> Gesendet: Sonntag, 24. Januar 2016 um 01:44 Uhr
> Von: "Charles Plessy"
> An: debian-med@lists.debian.org
> Betreff: Re: Lastest ClustalW released under LGPL-3+ what about clustalw-mpi
>
> Le Sat, Jan 23, 2016 at 09:26:43AM +0100, Andreas Tille a écrit :
> >
> > I just noticed that clustalw-m
It was fantastic to have had you around, Peter. This year was quite a
promotion
for the Sprint - for Debian Med but also for the concept in general, I
tend to think.
Steffen
On 11/02/16 14:02, Michael Crusoe wrote:
> Yep! That effort is being organized
> via https://osf.io/a6kvu/ &
> https://gr
done
Best,
Steffen
On 12/02/16 11:40, Fabian Klötzl wrote:
> Hi all,
>
> I updated indelible to feature a brand new man page. Now the package
> should be lintian-free. Would someone kindly sponsor?
>
> Just wondering, which timestamp is supposed to be under a changelog
> entry, the day I started a
@Michael in particular,
I need to run a yet not completely defined NGS workflow on some ~30
nucleotides read-length single-ended FASTQ files to determine expression
levels. I thought that it would be very nice to learn about cwl on the
way. I know your package for the cwltool is almost there but c
Nice!
I was thinking about collecting material for an edam-utils package. This
script of Andreas would be part of it, an extension for getData to maintain
a local copy of the EDAM ontology, Hervé's upload tool to http://bio.tools,
please ping me about what you consider missing.
Best,
Steff
Please see
https://wiki.debian.org/CommonWorkflowLanguage
which is some very bare bones Debian-tailored portal to the CWL, I tend to think. Please extend at leisure.
A question missing on that page may be:
Q: How do I find a good workflow for my problem?
Idea of an answer: The CWL per se is
Hi Michael, hi all,
the cwltool is now lintian clean (I autogenerated man pages for it)
which renders it a prime candidate for a package to be uploaded to
unstable. How are your feelings about it? At the very moment there is a
tiny discrepancy between online instructions and the current
implementa
Hello,
I am a fan of wiki.debian.org. So I just added a description of
debian/upstream/edam to https://wiki.debian.org/debian/upstream . Now,
besides that, I would like another page to e.g. gather the scripts that
Andreas wrote to learn about what packages already have an edam entry
and to descri
en
On 06/03/16 21:58, Steffen Möller wrote:
> Hello,
>
> I am a fan of wiki.debian.org. So I just added a description of
> debian/upstream/edam to https://wiki.debian.org/debian/upstream . Now,
> besides that, I would like another page to e.g. gather the scripts that
> Andre
Hi Jon, hi Andreas,
On 09/03/16 22:45, ji...@cbs.dtu.dk wrote:
> Thanks for this work, folks.
>
> The ELIXIR bods have been swamped since the sprint; March is also horrendous:
> this situation will improve in April! Watch
> this space ... :)
It seems like I will make to Trondheim next week. If s
Hi Jon,
On 10/03/16 15:51, ji...@cbs.dtu.dk wrote:
> To get the EDAM annotations, it could be much more straightforward to wait
> until the SEQwiki tools imported into bio.tools
Hm. Right. Can wait, indeed.
> (this right now is the #1 content priority) and then export to DebianMed of
> the desc
Hi Alex,
> On 03/24/2016 06:18 PM, Andreas Tille wrote:
> >
> > time to follow other members of the team to become a DD? ;-)
>
> Well, seeing that you trust in me is really motivating :)
Well, your packages are typically brainless to sponsor.
I tend to agree - you should already be a DD. Mind b
Hello,
I had started this friendly and constructive thread on Debian Devel on
link time optimisation
https://lists.debian.org/debian-devel/2016/03/msg00399.html
and my personal consensus is that we should possibly start with the most
rewarding scientific packages of ours to see how it goes. What
On 31/03/16 02:34, Charles Plessy wrote:
> Le Wed, Mar 30, 2016 at 01:36:58PM +0200, Steffen Möller a écrit :
>> I had started this friendly and constructive thread on Debian Devel on
>> link time optimisation
>>
>> https://lists.debian.org/debian-devel/2016/03
Hello,
I have identified (some of the glitches) of the autodock tools and I
know upstream to already have worked on it, seriously. This is the pack
and grid on the same frame and incompatibility with the numeric library.
I'll send them a ping.
Best,
Steffen
On 07/04/16 23:58, Canberk Koç wrote:
Today, a link on LinuxToday.net brought me to an OSCON video
https://www.youtube.com/watch?v=eQGWrdgu_fE
by Dana Lewis and her middleware
https://github.com/openaps/openaps
to assemble a bunch of off-the shelf components to establish a feedback
loop to control blood sugar levels.
Their philoso
On 24/05/16 19:53, Karsten Hilbert wrote:
>> Well, if we try to create a package than we are doing this since we are
>> the experts in doing installations and we can do this usually better
>> than a random user. We are trying our best to let things perform
>> correctly. Imagine we install gpg t
On 25/05/16 13:26, Karsten Hilbert wrote:
> On Wed, May 25, 2016 at 01:17:25PM +0200, Karsten Hilbert wrote:
>
>>> The former mentioned technical reasons aside I would like to add support
>>> for the political statement that this technology is available and should
>>> become clinical practice.
>>
Hello,
If I can remember correctly, one reason we are doing this Debian
packaging is that we find not all but many packages not ultimately
straight-forward to compile. It is not the "configure && make install"
that bothers us, but the manifold dependencies and dependencies of those
dependencies th
Hello,
What do you guys think? If it is not completely over the top then I
would like to have the effort as part of the continuous integration
testing. The result should then go into a git repository from where the
world can retrieve it. I know, bandwidth, but it should not be not too
bad, I tend
>
>
> *De: *"Michael Crusoe"
> *À: *"Debian Med Project List"
> *Envoyé: *Mercredi 8 Juin 2016 14:58:34
> *Objet: *NETTAB 2016 abstract deadline extended to June 30th
>
> Solicited topics http://www.igst
Hello,
I was peeking into the one or other scientific collaboration of mine to
invite them to our next Debian Med sprint. But I could not really tell
much about it, yet. Besides deciding where to convene next (which to my
recollection is decided by someone saying loudly that he/she wants to
host u
Hi Sascha,
On 15/06/16 14:01, Sascha Steinbiss wrote:
> Hi Steffen and all,
>
>> I was peeking into the one or other scientific collaboration of mine to
>> invite them to our next Debian Med sprint. But I could not really tell
>> much about it, yet. Besides deciding where to convene next (which to
Hi Afif,
On 16/06/16 09:43, Afif Elghraoui wrote:
> Hi, all,
>
> على الأربعاء 15 حزيران 2016 05:01، كتب Sascha Steinbiss:
>>> Should there possibly a second Debian Med meeting on another
continent than Europe?
>> Sure, if there is enough interest -- especially for newcomers from
>> overseas
On 16/06/16 09:56, Michael Crusoe wrote:
> On Tue, Jun 14, 2016 at 1:12 AM, Steffen Möller
> mailto:steffen_moel...@gmx.de>> wrote:
>
> I was peeking into the one or other scientific collaboration of
> mine to
> invite them to our next Debian Med sprint. But
On 21/06/16 22:12, Michael Crusoe wrote:
> On Tue, Jun 21, 2016 at 7:49 PM, Steffen Möller
> mailto:steffen_moel...@gmx.de>> wrote:
>
>
>
> On 16/06/16 09:56, Michael Crusoe wrote:
> > On Tue, Jun 14, 2016 at 1:12 AM, Steffen Möller
>
Hello,
Matúš and I are having a mini-sprint together - directly at the baltic
sea - to get the integration of Debian packages and their annotation
with the bio.tools registry a bit of a push. One issue that just came up
was that the accession number/ID of the uploaded entry should be stored
somewh
Hello again,
just to render it all a bit more tangible:
On 22/06/16 11:30, Steffen Möller wrote:
> Matúš and I are having a mini-sprint together - directly at the baltic
> sea - to get the integration of Debian packages and their annotation
> with the bio.tools registry a bit of a
Hi Andreas,
On 22/06/16 13:03, Andreas Tille wrote:
> On Wed, Jun 22, 2016 at 11:30:57AM +0200, Steffen Möller wrote:
>> Hello,
>>
>> Matúš and I are having a mini-sprint together - directly at the baltic
>> sea - to get the integration of Debian packages and t
Hello,
On 22/06/16 15:06, Olivier Sallou wrote:
> On 06/22/2016 02:12 PM, Andreas Tille wrote:
>> [For readers of Blends list: We are discussing an additional field
>> in debian/upstream/metadata ]
>>
>> On Wed, Jun 22, 2016 at 01:12:46PM +0200, Steffen Möller wrote:
On 27/06/16 16:22, Andreas Tille wrote:
> On Mon, Jun 27, 2016 at 10:04:40AM -0400, Michael Crusoe wrote:
>> http://identifiers.org/rrid/
>>
>> Example: http://identifiers.org/rrid/RRID:SCR_001156
>>
>> Where would be the best place to incorporate this into Debian? We are
>> adding support for thi
This is great! That custom fokr of pysam reads as if one wants to avoid
that and rather give those extra features back to everyone via upstream.
I'll do bioblend and svgwrite - now.
Anybody else chiming in?
bx-python
wchartype
dictobj
bioblendSteffen
requests-toolbelt
pulsar-galaxy-
e some issues with it,
i.e. there is no python3 module and the examples do not install.
Someone please have a look and direct me a bit.
Cheers,
Steffen
>
> On 06/28/2016 03:20 PM, Steffen Möller wrote:
>> This is great! That custom fokr of pysam reads as if one wants to avoid
>&
Hello again,
https://anonscm.debian.org/cgit/python-modules/wchartype.git
has a similar problem for me. The version 3 packages are not placed in
their debian directories.
Many thanks
Steffen
On 29/06/16 19:16, Steffen Möller wrote:
> Hello,
>
>
> On 28/06/16 16:34, Olivier Sallou
Hello,
On 30/06/16 10:41, Afif Elghraoui wrote:
> Hi, all,
>
> على الثلاثاء 28 حزيران 2016 06:20، كتب Steffen Möller:
> [...]
>> bx-python
> I checked-in to Debian Med git what I had done on this package a few
> months ago. I don't really have an interest in it any
Hello again,
bx-python vacant in our git repository, not uploaded
wchartype in unstable
bioblendin unstable
svgwritein unstable
requests-toolbelt in unstable
dictobj in unstable
pulsar-galaxy-lib vacant
sqlalch
https://tess.elixir-uk.org/workflows/structural-bioinformatics-workflow
I like it. And I very much hope this gets interlinked nicely with
bio.tools so the resources of Debian Med are also found that way. It is
all a bit high-level/non-existing yet to name the effort a competition
to what the CWL i
Hello,
this is about
https://github.com/Homebrew/homebrew-science
It features an astonishing array of bioinformatics software and kind of
saves what is left of my sanity to get our local HPC environment going.
Our admins are "its in your home directory" fine with it.
I do not know what this mea
On 30/07/16 10:15, Afif Elghraoui wrote:
> Hi, all,
>
> على الخميس 28 تـمـوز 2016 03:54، كتب Sascha Steinbiss:
>>> I do not know what this means for Debian Med. It is a competition. And,
with some early brain wash from the homebrew on the Mac I am now using
on my desk, it also feels na
Hello,
https://www.researchgate.net/publication/305342071_Crowdsourcing_biomedical_research_Leveraging_communities_as_innovation_engines
cites our "Community-driven development for computational biology at
Sprints, Hackathons and Codefests" paper
https://www.researchgate.net/publication/26897793
Hi all,
Those who participated in our past Sprint in Lyngby have met Ruben. He
is the one who kindly packaged all that needed to be packaged for the
first and yet only completely Open Source toolchain for FPGA computing.
Details are on http://wiki.debian.org/FPGA/Lattice .
Ruben started that page
Hello,
I am writing from the ECCB, attending this tutorial
http://nbviewer.jupyter.org/urls/www.mtholyoke.edu/courses/afoulkes/ECCB2016.ipynb
which tells me how to do right what I have been doing for the last years
:o) It is very clear and so I asked if it would be o.k. to point to it
from within
ing news also about
> NoCs?)
> Matus
>
>
> On 2016-09-02 10:18, Steffen Möller wrote:
>> Hi all,
>>
>> Those who participated in our past Sprint in Lyngby have met Ruben. He
>> is the one who kindly packaged all that needed to be packaged for the
>> first
Hello,
I was at the ECCB earlier this month and in particular over the
tutorials I had asked about the idea to synchronize their tutorial
efforts with our packaging. I was a bit surprised, but all tutorials
indeed requested to install a considerable amount of software, one was
even a Ubuntu-derive
r this and have no
exact idea about how soon I can come up with anything. Feel free
nag^H^H^Hpinging me about it.
Best,
Steffen
On 19/09/2016 14:19, Steffen Möller wrote:
> Hello,
>
> I was at the ECCB earlier this month and in particular over the
> tutorials I had asked about th
Hi all,
On 07/11/2016 13:54, Charles Plessy wrote:
> Hi all,
>
> Thanks Michael for the organisation !
Indeed!
> I will probably attend a meeting in Saudi Arabia on February 12th to 15th, so
> this time I might be around for a Sprint on the days and week-end that follow.
> But I am not entirely su
And yet another "hello",
On 05/07/2016 17:11, Steffen Möller wrote:
> Hello again,
>
> bx-python vacant in our git repository, not uploaded
> wchartype in unstable
> bioblend in unstable
> svgwrite in unstable
> re
Ah, hi Diane,
On 14/11/2016 08:20, Andreas Tille wrote:
> Hi Diane,
>
> could you possibly contribute here considering that you have
> setup a debian-bx-python repository on Github?
>
> On Sun, Nov 13, 2016 at 11:21:08PM +0100, Steffen Möller wrote:
>>> sqlalchemy-mi
Hello,
much like many of you I just received this invitation to come up with a
tutorial and/or workshop for the Basel (Switzerland) conference. The
ISMB (next time in Prague (CZ) if I recall correctly) I expect to send
the same around any minute or I already missed it as they typically have
deadli
Hello,
Right, we need to get the DPL's approval, even though I never asked my
expenses to be covered ;o/ I can prepare for that together with
Michael. Please all just add your names on the Sprint page.
Something else that came to mind, which is that we should think about
lowering mental hurdles
Hello,
I am interested in testing complete workflows based on packages in
Debian. The emphasis would be more on "data out here is working fine as
data in there" for a chain of commands, and on "this result is close to
the expected" rather than working on single packages. Are there any
proposals on
Hi Andreas,
On 07/02/2017 15:54, Andreas Tille wrote:
> Hi Matus and Steffen,
>
> I was again stumbling upon totally broken edam yaml files (bowties and
> bowtie2 was totally broken, I fixed freecontact and clustalo which had
> "topics" instead of "topic" and were breaking UDD import due to this)
Hello,
is anyone already preparing a poster for the ISMB that shows Debian?
There have been tons of infrastructure posters at last year's ECCB that
got me disappointed that we were not somehow present. I know, we wanted
to have a booth for quite a while but never got around organizing it.
I have
gt; (https://docs.google.com/document/d/1LKBrAF1B2jmH2JhuTL1skCj5IRAzPEMe-ATgZyKXj5Q/edit?ts=5919be95)...
>
> Looking forward!
> Matus
>
>
>
> On 2017-05-15 16:55, Steffen Möller wrote:
>> Hello,
>>
>> is anyone already preparing a poster for the ISMB that show
Hello,
We had a quick exchange on RRIDs on this list before, if I am not
erroneous. Michael is particularly supportive of them and again, correct
me if I am wrong and if you care, we had another not ultimately decisive
discussion about them at the Debian Med Sprint this year. Once you are
made awa
Hi Andreas,
On 6/27/17 9:34 PM, Andreas Tille wrote:
> as I stated on debian-private list I will not be able to fix bugs in the
> next two weeks. I have the feeling we are currently receiving way more
> than we are fixing. It would be really cool if you could run some kind
> of inofficial first
Hi Andreas,
you may have seen me and Dylan (!) add references to software registries
for computational biology. I admit to have lost oversight a bit which
packages already have these references and which should still be
annotated. So, to
- help myself but also to
- promote the effort a bit more
Hello,
Many (most) HPC administrators very much detest the idea to grant any
sort of root privileges to their users. This consequently rules out the
installation of our Debian packages and also the employment of Docker
images for the execution of binaries. Ouch! After all, with this
perpetual aval
Hi Andreas,
On 22.07.17 16:38, Andreas Tille wrote:
> On Sat, Jul 22, 2017 at 11:43:59AM +0200, Steffen Möller wrote:
>> you may have seen me and Dylan (!) add references to software registries
>> for computational biology. I admit to have lost oversight a bit which
>> packag
Dear Andreas, dear Charles,
You know me adding references to RRID, bio.tools and OMICtools these
days. I am doing this for what I see currently active on the list
(usually too late for the upload) or for what is already checked out on
my laptop's hard drive. That done it will be about completing a
Hello,
I had an exchange with Stian yesterday about what CWL workflow of his
database he would propose to use as an experience-gathering example. He
proposed the GATK workflow by Farah Zaib Khan et al. for being good to
cite about workflows and reproducibility.
https://doi.org/10.1186/s12859-017-
Hi Charles,
On 12.08.17 11:31, Charles Plessy wrote:
> Le Sat, Jul 29, 2017 at 07:45:23PM +0200, Steffen Möller a écrit :
>> In a direct email to Charles (asking if "Registry" was OK after becoming
>> aware of the reserved keyword "Registration" with a differe
On 15.08.17 00:17, Dylan Aïssi wrote:
> Hi,
>
> 2017-08-12 13:25 GMT+02:00 Steffen Möller :
>> On 12.08.17 11:31, Charles Plessy wrote:
>>> I wonder if this metadata would be even more useful via AppStream. From
>>> https://appstream.debian.org/:
>>>
Dear all,
this morning brought updates to references to research software
catalogues (SciCruch RRIDs, OMICtools, bio.tools) to packages referenced
in Debian Med's "NGS" task. At some point we need to decide what
packages should be in what task, but that is for another email. The
other bio-tasks I
On 10.09.17 20:22, Andreas Tille wrote:
> Hi Steffen,
>
> On Sun, Sep 10, 2017 at 01:18:46PM +0200, Steffen Möller wrote:
>> this morning brought updates to references to research software
>> catalogues (SciCruch RRIDs, OMICtools, bio.tools) to packages referenced
>>
Hi Andreas,
On 10.09.17 20:22, Andreas Tille wrote:
> Hi Steffen,
>
> On Sun, Sep 10, 2017 at 01:18:46PM +0200, Steffen Möller wrote:
>> this morning brought updates to references to research software
>> catalogues (SciCruch RRIDs, OMICtools, bio.tools) to packages referenc
Hi Andreas,
On 21.09.17 08:27, Andreas Tille wrote:
> Hi Steffen,
>
> On Wed, Sep 20, 2017 at 10:52:55PM +0200, Steffen Möller wrote:
>>> ...
>>> Error testing example
>>> --- tests/example6.out 2017-09-20 13:07:01.0 + +++ example6.out
>>&
Hi Andreas,
On 21.09.17 09:27, Andreas Tille wrote:
> Hi folks,
>
> I have not yet heard about any volunteer to organise the next Debian Med
> Sprint. Is there anybody who would like to organise our next meeting?
Marseille was once offered to us but did not yet get an answer - had asked
while ou
Hello,
This effort is a bit moot since we should likely follow one of the
classifications that are already out there (like EDAM ontology topics or
OMICtools categories), but this will take some time. So, I finally got
around to manually moving a series of NGS-centric packages over to the
bio-ngs t
On 21.09.17 22:42, Andreas Tille wrote:
> On Thu, Sep 21, 2017 at 07:00:27PM +0200, Steffen Möller wrote:
>>> That looks pretty similar and no visible missing.
>> You have cowdancer - but you are right. Hm. Just because it works for me
>> without pbuilder - I know the bui
On 22.09.17 08:46, Olivier Sallou wrote:
>
> On 09/21/2017 07:08 PM, Steffen Möller wrote:
>> Hi Andreas,
>>
>> On 21.09.17 09:27, Andreas Tille wrote:
>>> Hi folks,
>>>
>>> I have not yet heard about any volunteer to organise the next Debian
On 21.09.17 23:13, Dylan Aïssi wrote:
> Hi Steffen,
>
> 2017-09-16 18:37 GMT+02:00 Steffen Möller :
>> I have added a sentence to the Debian Med policy and also pushed
>> the "Registry:" entry for the UpstreamMetadata wiki page that our
>> policy is pointing t
Hi Andreas,
On 22.09.17 11:47, Andreas Tille wrote:
> Hi Steffen,
>
> On Thu, Sep 21, 2017 at 07:29:47PM +0200, Steffen Möller wrote:
>> This effort is a bit moot since we should likely follow one of the
>> classifications that are already out there (like EDAM ontology t
Hi again,
On 22.09.17 16:54, Andreas Tille wrote:
> Hi Steffen,
>
> On Fri, Sep 22, 2017 at 04:00:52PM +0200, Steffen Möller wrote:
>>> I do not think that the effort is really moot since there is no code yet
>>> (and nobody volunteered to code this - I for myself
Hi Andreas,
On 24.09.17 14:06, Andreas Tille wrote:
> Hi Steffen,
>
> On Sun, Sep 24, 2017 at 11:24:49AM +0200, Steffen Möller wrote:
>> I had a bit of fun on that one:
>>
>> ...blend-med/tasks$ for i in bio bio-ngs; do egrep -v "^[ \t]*[X#]" $i |
>>
>>> BTW, I added the references to the UDD query that is used in the tasks
>>> pages generation code. So one further step is done to put them on the
>>> tasks pages. Unfortunately I was running (again) on a strange encoding
>>> problem with the UDD on my developer machine (luckily not on the
>>>
On 25.09.17 19:50, Andreas Tille wrote:
> On Mon, Sep 25, 2017 at 07:43:57PM +0200, Steffen Möller wrote:
>>> Unfortunately there seems to be some data importer problem in UDD which
>>> causes a lack of descriptions for some pachages. :-( Need to track this
>>> d
Hi Jon, hi Charles,
On 26.09.17 09:31, Jon Ison wrote:
> Dear Charles & fellow Debianoids,
>
> Forgive the blatant sales pitch, but you’re very welcome to the bio.tools
> data (all of it) which is licensed
> (http://biotools.readthedocs.io/en/latest/license.html) under Creative
> Commons Attri
Hi Andreas,
here some R/Python/PHP-mix pseudocode idea for getting
the registry links displayed on the task page:
registry_prefix={
"bio.tools"=>"https://bio.tools/";,
"RRID" => "http://identifiers.org/rrid/RRID:";,
"SciCrunch" => "http://identifiers.org/rrid/RRID:";,
"OMICtools" => "https
Hi Andreas,
On 09.10.17 16:34, Andreas Tille wrote:
> Hi Steffen,
>
> On Mon, Oct 09, 2017 at 04:10:59PM +0200, Steffen Möller wrote:
>> Hi Andreas,
>> here some R/Python/PHP-mix pseudocode idea for getting
>> the registry links displayed on the task page:
>>
>
On 11.10.17 21:29, Andreas Tille wrote:
> On Wed, Oct 11, 2017 at 06:20:59PM +0200, Steffen Möller wrote:
>>> One question regarding the 'NA' values. I'd consider it more readable
>>> if we would just print nothing if there is no entry available. Or am I
On 19.10.17 08:04, Andreas Tille wrote:
> Hi Steffen,
>
> I'm working on some test implementation
Great!
> On Mon, Oct 09, 2017 at 04:10:59PM +0200, Steffen Möller wrote:
>> registry_prefix={
>> "bio.tools"=>"https://bio.tools/"
On 19.10.17 08:32, Andreas Tille wrote:
> On Thu, Oct 19, 2017 at 08:29:15AM +0200, Andreas Tille wrote:
>> On Mon, Oct 09, 2017 at 04:10:59PM +0200, Steffen Möller wrote:
>>> "OMICtools" => "https://duckduckgo.com/?q=\\"; (a single backslash at
I am in a skype meeting at the very moment .. did not reach our contact
over there, yet. Let us find another place if I fail to establish a
contact till Monday.
Cheers,
Steffen
On 20.10.17 09:56, Andreas Tille wrote:
> Hi folks,
>
> up to now nobody volunteered for Sprint organisation. I think
Hi Andreas,
On 19.10.17 18:09, Andreas Tille wrote:
> Hi,
>
> I started to check the list of external packages of possibly interesting
> packages and stumbled upon blixem which is part of seqtools[1]. The
> source also contains dotter and belvu and seems to be actively
> maintained. However, the
On 20.10.17 17:10, Andreas Tille wrote:
> On Fri, Oct 20, 2017 at 04:23:37PM +0200, Steffen Möller wrote:
>>> I started to check the list of external packages of possibly interesting
>>> packages and stumbled upon blixem which is part of seqtools[1]. The
>>> source
On 20.10.17 15:12, Andreas Tille wrote:
> Hi,
>
> On Fri, Oct 20, 2017 at 02:18:13PM +0200, Matus Kalas wrote:
>> This is super awesome to see Andreas & Steffen, you really made my day!
> You could make my day in turn to add more of the data we need for the
> packages not yet tagged. :-P
@Matúš,
On 20.10.17 21:03, Andreas Tille wrote:
> On Fri, Oct 20, 2017 at 06:13:10PM +0200, Steffen Möller wrote:
>
> .
>>>> * RRID|SciCrunch: identifiers.org don't guarantee anything. If there's no
>>>> cool permanent URL, identifiers.org don't ha
Args, I have only now updated
https://wiki.debian.org/UpstreamMetadata
to reference SciCrunch by their name.
Many thanks and sorry
Steffen
On 22.10.17 12:20, Andreas Tille wrote:
> Hi Charles,
>
> wasn't Steffen just doing heaps of uploads with
>
> - - Name: RRID
> + - Name: SciCrunch
>
> As f
Hello,
On 21.10.17 10:11, Charles Plessy wrote:
> Le Sat, Oct 21, 2017 at 08:08:49AM +0200, Andreas Tille a écrit :
>> when reading this commit log: Should we package Bioconductor TFBSTools?
>>
>> This would need at least a hand full of Bioconductor depencencies but
>> usually it is quite straigh
Hello,
I have updated the rapmap package that I do not use myself.
If we have some user of this tool on this list, please kindly
give it a test run.
Best,
Steffen
On 22.10.17 21:28, Steffen Möller wrote:
> This is an automated email from the git hooks/post-receive script.
>
> moeller
On 23.10.17 16:07, Andreas Tille wrote:
> Hi Steffen,
>
> On Mon, Oct 23, 2017 at 02:08:36PM +0200, Steffen Möller wrote:
>> I have updated the rapmap package that I do not use myself.
>> If we have some user of this tool on this list, please kindly
>> give it a test r
On 23.10.17 16:46, Andreas Tille wrote:
> On Mon, Oct 23, 2017 at 04:17:37PM +0200, Steffen Möller wrote:
>> I admit my motivation was mostly to make yet another "New Version
>> Available" button on our tasks page go away ... and add another link to
>> the registr
, not publicly visible, so nobody should truly care and
the use of SciCrunch imho serves us best on a technical level.
The https://www.force2017.org/ starts today in Berlin which should
gather people who know best - is anybody following this list attending?
Steffen
>
> 2017-10-2
On 25.10.17 13:47, Michael Crusoe wrote:
>
>
> 2017-10-25 14:34 GMT+03:00 Steffen Möller <mailto:steffen_moel...@gmx.de>>:
>
>
> On 25.10.17 10:56, Michael Crusoe wrote:
> > Sorry, I missed the bit where we are deprecating RRID. Can someone
>
On 25.10.17 17:19, Matus Kalas wrote:
> On 2017-10-25 15:12, Michael Crusoe wrote:
>> 2017-10-25 16:04 GMT+03:00 Steffen Möller :
>>
>>> On 25.10.17 13:47, Michael Crusoe wrote:
>>>>
>>>>
>>>> 2017-10-25 14:34 GMT+03:00 Steffen Mö
On 25.10.17 17:49, Michael Crusoe wrote:
>
>
> 2017-10-25 18:19 GMT+03:00 Matus Kalas <mailto:matus.ka...@uib.no>>:
>
> On 2017-10-25 15:12, Michael Crusoe wrote:
>
> 2017-10-25 16:04 GMT+03:00 Steffen Möller
> mailto:steffen_moel...@gmx.de&
On 25.10.17 18:52, Michael Crusoe wrote:
>
>
> 2017-10-25 19:21 GMT+03:00 Steffen Möller <mailto:steffen_moel...@gmx.de>>:
>
>
> On 25.10.17 17:49, Michael Crusoe wrote:
> >
> >
> > 2017-10-25 18:19 GMT+03:00 Matus Kalas <mai
Hello,
On 25.10.17 23:50, Afif Elghraoui wrote:
> Hello,
>
> On October 25, 2017 5:03:23 PM EDT, Maximilian Haeussler
> wrote:
>> Andreas: If clustal,
When I had asked Andreas in 2001 or so to update clustalw for me, this
was what started my contributions to Debian. Maybe this qualifies me to
jo
On 26.10.17 08:26, Michael Crusoe wrote:
>
>
> 2017-10-25 20:47 GMT+03:00 Steffen Möller <mailto:steffen_moel...@gmx.de>>:
>
>
> On 25.10.17 18:52, Michael Crusoe wrote:
> >
> >
> > 2017-10-25 19:21 GMT+03:00 Steff
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