marco restelli | 15 Jul 12:12 2009
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emerge freefem++-3.3 fails with doc use flag

Dear all,
   just want to inform you that while emerging freefem++-3.3 I had a
problem in the generation of the documentation due to the missing
gensymb.sty latex file.

Emerging texlive-latexextra fixed the problem.

Best,
   Marco

David Radice | 15 Jul 14:48 2009
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Re: emerge freefem++-3.3 fails with doc use flag

Hello,

thank you for your report. I will fix it in freefem++-3.4.

Cheers,
David

On Wed, Jul 15, 2009 at 12:12 PM, marco restelli<mrestelli <at> gmail.com> wrote:
> Dear all,
>   just want to inform you that while emerging freefem++-3.3 I had a
> problem in the generation of the documentation due to the missing
> gensymb.sty latex file.
>
> Emerging texlive-latexextra fixed the problem.
>
> Best,
>   Marco
>
>

Björn Thorwirth | 16 Jul 15:26 2009
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sci-biology/blast-db fails digest verification

Hi!
I just noticed this digest verification error.

Best regards,

Bjoern 'Thorwirth
--

-- 
Bjoern Thorwirth, Zentrum für Medizinische Biotechnologie,
Universität Duisburg-Essen, Universitätsstr. 2, 45117 Essen, Germany
phone +49 201 183-4026, bjoern.thorwirth <at> uni-due.de

Neil Shephard | 16 Jul 15:56 2009
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Re: sci-biology/blast-db fails digest verification

2009/7/16 Björn Thorwirth <bjoern.thorwirth <at> uni-due.de>:
> Hi!
> I just noticed this digest verification error.
>

For the time being just rebuild the digest locally, cd to the
directory that your gentoo-science overlay is in then...

ebuild sci-biology/blast-db/blast-db-[version].ebuild digest

Neil

--

-- 
"The combination of some data and an aching desire for an answer does
not ensure that a reasonable answer can be extracted from a given body
of data." ~ John Tukey (1986), "Sunset salvo". The American
Statistician 40(1).

Email - nshephard <at> gmail.com
Website - http://slack.ser.man.ac.uk/
Photos - http://www.flickr.com/photos/slackline/

Justin | 16 Jul 17:51 2009
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Re: sci-biology/blast-db fails digest verification

Björn Thorwirth schrieb:
> Hi!
> I just noticed this digest verification error.
> 
> Best regards,
> 
> Bjoern 'Thorwirth
> 

Hi Bjoern,

please redigest it locally. As it isn't a versioned tarball upstream, it
is very likely that it will be brocken. perhaps you should ask one of
our devs if a versioned tarball could be mirrored on our dist-mirrors.

justin

Andrey Kislyuk | 16 Jul 21:20 2009
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Re: sci-biology/blast-db fails digest verification

Hi Bjoern,

The blast-db package is actually a bit of a problem precisely because
of the issue you ran into and I'll probably remove it soon. Instead,
you should use the update_blastdb.pl script that comes with ncbi-tools
(/usr/share/doc/ncbi-tools*/html/blast/update_blastdb.pl) to download
the databases and keep them updated.

So what I intend to do in a future ncbi-tools release is move this
script into /usr/bin and write a tutorial on how to use it, linked
from the ncbi-tools elog output.

Thanks

-ak

2009/7/16 Björn Thorwirth <bjoern.thorwirth <at> uni-due.de>:
> Hi!
> I just noticed this digest verification error.
>
> Best regards,
>
> Bjoern 'Thorwirth
> --
> Bjoern Thorwirth, Zentrum für Medizinische Biotechnologie,
> Universität Duisburg-Essen, Universitätsstr. 2, 45117 Essen, Germany
> phone +49 201 183-4026, bjoern.thorwirth <at> uni-due.de
>
>
>
(Continue reading)

Łukasz P. Michalik | 17 Jul 10:40 2009
Picon

Re: sci-biology/blast-db fails digest verification

2009/7/16 Justin <justin <at> j-schmitz.net>:
> please redigest it locally. As it isn't a versioned tarball upstream, it
> is very likely that it will be brocken. perhaps you should ask one of
> our devs if a versioned tarball could be mirrored on our dist-mirrors.
>

Without looking at the ebuild, isn't that a perfect case for SRC_URI arrows?

--
Pozdrwiam,
Łukasz Michalik

Justin | 17 Jul 11:40 2009
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Re: sci-biology/blast-db fails digest verification

Łukasz P. Michalik schrieb:
> 2009/7/16 Justin <justin <at> j-schmitz.net>:
>> please redigest it locally. As it isn't a versioned tarball upstream, it
>> is very likely that it will be brocken. perhaps you should ask one of
>> our devs if a versioned tarball could be mirrored on our dist-mirrors.
>>
> 
> Without looking at the ebuild, isn't that a perfect case for SRC_URI arrows?
> 
> --
> Pozdrwiam,
> Łukasz Michalik
> 

No because the changes in upstreams tarball will still remain.

Björn Thorwirth | 17 Jul 12:38 2009
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Re: sci-biology/blast-db fails digest verification

Hi Andrey,

Am Donnerstag, den 16.07.2009, 15:20 -0400 schrieb Andrey Kislyuk:
> Hi Bjoern,
> 
> The blast-db package is actually a bit of a problem precisely because
> of the issue you ran into and I'll probably remove it soon. Instead,
> you should use the update_blastdb.pl script that comes with ncbi-tools
> (/usr/share/doc/ncbi-tools*/html/blast/update_blastdb.pl) to download
> the databases and keep them updated.
> 
> So what I intend to do in a future ncbi-tools release is move this
> script into /usr/bin and write a tutorial on how to use it, linked
> from the ncbi-tools elog output.
I did it now with the redigest solution, but the use of the perl script
seems to be the better way. Thanks for all your comments.

Best regards,

Bjoern

 
> 
> Thanks
> 
> -ak
> 
> 2009/7/16 Björn Thorwirth <bjoern.thorwirth <at> uni-due.de>:
> > Hi!
> > I just noticed this digest verification error.
(Continue reading)

Bryan Green | 24 Jul 04:03 2009
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sys-cluster infiniband --> sys-infiniband

Hi,

I notice that a move is underway to move infiniband-related stuff from
sys-cluster to sys-infiniband.  The move appears to be incomplete as the
ebuilds still refer to dependencies in sys-cluster.  Will the ebuilds be
updated to reflect the move soon?
The move seems like a good idea, and I'm not in a rush.  When the move is
done, I'd like to test openib-1.4.

Thanks,
-bryan


Gmane