Dear Charles,
On 09/05/2011 02:33 AM, Charles Plessy wrote:
Le Sun, Sep 04, 2011 at 08:55:52PM +0200, Steffen Möller a écrit :
What are we doing when one package has multiple publications assigned,
say each announcing a particular development? Ensembl could be such,
where there is one
Hi Olivier,
On 09/05/2011 07:59 AM, Olivier Sallou wrote:
[...]
My basic question to you guys now would be
0) do you share the vision that the packages should come with
instructions how to get the data, not the getData package itself?
This is a difficult point. Data location/format may
On 09/14/2011 09:25 PM, Andreas Tille wrote:
On Wed, Sep 14, 2011 at 07:48:21PM +0200, Thorsten Alteholz wrote:
I just found out that package abyss is currently not maintained within
Debian Med but still in the svn repository. As there are currently
several methods to mark packages no
On 09/16/2011 02:48 PM, Laszlo Kajan wrote:
I have two new packages: libzerg and libzerg-perl: fast Blast parser library
and module:
It's fine. I'll go through it all over the weekend.
Have many thanks for your efforts, best regards,
Steffen
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On 09/26/2011 12:07 PM, Charles Plessy wrote:
Le Mon, Sep 26, 2011 at 11:31:15AM +0200, Luca Capello a écrit :
Given that ncbi-blast+ provides a 'legacy_blast' script without the .pl
extension, the ncbi-blast+-legacy package should reflect that.
Dear all,
I would like to take the opportunity
Hello,
what came to mind was:
* What are your peers using? The suggestion to use a virtual setup
makes perfect sense. I would try multiple distros and decide which you
like best ... and tell us :)
* How good is your internet access? Are clouds to which to log in
remotely an option?
Concerning
On 10/11/2011 01:43 PM, Andreas Tille wrote:
On Tue, Oct 11, 2011 at 06:43:15PM +0900, Charles Plessy wrote:
I am trying to build such an image from the bottom up, and unfortunately I am
blocked at the partitionning during the execution of the Debian Installer.
Dear all,
Strolling through the ISMB exhibitors hall in Vienna I got in
contact with the company SciEngines [1]. They are a
not-so-recent-anymore startup from a neighbouring University,
i.e. a bunch of electroengineers crafting themselves from
A to E and G to Z the FPGA-cards for application
Hi Tony,
On 10/27/2011 01:14 PM, Tony Travis wrote:
On 26/10/11 18:12, Steffen Möller wrote:
Heyho,
During the 1980's, I commissioned a 9216 processor CLIP4R (Cellular
Logic Image Processor) SIMD array built for the MRC by the Rutherford
Appleton labs. This used FPGA's and custom LSI
Hello,
On 11/03/2011 09:06 PM, Mathieu Malaterre wrote:
Hi Mark,
On Thu, Nov 3, 2011 at 5:14 PM, Mark Longair
mark-debianli...@longair.net wrote:
[...]
Unfortunately, I believe that my current approach to creating
the Fiji Debian packages is the wrong one, and it might be worth
taking a
On 11/10/2011 09:21 AM, Andreas Tille wrote:
On Thu, Nov 10, 2011 at 08:49:11AM +0100, Sebastian Hilbert wrote:
I am currently working with upstream to get some problems corrected. Turns
out
that part of the problem is that e.g. ITK would need patches.
How would you consider the chances
Hi Christoph,
I also looked here
https://support.quest.com/Search/ProductInformation.aspx?dsNav=Ns:P_DateLastModifiedSortable|101|-1|,Nea:True,N:268438638-4294962718Dt=JClass
and it does not look good. I suggest to spare the energy of packaging
openastexviewer for the time being. For
Dear all,
our lab's sample management does not scale and needs an overhaul. The
idea is to migrate to an Open Source solution that fits the core needs
(what sample sent by whom in what form in what freezer last used by whom
for what project) and then have this adapted to our further needs.
needs
:) This is quite some cross-posting.
On 11/25/2011 08:39 PM, Eric Maeker wrote:
Le 25 novembre 2011 17:32, Karsten Hilbert karsten.hilb...@gmx.net a écrit :
On Fri, Nov 25, 2011 at 05:05:31PM +0100, Eric Maeker wrote:
While I agree the logical and lofty goal would be to create
a Linux
Hello,
On 12/08/2011 06:24 PM, Nick James wrote:
My suggestion is that we just ignore this script as it is not needed
for Ensembl to run.
We should decide over time what it means for us to see Ensembl run.
The current definition for our package seems to be use the public data
of Ensembl but
Ivo, Mathieu,
On 12/09/2011 10:50 AM, Mathieu Malaterre wrote:
On Fri, Dec 9, 2011 at 10:45 AM, Ivo Maintz i...@maintz.de wrote:
after spending some time by packaging cellprofiler myself, I discovered
your (not finished) package. What do you think about merging our
approaches? I mainly got it
On 12/15/2011 01:24 PM, Andreas Tille wrote:
On Thu, Dec 15, 2011 at 11:47:23AM +0100, Steffen Möller wrote:
The license is the typical non-commercial one. I spoke with
Nick Patterson from upstream, a Debian user himself, who is happy
with us redistributing their work.
Did he said that he
On 12/15/2011 04:30 PM, Andreas Tille wrote:
On Thu, Dec 15, 2011 at 02:47:53PM +0100, Steffen Möller wrote:
On 12/15/2011 01:24 PM, Andreas Tille wrote:
The license is the typical non-commercial one. I spoke with
Nick Patterson from upstream, a Debian user himself, who is happy
with us
On 12/15/2011 04:32 PM, Andreas Tille wrote:
On Thu, Dec 15, 2011 at 03:59:15PM +0100, Eric MAEKER wrote:
I suggest someone to take the management of this list. The
manager will be the one who contact each upstream of our
medicalsrelated project to subscribe and discuss. If no one
wants this
On 12/16/2011 07:22 PM, Thorsten Alteholz wrote:
Hi Andreas,
On Wed, 7 Dec 2011, Andreas Tille wrote:
Resolved circular dependency by recommending autodocktools instead from
depending from it. In case there *really* should be a strong dependency
this is not the correct fix and we need
On 12/18/2011 12:23 AM, Andreas Tille wrote:
On Sat, Dec 17, 2011 at 10:13:05PM +0100, Steffen Möller wrote:
I just tried to install mgltools-pmv in sid and autodocktools was installed
as well. So there should be no problem for the user
but the cycle still seems to be present
On 12/19/2011 09:43 AM, Andreas Tille wrote:
On Mon, Dec 19, 2011 at 12:40:58AM +0100, Steffen Möller wrote:
I actually very much in favour of building mgltools from plain upstream
source as it is provided upstream in one source package and create
different source packages. When doing
Hello,
On 01/03/2012 10:16 PM, Eric Maeker wrote:
Is it possible to add new package in the actual debian stable 0.6.3 ?
Or should new package be build using testing ?
That make a big difference for us because Qt4 versions are not the
same (and code must be adapted).
It should be possible to
Hi Mark,
It is great to see Fiji approaching
On 01/07/2012 02:31 PM, Mark Longair wrote:
I was very happy about your proposal to start a rearrangement of
Fiji that is DFSG compliant. In parallel to that, I would like to discuss
the possibility to upload more or less what you have with
Hello,
this is a friendly community addressing issues in next generation sequencing
http://seqanswers.com
and there is a NAR paper on it
http://nar.oxfordjournals.org/content/early/2011/11/15/nar.gkr1058.abstract
I liked how they communicate in their forum. And it also rendered it very
Dear Scott,
Thank you for your stimulating request. I feel reminded about some grid
computing past of mine and dynamic runtime environments.
From what I observe, though, those technologies never were adopted (beyond
experimental stages) for heterogeneous setups like
those in bioinformatics. I
Hello,
I just received this invite to submit papers. I did not read them to be
Open, but they are free (as in beer, if beer was any healthy) at least.
Well, they are a bit blank, still.
Anyway, only following it with half an eye, I am excited about the progress
the medical side of Debian Med is
Hello,
The annual Bioinformatics Open Source Conference (BOSC) since Boston
comes with premeetings, the Hackathons or Codefest. This year, BOSC [1]
is in California, and thus out of reach for many volunteer contributors
to Open Source Biology. So, some brave folks came up with the idea to
have a
On 02/21/2012 03:50 PM, Andreas Tille wrote:
I admit I can not give any sure confirmation whether I will join or not
but there is a 60% chance that I will show up at this event. I'm
specifically interested in extending the time over the weekend
(21.+22.7.) as it is suggested unofficially.
Today, Amazon started its simple workflow system - an integration of
one's cloud-or-home-run applications:
http://www.allthingsdistributed.com/2012/02/Amazon-Simple-Workflow-Service.html
I do not know what this means to us, yet. Let opinions fly in.
Cheers,
Steffen
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Hello,
On 02/27/2012 05:58 PM, Alan R Williams wrote:
We (the myGrid team at Manchester) have had an e-mail from the Open
Invention Network - http://www.openinventionnetwork.com .
I'm seeking other people's opinion about if the patent portfolio
initiative is a good thing and whether it is
Hello,
On 03/05/2012 08:18 AM, Andreas Tille wrote:
is this something we should suggest for biologists?
Somewhat on the periphery. I suggest to leave it with Debian Science.
Best,
Steffen
(new) lammps-doc_0~20120228.git268a14f-1_all.deb extra doc
Molecular Dynamics Simulator. Documentation
On 03/08/2012 10:00 AM, Andreas Tille wrote:
On Thu, Mar 08, 2012 at 09:48:03AM +0100, Johan Moreau wrote:
Le 07/03/12 11:57, Andreas Tille a écrit :
Andreas thank you for this message. The workshop about packaging medical
applications for Debian is a good idea. I will try to find a room.
Hello,
On 03/13/2012 07:42 PM, Thorsten Alteholz wrote:
according to http://valdarlab.unc.edu/software.html bagphenotype is no
longer maintained and shall be replaced by bagpipe. What shall we do?
bagphenotype is not in the distribution and I think it should not for
the time being. It is too
Agreed. And then there is this ever-lasting issue about the uncertainty
what our home page should be.
Personally, I do not mind to leave much of the direct user interaction
with BioLinux, much like Ubuntu taking a lot from us. I am more
concerned about the synchronicity of our packaging.
So, once
On 03/15/2012 02:36 PM, Yaroslav Halchenko wrote:
Agreed. And then there is this ever-lasting issue about the uncertainty
what our home page should be.
yeah -- I always just google debian-med and choose one which fits me
best
:) I just use (some of) the packages ...
IMHO ideally it should
On 03/15/2012 03:09 PM, Yaroslav Halchenko wrote:
IMHO ideally it should be something easy to remember e.g.
med.debian.net ? ;)
And bio.debian.net as an alias :) Just kidding. Somewhat. I would
support your suggestion.
;-)
My hunch is that we need an exchange about the practical side
On 03/16/2012 04:35 PM, Yaroslav Halchenko wrote:
BTW -- why virtually noone on #debian-med? ;)
:o) I presume this is because the list is working.
There are too many distractions already that I would want to have yet
another source. But admittedly it would be great to have some live forum
for
On 03/17/2012 11:50 AM, Andreas Tille wrote:
Hi,
On Sat, Mar 17, 2012 at 03:01:05PM +0900, Charles Plessy wrote:
there is also a discussion on what is the Linux distros best suited for
bioinformatics on BioStar.
On 03/19/2012 03:03 AM, Yaroslav Halchenko wrote:
nice, polite and informative reply, but (just my 0.1 cents) sorry
-- DebianMed is buried so deep in it that it remains as invisible as it
was before (i.e absent entirely) on that page. And I think it deserves
much more ;-)
:o) If you think
On 04/26/2012 04:21 PM, Andreas Tille wrote:
Hi Ivo,
thanks for working on this. However, don't you think some long
description would make it more clear to the reader what this
package actually is good for? ;-)
I added some extra lines. Are they ok? Hey, the package already had a
On 05/17/2012 08:57 AM, Andreas Tille wrote:
Hi,
On Thu, May 17, 2012 at 06:57:29AM +0900, Charles Plessy wrote:
we have a problem... EMBOSS also distributes a program called pscan, as well
as
the pscan package itself (Format string security checker for C files).
This should
Hello,
On 05/22/2012 01:15 PM, Andreas Tille wrote:
On Tue, May 22, 2012 at 09:41:45AM +0200, Olivier Sallou wrote:
I think that biojava3 is not compatible, and should be a different
Debian release (biojava3 package).
Well, fine for me if we will manage to maintain two packages (currently
we
On 05/29/2012 02:23 PM, Mehdi Dogguy wrote:
On 29/05/12 14:17, Andreas Tille wrote:
On Tue, May 29, 2012 at 02:03:27PM +0200, Niels Thykier wrote:
On 2012-05-29 13:59, Olivier Sallou wrote:
Hi, biojava3 makes use of json.org library. this library is not
packaged in Debian. After a google, I
Hello,
On 06/14/2012 08:32 AM, Andreas Tille wrote:
just for the sake of interest: Anybody from Debian Med plans to join
this?
Me.
Steffen
On Sun, Jun 10, 2012 at 09:35:26AM +0200, Pjotr Prins wrote:
We are organising a 2 day codefest near Bergamo:
Hi Thorsten,
On 06/27/2012 10:32 PM, Thorsten Alteholz wrote:
Hi,
could somebody with more perl experience please have a look whether
perl-include.patch of meme really is as desired? Or is there
another way how things should be done in such a case?
Further the meme documentation (to be
Hello,
On 07/17/2012 06:13 PM, Olivier Sallou wrote:
I have seen Reputer in Debian tasks.
Its license should be modified to non-commercial.
Furthermore, we cannot download the software. To get it, one need to
send a document to the author S. Kurtz.
I have already been in contact with him
Hello all,
On 08/04/2012 06:21 PM, Andreas Tille wrote:
On Fri, Aug 03, 2012 at 02:32:48PM +, Steffen Möller wrote:
Author: moeller
Date: 2012-08-03 14:32:48 + (Fri, 03 Aug 2012)
New Revision: 11983
Log:
Adding build instructions for psipred - another of those tools besides
VMD
Hello,
there is an issue with MGLTools. OpenGL does not come up. My hunch is a
change in swig to affect the Python wrappers. But I am only wildly
guessing. Is there anybody out there prepared for a deeper bug hunting?
The version provided directly by upstream directly works flawlessly. I
will ask
compiled
again in today's environment.
Cheers,
Steffen
On Mon, Sep 03, 2012 at 06:18:26PM +0200, Steffen Möller wrote:
Hello,
there is an issue with MGLTools. OpenGL does not come up. My hunch is a
change in swig to affect the Python wrappers. But I am only wildly
guessing
Hello,
On 09/04/2012 05:08 PM, Laszlo Kajan wrote:
Please upload the new proftmb - there is a new upstream and I added a debug
package (NEW). The latter is the reason why I can not do it for
myself. Thank you for the help!
I can do that tonight, anybody earlier at it than me please send me an
On 09/15/2012 11:13 AM, Andreas Tille wrote:
Hi Steffen,
On Fri, Sep 14, 2012 at 08:26:22PM +, Steffen Möller wrote:
Modified: trunk/packages/libsbml/trunk/debian/rules
===
--- trunk/packages/libsbml/trunk/debian/rules
On 09/15/2012 12:26 PM, Steffen Möller wrote:
On 09/15/2012 11:13 AM, Andreas Tille wrote:
Hi Steffen,
On Fri, Sep 14, 2012 at 08:26:22PM +, Steffen Möller wrote:
Modified: trunk/packages/libsbml/trunk/debian/rules
Hello,
I am a bit swamped. I do not see anything for Debian itself, but for upstream
work there is a lot. How about teaming up with the OBF on this?
Many greetings
Steffen
Original-Nachricht
Datum: Sat, 6 Oct 2012 17:05:03 +0200
Von: Andreas Tille andr...@an3as.eu
An:
Dear all,
We will have a Sprint again, and it is already two months from now,
on February 23rd and 24th in Kiel, Germany,
with the meeting's homepage on
http://wiki.debian.org/DebianMed/Meeting/Kiel2013
http://wiki.debian.org/DebianMed/Meeting/Kiel2013lang=de
as a reference. As for the last
Dear all,
Andreas suggested:
[...]
+1
If somebody might imagine some specific Debian Med
internal release goals for Jessie this should probably be discussed now.
* Taverna.org.uk in Debian (not as easy as we would like it to be)
* Find ties to experts to join our distro for
-
Hi Benjamin,
I joined the Alioth group debian-med some minutes ago (user name benjamin-
guest). I am going to help out with some small R packages (e.g., r-cran-
munsell, r-cran-scales) that are required to update r-cran-ggplot2 to the
current upstream version. I am using Debian for over ten
Hello,
I personally never liked git for packaging and as such happily point
to subversion, which does not have the orig.tar.gz as part of the repository.
Debian Med can do either.
Thank you for your contribution. I happily see Andreas sponsoring these days,
I must admit.
Best,
Steffen
Gesendet: Freitag, 26. Juli 2013 um 10:06 Uhr
Von: Laszlo Kajan lka...@rostlab.org
An: debian-med@lists.debian.org
Betreff: Re: Publication about kclust
On 26/07/13 09:57, Olivier Sallou wrote:
On 07/26/2013 09:35 AM, Andreas Tille wrote:
Hi,
inside the source or kclust (just
Hello,
The Linux Foundation apparently just adopted
http://www.openbel.org/
which is a good thing. For biological network
analysis it refers to Cytoscape - one of the beasts
quite a few of us once set out to package. But
it is also a more general knowledge representation
framework.
Are there
Dear Daniel,
We plan to convert an open access bioinformatics course to a Debian
package. Because debian-med is an active, helpful and relevant project, I
think debian-med would be a sensible route to achieve this.
This is quite a compliment, I'd say. Many thanks!
The course is available as
/10/2013 19:52, Steffen Möller steffen_moel...@gmx.de wrote:
Dear Daniel,
We plan to convert an open access bioinformatics course to a Debian
package. Because debian-med is an active, helpful and relevant project,
I
think debian-med would be a sensible route to achieve
Hi David,
I very much like the idea of helping debian-med on ARM in some way. Some
of our 4273pi Bioinformatics for Biologists exercises could be scripted,
so presumably would work as regression tests. We often don't know the
'real' result but can get the result on AMD64, and check for
Hello,
qiime in stable is (expectedly) outdated with version 1.4. Now, I had my
colleague using the Debian package of 1.7 rather than installing it all by
himself, but, well, all_tests.py fails miserably. We quickly hacked the missing
packages for rtax and qcli together, installed R packages I
Hi Simon,
Hi Simon,
We also run (well, i *installed* it for some users) qiime
1.7.0+dfsg-1 from unstable. So i could also eventually try to run some
tests. So contact me, just in case i should try out something.
I suggest you try the lines below.
Best,
Steffen
$ apt-get source qiime
$
Hi Lennart,
This is good news! We as a community and we as in your users can certainly
profit in many way from your contributions.
Many greetings
Steffen
Gesendet:Mittwoch, 04. Dezember 2013 um 09:20 Uhr
Von:Olivier Sallou olivier.sal...@irisa.fr
An:L.C. Karssen
Dear Lennart,
Dear list,
With this e-mail I'd like to sign up as a student for the Mentoring of
the Month program. I'd like to learn how to properly package ProbABEL
[1,2].
This is what I have so far:
- a .deb in an Ubuntu ppa that passes all tests done there. It's based
on the
Happy New Year, everybody!
Andreas already answered it, but let me just try some extra wording.
The first upload of the package builds both the architecture-dependent
and the arch-independent packages. Everything will exist. The build
demons only build what has not been built before, i.e. the
Hi all,
On Wed, Jan 01, 2014 at 08:44:20PM +0100, L.C. Karssen wrote:
The easiest fix coming to my mind is possibly to
chmod src/extIDS.pl
before dh_install is invoked.
Indeed, nice and simple.
I agree that this is nice and simple but I personally would not do it
in
Hi Alex,
the Debian Maintainer scheme has seen a change such that one needs to explicitly allow every individual uploader - separately from the package upload. I presume this package to have not been on the radar before. I can address this ... back home in a couple of hours.
Steffen
Dear all,
[Andreas]
thanks for your quick reply.
and apologies for my silence. At least I managed to inform Andreas about
the reply that I have to write :o)
[...]
2. We're OK with what ever deployment/maintenance options you think is best
(Alioth, etc.). Having Debian download
Hello,
On Tue, Feb 04, 2014 at 12:15:16PM +, Tony Travis wrote:
Tim created a Google Doc to capture reports during the Sprint and said
he would publish it on the 2014 Debian-Med Sprint wiki page after minor
editorial changes, so people who object to using Google services can add
to
Hi Tony,
please point Roland to http://debian-med.alioth.debian.org/support.xml and ask
him if he wants Qclustar to appear there and - if so - with what text. You may
also want to point out the difficulties we had with installing software from
the regular archive in general - I only saw boinc,
Gesendet: Sonntag, 09. Februar 2014 um 18:31 Uhr
Von: Sascha Steinbiss sa...@tetrinetsucht.de
An: Tony Travis tony.tra...@minke-informatics.co.uk,
olivier.sal...@codeless.fr olivier.sal...@codeless.fr, Tim Booth
tbo...@ceh.ac.uk, Debian Med Project List debian-med@lists.debian.org
Hi Andreas,
bio-cloud
bio-ngs
bio-pyhlogeny
nobody is really maintaining these tasks files. They are only displayed
in the web sentinel and no metapackages are created but IMHO we are
doing more bad than harm when attracting users to an incomplete web page
which is not
Hello,
I was invited to a local (Northern Germany) workshop on next generation
sequencing
https://sites.google.com/site/nexgenseqmv/home/workshop
to give a quick overview on what Debian/Ubuntu/BioLinux can do for them.
This is a very friendly environment and besides
* explaining how
:
https://wiki.debian.org/DebianMed/MoM
Yes!
On Tue, Mar 18, 2014 at 04:44:54PM +0100, Steffen Möller wrote:
I was very happy about the recent advent of the IGV.
If you consider this package as important for your work - why didn't you
simply updated it?
The main reason is that I did
Hello,
Beside the two big ones I already mentioned, Galaxy and CloudBioLinux, I
don't know any other good example of a popular system for computational
biology not using official packages. I also don't know of an example of a
system that does. BioLinux, from where
Hello,
over the last days I had surprised myself with the fun I had
while following Charles' download and post-process instructions
for the complete genomes.
To help the cleanliness of the getData Perl script, Charles
came up with the idea to have Makefiles share a good part of
the
Hi Navid,
Gesendet: Freitag, 25. April 2014 um 16:02 Uhr
Von: Navid Fehrenbacher n...@q-leap.de
I am Navid Fehrenbacher from Q-Leap Networks and I just
joined the Debian Med team. I'm doing a 3-year
apprenticeship at Q-Leap in software development
(currently 1st year) and have started with
Hello Alex,
Gesendet: Dienstag, 08. Juli 2014 um 11:25 Uhr
Von: Alex Mestiashvili a...@biotec.tu-dresden.de
An: Debian Med Project List debian-med@lists.debian.org
Betreff: tophat FTBFS on mips, mipsel and hurd-i386
Hi,
the last version of tophat fails to build on mips, mipsel and
Hi Alex,
There is also a missing build dependency on libbam-dev for armel and sparc.
Sigh. This is truly tedious, just, it is really helpful should this help
indicate the one or other programming issue. It seems a bit like it.
as far as I can see, libbam-dev ( samtools ) doesn't build on
Hello,
Today I prepare a series of Debian packages to get a hand on the BioSeqClass
r-cran-lava
r-cran-prodlim
r-cran-e1071
r-cran-ipred
r-cran-klar
r-cran-tree
r-cran-modeltools
r-cran-coin
r-cran-party
r-bioc-bioseqclass
package, which is all much about machine learning on biological
Gesendet: Mittwoch, 30. Juli 2014 um 12:56 Uhr
Von: Emilien Klein emilien+deb...@klein.st
An: Debian Med Project List debian-med@lists.debian.org
Betreff: Re: ARB 6.0 released
2014-07-30 12:26 GMT+02:00 Andreas Tille andr...@an3as.eu:
Hi Elmar,
On Wed, Jul 30, 2014 at 12:04:41PM
Hello,
Von: Corentin Desfarges corentin.desfar...@gmail.com
We're trying to pack the free framework called Fw4spl. You can find its
sources on https://code.google.com/p/fw4spl/.
Our problem is that Fw4spl uses libraries which aren't available on the
Debian repositories. These libraries
Hello,
I have uploaded the debian folder for EBImage a few hours ago and Andreas was
kindly improving on it already. The dependencies r-cran-jpeg/png/tiff I have
all packaged and also uploaded their debian folder. I lack the time to round it
all up to upload. Please ping me if something is
Hello,
Are there other users of Rosetta following this list by any chance? My interest
is mostly on the rosetta_tools.
Best,
Steffen
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Archive:
Hello,
Laszlo et al have a paper on PredictProtein in the Cloud with Debian
http://www.hindawi.com/journals/bmri/2013/398968/
and I (strongly biased towards it, admittedly) would miss it. As long
as pp-popularity-contest is not executed upon startup, which I recall
it is not, I personally do not
Hello,
The projects of Debian for the Google Summer of Code
http://www.google-melange.com/gsoc/homepage/google/gsoc2015
have their focus on the Debian infrastructure. It was quite some earning
experience for me, but eventually I have grasped that this was a good thing.
However, my personal
Hi Andreas,
Gesendet: Dienstag, 07. Oktober 2014 um 18:15 Uhr
Von: Andreas Tille andr...@an3as.eu
An: debian-med@lists.debian.org
Betreff: Re: GSoC 2015 - should there be a Debian Med / Blend proposal
separate from Debian?
Hi Steffen,
On Tue, Oct 07, 2014 at 05:13:06PM +0200, Steffen
Hi Thorsten,
Thank you for helping.
Gesendet: Donnerstag, 20. November 2014 um 15:14 Uhr
Von: Thorsten Alteholz debian-...@alteholz.de
An: Debian Med Project List debian-med@lists.debian.org
Betreff: Re: kmc and fastaq - New upstream release
Hi Jorge,
On Wed, 19 Nov 2014, Jorge
Hi Andreas,
On Tue, Feb 03, 2015 at 03:32:12PM +0100, Hervé Ménager wrote:
Charles had removed the file which was recently added at the sprint - I
guess because he was not aware about its nature. I think before those
files will be added we should talk about it and send a short
can search and locate relevant
bioinformatics resources. There is a work, initiated by Steffen Möller and
Tim Booth, to enable the automatic registration of debian-med packages as
resources in this registry. I worked a bit with Steffen and Tim on this
interface during the debian-med sprint
On Wed, Feb 04, 2015 at 02:22:42PM +0100, Steffen Möller wrote:
What continuosely remains unclear to me is for what purpose we gather
these data. The following random questions are popping up in my mind:
0. Is it just fun to collect metadata?
The EDAM to me is a simplistic
Gesendet: Freitag, 16. Januar 2015 um 09:08 Uhr
Von: Olivier Sallou olivier.sal...@irisa.fr
An: Debian Med Project List debian-med@lists.debian.org
Betreff: Re: Mozilla science lab
On 01/15/2015 12:05 PM, Andreas Tille wrote:
Hi,
it might be interesting to become involved here:
Hi Michael,
On Mon Feb 16 2015 at 5:46:42 PM Andreas Tille andr...@an3as.eu wrote:Hi
Michael,
On Mon, Feb 16, 2015 at 07:09:18AM +, Michael Crusoe wrote:
I had some quick look into this and did some changed (please pull).
Thanks for the changes. I realised that some large files are
Hello,
I added an express-doc package and uploaded. That was OK, I hope.
@Andreas, I will address Transdecoder next.
Concerning the git repository I failed to get the upstream/1.5.1 branch - so I just decided to get the orig.tar.gz myself and work as if it was a good old subversion
transdecoder went exceptionally smoothly.
Cheers,
Steffen
Gesendet:Sonntag, 22. Februar 2015 um 03:33 Uhr
Von:Steffen Mller steffen_moel...@gmx.de
An:Michael Crusoe michael.cru...@gmail.com
Cc:debian-med@lists.debian.org
Betreff:Aw: Re: Update on Trinityrnaseq packaging
Hello,
Hello,
I would like to have
http://cran.r-project.org/web/packages/data.table/index.html
for Debian, which is rather fashionable these days, but looking at the
dependencies, I refrained from packaging it for Debian Med's R directory.
It becomes too much, I thought. And we should not need a
Quite some of us may visit on researchgate.net from time to time, or
seqanswers.com, .. or .. put your favorite community site here ... and mentally
follow the one or other question. While I am far from always knowing the
answer, I find it nonetheless often inspiring to think along. With Debian
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