[Debian-med-packaging] Bug#792510: blast_formatter: need internet access even if run locally

[Aaron M. Ucko]

Thanks for clarifying.

It sounds like the formatter is retrieving actual data, not just
speculatively setting up a connection, so enabling offline operation
won't be as easy as I'd hoped.

Yann Dumont <yann.dumont0 at gmail.com> writes:

> Well, you may not have assumed so... I run this command in another tab of
> my console (echo of the variable returned nothing, I was kind of suspicion
> there).
>
> Now I have done it correctly (echo returns no), but it doesn't change the
> result : I still have the warnings and the empty result file.
>
> If it can help, when I run formatter with net on, it seem to be downloading
> something (about 500 Ko-2Mo, looking to traffic curve).
>
> 2015-07-15 17:42 GMT+02:00 Aaron M. Ucko <ucko at debian.org>:
>
>> Yes, that's what I meant, assuming you proceeded to run blast_formatter
>> from the same shell session.  I'll take a closer look when I get a chance.
>>
>> -- Aaron
>>
>> Yann Dumont <yann.dumont0 at gmail.com> writes:
>>
>> > I am not sure I have done what you asked correctly. I am not very
>> familiar
>> > with environnement variables. I just run
>> >
>> > $ export NCBI_CONFIG__GENBANK__PREOPEN=no
>> >
>> > without rebooting, and it did not change anything.
>> >
>> > 2015-07-15 16:57 GMT+02:00 Aaron M. Ucko <amu at alum.mit.edu>:
>> >
>> >> Yann Dumont <yann.dumont0 at gmail.com> writes:
>> >>
>> >> > I am currently have some connection issues, so I realized that
>> >> blast_formatter
>> >> > failled when internet connection is off.
>> >>
>> >> I'm sorry to hear that.  Does the environment setting
>> >>
>> >> NCBI_CONFIG__GENBANK__PREOPEN=no
>> >>
>> >> help?
>> >>
>> >> --
>> >> 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