[gentoo-science] ncbi c++ toolkit

[gentoo-science] ncbi c++ toolkit

[Davide Cittaro]

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Hi there, I see (and I have installed) that there is an ebuild for  
ncbi C toolkit, that includes many well known biology applications. I  
wonder why there is no ebuild for the ncbi C++ toolkit, also  
available on NCBI ftp server (and this is true also for many other  
package/port managers, i.e. in freebsd).

Cheers

d
/*
Davide Cittaro
HPC and Bioinformatics Systems @ Informatics Core

IFOM - Istituto FIRC di Oncologia Molecolare
via adamello, 16
20139 Milano
Italy

tel.: +39(02)574303355
e-mail: davide.cittaro@ifom-ieo-campus.it
*/





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Re: [gentoo-science] ncbi c++ toolkit

[Olivier Fisette]

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On Wednesday, 13 September 2006 09:40, Davide Cittaro wrote:
> Hi there, I see (and I have installed) that there is an ebuild for
> ncbi C toolkit, that includes many well known biology applications. I
> wonder why there is no ebuild for the ncbi C++ toolkit, also
> available on NCBI ftp server (and this is true also for many other
> package/port managers, i.e. in freebsd).

Hi Davide,

The reason is lack of human resources. I think no one in the Gentoo 
development team is familiar with the NCBI C++ toolkit, so nobody has had any 
particular interest in adding it to Portage. We already have lots of new 
package requests that we try to work on from time to time, but most of our 
time is spent updating existing packages or fixing bugs.

You can help by filing an enhancement request on the Gentoo Bugzilla 
(bugzilla.gentoo.org). It will be assigned to the sci-biology project and 
maybe, eventually, we will have the time to work on it. If you can write an 
ebuild for the package yourself, that would speed up the process 
tremendously.

Cheers,

-- 
Olivier Fisette (ribosome)
Gentoo Linux Developer
Scientific applications, Developer relations

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Re: [gentoo-science] ncbi c++ toolkit

[Davide Cittaro]

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Hi Olivier,
On Sep 13, 2006, at 4:21 PM, Olivier Fisette wrote:

> The reason is lack of human resources. I think no one in the Gentoo
> development team is familiar with the NCBI C++ toolkit, so nobody  
> has had any
> particular interest in adding it to Portage. We already have lots  
> of new
> package requests that we try to work on from time to time, but most  
> of our
> time is spent updating existing packages or fixing bugs.
>

Just to know... how many people are involved as *active* developers  
in gentoo-science? I wrote some ebuilds and I submitted them on  
bugzilla. I wonder if it would be the case to join gentoo-science...

> You can help by filing an enhancement request on the Gentoo Bugzilla
> (bugzilla.gentoo.org). It will be assigned to the sci-biology  
> project and
> maybe, eventually, we will have the time to work on it. If you can  
> write an
> ebuild for the package yourself, that would speed up the process
> tremendously.

At time of writing I'm testing a ncbi-c++ compilation on my system,  
if everything goes fine I'll write down an ebuild to submit.

>
> Cheers,
>

d

> -- 
> Olivier Fisette (ribosome)
> Gentoo Linux Developer
> Scientific applications, Developer relations

/*
Davide Cittaro
HPC and Bioinformatics Systems @ Informatics Core

IFOM - Istituto FIRC di Oncologia Molecolare
via adamello, 16
20139 Milano
Italy

tel.: +39(02)574303355
e-mail: davide.cittaro@ifom-ieo-campus.it
*/





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Re: [gentoo-science] ncbi c++ toolkit

[Olivier Fisette]

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On Wednesday, 13 September 2006 10:37, Davide Cittaro wrote:
> Just to know... how many people are involved as *active* developers
> in gentoo-science? I wrote some ebuilds and I submitted them on
> bugzilla. I wonder if it would be the case to join gentoo-science...

There are 10 developers (with various degrees of activity) in the gentoo 
science project, but only 3 of them are also members of the gentoo 
sci-biology subproject. Not much considering the number and diversity of 
packages we maintain.

We are always looking for more help. If you are interested, I suggest you 
begin by helping us on Bugzilla. Regular contributors are often invited to 
join the development team.

> At time of writing I'm testing a ncbi-c++ compilation on my system,
> if everything goes fine I'll write down an ebuild to submit.

Then I will definitely have a look at it.

-- 
Olivier Fisette (ribosome)
Gentoo Linux Developer
Scientific applications, Developer relations

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Re: [gentoo-science] ncbi c++ toolkit

[Donnie Berkholz]

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Olivier Fisette wrote:
> On Wednesday, 13 September 2006 10:37, Davide Cittaro wrote:
>> Just to know... how many people are involved as *active* developers
>> in gentoo-science? I wrote some ebuilds and I submitted them on
>> bugzilla. I wonder if it would be the case to join gentoo-science...
> 
> There are 10 developers (with various degrees of activity) in the gentoo 
> science project, but only 3 of them are also members of the gentoo 
> sci-biology subproject. Not much considering the number and diversity of 
> packages we maintain.

Indeed, and one of them (me) hardly counts as biology. I'm just in there
for structural biology stuff.

Thanks,
Donnie


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