Dear all,
It is time for me to follow a different path.
Many thanks to Andreas for taking the time and for the MoM.
Although rather short term interaction with you, I have been able to
understand a bit more on why debian is so amazing.
Thanks for your effort and for making the life of those
There are also
some manpage errors mentioned by lintian. Please try to fix these.
Kind regards
Andreas.
On Thu, Oct 22, 2020 at 02:06:47PM +0200, Andrei Rozanski wrote:
Hi Andreas,
Thanks for the replying even in "real life mode" :D
On 10/21/20 10:53 PM, Andreas Tille wr
n. Please try to fix these.
Kind regards
Andreas.
On Thu, Oct 22, 2020 at 02:06:47PM +0200, Andrei Rozanski wrote:
Hi Andreas,
Thanks for the replying even in "real life mode" :D
On 10/21/20 10:53 PM, Andreas Tille wrote:
Hi,
Thanks for pointing that out. I have pushed it
nd regards
Andreas.
On Wed, Oct 21, 2020 at 06:44:54PM +0200, Andrei Rozanski wrote:
Hello,
I have worked on AGAT (https://salsa.debian.org/med-team/agat). For the
moment, lintian seems fine. The build also looks promising.
I would like to request some help for checking/guidance on what I
Rozanski
wrote:
> Hi Andreas,
>
> Thanks for the answer! I will work on it.
>
>
>
> On October 16, 2020 07:39:23 Andreas Tille wrote:
>
> Hi Andrei,
>>
>> On Fri, Oct 16, 2020 at 07:30:11AM +0200, Andrei Rozanski wrote:
>>
>>> More rec
Hi Steffen,
On 10/16/20 12:12 PM, Steffen Möller wrote:
On 16.10.20 07:30, Andrei Rozanski wrote:
Hi,
More recently I have tried AGAT - Another Gff Analysis
Toolkit (https://github.com/NBISweden/AGAT)
<https://github.com/NBISweden/AGAT)> and found it quite useful in
general. I have
Hi Andreas,
Thanks for the answer! I will work on it.
On October 16, 2020 07:39:23 Andreas Tille wrote:
Hi Andrei,
On Fri, Oct 16, 2020 at 07:30:11AM +0200, Andrei Rozanski wrote:
More recently I have tried AGAT - Another Gff Analysis Toolkit
(https://github.com/NBISweden/AGAT) and found
Hi,
More recently I have tried AGAT - Another Gff Analysis Toolkit
(https://github.com/NBISweden/AGAT) and found it quite useful in general. I
have failed to find a debian package for it.
Would it be ok for me to try to package it or should I prioritize the COVID
list and do AGAT later?
Hi Andreas,
On 10/15/20 4:18 PM, Andreas Tille wrote:
Hi Andrei,
On Thu, Oct 15, 2020 at 02:10:52PM +0200, Andrei Rozanski wrote:
sorry, I've lost track. I assumed I would have written a response
but obviously I missed that. Feel free to ping me earlier next time!
Just created the ITP
bug - and if you are
really good providing the missing manpage.
Thank you for your patience
Andreas.
On Wed, Oct 14, 2020 at 04:38:51PM +0200, Andrei Rozanski wrote:
Hi Andreas,
Just to check with you if you had time to look into the updated tests.
On 10/8/20 9:40 AM, Andrei Rozanski
Hi Andreas,
Just to check with you if you had time to look into the updated tests.
On 10/8/20 9:40 AM, Andrei Rozanski wrote:
Hi Andreas,
On 10/7/20 10:31 PM, Andreas Tille wrote:
Hi Andrei,
On Wed, Oct 07, 2020 at 07:23:24PM +0200, Andrei Rozanski wrote:
Tried to port the tests script
Hi Andreas,
On 10/7/20 10:31 PM, Andreas Tille wrote:
Hi Andrei,
On Wed, Oct 07, 2020 at 07:23:24PM +0200, Andrei Rozanski wrote:
Tried to port the tests script into it
https://salsa.debian.org/med-team/gjh-asl-json/-/blob/master/debian/tests/run-unit-test
and add python as dependency
Hi Andreas,
On 10/7/20 3:40 PM, Andreas Tille wrote:
Hi Andrei,
On Tue, Oct 06, 2020 at 07:49:14PM +0200, Andrei Rozanski wrote:
https://salsa.debian.org/med-team/gjh-asl-json/-/blob/master/debian/patches/fix-makefile-lib.patch#L27
Got it. Thanks!
OK.
I've seen these patches. Regarding
Hi Andreas,
On 10/5/20 11:05 PM, Andreas Tille wrote:
Hi Andrei,
On Mon, Oct 05, 2020 at 10:01:05PM +0200, Andrei Rozanski wrote:
Description: A gjh solver like solution.
should be fixed.
Yep.
W: gjh-asl-json: initial-upload-closes-no-bugs
That would be the ITP bug.
Will work
Hi Andreas,
On 10/5/20 3:01 PM, Andreas Tille wrote:
Hi Andrei,
On Mon, Oct 05, 2020 at 07:20:29AM +0200, Andrei Rozanski wrote:
Thanks for the hint. Now the package builds successfully. Would it be
possible for you to check it?
Sure. :-)
Thanks for revert and clarifying it.
I reverted
Hi Andreas,
On 10/4/20 10:32 PM, Andreas Tille wrote:
On Sun, Oct 04, 2020 at 12:16:08PM +0200, Andrei Rozanski wrote:
dh_dwz
dh_dwz: dwz -q -- debian/gjh-asl-json/usr/bin/gjh_asl_json returned exit
Thanks for the hint. Now the package builds successfully. Would it be
possible for you
Hi Andreas,
On 10/4/20 8:46 AM, Andreas Tille wrote:
Hi Andrei,
On Sat, Oct 03, 2020 at 04:11:58PM +0200, Andrei Rozanski wrote:
I have created the ITP bug for libamplsolver.
Thanks! :)
I've seen this and uploaded libamplsolver. Congratulations to your
first package in new. :-)
Also
On 10/2/20 7:55 PM, Andrei Rozanski wrote:
Hi Andreas,
On 10/2/20 6:43 PM, Andreas Tille wrote:
Hi Andrei,
On Fri, Oct 02, 2020 at 06:20:48PM +0200, Andrei Rozanski wrote:
I have worked on gjh_asl_json link to ampl lib. For the sake of
testing I
have used the current lib name.
Thanks
Hi Andreas,
On 10/2/20 6:43 PM, Andreas Tille wrote:
Hi Andrei,
On Fri, Oct 02, 2020 at 06:20:48PM +0200, Andrei Rozanski wrote:
I have worked on gjh_asl_json link to ampl lib. For the sake of testing I
have used the current lib name.
Thanks!
The lib name of the binary packages
Dear Andreas,
On 9/30/20 10:22 PM, Andreas Tille wrote:
Hi Andrei,
On Wed, Sep 30, 2020 at 09:49:01PM +0200, Andrei Rozanski wrote:
On 9/30/20 5:10 PM, Andreas Tille wrote:
I have worked on gjh_asl_json link to ampl lib. For the sake of testing I
have used the current lib name.
Thanks
Hi Andreas,
On 9/30/20 5:10 PM, Andreas Tille wrote:
Hi Andrei,
On Wed, Sep 30, 2020 at 04:05:51PM +0200, Andrei Rozanski wrote:
Many thanks for the commits. I will work on the reading suggestions.
Thanks for doing the d-shlibs and all the info about it.
You are welcome.
I am totally
Hi Andreas,
On 9/30/20 3:25 PM, Andreas Tille wrote:
Hi Andrei,
On Wed, Sep 30, 2020 at 11:39:42AM +0200, Andrei Rozanski wrote:
On Tue, Sep 29, 2020 at 03:31:21PM +0200, Andrei Rozanski wrote:
I have worked on a few changes. Can you please check if it make sense?
https://salsa.debian.org
Hi Andreas,
On 9/29/20 9:56 PM, Andreas Tille wrote:
Dear Andrei,
On Tue, Sep 29, 2020 at 03:31:21PM +0200, Andrei Rozanski wrote:
I have worked on a few changes. Can you please check if it make sense?
https://salsa.debian.org/med-team/ampl-netlib-solvers/-/blob/master/debian/patches/fix
Dear Andreas,
On 9/28/20 10:00 PM, Andrei Rozanski wrote:
Hi Andreas,
On September 28, 2020 21:35:07 Andreas Tille wrote:
Hi Andrei,
On Mon, Sep 28, 2020 at 09:20:11PM +0200, Andrei Rozanski wrote:
Its definitely OK. I do not think whether there is any "good
practice"
Hi Andreas,
On September 28, 2020 21:35:07 Andreas Tille wrote:
Hi Andrei,
On Mon, Sep 28, 2020 at 09:20:11PM +0200, Andrei Rozanski wrote:
Its definitely OK. I do not think whether there is any "good practice" to
work around broken upstream Makefiles.
this will fail on
Hi Andreas,
On 9/25/20 5:22 PM, Andreas Tille wrote:
Hi Andrei,
On Thu, Sep 24, 2020 at 03:55:52PM +0200, Andrei Rozanski wrote:
fb3ed2f5b9a313134a7abbffe23159b8f6fb4eb6)
Sorry for that. This time, it seems to finish without issues (commit
72f4e2a0bd44309a33c37f9ab9261d22cf52979c).
No need
Hi Andreas,
On 9/24/20 2:30 PM, Andreas Tille wrote:
Hi Andrei,
On Thu, Sep 24, 2020 at 11:31:56AM +0200, Andrei Rozanski wrote:
Thanks for the answer.
You are welcome. :-)
On 9/24/20 10:06 AM, Andreas Tille wrote:
The thing is that I was wondering why while the symlink is set inside
Hi Andreas,
Thanks for the answer.
On 9/24/20 10:06 AM, Andreas Tille wrote:
Hi Andrei,
On Wed, Sep 23, 2020 at 08:30:56PM +0200, Andrei Rozanski wrote:
Just to check if you got my previous mail.
Thanks for checking. That's perfectly welcome and in this case very
sensible. I confirm I've
Hi Andreas,
Just to check if you got my previous mail.
Thanks!
Best
AndreiR
--- Forwarded message ---
From: Andrei Rozanski rozansk...@gmail.com
Date: September 21, 2020 09:56:40
Subject: Re: [MoM] ampl-netlib-solvers
To: debian-med@lists.debian.org
Hi Andreas,
Many thanks for reaching out
Hi Andreas,
Many thanks for reaching out and sorry for the delay in getting back to you.
I was reading and trying to understand a bit more of the whole process.
I guess some of the steps on packaging are still not clear to me.
I have added d/ampl-netlib-solvers.links as Aaron has kindly
Hi Andreas,
On Tue, Sep 15, 2020 at 2:54 PM Andreas Tille wrote:
> Hi Andrei,
>
> On Mon, Sep 14, 2020 at 10:08:37PM +0200, Andrei Rozanski wrote:
> > Copyright updated.
>
> Yeah.. I am quite paranoid about copyright :) Thanks for fixing it .
> I'm sorry I seem to ha
Hi Andreas,
Copyright updated.
Thanks!
Best
AndreiR
On 9/14/20 1:02 PM, Andreas Tille wrote:
On Sun, Sep 13, 2020 at 07:01:33PM +0200, Andrei Rozanski wrote:
Hi Andreas,
I made the modifications that you have suggested.
Not sure about the copyright warning on lintian. I have tried
scan
:40PM +0200, Andrei Rozanski wrote:
Thanks for that.
You are welcome.
I have compiled it in the past without issues making no changes in cflags.
The only reason I did the patch was a sed line in
https://github.com/ghackebeil/gjh_asl_json/blob/master/Thirdparty/get.ASL
Probably those cflags
Hi Andreas,
On September 12, 2020 22:50:02 Andreas Tille wrote:
Hi Andrei,
On Sat, Sep 12, 2020 at 08:44:40PM +0200, Andrei Rozanski wrote:
Thanks for that.
You are welcome.
I have compiled it in the past without issues making no changes in cflags.
The only reason I did the patch
.
Thanks
Best
AndreiR
On September 12, 2020 19:15:34 Andreas Tille wrote:
On Sat, Sep 12, 2020 at 02:55:58PM +0200, Andrei Rozanski wrote:
> If you reach that point and have no idea how to fix it - we can continue.
I get the same error. I have been playing around with debian/ru
Hi Andreas,
On 9/11/20 10:55 PM, Andreas Tille wrote:
Hi Andrei,
On Fri, Sep 11, 2020 at 09:48:33PM +0200, Andrei Rozanski wrote:
I have pushed ampl-netlib-solvers -
https://salsa.debian.org/med-team/ampl-netlib-solvers along with makefile.u
cflags patch.
Nice you started this effort
Hi Andreas,
Many thanks for all the help and detailed commits. Also, thanks for
guiding me on next steps.
I will proceed as you suggested.
Best,
AndreiR
On 9/11/20 10:55 PM, Andreas Tille wrote:
Hi Andrei,
On Fri, Sep 11, 2020 at 09:48:33PM +0200, Andrei Rozanski wrote:
I have pushed
Hi Andreas,
I have pushed ampl-netlib-solvers -
https://salsa.debian.org/med-team/ampl-netlib-solvers along with
makefile.u cflags patch.
Would it be possible to check that and guide me on how to proceed?
Thanks!
Best
AndreiR
, Andrei Rozanski wrote:
I'll leave it to your preference since I don't mind much. I guess it
makes those rows shorter whan just having names without links and thus
easier to edit - but as I said, I don't mind much.
gjh_asl_json asks for as part of the setup. Not sure if the "dependency&qu
Hi Andreas,
On 9/4/20 1:12 PM, Andreas Tille wrote:
Hi Andrei
On Fri, Sep 04, 2020 at 11:50:44AM +0200, Andrei Rozanski wrote:
Thanks for the feedback. I see the point. Also with multiple selection was
not that big the effort ;)
Sure. :-)
I am happy to change the links if you provide
Hi Andreas,
Thanks for the feedback. I see the point. Also with multiple selection
was not that big the effort ;)
I am happy to change the links if you provide one or I can get rid of them.
On 9/4/20 11:41 AM, Andreas Tille wrote:
On Thu, Sep 03, 2020 at 08:10:45PM +0200, Andrei Rozanski
Hi Andreas,
On 9/3/20 4:07 PM, Andreas Tille wrote:
Hi Andrei,
On Thu, Sep 03, 2020 at 02:49:41PM +0200, Andrei Rozanski wrote:
I have done only a few changes. Is it possible to give me permissions to
push the changes?
```
remote: You are not allowed to write to this project's wiki
Hi Steffen,
I am new to Debian Med :)
Maybe could be easier to keep a registry of links, md5sum, taxonId,
database, version, etc. Then, when needed one can fetch the genomes on the
fly and check md5 using scripts that parse the registry. The genomes are
not huge anyways (unless somebody wants
Hi Andreas,
On 9/3/20 8:18 AM, Andreas Tille wrote:
Hi Andrei,
On Wed, Sep 02, 2020 at 05:53:06PM +0200, Andrei Rozanski wrote:
Thanks for the help.
You are welcome.
I will check it.
Thanks.
Also, if needed, I could try to help migrating other pages.
Ok, thanks.
I do not think
Hi Andreas,
Thanks for the help.
On September 2, 2020 17:11:36 Andreas Tille wrote:
Hi Andrei,
On Tue, Sep 01, 2020 at 09:49:42PM +0200, Andrei Rozanski wrote:
I am not bored about wikis but maybe I will accept your help since when
trying to create wiki account I get:
```
Account
. ;-) So I try to
clarify here.
On Tue, Sep 01, 2020 at 09:24:47AM +0200, Andrei Rozanski wrote:
Regarding machine learning we are in the process of packaging tensorflow
which requires some predependency. On this front I lost track - but may
be someone can enlighten here.
On programming languages
Hi Andreas,
Ok. Will do.
On 9/1/20 9:13 PM, Andreas Tille wrote:
Hi Andrei,
you wrote in private mail that you are not sure what package to choose.
But MoM is always about open questions and answers. ;-) So I try to
clarify here.
On Tue, Sep 01, 2020 at 09:24:47AM +0200, Andrei Rozanski
Hi Andreas,
Thanks for the welcome!
On 8/31/20 11:08 PM, Andreas Tille wrote:
Hi Andrei,
thanks a lot for your interest in Debian Med (again - since I
also said so in private mail).
On Mon, Aug 31, 2020 at 09:15:43PM +0200, Andrei Rozanski wrote:
I am new to the project and I would like
Hello all,
I am new to the project and I would like to introduce myself.
My name is Andrei Rozanski, currently I am a researcher in computational
biology/bioinformatics at MPI-BPC.
I work with genomes and species comparison. Also, a little bit of machine
learning and data analysis
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