hts_h)
 htsfile.o: htsfile.c config.h $(htslib_hfile_h) $(htslib_hts_h) $(htslib_sam_h) $(htslib_vcf_h)