vice.
https://lists.debian.org/debian-blends/2007/02/msg00014.html
Have a nice week-end !
Charles
--
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Debian Med packaging team http://www.debian.org/devel/debian-med
Tooting from work, https://mastodo
g process functions well.
Stable point update might not need to be retrained depending on what the
patches address.
Have a nice day,
Charles
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Debian Med packaging team,
http://www.debian.org/devel/debian-med
Akano, Uruma, Okinawa, Japan
oing to be complex.
For this reason, it is frequent and fine to ask users to check
/usr/share//README.Debian after installing a package in order
to enable its functionality. Extra sugar such as selection via Debconf
would of course be even better.
Have a nice week-end,
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Tsurumi, Kanagawa, Japan
the description the
wiki page.
Have a nice week-end,
Charles
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Debian Med packaging team,
http://www.debian.org/devel/debian-med
Tsurumi, Kanagawa, Japan
Le Fri, Jan 12, 2018 at 09:23:46AM +0100, Dylan Aïssi a écrit :
> >
> > https://wiki.debian.org/Teams/r-pkg-team
>
> It could be useful to add this link in the description of the team in
> the salsa page.
Done, thanks for the suggestion !
--
Charles
t the
risk of accident of a) our API calls to touch the wrong repository, and
b) other DD's API calls to mess accidently with our repositories would
be slightly higher.
Have a nice day,
Charles
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Debian Med packaging team,
http://www.debian.org/devel/debian-med
Tsurumi, Kanagawa, Japan
Hello everybody,
I just drafted a r-pkg-team page on wiki.debian.org:
https://wiki.debian.org/Teams/r-pkg-team
Please feel free, to correct, expand, ...
Charles
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Debian Med packaging team,
http://www.debian.org/devel/debian-med
Tsurumi, Kanagawa, Japan
ehaviour of
dh-r once other pieces of the ecosystem (cme, lintian, ...) make the
transition.
Have a nice day,
Charles
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Debian Med packaging team,
http://www.debian.org/devel/debian-med
Tsurumi, Kanagawa, Japan
Le Mon, Jan 08, 2018 at 03:19:27PM +0100, Andreas Tille a écrit :
>
> Sleep well. Would you consider moving also the R packages of Debian Med
> project (remaining on Alioth currently) as well in the next couple of
> days?
Just started !
Charles
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Debian Med pa
> On Sun, Jan 07, 2018 at 09:50:23PM +0900, Charles Plessy wrote:
>
> > Next, I would like to transfer the R packages that are in the
> > `science-team`. But at the moment I do not have enough privileges.
> > Can someboody boost my status ? It can be just temporary of
> On Sun, Jan 07, 2018 at 09:04:06AM +0900, Charles Plessy wrote:
> >
> > I will create a team on GitLab. How about "r-packages-team" ?
Le Sun, Jan 07, 2018 at 07:52:14AM +0100, Andreas Tille a écrit :
>
> I consider r-pkg-team a more typical name.
Thanks f
> On Thu, Jan 04, 2018 at 11:14:14PM +0900, Charles Plessy wrote:
> > with the mass migration to GitLab on salsa.debian.org, I wonder if it
> > would be a good opportunity to host under the same umbrella all the
> > r-cran/bioc/other source packages that are maintained in
ackage updates. What do you think about this ?
Charles
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Tsurumi, Kanagawa, Japan
without
uploads is needed if we want to see the r-* packages in Testing.
Note that according to the package tracker, r-base will be part of
another transition soon. So it may be best to do the 5-day break before
it starts.
Have a nice day,
Charles
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Debian Med packaging team
age: r-cran-ca
Package: r-cran-coda
Package: r-cran-conting
[and a few dozens more]
Have a nice day
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Tsurumi, Kanagawa, Japan
Le Sat, Apr 01, 2017 at 03:24:53PM +0900, Charles Plessy a écrit :
>
> as a follow-up to #858183, I looked at which other R Bioconductor
> packages were broken by R 3.3.3-1, and it seems that the previous round
> of binNMUs did not repair some of them.
> nmu r-bioc-rsamtools_1.26
nomicalignments_1.10.0-1 . ANY . -m "Rebuild for R 3.3.3."
Note to debian-science: there are also R CRAN packages that fail with R
3.3.3, (r-cran-lubridate, r-cran-spam), but I am not yet sure if a
binNMU is enough.
Have a nice day,
Charles
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Debian Med packaging team
alioth.debian.org>
19 <lawre...@debian.org>
88 <debian-science-maintain...@lists.alioth.debian.org>
129 <e...@debian.org>
192 <debian-med-packag...@lists.alioth.debian.org>
(Super tiny bonus nitpick: no need to escape the newline character if ending a
shell
ves the line
ac_unique_file=""rtracklayer"" in the configure script.
As a temporary workaround, the simplest for us would be to run "touch
rtracklayer" somewhere in debian/rules.
Have a nice day,
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Debian Med packaging team,
http://www.debian.org/devel/debian-med
Tsurumi, Kanagawa, Japan
.
> >
> > Very nice.
>
> :-)
Hi all,
I added my address to the commit notification list, and can build and sponsor
packages if needed. I use R and maintain a small Bioconductor module at work,
and I am familiar with Debian backports.
Cheers,
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Charles Plessy
Debian Med pac
you do not need to ask anything before modifying or deleting.
I hope to have one day the opportunity to go at a Debian meeting and see you
in real in the future.
Keep on the good work, and have a nice week-end !
Charles
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Debian Med packaging team,
http://www.debian.org/devel
of data, can be the subject of other
DEPs.
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://tokyodebian.alioth.debian.org/
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Shameless off-topic advertisement: http://www.sciencescope.org/
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harmless Adobe against any losses, damages and costs arising
from the claims, lawsuits or other legal actions arising out of such
distribution.
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to a new branch 'debian'
$ ls
BUILD_DIR debian ftools tcltk
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Tsurumi, Kanagawa, Japan
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, this shows that such volatile information should better be
obtained from the package's VCS or the UDD, instead of the source package
itself. The field could either stay in debian/control, or be transferred to
another stable location similar to the debian/upstream file.
Have a nice day,
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Please feel free to suggest improvements.
Have a nice day,
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Tsurumi, Kanagawa, Japan
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-only file system I cannot change it.
Any idea what's going on?
Dear Michael,
Alioth has been split in two machines, vasks.debian.org and wagner.debian.org.
The repositories are writable on vasks.debian.org.
Have a nice day,
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Debian Med packaging team,
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Le Tue, Jun 12, 2012 at 08:33:27AM +0200, Michael Wild a écrit :
Ah, that would explain it. Just out of curiosity: where should I have
found this information?
http://wiki.debian.org/Alioth
Cheers,
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Debian Med packaging team,
http://www.debian.org/devel/debian-med
Tsurumi
Le Mon, May 07, 2012 at 09:15:43AM +0200, Andreas Tille a écrit :
On Mon, May 07, 2012 at 07:24:12AM +0900, Charles Plessy wrote:
Type: A BibTeX entry type (http://www.bibtex.org/Format/) indicating what
is
cited. Typical values are article, book, or inproceedings
dash (–). This is what is
intended in TeX by the double ASCII dash (--).
Have a nice day,
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Tsurumi, Kanagawa, Japan
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Le Fri, May 04, 2012 at 04:37:41PM +0200, Andreas Tille a écrit :
On Fri, May 04, 2012 at 10:58:57PM +0900, Charles Plessy wrote:
Could somebody please check out how to handle this in BibTeX?
Hi Andreas,
it looks like it is encoded word after the @.
A BibTeX entry consists of the type
Le Mon, May 07, 2012 at 12:13:31AM +0200, Andreas Tille a écrit :
I do not intend to implement something which comes close to a BibTeX
parser on the tasks pages.
Hi again,
I just found the following on the interweb: http://www.xandi.eu/bib2x/
It looks like it does the parsing for free, and
Le Fri, May 04, 2012 at 12:07:12PM +0200, Andreas Tille a écrit :
1. Your way to add Please cite as is a missuse of the publication
field (as you probably agree because you wrote hacked) and to
clarify this I will rename the rendering on the tasks pages to
not, but I
recommend to first check if the BibTeX format, which defines the sub-fields in
the Reference fied, is able to manage this directly.
See also http://en.wikipedia.org/wiki/Microattribution for a broader point
of view on academic citations.
Cheers,
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Debian Med packaging team
://wiki.debian.org/UpstreamMetadata.
Have a nice day,
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Tsurumi, Kanagawa, Japan
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fields, for instance, some original BibTeX
entries used the LaTeX representation of the en dash (--), which I converted to
the proper Unicode character (–), which was later replaced by the ASCII dash
(-) for the sake of normalisation (which is good).
Cheers,
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Debian Med packaging
the dpkg format 3.0 (quilt). In contrary to what the name suggests,
this will not be done using quilt. See the manual page of dpkg-source
for more details.
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page of devscript's “bts” command
as an alternative.
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Tsurumi, Kanagawa, Japan
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rights, and everybody is busy…
http://lists.debian.org/debian-qa/2010/12/msg00018.html
http://lists.debian.org/debian-qa/2011/01/msg00034.html
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from
debian/references instead. The main obstacle would be to write the code.
Ideally, I would hope to find a Perl module like BibTeX::Parser, but that
accepts a variable or an URL instead of a filehandle.
Have a nice day,
Cheers,
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Debian Med packaging team,
http://www.debian.org
Le Sat, Nov 27, 2010 at 07:11:20AM +0900, Charles Plessy a écrit :
In the case of bibliographic references, the needs goes beyond the use with
than bibliographic software. For instance, the Blends web sentinel need only a
part of the information in the BibTeX files, to provide a link
completely the system we are building with a BibTeX file.
I hope I can read the whole thread next week and be more constructive.
Cheers,
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Debian Med packaging team,
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Tsurumi, Kanagawa, Japan
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instead of
field::biology:imaging.
If nobody relies or maintains the biology facet, I would recommend its removal.
Have a nice day,
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Tsurumi, Kanagawa, Japan
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, we can again have lists on
comma-separated packages on folded lines, which allow to review the contents of
a task within a single screen.
Have a nice day,
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Tsurumi, Kanagawa, Japan
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updating a
backport as difficult as updating Testing during a freeze.
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package can originate from a signed
official package distributed in the main archive, but does not need a Debian
source package.
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://wiki.debian.org/getData
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Archive: http://lists.debian.org/20100508142925
Dear all,
I just saw the email about Hadoop on the debian-science mailing list, so I
forward this related RFS for those who do not read debian-mentors.
Have a nice day,
-- Charles Plessy
Le Tue, Mar 23, 2010 at 08:56:09PM -0430, Miguel Landaeta a écrit :
Hello mentors,
I am looking
of your package, but
please consider the attached copyright file for improving the current one.
Note that there is probably an anachronism for the Gcdm license, as the
included file seems to predate your contribution to Gcdm. Can you correct
it?
Have a nice day,
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Debian Med
administrators to amend the central information. But this
change can actually be done without uploading.
You can find a little bit more information in the Debian wiki:
http://wiki.debian.org/FtpMaster/Override
Have a nice day,
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Tsurumi, Kanagawa, Japan
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Le Mon, Oct 26, 2009 at 04:12:18PM +0100, Andreas Tille a écrit :
On Mon, Oct 26, 2009 at 11:55:32PM +0900, Charles Plessy wrote:
Nevertheless, if there are good reasons to not store monolithic BibTeX
references and use another format or approach, I would be very interested to
hear them
Le Thu, Nov 05, 2009 at 10:47:24AM +0900, Charles Plessy a écrit :
It would be great to standardise our efforts.
[on distributing BibTeX references].
By the way, does any reader here knows what other distros are doing ?
--
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be very interested to
hear them.
Have a nice day,
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Debian Med packaging team,
http://www.debian.org/devel/debian-med
Tsurumi, Kanagawa, Japan
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package to remove a similar clause, by referring to the following essay on the
FSF website: http://www.fsf.org/licensing/essays/bsd.html. Maybe you can give
it a try?
Have a nice day,
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Debian Med packaging team,
http://www.debian.org/devel/debian-med
Tsurumi, Kanagawa, Japan
Le Sun, Oct 11, 2009 at 10:58:17PM +0200, Andreas Tille a écrit :
On Sun, Oct 11, 2009 at 08:39:48AM +0900, Charles Plessy wrote:
ACLs can be used to grant reciprocal commit permissions between pkg-scicomp
and
debian-science.
Thanks for this hint. Could you give a pointer how
day,
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Tsurumi, Kanagawa, Japan
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as groups:
ple...@alioth:~$ getfacl debian-med
# file: debian-med
# owner: scm-gforge
# group: debian-med
user::rwx
group::rwx
other::r-x
I never used ACLs before, so I do not know if it would require the intervention
of an Alioth admin or not…
Have a nice day,
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Debian Med packaging
Le Sat, Aug 01, 2009 at 11:29:18PM +0900, Charles Plessy a écrit :
I think that the issue of managing package metadata goes beyond homepage and
registration, I propose to start a discussion on the subject on debian-devel,
and to fall back on using the debian/control file if this discussion
to the Debian archive packages from a
cran2deb repository without altering them (or maybe after a rebuild if they are
old).
Have a nice day,
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Debian Med packaging team,
http://www.debian.org/devel/debian-med
Tsurumi, Kanagawa, Japan
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a nice day,
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-matplotlib reveals other potential example
providers.
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can gain write access to collab-maint by joining the group.
(DDs have write access by default so they do not need).
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Debian Med packaging team,
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that
will give commit acces to each other team's repository.
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lib/adsabs_journals.c, listed in debian/copyright, does
not exist anymore, and debian/bibutils.dbk was moved to the parent directory.
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There are SVN and git repositories on Alioth, along with a group:
https://alioth.debian.org/projects/debian-science/
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it updated.
Dear Chen-Tse,
how about maintaining the libsvm source within the debian-science packaging
project ? It will probably help you to find sponsors.
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package installed.
The upload would close the RFP/ITP bug #470887, opened by Charles Plessy.
(Charles, would you mind taking a look and checking, whether bibus now works
for you?)
Dear Jan,
I have checked and uploaded your package, after a few nitpick modifications of
debian/copyright. To make
.
I would like to take the opportunity to thank Manuel for his work. I am sure
that the group policy he prepares will increase the long-term sustainability of
the packaging effort made on Alioth to provide programs for the Debian Science
blend !
Have a nice day,
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Debian Med
://lists.debian.org/debian-devel/2008/12/msg00442.html
Have a nice day,
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Le Mon, Dec 15, 2008 at 02:05:09PM -0200, Felipe Figueiredo a écrit :
On Wednesday 03 December 2008 01:59:01 Charles Plessy wrote:
Le Wed, Dec 03, 2008 at 01:16:25AM -0200, Felipe Figueiredo a écrit :
Are there any plans to also package Dotur?
http://schloss.micro.umass.edu/software
Le Tue, Dec 16, 2008 at 02:34:54AM +0900, Charles Plessy a écrit :
Le Mon, Dec 15, 2008 at 02:05:09PM -0200, Felipe Figueiredo a écrit :
On Wednesday 03 December 2008 01:59:01 Charles Plessy wrote:
Le Wed, Dec 03, 2008 at 01:16:25AM -0200, Felipe Figueiredo a écrit :
Are there any plans
lists can sink a lot of time. I actually talk with
experience:
wiki.debian.org also contains long lists of prospective packages that I do not
update anymore.
http://wiki.debian.org/DebianScience/Biology
Do you think that we can find synergies on common goals?
Have a nice day,
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to package his program.
Have a nice day,
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not include them?
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well. We probably will have to make a wishlist bug (with patch?)
to add a new section to Doc-Base.
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...
When we will have enough references, having a debhelper script will
definitely be a nice enhancement. I also see it as a long term goal, as
it will take one release cycle to have it in Stable. Using it before can
complicate user backports.
Have a nice day,
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Debian Med
.
The format of /usr/doc/package/references could be a popular one, for
instance BibTeX, if it allows cross references to other systems like
DOI, PubMed, ...)
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access have difficulties to access non-free and contrib packages.
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will draft one for Lenny this month.
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Charles Plessy
Debian Med packaging team,
Tsurumi, Kanagawa, Japan
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Le Thu, Jul 24, 2008 at 02:30:04PM +0100, Chris Walker a écrit :
Is kst [A KDE application used for displaying scientific data] incorrectly
tagged?
In my opinion, yes. The drawback with Debtags is that tagging is
anonymous, so we can't discuss with the person who tagged kst
Field::Chemistry.
Le Sun, Jun 29, 2008 at 07:03:58PM +0100, Chris Walker a écrit :
The debtags available don't seem to have quite enough granularity -
but perhaps I've missed something - so I've knocked up a very
incomplete list of sections that packages might drop into.
Hi Chris,
If I understand correctly,
Le Sat, Jul 19, 2008 at 06:42:33PM +0100, Chris Walker a écrit :
Before I go much further, how do people see the role of the wiki - and
in particular the individual subject pages. At the moment many of
them are out of date and incomplete.
Hi Chris,
Now that we have nice autogenerated pages
such as maxima.
Am I missing something, or packages can't be in more than one category/task
in
this system?
Hi Felipe,
Packages can definitely go in as many tasks as want. Of course, having
too much redundant tasks can discourage users to chose us.
Have a nice day,
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Charles Plessy
Debian
Le Sat, Jun 14, 2008 at 11:59:27AM -0500, Jordi Gutiérrez Hermoso a écrit :
On 14/06/2008, Jordi Gutiérrez Hermoso [EMAIL PROTECTED] wrote:
So this is what needs to be replaced?
http://www.cs.cmu.edu/~quake/triangle.html
So I'm thinking that it's not a bad idea to first ask if he's
. For
instance, math, electronics, gnome, kde, libs all seem logical as
well.
Hi Jordan,
Actually, there can be a Section field for the source and the binary
packages. Maybe that can solve the problem ?
Have a nice day,
--
Charles Plessy
http://charles.plessy.org
Wakō, Saitama, Japan
Le Tue, May 20, 2008 at 08:23:42AM +0200, Andreas Tille a écrit :
For instance I remember that we first had
DM-Upload-Allowed: Yes
in many control files. It turned out that this was case sensitive and
so it was changed to
DM-Upload-Allowed: yes
automatically in the whole
that it could be a good idea, as a website like
debian-science.alioth.debian.org would be more meaningful than
pkg-science.alitoth.debian.org.
(consider this as sponsoring if you need)
Have a nice day,
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Charles Plessy
Debian-Med - debian-med.alioth.debian.org
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I have added a note in the Debian-Med policy.
http://debian-med.alioth.debian.org/docs/policy.html#id250567
Have a nice day,
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Charles Plessy
http://charles.plessy.org
Wakō, Saitama, Japan
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Le Fri, May 09, 2008 at 12:09:28PM +0200, David Bremner a écrit :
Charles Subversion. So far, the ability to do repository-wide
Charles changes was useful to us, as well as the possibility to
Charles do partial checkouts if needed.
Well, I am most certainly not a git expert. But
if
upstream is planning to implement that kind of feature ?
Have a nice day,
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Charles Plessy
http://charles.plessy.org
Wakō, Saitama, Japan
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in the
manuscript by the main writer.
Have a nice day,
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Charles Plessy
http://charles.plessy.org
Wakō, Saitama, Japan
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Hi all,
I just read about gPapers in Nature this morning:
http://gpapers.org/
I definitely have no time to package it, nor have enough knowledge of
Python. But if somebody could do it, I am sure that it would be a great
addition to Debian.
Have a nice day,
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Charles Plessy
http
Unfortunately, there are many good application, so I am not sure that
the biological data manager will be funded this year.
Have a nice day,
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Charles Plessy
http://charles.plessy.org
Wakō, Saitama, Japan
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