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Re: undefined vdb_mbed functions in ncbi-vdb2 library - ran out of ideas

Andreas Tille <tille@debian.org> writes:

> Hmmmm, I'm not sure whether vdb came with the original.  I remember I
> had to patch some stuff (specifically droping the 'vbd_' prefix).  But
> I do not remember and I have no spare cycles currently to dive into
> this.

The git HEAD of ncbi-vdb looks mostly good to go at this point, and
AFAICT simply needs to account for the fact that sra-sdk needs both
interfaces/vfs/services-priv.h and libs/vfs/services-priv.h, neither of
which can substitute for the other.  I'd suggest installing the latter
as services-priv-internal.h and patching sra-sdk's
tools/util/validate-names4.c accordingly.

Meanwhile, it looks like sra-sdk's latest "2.10.4+dfsg" upstream tree
wound up as an accidental copy of ncbi-vdb.

Aaron M. Ucko, KB1CJC (amu at alum.mit.edu, ucko at debian.org)
http://www.mit.edu/~amu/ | http://stuff.mit.edu/cgi/finger/?amu@monk.mit.edu

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