Installation error

[demis001]

> make
mpicc -c -Wall -g  -DHTSLIB -I/home/demis001/include:/home/demis001/bin/htslib-1.10.2/include:/home/demis001/bin/samtools-1.10 aux.c -o aux.o
aux.c: In function ‘sam_popen’:
aux.c:230:9: error: ‘htsFile’ {aka ‘struct <anonymous>’} has no member named ‘is_kstream’; did you mean ‘is_cram’?
     fp->is_kstream = 1;
         ^~~~~~~~~~
         is_cram
aux.c:233:11: error: ‘union <anonymous>’ has no member named ‘voidp’
     fp->fp.voidp = ks_init(gzfp);
           ^
aux.c:233:28: warning: passing argument 1 of ‘ks_init’ from incompatible pointer type [-Wincompatible-pointer-types]
     fp->fp.voidp = ks_init(gzfp);
                            ^~~~
In file included from bison.h:13,
                 from aux.c:1:
aux.c:3:1: note: expected ‘gzFile’ {aka ‘struct gzFile_s *’} but argument is of type ‘BGZF *’ {aka ‘struct BGZF *’}
 KSTREAM_INIT(gzFile, gzread, 16384)
 ^

Any idea?

Make file:

WORK=/home/demis001#This should be changed to match your needs
 PREFIX = $(WORK)/bin/bison
 CC = mpicc
 HTSLIB=${WORK}/bin/htslib-1.10.2/libhts.a
 INCLUDE_DIRS = -I$(WORK)/include:${WORK}/bin/htslib-1.10.2/include:${WORK}/bin/samtools-1.10
 LIB_DIRS = -L$(WORK)/lib:${WORK}/bin/htslib-1.10.2/htslib:${WORK}/bin/samtools-1.10
 OPTS := -Wall -g #-g -DDEBUG -DNOTHROTTLE
 #MPI = -lmpich -lmpl #This is usually appropriate for mpich2
 #MPI = #This is appropriate for mvapich2
 MPI = -lmpi #This is usually appropriate for openmpi

[dpryan79]

I don't think I've tried compiling against htslib 1.10, you might have better luck with 1.8 or 1.9.