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Re: Chances for cooperation between OSDDLinux and Debian

Dear Dr Raghava,

The situation you are describing sounds very familiar. And all
you write supports this idea of

 - using the Debian/Ubuntu/Bio-Linux packages for Bioinformatics
   that are already provided, i.e. do not package anything

 - focus resources by self-adding the .deb files of particular
   demand that are not yet redistributed by the distribution

The packages gathered via Debian Med may be interpreted as a basis
of your distribution that your distro extends for the best-possible
benefit of your users. Consequently, even when you do not find the time
yourself to perform an update of your packages, chances are high that
the orchestrated-by-Debian-Med regular Bioinformatics package of your
distribution have been updated. Forwarding those will be of immediate
value to your users without respective efforts for maintenance on your side.

Another positive aspect of the Debian Med effort is that your
"more-biologist" group members find someone to partner up for the
creation of a package. And it is fun, too. Software redistributed
by Debian Med is shown here http://blends.debian.org/med/tasks/index

With kind regards,

Steffen Möller

On 18.10.2015 11:26, G. P. S. Raghava wrote:
> Dear Andreasa
> Thanks for email, You are right we have not added anything in last two years. It is all due to time constrained, my team is mainly dominated by biologist rather than computer professional. My team is busy in developing web-based services (average 15 servers per year) which is part of there research publications. Last time two year back, we spend nearly three months to develop OSDDlinux. I am trying to get help from companies but not getting help in packaging. Hope in few months we will have some progress as we are planing to focus again on OSDDlinux  (adding more software and packaging software).
> With best wishes & regards
> Raghava
> ====================================================== 
> # Dr G P S Raghava (FASc, FNASc), Head Bioinformatics Centre   # 
> # Institute of Microbial Technology, Sector-39A, Chandigarh, India   # 
> # Phone: +91-172-2690557, Fax: +91-172-2690632                         # 
> # Eadd: http://www.imtech.res.in/raghava/   raghava@imtech.res.in # 
> #===================================================== 
> Wiki:  http://en.wikipedia.org/wiki/Gajendra_Pal_Singh_Raghava
> GS:  http://scholar.google.co.in/citations?hl=en&user=XK5GUiYAAAAJ
> On 18-Oct-2015, at 11:55, Andreas Tille <andreas@an3as.eu> wrote:
> Hi again,
> I would really like to refresh this mail exchange from years ago.  I
> keep on thinking that OSDDLinux and Debian could work together as
> similarly successfully as BioLinux and Debian.  I noticed that the
> packages in your package pool[1] were not updated nearly two years.  Is
> this a sign of some kind of stable release and you have a development
> area somewhere?  Do you have some repository of source packages where we
> could work with and start some integration into Debian?  Please consider
> cooperation with Debian to join manpower.
> Kind regards
>        Andreas.
> [1] http://osddlinux.osdd.net/repo/ngs/
> On Sun, Feb 02, 2014 at 06:03:00PM +0100, Andreas Tille wrote:
>> Hi again,
>> we had a quite successful sprint and I teached packaging to five people
>> which are now busy packaging their own stuff.  This all goes into
>> official Debian and finally also Ubuntu + BioLinux will profit from
>> this.  I'm not sure whether I was clear in my first contact to you and
>> the OSDDlinux team so I try to rephrase my plan:  We could integrate all
>> programs you are using in OSDDlinux (provided they have a free license)
>> straight into Debian which might save you a lot of extra work.  The way
>> to do this is to inject your packaging in our common platform
>> alioth.debian.org and than Debian Developers from Debian Med team can
>> sponsor this to official Debian mirror after checking its policy
>> conformity.  This workflow is quite established with BioLinux and you
>> youst need to confirm that you like this plan and we will work out
>> the technical details how to go from here.
>> Kind regards
>>     Andreas.
>> On Thu, Jan 30, 2014 at 08:17:09PM +0100, Andreas Tille wrote:
>>> Hi Raghava,
>>> considering that the Debian Med sprint will start tomorrow (I'm just on
>>> my way to Aberdeen) nobody from your team will join.  I'd suggest we
>>> could meet in IRC to find some way to work together efficiently to make
>>> sure Debian Med can support your work as best as possible.
>>> Kind regards
>>>      Andreas.
>>> On Tue, Oct 15, 2013 at 10:20:08PM +0530, G P S Raghava wrote:
>>>> Dear Andreas
>>>> Thanks for your email and offer for cooperation. We are very much interested to work with debian-med and biolinux, as all three debian-med , biolinux and OSDDlinux have common object to provide service to the scientific community. I will write detail email to you soon.
>>>> With best wishes & regards
>>>> Raghava
>>>> #=========================================================#
>>>> # Dr G P S Raghava FASc, FNASc, Scientist & Head Bioinformatics Centre  #
>>>> # CSIR- Institute of Microbial Technology, Sector-39A, Chandigarh, India     #
>>>> # Phone: +91-172-2690557, 0172-6665450 ; Fax: +91-172-2690632           #
>>>> # Eadd: http://www.imtech.res.in/raghava/   Email: raghava@imtech.res.in   #
>>>> #=========================================================# 
>>>> Google Scholar: http://scholar.google.co.in/citations?user=XK5GUiYAAAAJ&hl=en
>>>> On 15-Oct-2013, at 2:36 PM, Andreas Tille wrote:
>>>>> Hi,
>>>>> I'm contacting you on behalf of the Debian Med team which has the goal
>>>>> to package any Free Software that is relevant for medical care straight
>>>>> into Debian.[1]
>>>>> Your OSDDlinux looks like an exciting implementation of our idea to
>>>>> bring Debian to the end user.  Our goal is to prepare as much as
>>>>> possible straight into Debian to make your work as easy as possible - in
>>>>> an optimal situation you should be able to autogenerate your
>>>>> distribution straight from the Debian package pool so your content is
>>>>> actually Debian and you just need to care for some user oriented
>>>>> customisation, support and contact to your users.  I hope you might like
>>>>> this idea - at least the BioLinux distriution[2] which in principle has
>>>>> the very same goal like you just for a different target user group is
>>>>> happy about the cooperation we established since more than three years.
>>>>> If you look at our so called web sentinel for instance on the biology
>>>>> section[3] you will find a lot of matches to your NGS page[4] (and on
>>>>> other pages - just to mention an example).  Our goal would be to work
>>>>> on the missings between your page and our software pool to enable you
>>>>> to profit directly from the work done inside Debian.
>>>>> The cooperation with BioLinux developers was established in a way that
>>>>> we are working inside the very same version control system(s - we are
>>>>> using Git or SVN at the developers preference).  So changes made in
>>>>> BioLinux will immediately forewardet into the Debian package and if a
>>>>> Debian developer changes something this directly leads to an enhancement
>>>>> inside BioLinux.  We regard this as a win-win-situation to save time and
>>>>> man power on both sides.
>>>>> If you like to learn more about this you are kindly invited to sign into
>>>>> the Debian Med mailing list[5] and ask any relevant question there or
>>>>> even simply raise our awareness to some of your high priority package of
>>>>> yours to ask us for inclusion into Debian.
>>>>> Moreover there is an excellent chance to meet Debian Med and BioLinux
>>>>> developers in person because we will have our yearly Sprint meeting in
>>>>> end of January next year in Aberdeen.[6]  This meetings have some
>>>>> tradition[7] in our small community and leaded to the effect that our
>>>>> community was developing way better than before.  If you look at the
>>>>> Debian team analysis graphs that are collected here[8] you see a general
>>>>> pattern of higher activity since 2011 - which was the time when we had
>>>>> our first meeting.  We would like to invite you to become part of this
>>>>> development so if at least one of your developers would like to join
>>>>> this could really be in the interest of both parties.
>>>>> Kind regards and thanks for your contribution to Free Software
>>>>>     Andreas.
>>>>> [1] http://www.debian.org/devel/debian-med
>>>>> [2] http://nebc.nerc.ac.uk/tools/bio-linux/
>>>>> [3] http://debian-med.alioth.debian.org/tasks/bio
>>>>> [4] http://osddlinux.osdd.net/ngs.php
>>>>> [5] http://lists.debian.org/debian-med
>>>>> [6] https://wiki.debian.org/DebianMed/Meeting/Aberdeen2014
>>>>> [7] https://wiki.debian.org/DebianMed/Meeting
>>>>> [8] http://debian-med.debian.net/
>>>>> -- 
>>>>> http://fam-tille.de
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