cannot find input file htslib/Makefile.in
Opened this issue · 5 comments
Hi Hyun
This looks like a fantastic set of tools. I came across your prepring on demultiplexing "natural barcodes" in single-cell data. This is relevant to some things we're working on, so I'm keen on trying the demuxlet tool.
Unfortunately I'm having trouble installing APIgenome. I get an error from ./configure complaining that it cannot find htslib/Makefile.in:
[...tuncated output...]
checking for pfbtops... yes
checking for gnuplot... yes
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating libnmf/Makefile
config.status: error: cannot find input file: `htslib/Makefile.in'
(py3) [davis@hh-yoda-04-01 apigenome]$ make
CDPATH="${ZSH_VERSION+.}:" && cd . && aclocal-1.14 -I m4
/bin/sh: aclocal-1.14: command not found
make: *** [Makefile:381: aclocal.m4] Error 127
Can you tell what I'm doing wrong there?
Thanks!
Davis
I think you might need to run:
autoheader && autoconf && htslib/configure
Thanks for the suggestion. This just gives me the following, though:
[apigenome]$ autoheader && autoconf && htslib/configure
bash: htslib/configure: No such file or directory
There is indeed no "configure" file in the htslib directory, although there is a "config.h" file and a "configure.ac" file. Do I need to install htslib in that directory?
Best
Davis
I mean you could run this line autoheader && autoconf && configure in htslib/ directory, this should fix the problem, but it might not be the official solution.
I found the following - no Makefile.in in the htslib directory caused
./configure --prefix /my/prefix/
to fail. My solution was to cd to htslib
autoheader && autoconf && configure --prefix /my/prefix/
It does not produce the Makefile.in so I copied the Makefile to Makefile.in and then cd back up into the apigenome directory and ran
./configure --prefix /my/prefix/
make
make install
there and it has all seemed to work.
My apologies for the late response. Although this issue has not been completely resolved due to pending changes, you can visit https://github.com/statgen/demuxlet if you're interested in getting demuxlet.