On 09/04/2015 08:04 AM, Andreas Tille wrote:
> On Fri, Sep 04, 2015 at 05:09:45AM +, olivier sallou wrote:
>>> Do you want me to work on the todo list (which looks a bit scary to me -
>>> but I might try to have a look).
>> Nope, for the moment I will continue.
>> But will take time. It
On 08/22/2015 09:34 PM, Michael Crusoe wrote:
On Sat, Aug 22, 2015 at 6:49 AM Andreas Tille andr...@an3as.eu
mailto:andr...@an3as.eu wrote:
Hi,
On Sat, Aug 22, 2015 at 12:57:20AM +, Michael Crusoe wrote:
trinityrnaseq: waiting on libjung-free-java, rsem, express,
On 08/22/2015 03:35 PM, Andreas Tille wrote:
Hi,
On Sat, Aug 22, 2015 at 08:27:39AM +, olivier sallou wrote:
As libsis-base-java and libsis-jhdf5-java are in our git repo and seem to
be fine, you may want to build/install them locally to test your fastqc
update ?
As it makes use of
libsis-jhdf5 is on git:
Vcs-Browser:
http://anonscm.debian.org/gitweb/?p=debian-med/libsis-jhdf5-java.git
Vcs-Git: git://anonscm.debian.org/debian-med/libsis-jhdf5-java.git
I have updated DEP3 patches headers and a few things.
Should we for upload of sis-base and sis-jhdf5 ?
Olivier
On
On 08/20/2015 10:05 PM, Ghislain Vaillant wrote:
On 20/08/15 20:54, olivier sallou wrote:
Hi,
I have a colleague who have the lena image licensing issue in his
package.
He tried to patch it but get fuzzing issue when building the package.
As it is a binary file and never patched a binary
On 08/17/2015 01:39 PM, Andreas Tille wrote:
I've never seen this. :-(
Any idea
Andreas.
- Forwarded message from Debian FTP Masters
ftpmas...@ftp-master.debian.org -
Date: Mon, 17 Aug 2015 09:22:57 +
From: Debian FTP Masters ftpmas...@ftp-master.debian.org
To:
gonna continue ot investiguate.
Olivier
Cheers,
TIM
On Fri, 2015-08-14 at 08:16 +0200, olivier.sal...@codeless.fr wrote:
On 08/13/2015 05:20 PM, Tim Booth wrote:
Hi Olivier,
Looks like Bernd Rinn is making positive noises regarding a DFSG version
of the library, so hopefully once he
On 08/13/2015 05:20 PM, Tim Booth wrote:
Hi Olivier,
Looks like Bernd Rinn is making positive noises regarding a DFSG version
of the library, so hopefully once he provides code you can take what I
have done and make use of it. I committed to SVN because it's so much
easier than pushing to
On 08/12/2015 08:43 PM, Tim Booth wrote:
Hi,
After a fair amount of struggling I conclude that I do not have all the
code required to build this thing from source.
The distribution of JHDF5 from
https://wiki-bsse.ethz.ch/pages/viewpage.action?pageId=26609113
contains some Java source
On 08/12/2015 12:44 PM, Tim Booth wrote:
Hi Andreas and Olivier,
I'm going to have a crack at the FastQC update. I've been poking at the
HDF5 packages and here are my conclusions so far:
I already had a look and started some work. In fact I expected to
progress on it during Debconf, but if
On 08/10/2015 02:50 PM, Andreas Tille wrote:
On Mon, Aug 10, 2015 at 09:16:26PM +0900, Charles Plessy wrote:
Le Mon, Aug 10, 2015 at 02:28:37AM -0700, Afif Elghraoui a écrit :
Hi, Andreas,
I've completed packaging the latest upstream release of python-cobra.
Would you be able to upload to
On 08/10/2015 02:50 PM, Andreas Tille wrote:
On Mon, Aug 10, 2015 at 09:16:26PM +0900, Charles Plessy wrote:
Le Mon, Aug 10, 2015 at 02:28:37AM -0700, Afif Elghraoui a écrit :
Hi, Andreas,
I've completed packaging the latest upstream release of python-cobra.
Would you be able to upload to
On 05/14/2015 06:22 PM, Andreas Tille wrote:
On Thu, May 14, 2015 at 08:57:43AM +0200, olivier.sal...@codeless.fr wrote:
Debian Science team. In other words: While you stated that what we
need is probably a different code base than we need for fastqc the
package might need some love
CC'ing list...
Forwarded Message
Subject:Re: fastq status?
Date: Thu, 14 May 2015 08:57:43 +0200
From: olivier.sal...@codeless.fr olivier.sal...@codeless.fr
To: Andreas Tille andr...@an3as.eu
On 05/13/2015 10:43 AM, Andreas Tille wrote:
Hi Olivier,
On Wed
On 12/11/2014 05:48 PM, Sebastian Hilbert wrote:
Am Donnerstag, 11. Dezember 2014, 17:33:44 schrieb Karsten Hilbert:
On Thu, Dec 11, 2014 at 04:09:34PM +0100, Andreas Tille wrote:
I just talked with the hotel and they still have wifi access issues
(though
it was supposed to be solved). So it
On 12/11/2014 04:09 PM, Andreas Tille wrote:
Hi Olivier,
On Thu, Dec 11, 2014 at 12:29:12PM +, olivier sallou wrote:
Hi,
I just talked with the hotel and they still have wifi access issues (though
it was supposed to be solved). So it is almost plain sure that wifi won't
be accessible.
On 12/12/2014 11:36 AM, Andreas Tille wrote:
Hi,
On Fri, Dec 12, 2014 at 09:48:00AM +0100, olivier.sal...@codeless.fr wrote:
If it helps I can send you a pair of PowerLAN adapters.
I tried to propose this solution but it seems that their box is too far
from the room for a cable.
???
Can
On 11/28/2014 04:48 PM, Frank Oliver Glöckner wrote:
Dear Sascha Steinbiss,
thanks for the information.
We discussed it and in general we agree that the HMM profiles derived
from LSURef_115_tax_silva_full_align_trunc.fasta can be distributed.
But we would like to ask you to clearly indicate
On 11/29/2014 12:29 PM, Sascha Steinbiss wrote:
Hi all,
But we would like to ask you to clearly indicate that the profiles are
only free for non-commercial usage, commercial users need a licence.
The easiest approach is to add a reference to the SILVA terms of
license assigned to the
Hi,
sorry if mail is a duplicate, I had an issue when I sent my previous mail.
After our nice sprint in Stonehaven, I come with a proposal (well ideas
in fact) for the next sprint in France.
There are several options:
1) in Brittany, in Saint Malo [0]. This is a really nice place (old town
from
On 02/09/2014 12:57 AM, Andreas Tille wrote:
Hi,
On Sat, Feb 08, 2014 at 06:12:07PM +0100, olivier.sal...@codeless.fr wrote:
I found some reference here:
http://bioinf.hutton.ac.uk/tablet/svn.txt
which belongs to the BSD licensed
http://bioinf.hutton.ac.uk/tablet/
which might
On 02/08/2014 04:54 PM, Andreas Tille wrote:
Hi Olivier,
On Sat, Feb 08, 2014 at 09:11:15AM +0100, olivier.sal...@codeless.fr wrote:
I've gone furher, remove cplex, but there is still an issue. Code
references:
CigarParser.extractAllAlignDiffs()
but there is no import in the code
On 11/21/2013 02:00 PM, Andreas Tille wrote:
Hi Raghava,
On Thu, Nov 21, 2013 at 04:40:52PM +0530, G P S Raghava wrote:
Dear Andreas
Thanks for your email and detail response to my quiries. We have
created debian package for our number of software, though they are not
perfect but works.
On 09/13/2013 08:57 PM, Andreas Tille wrote:
Hi Olivier,
On Fri, Sep 13, 2013 at 05:02:14PM +0200, Olivier Sallou wrote:
hi,
I just updated the git repo on my computer and tried a build, and it
works fine, I could build the package.
However, I had to download the upstream tar with
Hi,
you all have seen many many bugs from forallsecure, getting all the same
crash exit code.
Does anymore has a hint on the root cause of this? I can't imagine this
does not come from the same root cause considering the numerous bugs found.
Olivier
--
gpg key id: 4096R/326D8438
Hi Andreas,
the package libbc-prov dependency update I was waiting for has been done.
I have made a few updates on IGV and it should be ok now for non-free.
However, dependency has been pushed to experimental. As IGV will go to
non-free, it will have to be pushed to non-free/experimental too.
Do
Le 3/16/13 6:40 AM, Charles Plessy a écrit :
Le Fri, Mar 15, 2013 at 09:25:55AM +0100, olivier.sal...@codeless.fr a écrit :
Le 3/15/13 8:13 AM, Andreas Tille a écrit :
Hi,
any volunteer to join this effort to create such images featuring
med-cloud packages?
What would be a med-cloud image
Le 3/15/13 8:13 AM, Andreas Tille a écrit :
Hi,
any volunteer to join this effort to create such images featuring
med-cloud packages?
What would be a med-cloud image ? (but an image containing med-cloud
packages)
I would gladly help such thing with debian-cloud team when debian-cloud
team
Le 2/6/13 5:43 AM, Charles Plessy a écrit :
Hi all,
for your information, there is a new BioPerl release scheduled soon.
I a still very busy at work and may not be able to push it in Debian quickly.
Also, we need to ensure compatibility with the reverse dependancies.
What do you propose ?
Hi Charles,
could you please upgrade libbio-graphics-perl? New GBrowse needs at
least v2.31.
If you do not have time, please tell me and I 'll try to update it myself.
Thanks
Olivier
--
gpg key id: 4096R/326D8438 (keyring.debian.org)
Key fingerprint = 5FB4 6F83 D3B9 5204 6335 D26D 78DC 68DB
Le 12/15/12 9:37 AM, Charles Plessy a écrit :
Le Sat, Dec 15, 2012 at 09:15:59AM +0100, olivier.sal...@codeless.fr a écrit :
could you please upgrade libbio-graphics-perl? New GBrowse needs at
least v2.31.
If you do not have time, please tell me and I 'll try to update it myself.
Hi Olivier
Le 12/15/12 9:37 AM, Charles Plessy a écrit :
Le Sat, Dec 15, 2012 at 09:15:59AM +0100, olivier.sal...@codeless.fr a écrit :
could you please upgrade libbio-graphics-perl? New GBrowse needs at
least v2.31.
If you do not have time, please tell me and I 'll try to update it myself.
Hi Olivier
Le 8/28/12 10:54 PM, Jerome BENOIT a écrit :
Hello:
On 28/08/12 12:16, olivier.sal...@codeless.fr wrote:
Le 8/28/12 12:12 PM, Steffen Möller a écrit :
Hello,
I am totally swamped, but also like seeing so many astronomers now
surfacing on Debian. I would like to introduce you to Olivier
Hi Charles,
would you mond upgrading libbio-graphics-perl to latest version?
I need at least version 2.28 (current 2.29) for gbrowse.
Thanks
Olivier
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Le 9/6/12 6:59 AM, Charles Plessy a écrit :
Le Mon, Sep 03, 2012 at 08:53:39AM +0200, Olivier Sallou a écrit :
I have just uploaded libsnappy1.0.3-java_1.0.3-rc3~dfsg-3 which does
not conflict anymore on maven repo.
I use it against picard-tools, with additiona patches for jbzip2 usage
Le 8/29/12 7:07 AM, Charles Plessy a écrit :
Le Tue, Aug 28, 2012 at 12:49:59PM +0200, olivier.sal...@codeless.fr a écrit :
Hi,
I have uploaded libsnappy1.0.3-java package for picard-tools.
I could successfully build picard-tools with this package.
picard-tools still need to be updated
Le 8/29/12 7:07 AM, Charles Plessy a écrit :
Le Tue, Aug 28, 2012 at 12:49:59PM +0200, olivier.sal...@codeless.fr a écrit :
Hi,
I have uploaded libsnappy1.0.3-java package for picard-tools.
I could successfully build picard-tools with this package.
picard-tools still need to be updated
Hi,
I have uploaded libsnappy1.0.3-java package for picard-tools.
I could successfully build picard-tools with this package.
picard-tools still need to be updated to get latest release and use
snappy1.0.3-java.jar file (update of the patch)
Olivier
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Hi,
I have updated picard-tools on Debian git to use libsnappy1.0.3.
I updated the patches and files to use version 1.75 (latest).
Package build correctly, however it would be fine to test the package (I
do not know picard-tools) before uploading it.
Charles, could you have a look?
Thanks
Le 8/28/12 2:36 PM, Andreas Tille a écrit :
On Tue, Aug 28, 2012 at 12:49:59PM +0200, olivier.sal...@codeless.fr wrote:
Hi,
I have uploaded libsnappy1.0.3-java package for picard-tools.
I could successfully build picard-tools with this package.
Cool. Thanks a lot.
picard-tools still
Le 8/14/12 10:57 AM, Andreas Tille a écrit :
Hi,
On Tue, Aug 14, 2012 at 09:06:46AM +0200, olivier.sal...@codeless.fr wrote:
Le 8/13/12 1:35 PM, Andreas Tille a écrit :
On Mon, Aug 13, 2012 at 08:07:22PM +0900, Charles Plessy wrote:
For libsnappy-java, since it still only has 10 Popcon
Le 8/14/12 10:57 AM, Andreas Tille a écrit :
Hi,
On Tue, Aug 14, 2012 at 09:06:46AM +0200, olivier.sal...@codeless.fr wrote:
Le 8/13/12 1:35 PM, Andreas Tille a écrit :
On Mon, Aug 13, 2012 at 08:07:22PM +0900, Charles Plessy wrote:
For libsnappy-java, since it still only has 10 Popcon
Le 8/13/12 1:35 PM, Andreas Tille a écrit :
On Mon, Aug 13, 2012 at 08:07:22PM +0900, Charles Plessy wrote:
For libsnappy-java, since it still only has 10 Popcon users, of which I
already
contribute 2 or 3 points because I develop on multiple machines, we can also
do
something very dark
Le 8/10/12 2:18 PM, Andreas Tille a écrit :
Hi Olivier (or whoever else might lurk un FB)
On Wed, Aug 01, 2012 at 11:07:53AM +0200, Olivier Sallou wrote:
Perhaps I'm wrong but I found the following:
I copy below the answer from upstream team.
They will not go to latest snappy version. Seems it was quite difficult
to integrate it and faced issues.
The problem is snappy-java 1.0.4 breaks its API and is not compatible
with version 1.0.3 used by picard-tools.
At runtime, picard-tools tries to
Le 8/13/12 11:08 AM, Andreas Tille a écrit :
On Mon, Aug 13, 2012 at 09:27:50AM +0200, olivier.sal...@codeless.fr wrote:
I copy below the answer from upstream team.
They will not go to latest snappy version. Seems it was quite difficult
to integrate it and faced issues.
The problem
Le 8/13/12 10:58 AM, Andreas Tille a écrit :
On Mon, Aug 13, 2012 at 09:15:47AM +0200, olivier.sal...@codeless.fr wrote:
I have sent a message via Facebook to one of the author but I am afraid
that it will be complicated
Any answer from colt author?
No, no answer
Hi,
package netlib-java remains in unstable and has not moved to testing due to:
libnetlib-java/i386 unsatisfiable Depends: f2j
f2j, in non-free, is available as binary only on amd64. But I wonder why
package does not move to testing if amd64 is available.
Any idea of I should do to get it in
Le 5/29/12 6:30 PM, Steffen Möller a écrit :
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
Le 5/30/12 9:33 AM, Alexandre Rossi a écrit :
Hi,
I've already seen this library, but it is not a compatible API.
I gonna ask to biojava team if they would go to using such library
instead of org.json one...
For what it's worth, from the work I've begun doing on GWT, which had
the same
Le 5/18/12 5:56 PM, Andreas Tille a écrit :
On Fri, May 18, 2012 at 12:16:04PM +0200, Michael Banck wrote:
I believe it is best kept at team maintenance, either in the debian-med
or the debichem repository, I do not particularly care which one, and as
it is already in debian-med, it might be
Hi all,
I tried to get pdb2pqr to build and upload it.
However, new version does not build at all (failure at install time). I
think I will need Manuel help to get the package ready.
I see that Makefile.in contains lots of options (@with_propka@,...), and
as I do not know the program, I do not
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou olivier.sal...@irisa.fr
X-Debbugs-Cc: debian-med@lists.debian.org
* Package name: mmtk
Version : 2.6.1
Upstream Author : Konrad Hinsen hin...@cnrs-orleans.fr
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*
Hi,
I have finished the Chado package, ready in SVN for a first upload and a
volunteer to do so.
There are several Lintian warnings raised. I added some explanation in
Debian.source, especially regarding warning on non trap errors in
postinst step (which are trapped in fact, but differently).
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