On Saturday, October 20, 2012, Fields, Christopher J wrote:
> On Oct 4, 2012, at 3:11 PM, Peter Cock
> > On Thu, Oct 4, 2012 at 8:56 PM, Shane Sturrock
> >> I've just been setting up our internal galaxy server and following
> >> the instructions to get the NCBI BLAST+ tool working but I kept
> >> getting stuck with it passing -db "" in rather than the actual
> >> database name. It turns out, because I had copied the
> >> examples in the blastdb_p.loc file, I had put two tabs in just
> >> as in the sample doc. This doesn't work. It has to be one tab.
> > You're seeing a double tab in the blastdb_p.loc.sample file?
> > Which line? I should fix that.
> >> However, I would say that it would be better for the code
> >> to be fixed so it can handle a variable number of tabs rather
> >> than being so strict.
> > But that would break valid situations where you might want
> > an empty field in a table. OK, not likely with the BLAST
> > databases, but it could apply to other *.loc files in Galaxy.
> > Regards,
> > Peter
> I agree with Peter. The same argument could be made for any horizontal
> whitespace (my editor for instance converts tabs to spaces), but the simple
> fact is you easily run into convoluted logic dealing with all of the edge
> cases when the easiest fix is to simply conform to the standard and use
Another idea would be for Galaxy to issue a clear error if a loc file has
an inconsistent number of fields/tabs per line.
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