Leo Famulari <l...@famulari.name> writes:
>> + (add-after 'unpack 'fix-includes
>> + (lambda _
>> + (substitute* '("src/mash/Sketch.cpp"
>> "src/mash/CommandFind.cpp")
>> + (("^#include \"kseq\\.h\"")
>> + "#include \"htslib/kseq.h\""))
>> + #t))
>> + (add-before 'configure 'autoconf
>> + (lambda _ (zero? (system* "autoconf")))))))
>> + (native-inputs
>> + `(("autoconf" ,autoconf)
>> + ("capnproto" ,capnproto)
>> + ("htslib" ,htslib)))
>
> Does it only need to use capnproto and htslib while building? Okay if
> so.
I had these in inputs initially and was surprised to see no references.
Both seems to be compiled into the final program[0]: when running "mash
info" on an invalid file (the provided data/refseq.msh), a generic
capnproto exception is thrown (src/capnp/serialize.c++:159).
That raises another question: should the htslib and capnproto licenses
be listed too, since they are part of the binary output?
I'm not a bioinformatician (just a mere sysadmin for such), but have
been going through the tutorial and things appear to work fine.
0: https://github.com/marbl/Mash/blob/master/Makefile.in#L38
