[Debian-med-packaging] Bug#688689: Bug#688684: Bug#688684: ncbi-blast+: trying to overwrite '/usr/bin/seedtop', which is also in package blast2 1:

Aaron M. Ucko ucko at debian.org
Tue Sep 25 13:52:14 UTC 2012

Olivier Sallou <olivier.sallou at irisa.fr> writes:

> What is seedtop current goal ? 2.2.27 version is a binary. Should
> ncbi-blast+ conflicts with blast2 ?

Good question.  I'd probably rename the new binary to seedtop+, just as
we rename BLAST+'s rpsblast to rpsblast+.  (Alas, Debian's alternatives
system isn't appropriate for either because they're command-line
applications with incompatible syntax. :-/)

> Renaming would be a problem for regular users, not finding correct exe
> (or for there scripts).

The C++ seedtop binary is new and still fairly preliminary, so I
wouldn't expect that to be too much of a problem.  If it is, perhaps
ncbi-blast+ could divert blast2's seedtop and substitute a script that
would figure out which version to launch, depending on whether it saw
long or short option names.

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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