configure: error: cannot find required auxiliary files: config.guess config.sub

[jflot]

Hello,
I am trying to install hapdup using the provided instructions for conda.
However, the command pushd submodules/margin/ && mkdir build && cd build && cmake .. && make && cp ./margin $CONDA_PREFIX/bin/ && popd fails with the following error:

[ 49%] Building C object CMakeFiles/lpsolve.dir/externalTools/lp_solve/lp_simplex.c.o
[ 49%] Building C object CMakeFiles/lpsolve.dir/externalTools/lp_solve/lp_SOS.c.o
[ 49%] Building C object CMakeFiles/lpsolve.dir/externalTools/lp_solve/lp_utils.c.o
[ 50%] Building C object CMakeFiles/lpsolve.dir/externalTools/lp_solve/yacc_read.c.o
[ 50%] Linking C static library liblpsolve.a
[ 50%] Built target lpsolve
[ 50%] Generating /mnt/ebe/hapdup/submodules/margin/externalTools/htslib/config.h
configure: error: cannot find required auxiliary files: config.guess config.sub
make[2]: *** [CMakeFiles/HTSLIB_CONFIGURED.dir/build.make:75: /mnt/ebe/hapdup/submodules/margin/externalTools/htslib/config.h] Error 1
make[1]: *** [CMakeFiles/Makefile2:154: CMakeFiles/HTSLIB_CONFIGURED.dir/all] Error 2
make: *** [Makefile:101: all] Error 2

Do you have an idea how to solve this problem?
Thanks a lot in advance!

[jflot]

update: I installed an older version of autoconf (2.69) and got it to work, cf. samtools/htslib#1197