A hi! from my side, too.
A subscription to Debian-Med is certainly a good idea. I do not know about
how much you personally are an IT person besides your medical education. My
experience says that there are some bi-educated people around but even for
these the adaptation of software for local
Hi Charles,
For Debian the challenge is for one the dissemination of these skills to
researchers. On a technical level it means the extension of the Java
packages to those that come distributed as Jar files with the upstream
sources. The Taverna package is usable already. Its major
Hi Charles,
for a moment I thought that I would have to contradict, primer3 should be in
Debian, but no, this is ePCR that I misstook it with. If you would be
prepared to take over the packaging and the contact with upstream ... this
would be great! I left the wet-lab environment half a year ago.
Hi Charles, hi Andreas,
yes, progressive alignments seem to be less used now. But ClustalW is and
remains a classical application. I was not aware that it's inclustion with
Debian is in danger, I must admit. The builds are not performed automatically
since the package is in non-free. And
Hi Andreas,
Andreas Tille schrieb:
I'm a little bit unsure how to put mgltools packages into the
metapackage dependencies. I'm completely uneducated about
mgltools and just tried to guess the following dependencies:
mgltools (of mgltoos.scripps.edu) is a tool per se and should alone
appear as
Dear all,
I am aware of at least two efforts to prepare images for the Amazon
services to help the bioinformatics community. And I wish us to be at
the front here. From the packaging aspect we are, but we have no
(project-)funds to pay for the storage of the Image at Amazon for
instance. In a way
Hello,
I had submitted the acedb package quite a while back but it was rejected
- not because of its miraculously erroneous watch file, but because of
copyright issues.
I personally think that I did a rather good job to extra them from the
sources and when knowing people to have changed
Hi Charles,
Charles Plessy wrote:
Le Thu, Apr 01, 2010 at 09:57:12AM +0200, Adam D. Barratt a écrit :
Release Goals
=
* Removing obsolete GNOME libraries
While there has been quite an improvement compared to previous
releases, we are still ~40 bugs away from achieving this
Dear Prakhar, dear Charles,
let me thank you both for your kind project overview and comments
On 05/21/2010 03:08 AM, Charles Plessy wrote:
Le Wed, May 19, 2010 at 10:56:52PM +0530, prakhar gaur a écrit :
A few suggested methods to Optimize Performance:
1. Remove all the unnecessary
Dear all,
my colleagues and I are founding a society to support technologies,
their description and their communication when these in some way
strengthen the efficiency of biomedical research. An emphasis shall be
on Open Source technologies as you know them from Debian (for instance
we have
Hello,
whatever happened, whoever had caused it please repair
http://debian-med.alioth.debian.org/
where with firefox 3.6 I only get
XML Parsing Error: undefined entity
Location: http://debian-med.alioth.debian.org/
Line Number 49, Column 10:lihellip;/li
On 07/02/2010 04:47 PM, Nicolas Barbier wrote:
2010/7/2 Steffen Möller steffen_moel...@gmx.de:
whatever happened, whoever had caused it please repair
http://debian-med.alioth.debian.org/
where with firefox 3.6 I only get
XML Parsing Error: undefined entity
Location: http://debian
On 07/02/2010 05:13 PM, Nelson A. de Oliveira wrote:
Hi!
(It wasn't me who broke it)
It works nicely here on Chomium, Opera and Iceweasel.
But indeed, it fails to validate with the W3C validator.
I have removed one php close tag (that was wrong).
Steffen, can you see if it still fails on
Hi Nelson,
this has fixed the first problem. Now another one surfaced.
See http://stackoverflow.com/questions/209193/special-characters-in-xml
Thanks
Steffen
XML Parsing Error: undefined entity
Location: http://debian-med.alioth.debian.org/
Line Number 122, Column 75:tda
Yeah!
Seems like I as usually failed to set the group management right and
other bits, but well, it has arrived!
Cheers,
Steffen
Original Message
Subject:acedb_4.9.39-2_amd64.changes ACCEPTED
Date: Wed, 14 Jul 2010 14:47:10 +
From: Archive Administrator
Hello,
we should probably be proud of it, but I admit to also find it rather
irritating that we have accumulated now half a gig on Debian
folders for Debian Med.
$ du -sh debian-med/
404Mdebian-med/
I just checked out the whole tree and, well, a couple of years ago this was my
month's
On 07/22/2010 03:10 AM, Charles Plessy wrote:
Le Tue, Jul 20, 2010 at 06:05:11AM +, Sri Girish Srinivasa Murthy a écrit
:
I am graduate student in Luebeck, where Steffen is also located, and mostly
working in the (almost) neighbouring Max Planck Institute to study
Microbioata in Skin
Hello,
On 08/04/2010 09:41 AM, Andreas Tille wrote:
On Wed, Aug 04, 2010 at 01:31:22PM +0900, Charles Plessy wrote:
This said, other people may be intersted in the draft packages, or even
volunteer to finish them, so I wonder how much it would make sense to share
them in a places such as
Hello,
On 08/08/2010 04:16 PM, Charles Plessy wrote:
Le Sun, Aug 08, 2010 at 09:21:35AM +0200, Andreas Tille a écrit :
Now I understand the motivation for a med-bio-console (I continue to
think that headless is a suboptimal word) a bit better. However I'm not
very comfortable with
On 08/08/2010 09:00 PM, Andreas Tille wrote:
Hi,
On Mon, Aug 09, 2010 at 12:13:27AM +0530, PRAKHAR gaur wrote:
I am currently working in a newly setup NGS lab. My work presently to
optimize Alignment algorithms(BFAST), for memory usage.
Also working to create a Linux Distro for
Hello,
On 08/10/2010 01:38 PM, Andreas Tille wrote:
DId you ever have shown your colleagues the page which
lists everything we have[1]?
I am yet to do that.
Additionally I want to start something regarding Debian at my local level, I
have space to organize any event(100
Hello,
the freeze is to early for the new autodocktools 1.5.6 packages to make it into
our distribution.
Best,
Steffen
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Hi Andreas,
On 08/23/2010 09:19 AM, Andreas Tille wrote:
On Sat, Aug 21, 2010 at 12:14:50AM +0200, Steffen Möller wrote:
the freeze is to early for the new autodocktools 1.5.6 packages to make it
into our distribution.
this mail is a bit confusing for me. We have several other packages
On 08/27/2010 08:12 AM, Andreas Tille wrote:
On Thu, Aug 26, 2010 at 11:14:06PM -0400, Yaroslav Halchenko wrote:
/bin contains commands that may be used by both the system administrator
and by users, but which are required when no other filesystems are
mounted (e.g. in single user mode)
I
On 08/29/2010 03:55 PM, Eric Talevich wrote:
On Fri, Aug 27, 2010 at 7:02 AM, Steffen Möller steffen_moel...@gmx.dewrote:
On 08/27/2010 08:12 AM, Andreas Tille wrote:
On Thu, 26 Aug 2010, Felipe Figueiredo wrote:
I just noted that binaries in hmmer 3.0-1 are located in /bin instead
of /usr
Hello,
On 09/30/2010 08:23 AM, Andreas Tille wrote:
quoting an older mail:
On Sun, Aug 08, 2010 at 06:01:44PM +0200, Steffen Möller wrote:
Below changes (very little) and a full version attached. I moved
*bagphenotye*
to suggests since the package is not yet uploaded,
I wonder
On 12/10/2010 03:27 AM, Michael Hanke wrote:
On Fri, Dec 10, 2010 at 12:11:39AM -0200, Nelson A. de Oliveira wrote:
On Fri, Dec 10, 2010 at 12:08 AM, Michael Hanke m...@debian.org wrote:
I committed another set of changes, but then started to conflict with
'naoliv' and stopped for now. When is
contributors, grey hair and young graduate students. Please contact
us if you would like to join in; we should still find a seat for you.
Steffen Möller and Andreas Tille
[1] http://wiki.debian.org/DebianMed/Meeting/Luebeck2011
[2] http://wiki.debian.org/Sprints
[3] http://nebc.nerc.ac.uk
I can do this after the upload of rq on the weekend,
if noone else wants to be any quicker this means.
Best,
Steffen
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Hello,
I have not seen it in the Debian policy document, yet, but at least for the
packages I co-maintain with Ubuntu developers myself
(all outside of Debian Med if I am not erroneous) and from what I read on the
lists, it is common practice to just extend the
debian/changelog file. It is
reaction.
The last case where I'm guilty for this action is beast-mcmc.
[ ... I don't know beast-mcmc ... ]
On Sat, Feb 05, 2011 at 02:03:26PM +0100, Steffen Möller wrote:
I have not seen it in the Debian policy document, yet, but at least for the
packages I co-maintain with Ubuntu
On 02/05/2011 09:11 PM, Andreas Tille wrote:
On Sat, Feb 05, 2011 at 07:38:12PM +0100, Manuel Prinz wrote:
Creating some sort of science bin/ directory is IMHO just asking for
trouble. Also, if two scientific packages create a naming conflict, what
to do then?
Just for the sake of
On 02/08/2011 08:39 AM, Andreas Tille wrote:
On Tue, Feb 08, 2011 at 08:43:01AM +0900, Charles Plessy wrote:
note that we also have another page about sequence alignements.
http://wiki.debian.org/SequenceAlignment
... which again raises the topic of hard to maintain manually updated
pages.
Any takers?
Steffen
Original Message
Subject: Re: Seeking Sponsor for OSCAR
Resent-Date: Tue, 8 Feb 2011 19:13:27 + (UTC)
Resent-From: debian-ment...@lists.debian.org
Date: Tue, 8 Feb 2011 14:12:55 -0500
From: Scott Howard showard...@gmail.com
To:
I like what I saw about biomaj. What is cannot do for the
moment (from what I understood) is to express a runtime
dependency against a particular database version and have
that then installed package trigger biomaj to perform
that step. Correct me if I am wrong, please. Could that be
added?
What
Hello,
On 02/16/2011 06:00 PM, Scott Christley wrote:
The web interface will have togo to non-free 'cause it depends on several GWT
libraries which are not packaged for Debian so we need to provide the Jar
files with the softs.
I once sponsored backported core gwt packages from Ubuntu to
Dear all,
the Debian Med Sprint on Bioinformatics saw a phone call from Christian's
mobile across the Atlantic and there was no way back
after that: we have run the cran2deb [1] routines from Charles and Dirk on all
of CRAN and Bioconductor for the amd64 platform.
This means that every package
Hello,
On 02/17/2011 06:22 PM, Scott Christley wrote:
I was looking at the meme packaging and noticed that it hadn't been finished,
so I've made a few changes and have gotten it to build. However I have a
question. MEME is actually a suite of programs. In the current packaging,
there is
On 02/17/2011 04:38 PM, Andreas Tille wrote:
Hi,
On Thu, Feb 17, 2011 at 01:06:08PM +0100, Steffen Möller wrote:
The repositories of CRAN and BioConcuctor are at
Debian: http://master.dermacloud.uni-luebeck.de/cran2deb/rep/
Ubuntu: http://bioinformatics.rri.sari.ac.uk/cran2deb/rep
On 02/26/2011 12:09 AM, Tony Travis wrote:
On 25/02/11 19:55, Manuel Prinz wrote:
On Tue, Feb 22, 2011 at 10:34:41PM +, Tony Travis wrote:
If you want me to name some important Bioconductor packages I use
then I suggest simpleaffy and its dependencies:
On 02/26/2011 10:12 PM, Andreas Tille wrote:
On Sat, Feb 26, 2011 at 01:59:51PM +0100, Karsten Hilbert wrote:
Does this not mean that there ought to be a more convenient way for
users to discover that they need to activate an additional repository
(say, by somehow providing pointers from dummy
Hello,
On 03/01/2011 12:26 AM, Tony Travis wrote:
On 28/02/11 22:19, Andreas Tille wrote:
[...]
Does it make sense to recalculate a Bioconductor deb repository over
and over instead of just mirroring the result of one single cran2deb
run which would be (re)done in a reasonable frequence?
Hello,
On 03/03/2011 02:14 PM, Andreas Tille wrote:
when inspecting the URL which was mentioned as Dotur homepage on our Blends
pages it said:
http://schloss.micro.umass.edu/software/dotur.html
Please use mothur instead, feel free to contact Pat Schloss for more
information.
...
in some earlier version ...
Best,
Steffen
Original Message
Subject: [med-svn] r6158 - trunk/packages/wgs-assembler/trunk/debian
Date: Thu, 3 Mar 2011 14:42:31 +
From: Steffen Möller moel...@alioth.debian.org
To: debian-med-com...@lists.alioth.debian.org
Author: moeller
Date
Hello,
I was proposing as a Google Summer of Code project to experiment about
extending our blends infrastructure towards those packages
that are not DFSG free and that are not even redistributable, but that may be
compiled locally with a happy upstream when there
are patches coming in. Such
Dear all,
a week ago or so I had worked on a first (so I had thought) package for the
assembler MIRA. I invested a couple of hours into it and eventually got
it to compile. Only today I then learned that MIRA is also on git:
http://git.debian.org/?p=debian-med/mira.git;a=summary
. The effort is
On 03/09/2011 04:28 PM, Andreas Tille wrote:
On Wed, Mar 09, 2011 at 11:46:35PM +0900, Charles Plessy wrote:
for the prospective packages, I think that the best is to document them as
early as possible in the tasks files,
Yes!
Currently mira is mentioned on the tasks pages tp be in
Dear all,
we can be very happy to now have Ensembl in our distribution. It is in
experimental since it depends on other packages that are still in
experimental. It is in non-free since we do not yet have Jalview
packaged but Ensembl ships the jalview.jar with it. So, there is some
more work for
with whatever ideas or needs are popping
up on your side.
Best regards,
Steffen
[1] http://www.eaglegenomics.com/2011/01/symposium2011/
On 03/30/2011 04:58 PM, George Marselis wrote:
great job, man. this will def minimize my headaches ...
On Wed, Mar 16, 2011 at 1:37 PM, Steffen
/trunk
That packaging is not so very nice, yet, but just give it a chance, please,
and, of course, feel free to extend.
Best,
Steffen
On Thu, Mar 31, 2011 at 2:56 PM, Steffen Möller steffen_moel...@gmx.de
wrote:
Hi George,
this is really the work of Richard+Will at EagleGenomics, i.e.
two
Hello,
On 04/12/2011 04:20 PM, Charles Plessy wrote:
Le Tue, Apr 12, 2011 at 02:22:50PM +0200, Olivier Sallou a écrit :
I have updated gbrowse to move db related data to /var/lib instead
of /usr/share
I removed call to metadb_config script and updated config to disable
user management by
Vincent,
I am just CCing Debian Med with this fantastic news. Have man thanks
for your efforts.
Happy
Steffen
Original Message
Subject:Bug#507436: Update...
Resent-Date:Tue, 12 Apr 2011 20:45:02 +
Resent-From:Vincent Fourmond fourm...@debian.org
Resent-To:
On 04/18/2011 02:51 PM, William Spooner wrote:
So Vanessa is coordinating @DebianMed twitter? I'll try to remember to
include @DebianMed if I post any relevant tweets. I think twitter works best
for conversational items rather than announcements (RSS feeds are much better
for the latter).
On 04/19/2011 01:26 PM, Andreas Tille wrote:
On Tue, Apr 19, 2011 at 01:45:48PM +0300, George Marselis wrote:
Hey guys,
I am working on GMOD ( http://gmod.org/wiki/Main_Page ). As you can
see for yourselves, that page was not created with a technical guy in
mind. I need to make a summary of
/2011 05:10 PM, William Spooner wrote:
Could you register debianmed.blogspot.com? I would be happy to guest-post on
Ensembl.
Will
On 18 Apr 2011, at 14:32, Steffen Möller wrote:
On 04/18/2011 02:51 PM, William Spooner wrote:
So Vanessa is coordinating @DebianMed twitter? I'll try
On 04/26/2011 04:08 PM, Olivier Sallou wrote:
Hi,
I have made my first patch for Biomaj, after it is uploaded in Debian repo.
Could someone please confirm, to help me doing the things correctly.
I have in Debian bugs 2 bug ids (1 bug, 1 wishlist).
I fixed the first with a new patch (quilt)
Hello,
On 04/27/2011 02:35 PM, Olivier Sallou wrote:
I see in tasks the ncbi Blast+ software, not packaged.
Has anyone started something? Or should I go for it
packages/ncbi-tools-cxx
I once had a closer look at ... but then there was something
with the build the let me stop ... don't
Hi Tim,
On 04/27/2011 04:54 PM, Tim Booth wrote:
I'm cracking on with a package for AmpliconNoise, which I can't see any
activity for though there is a placeholder on tasks/bio.
Great!
My
understanding is that a Debian Developer should OK the package
only for a first upload to the release
Have you set
svn propset mergeWithUpstream 1 debian
?
Cheers,
Steffen
On 04/29/2011 11:28 AM, Olivier Sallou wrote:
Hi,
I have an issue in my packaging build . If someone could help or give
some hints.
In my ncbi-blast-plus packaging, I can do a fakeroot debian/rules
clean/binary.
On 05/01/2011 08:42 PM, Tony Travis wrote:
On 29/04/11 22:20, Steffen Möller wrote:
[..]
Hi, Steffen and Will.
I originally wrote this to help me port Bio-Linux4 to Ubuntu 6.06 LTS, but I've
used it with all versions up to and including
Bio-Linux6 and Ubuntu 10.04 LTS. I'm using it right now
Hi Olivier,
On 05/09/2011 09:31 AM, Olivier Sallou wrote:
Hi,
I need a sponsor to push biomaj-watcher to FTP master.
biomaj-watcher is the graphical front-end of Biomaj.
Andreas did the job for Biomaj but will lack of time for this one.
I can go for it.
Steffen
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On 05/11/2011 08:11 PM, Sebastian Hilbert wrote:
Am Mittwoch, 11. Mai 2011, 16:59:46 schrieb Dominique Claver KOUAME:
Dear all,
We want to select a software for managing our clinic. We prefer
opensource softwares, and we have discovered debian-med. We want to
know how we can install it on
On 05/11/2011 09:34 PM, Andreas Tille wrote:
On Wed, May 11, 2011 at 08:21:20PM +0200, Steffen Möller wrote:
Why? I always understood Debian Med to support both kinds of UNIXes, Debian
_and_ Ubuntu.
Am I too old? Or has anybody actually grasped the Country and Western Blues
Brothers pun
On 05/12/2011 11:01 AM, Sebastian Hilbert wrote:
Am Donnerstag, 12. Mai 2011, 10:31:21 schrieb Olivier Sallou:
it is on public one, with oneiric release (next one).
https://launchpad.net/ubuntu/+source/gbrowse/2.26~dfsg-3
It may be just a matter a sync between dependencies, but I do not know
On 05/14/2011 05:16 PM, Tony Travis wrote:
On 14/05/11 14:33, Charles Plessy wrote:
Dear all,
I am preparing to upload r-bioc-biobase soon. It mentions the BioC cran2deb
effort in its description and README:
+++ b/debian/README.Debian
+Unofficial auto-built Bioconductor packages for Debian
Hello,
On 05/19/2011 08:16 PM, Thorsten Alteholz wrote:
I did some work on smile (which I had to rename to biosmile, as there are other
(not yet official) packages already named smile).
From my point of view it is lintian clean and buildable by pbuilder. Can
one of you please have a look
On 05/11/2011 08:43 PM, Karsten Hilbert wrote:
On Wed, May 11, 2011 at 08:21:20PM +0200, Steffen M�ller wrote:
Sebastian, when there are issues, please raise them.
We need Ginkgo CADx :-)))
I had a look and agree, we need that. Just allow the comment that
Ubuntu does not yet have it
Hello,
On 05/22/2011 07:13 AM, Sebastian Hilbert wrote:
Am Sonntag, 22. Mai 2011, 01:19:50 schrieb Karsten Hilbert:
On Wed, May 11, 2011 at 08:21:20PM +0200, Steffen M�ller wrote:
[]
What most likely could be done today is to create an experimental
non-free project. Then you can just go
Hello,
On 05/23/2011 06:01 AM, Heddle Weaver wrote:
Free medical icons, anybody?
http://www.goomedic.com/free-60-medical-icons-for-medical-apps-developers-and-designers.html?utm_source=feedburnerutm_medium=feedutm_campaign=Feed%3A+Goomedic+%28GooMedic.com%29
Done up by my friend, Hamzamu, an
Hello,
thank you all for your work on this.
On 05/26/2011 10:18 AM, Andreas Tille wrote:
W: ginkgocadx: postinst-has-useless-call-to-ldconfig
W: ginkgocadx: postrm-has-useless-call-to-ldconfig
That's a usual warning in connection with the rpath issue.
E: ginkgocadx:
Hello,
On 05/27/2011 10:06 AM, Andreas Tille wrote:
I've got a hint from Christoph Gille to include STRAP[1] into Debian.
Indeed. I had a couple of students who came up with STRAP
by themselves to get alignments with structures together,
much like Cn3D ... or Jalview.
He consideres STRAP as
On 05/27/2011 07:54 PM, Thorsten Alteholz wrote:
On Thu, 26 May 2011, Andreas Tille wrote:
What exactly is the problem / error message if you try to commit?
It is still something like:
(...)
Sending trunk/debian/rules
Transmitting file data .svn: Commit failed (details follow):
svn:
On 05/30/2011 10:49 AM, Olivier Sallou wrote:
Hi,
I have 2 questions on ubuntu backport on debian-med launchpad:
1) can we put a package, simply to get it available on current ubuntu
version? (though deb package will be available on next ubuntu release).
If yes, how do we manage it from
Hello,
On 05/31/2011 11:08 PM, Andreas Tille wrote:
[...]
What will be the next steps? Shall I build the package and upload it
somewhere? What about the svn tag? Shall it be done now or after the
upload?
There is no
immediate
need for an upload - we just have access to SVN and can
Hello,
On 06/04/2011 06:48 PM, Thorsten Alteholz wrote:
thanks for all your tips.
I think I am almost finished now with the copyright file. The only open issue
is with file src/cadxcore/xmlrpc/base64.h
The author of this file is listed but there is no license mentioned. Strictly
speaking one
Hi Thorsten,
On 06/07/2011 10:43 PM, Thorsten Alteholz wrote:
Hi Olivier,
On Tue, 7 Jun 2011, Olivier Sallou wrote:
Can someone have a look and upload to ftp master ?
Over the weekend I'll sponsor everything that is left.
I have to admit that I am not a blast expert so please excuse if I
On 06/08/2011 05:14 PM, Olivier Sallou wrote:
Hi Charles,
I see your are the maintainer of bioperl, do you plan to go to version
1.6.901 ?
This version is available on CPAN, and is required to further updates of
gbrowse
Have I missed emails on this? I don't foresee the consequences of an
Hello,
I just read an announcement of the GMOD workshop in San Diego (January,
2012) http://www.intl-pag.org/19/19-gmod.html featuring a session on
MAKER http://gmod.org/wiki/MAKER , their genome annotation environment.
This environment might be an excellent opportunity to interlink our
current
Hello,
the requests for updates of wxWidgets are rather long standing with
pointers to reverse dependencies by rather prominent tools. Upstream
seems to be very Debian/Ubuntu-friendly
http://wiki.wxpython.org/InstallingOnUbuntuOrDebian
and Ubuntu has the packages already.
Is there anybody on the
On 07/03/2011 09:27 AM, Mathieu Malaterre wrote:
Does anyone knows about projects related to ontologies ? Here is the
original email (*).
There is a series of tools helping with data for GeneOntology-like databases.
I had a look at packaging OBOEdit, but this (as usual for Java based tools)
On 07/04/2011 05:34 PM, Karsten Hilbert wrote:
On Sun, Jul 03, 2011 at 09:42:23PM +0200, Steffen M�ller wrote:
Protege is of interest, too. We have a package for its reasoner Fact++,
due to be updated, admittedly.
If the above means you've been thinking about packaging
Protege, one of the
Hello,
I can give it a try.
On 07/29/2011 10:39 AM, Peter Rice wrote:
It might make things clearer if someone from Debian could explain:
(a) why a Creative Commons licence is an issue for you
the OK to fiddle with source code and give it away again is the core
principle of free software.
Hello,
I have auto-created a man page for AutoLigand (debian/autoligand.1), a tool somewhat hidden in the AutoDockTools package and then
edited that. Well, it is not so nice, yet. I'd want to leave that for the next Google code-in (school kids being introduced to
Open Source). When there are
Hi Andreas,
On 07/31/2011 06:57 AM, Andreas Tille wrote:
before I'll blog a report about the Debian Med BOF @ DebConf (probably
not before Tuesday when I'm back home) I would like to call for your
help. I had lunch with a journalist which was hopefully interesting
enough for him. He
Dear Tim,
Have many thanks for raising this issue. It is weird. But this
is exactly why we have this list IMHO.
On 08/03/2011 10:48 AM, Tim Booth wrote:
Hi,
Creating a static package would be easy, but would double the size
(which is large) for blast+ on servers,
Actually, it makes it
Hello, great to hear from you on all this. Sorry for this bad experience with
the release mixing. You did not ruin your machine
now, I hope.
Two and a half things come to mind (besides the updating of the server):
a) we get those backports done
b) you get a chroot environment for gbrowse of a
Hello,
@Tim, do not fix the date too stricktly too early, find the right
venue first. From the feedback I got it was important to have
an opportunity for those nightly hacking session, i.e. to have
the bed right next to our venue. Not every place will allow for
that and when there is some sudden
On 08/11/2011 01:39 PM, Andreas Tille wrote:
On Thu, Aug 11, 2011 at 01:33:37PM +0200, Steffen Möller wrote:
venue first. From the feedback I got it was important to have
an opportunity for those nightly hacking session, i.e. to have
the bed right next to our venue.
+ high bandwidth stable
On 08/18/2011 04:53 PM, Aaron M. Ucko wrote:
Olivier Sallou olivier.sal...@irisa.fr writes:
I will try to have a look to patch this in the package. However I will
go on vacation end of this week. So it will not be done before some time...
No problem, the current packaging ignores test
Dear all,
with BioMAJ [1] and getData [2], our distro has now two tools in the
distribution that address the retrieval and post-processing
of public (or not so public) databases. Hilmar from the OBF has just pointed me
to an again very different approach towards the
same by the Open Knowledge
Hello,
On 08/22/2011 05:15 PM, Michael Banck wrote:
the latest debian-med blog post (syndicated on Planet Debian, CC'd)
http://debianmed.blogspot.com/2011/08/experimenting-with-amazon-cloud-and.html
has raised some eyebrows.
First off, it should be somehow stated which person wrote/posted
Hello,
Andreas and I have different opinions on the forwarding of posts to
http://debianmed.blogspot.com to http://planet.debian.org/ . I would
like to have those entries that shall be forwarded to be tagged with
the label 'planet'. The labels can be added any time if they have
been forgotten
On 08/26/2011 12:41 PM, Tim Booth wrote:
Hi Steffen,
we have qiime in experimental because of pynast from what I recall.
I have not moved that into non-free/sid.
I'd forgotten about PyNAST. I can't see any licensing reason why it
can't go into Sid. I've had a play with it just now and
On 08/29/2011 09:05 AM, Andreas Tille wrote:
Hi Olivier,
On Mon, Aug 29, 2011 at 08:39:41AM +0200, Olivier Sallou wrote:
Hi, There are some gbrowse build (test) failures on a few archs, on
05-defferedrendering.t . This group of test seem to randomly fail on a
few tests (armel last time, an
Hello,
is anybody using
http://www.tm4.org/
and would be interested to start packaging (pieces of) it?
Many greetings
Steffen
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Hello,
Jakub had found the dependency on numpy to be missing. This was weird
since this should have been found as a binary dependency through the
shlibdeps. The bell then only rang when the newly introduced -dbg
package remained empty: the libs where not installed but remained
quietly in
This is a bit more for debichem or debian-science, but mentioned
in the autodock tips'n'tricks documentation. Well, just any volunteer
for packaging
http://kinemage.biochem.duke.edu/software/reduce.php
would be most welcome.
The package is free in some GNU sense but has a custome 5-10
Hello,
this very early morning I had prepared getData [1] configs to download the
descriptions of ligands for docking with autodock. It
was motivated as a followup to that Google Summer of Code project to prepare
explicit instructions for setting up a BOINC server
with Debian for molecular
On 09/04/2011 04:19 PM, Michael Banck wrote:
Hi,
On Sun, Sep 04, 2011 at 12:23:04PM +0200, Steffen Möller wrote:
This is a bit more for debichem or debian-science, but mentioned
in the autodock tips'n'tricks documentation. Well, just any volunteer
for packaging
http
Hello,
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 publication announcing Compara, and something else
maybe ... your feature of choice.
I am now running into an issue with my
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