On 10/22/21 9:23 PM, Étienne Mollier wrote:
Hi Nilesh,
Nilesh Patra, on 2021-10-22:
looks like C++17 has removed the provision to specify custom
exceptions, and there are a lot of errors like the one above.
In this case, does it makes sense to force C++14 standard
(with chnages in d/rules or
moksha.common (U)
piuparts (U)
python-fedora (U)
python-limits (U)
python-pyramid-chameleon (U)
Nilesh Patra
cyvcf2 (U)
h5sparse (U)
nitime (U)
python-xopen (U)
seaborn (U)
Nilesh Patra
python-spectra (U)
umap-learn (U)
Noah Meyerhans
python-boto (U)
On Thu, 14 Oct 2021 at 22:00, Aaron M. Ucko wrote:
> First off, thanks for taking care of the update!
>
> Andreas Tille writes:
>
> > Am Thu, Oct 14, 2021 at 01:18:06PM +0530 schrieb Nilesh Patra:
> >
> >> And on a related note, do you think it makes sense t
Hi Maarten,
On Mon, Nov 01, 2021 at 04:55:31PM +0100, Maarten L. Hekkelman wrote:
> Hi Nilesh,
>
> I see you're updating these tools depending on libcifpp. Cool, saves me some
> work.
I am actually not actively working on libcifpp. I uploaded cif-tools since
a bug was lying unfixed there, and ne
Hi all,
On Sat, 23 Oct 2021 21:11:26 +0200 Lucas Nussbaum wrote:
Source: eegdev
Version: 0.2-5
Relevant part (hopefully):
> /usr/bin/ld: library-usage/eegdev_acq.o: in function `main':
> ./doc/examples/library-usage/eegdev_acq.c:214: undefined reference to
`rpl_free'
> /usr/bin/ld: ./doc/examp
On 11/2/21 7:18 PM, Aaron M. Ucko wrote:
Nilesh Patra writes:
libeegdev incorporates rpl_free and other needed rpl_* functions with hidden
visibility, so
purely for its own use.
Okay, this was a very useful hint. Thanks a lot, I appended needed stuff at
a couple more places and it works as
Hi Maarten,
On 11/3/21 1:26 AM, Maarten L. Hekkelman wrote:
I've created a genuine catch-22 situation.
I uploaded libpdb-redo and a new density-fitness. However, both are blocked.
libpdb-redo is blocked since it introduces a regression in density-fitness.
That old version cannot be built sinc
On 11/3/21 4:17 PM, Maarten L. Hekkelman wrote:
Hi Nilesh,
Op 02-11-2021 om 21:29 schreef Nilesh Patra:
I think adding a versioned dep for libpdb in the src:density-fitness will tell
britney (CI infra) the right thing to do.
In the depends field, libpdb-redo1 (>= 1.0.2-3~) should do
On Thu, Nov 04, 2021 at 08:25:27AM +0200, Andrius Merkys wrote:
> ... require
> passing through NEW due to libcifpp1 -> libcifpp2. Maarten, is the
> packaging ready to be uploaded?
Gentle reminder: please do not forget to upload to NEW targetting experimental
(not unstable)
so as to do a coordin
Hi Andrius, all,
On Sun, Oct 17, 2021 at 09:44:36AM +0300, Andrius Merkys wrote:
> On the same thread Graham reported success in building isal on armhf,
> ppc64el and riscv64. This gives some hope for fastp as well.
Ondrej was very kind to extend isal support to more archs. However,
it does not b
sal, they
> are in best
> position to get these archs working.
Opened https://github.com/intel/isa-l/issues/188
On Sat, Oct 16, 2021 at 01:45:22PM +0200, Andreas Tille wrote:
> Am Sat, Oct 16, 2021 at 11:24:08AM +0530 schrieb Nilesh Patra:
> > I am not sure of the best way to proceed
On Tue, Nov 09, 2021 at 10:39:39AM +0200, Andrius Merkys wrote:
> Hi Maarten,
>
> On 2021-11-08 14:39, Maarten L. Hekkelman wrote:
> > Yes, the new libcifpp is required. But mainly because I've switched to
> > cmake entirely for building software, and the cmake file of libpdb-redo
> > requires the
On 11/10/21 10:56 PM, Andreas Tille wrote:
Am Wed, Nov 10, 2021 at 04:57:56PM +0100 schrieb Pierre Gruet:
Sent via private mail to not bloat the list archive with binary files.
Thanks! I saw the test failing on your side is a thread safety test. DO you
have any idea why it fails on your machin
Hi Andreas,
On Fri Nov 12, 2021 at 4:56 PM IST, Andreas Tille wrote:
> but I think nobody is working on this. Any volunteer to have a look at
> this?
I am not sure if you read my email here[1] but nose is being deprecated now,
so it is best for us to switch.
We also need to switch more packages e
Hi,
It was decided that the neurodeb team will be merged into
-med going forward.
I see 19 packages there (18 free, 1 non-free) few of them have
already been removed from the archive, which means even less packages to move.
Do we have a, sort of ETA to do this?
Regards,
Nilesh
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Hi,
On Sat, Nov 13, 2021 at 06:19:18PM +0100, Andreas Tille wrote:
> Feel free to pick one (and do not hesitate to ask me to transfer a
> repository and when doing so bring it in Debian Med policy conform
> shape).
Please move imbalanced-learn to -med.
Regards,
Nilesh
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Hi,
On Sat, Nov 13, 2021 at 06:19:18PM +0100, Andreas Tille wrote:
> Feel free to pick one (and do not hesitate to ask me to transfer a
> repository and when doing so bring it in Debian Med policy conform
> shape).
Please move imbalanced-learn to -med.
Regards,
Nilesh
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Description
On Sun, Nov 14, 2021 at 10:06:53AM +0100, Andreas Tille wrote:
> Hi Nilesh,
>
> Am Sun, Nov 14, 2021 at 01:03:08AM +0530 schrieb Nilesh Patra:
> > On Sat, Nov 13, 2021 at 06:19:18PM +0100, Andreas Tille wrote:
> > > Feel free to pick one (and do not hesitate
Hi,
this is the call for the next video conference of the Debian Med team
that are an established means to organise the tasks inside our team.
We do these conferences twice per month on every
2th and 17th
of a month. Usually it takes us only 15-20 minutes depending what we are
talking abou
On 2021-11-17 22:13, Andreas Tille wrote:
> Am Wed, Nov 17, 2021 at 09:32:42AM -0500 schrieb Yaroslav Halchenko:
>> thank you very much Andreas! May be worth uploading new version (even
>> if only to announce the move) so if we forget about the move we have a
>> better chance to detect it?
>
> Ar
On 18 November 2021 2:00:41 pm IST, Mathieu Malaterre wrote:
>Hi all,
>
>I have been (privately) discussing with gewo@d.o and it appears that
>my help with some of his packages would be welcome.
I would rather say, your contributions to _any_ package(s) in the med-team are
always welcome.
Ni
Hi Andreas,
On 11/18/21 8:20 PM, Andreas Tille wrote:
Hi,
its all about statistics: When injecting lots of packages my chances to
get bug #100 become higher. Thus I've packaged like crazy in the
past ... and succeeded. ;-)
Now you all know the trick to get bug #200. ;-)
While that
On 11/22/21 3:41 PM, Flavien Bridault wrote:
Hello guys,
I need your advice to understand why sight 21.0.0-2 can't migrate to testing.
From what I see on https://tracker.debian.org/pkg/sight, it seems a dependency,
opencv is non-migratable. If I look at this package I understand the latest
4.
Hi,
I am not sure what these errors for FTBFS of opensurgsim are
supposed to exactly mean, has the gtest API changed with the newer releases,
or am I missing something more here?
| > /usr/src/googletest/googletest/include/gtest/gtest-printers.h:291:36:
error: no matching function for call to
‘t
Hi,
It looks like profphd has a open RC bug for a little over two years by now,
and upstream looks dead.
It has only reverse-recommends, no reverse-(build-)depends
$ reverse-depends profphd
Reverse-Recommends
* norsnet
* norsp
* profbval
* profphd-utils [amd64 arm64 a
On Tue, Nov 23, 2021 at 08:34:24PM +0100, Andreas Tille wrote:
> we have way more urgent problems than this. So feel free to ask for removal.
Filed Bug#1000470
Hope that helps.
Regards,
Nilesh
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Dear Python team,
Would you have any hint on this?
Is it a bug with the python3 package itself?
Let me know.
Regards,
Nilesh
On Thu, 2 Dec 2021 12:02:59 +0530 Nilesh Patra wrote:
> On Mon, 29 Nov 2021 20:35:40 +0100 Andreas Tille wrote:
> > Am Mon, Nov 29, 2021 at 11:36:33PM +053
Hi Stefano,
On 12/4/21 9:00 PM, Stefano Rivera wrote:
Hi Nilesh (2021.12.04_15:15:05_+)
Would you have any hint on this?
Is it a bug with the python3 package itself?
You're waiting for python3-tabulate to be patched for Python 3.10
support.
Indeed. I was just being silly as it seems. I
Please add this in to the advent cal list.
Meow, Meow
Nilesh
- Forwarded message from Debian Bug Tracking System
-
Date: Sat, 04 Dec 2021 18:09:05 +
From: Debian Bug Tracking System
To: Nilesh Patra
Subject: Bug#1000812: marked as done (pyrle: import fails on Python 3.10)
X
...@bugs.debian.org
To: Nilesh Patra
Your message dated Sun, 5 Dec 2021 01:34:56 +0530
with message-id
and subject line [Advent bug squashing] python3-biomaj3: Depends on
python-influxdb wich ftbs, patch to remove dependency
has caused the Debian Bug report #950914,
regarding python3-biomaj3: Depends on
control: fixed -1 1.0.11-10
control: close -1
prime-phylo has autopkgtests in the latest version. Please add this bug squash
to advent calendar.
Meow, meow
Nilesh
On Sat, 19 Sep 2020 18:23:55 +0200 =?utf-8?Q?=C3=89tienne?= Mollier
wrote:
> Package: src:prime-phylo
> Version: 1.0.11-9
> Severi
Please add this to the advent cal.
Meow,
Nilesh
Forwarded Message
Subject: Bug#995258: marked as done (python-pairix: please make the build
reproducible)
Date: Sat, 04 Dec 2021 20:39:13 +
From: Debian Bug Tracking System
Reply-To: 995...@bugs.debian.org
To: Nilesh Patra
Yay, and thanks a lot for this, Steve! :)
Regards,
Nilesh
On 12/6/21 12:30 AM, Debian FTP Masters wrote:
Accepted:
Format: 1.8
Date: Sun, 31 Oct 2021 23:34:39 -0500
Source: insighttoolkit5
Binary: insighttoolkit5-examples libinsighttoolkit5-dev
libinsighttoolkit5-dev-dbgsym libinsighttoolki
On 7 December 2021 7:12:57 pm IST, Andreas Tille wrote:
>Hi,
>
>this issue i solved in version 1.14.1+ds-1 thus closing the bug.
Just wished to ask: are R package bug fixes also candidates for advent calendar?
Meow,
Nilesh
control: reopen -1
control: found -1 python-cooler/0.8.11
On 9 December 2021 1:51:15 pm IST, Andreas Tille wrote:
>Its not the most elegant fix but given that the code contained the
>ipytree recommends even before but it was just tested now excluding the
>affected tests seemed to be appropriate.
control: reopen -1
control: found -1 python-cooler/0.8.11
control: severity -1 important
On 9 December 2021 2:23:11 pm IST, Andreas Tille wrote:
>I think you did not really re-opened the bug (since it was not in CC) -
Oops, yeah I missed that. Typing emails on phone isn't very optimal as it seem
Hi Steffen,
Long time! :)
On Thu, Dec 09, 2021 at 08:32:46PM +0100, Steffen Möller wrote:
> Hello this goes out to Andreas in particular,
I hope you do not mind me taking over (have a few spare cycles)
> I completed the packaging of r-bioc-fishpond earlier this afternoon.
> This is a suggestion
Another python 3.10 bug squash!
Regards,
Nilesh
- Forwarded message from Debian Bug Tracking System
-
Date: Thu, 09 Dec 2021 22:21:04 +
From: Debian Bug Tracking System
To: Nilesh Patra
Subject: Bug#1001410: marked as done (python-csb: (autopkgtest) needs update
for python3.10
:45:05 +
From: Debian Bug Tracking System
Reply-To: 999...@bugs.debian.org
To: Nilesh Patra
Your message dated Sat, 11 Dec 2021 21:40:57 +
with message-id
and subject line Bug#999632: fixed in r-bioc-isoformswitchanalyzer 1.16.0+ds-1
has caused the Debian Bug report #999632,
regarding r
:39:03 +
From: Debian Bug Tracking System
Reply-To: 1001...@bugs.debian.org
To: Nilesh Patra
Your message dated Sun, 12 Dec 2021 16:34:17 +
with message-id
and subject line Bug#1001535: fixed in busco 5.2.2-2
has caused the Debian Bug report #1001535,
regarding busco: (autopkgtest) needs
On 12/12/21 10:22 PM, Andreas Tille wrote:
Just removed the dependencies ...
Thanks, there is also another bug with src:ball which can be quickly fixed, can
you also
do the needful to close:
https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=995409
Regards,
Nilesh
OpenPGP_signature
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Hi,
python-bioblend is maintained on DPT, however it seems to be made for the
purpose of interacting with galaxy project's APIs.
Hence I was wondering if it is of our interest?
It has also not seen uploads for a long time, and I was wondering if it makes
sense to
move it here.
I wanted to fix
tps://wiki.debian.org/PaulWise
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--- Begin Message ---
Source: smart-open
Source-Version: 5.2.1-3
Done: Nilesh Patra
We believe that the bug you reported is fixed in the latest version of
smart-open, which is due to be insta
Hi,
The new version of racon got released, and I believe I made the adjustments in
patches accordingly.
However, the build chokes with the log given below.
I have linked edlib as needed, and the dependency is also satisfied. The
functions mentioned (edlibAlign, edlibAlignmentToCigar etc)
are m
Hi Tony,
Thanks for replying.
On 12/20/21 12:59 AM, tony mancill wrote:
I notice that libedlib0 [1] exported the edlibAlign symbol, but not
libedlib1, which is what is pulled in by libedlib-dev. Could that be
the source of the problem?
Thanks for the hint.
I tried fixing the symbols locally,
On 12/21/21 9:00 PM, Pierre Gruet wrote:
On 21/12/2021 14:33, Lance Lin wrote:
Debian Medical Team,
I have started looking at adding autopkgtest suites for a variety of packages. Two of the packages (hinge, pique) require very large data sets to run their included examples.
The sizes are sever
Hi all,
Would someone have more hints on the problem?
>Hi Tony, Thanks for replying.
>On 12/20/21 12:59 AM, tony mancill wrote: >>notice that libedlib0 [1]
>exported the >>edlibAlign symbol, but not libedlib1, which >>is what is pulled
>in by libedlib-dev. Could >>that be the source of the pr
Hello,
On 22 December 2021 8:06:57 pm IST, Lance Lin wrote:
>> No, not really. autopkgtest has a `needs-internet` restriction, so you can
>> access internet to get stuff. See here:
>>
>> https://people.debian.org/~eriberto/README.package-tests.html
>>
>> But yeah, this is usually better, since t
On 12/22/21 7:21 PM, Julien Lamy wrote:
Hi,
Le 22/12/2021 à 11:11, Andreas Tille a écrit :
Hi Yaroslav (and others)
I had a quick look at this bug but no real idea. I just fixed
d/watch in Git but I need to hand over this issue to someone more
competent than me.
Another one with a patch fro
On 12/23/21 3:57 PM, Andreas Tille wrote:
Am Thu, Dec 23, 2021 at 12:13:57PM +0200 schrieb Andrius Merkys:
Is Python package providing 'xmlschema' installed? To me this seems like
setup.py attempts to install missing dependencies.
diff --git a/debian/control b/debian/control
- pyt
On 12/23/21 5:43 PM, Andreas Tille wrote:
Hi,
despite I changed the call to create the docs from
$(MAKE) doc
to
PYTHONPATH=$(shell pybuild --print build_dir --interpreter python3)
$(MAKE) doc
I just pushed a fix to salsa, please check.
Regards,
Nilesh
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On 12/24/21 4:44 PM, Andreas Tille wrote:
This is another low hanging fruit and possibly my last bug in this
bug squashing party. Thanks to all who joined the party - hoping
for even more contributors next year.
Thank you for your efforts as well!
Merry Christmas / Frohe Weihnachten everyone!
On 12/28/21 5:36 PM, Martin Uecker wrote:
Hi all,
this is caused by some compiler bug in GCC 11. Any advice how
to proceed?
- use GCC 11
If this really is a bug in the _compiler itself_, maybe simply file a bug
report against gcc-11 itself?
Please do this regardless of the solution ^^
-
On 12/29/21 6:31 PM, Martin Uecker wrote:
Am Mittwoch, den 29.12.2021, 11:06 +0100 schrieb Martin Uecker:
Hi Nilesh,
...
- try to work around by patching? (would be easy
only with access to the affected architectures)
This would be best. You could try with qemu to emulate these archs.
On 30 December 2021 3:23:12 am IST, tony mancill wrote:
>On Wed, Dec 22, 2021 at 01:24:49AM +0530, Nilesh Patra wrote:
>> Hi all,
>>
>> Would someone have more hints on the problem?
>>
>> >Hi Tony, Thanks for replying.
>>
>> >On 12/2
On 12/30/21 12:47 PM, Uecker, Martin wrote:
Am Dienstag, den 26.10.2021, 18:06 +0200 schrieb Martin Uecker:
Hi Andreas,
I pushed changes for a the version of bart. Maybe you could
take a look? There are some failures in the CI on salsa.
The i386 build triggers a compiler crash. I will try to
On Thu, Dec 30, 2021 at 02:18:50PM +0100, Fabian Klötzl wrote:
> Hi folks,
>
> Hope you are enjoying the holidays.
Season's greetings to you too!
> I for one finally had the time to update
> two of my projects. I've updated andi and phylonium to new upstream
> versions. Sponsoring an upload is m
On 12/31/21 12:42 AM, Shayan Doust wrote:
W: damapper-dbgsym: elf-error In program headers: Unable to find program
interpreter name
[usr/lib/debug/.build-id/55/e58a44b96637abb0d4d24e5d1a469bcd8fd96d.debug]
W: damapper-dbgsym: elf-error In program headers: Unable to find program
interpreter nam
On 12/30/21 11:42 PM, Uecker, Martin wrote:
Am Donnerstag, den 30.12.2021, 09:58 +0100 schrieb Andreas Tille:
Am Thu, Dec 30, 2021 at 02:01:32PM +0530 schrieb Nilesh Patra:
Uploaded, thanks for your work!
Thanks to you both.
Thanks Nilesh!
Unfortunately, this needs another round. Armel
On 12/30/21 12:47 PM, Uecker, Martin wrote:
Also the identical bart-cuda package (in master-contrib)
fails to build on salsa because it says the
nvidia-cuda-toolkit is uninstallable. But I guess one
could give it a try.
Martin, bart-cuda fails its (last) autopkgtest stalling testing migration,
On 12/31/21 6:05 PM, Uecker, Martin wrote:
Am Freitag, den 31.12.2021, 17:13 +0530 schrieb Nilesh Patra:
On 12/30/21 12:47 PM, Uecker, Martin wrote:
Also the identical bart-cuda package (in master-contrib)
fails to build on salsa because it says the
nvidia-cuda-toolkit is uninstallable. But I
On 12/31/21 6:05 PM, Uecker, Martin wrote:
Yes, it was running the tests for the bart package but then
the older version of the package was still installed and
the test failed. I pushed a fix. But I am still
pondering why it is not fully reproducible
Looks like I misunderstood your earlier
On 1/4/22 5:40 AM, Steven Robbins wrote:
Hi,
As far as I can discern, the build job for Elastix successfully builds the
package, but then fails trying to upload artifacts. Can anyone shed light on
what's going on or how to fix it?
Uploading artifacts for successful job
I have seen it happeni
Hi Steve,
On 1/4/22 6:35 PM, Steven Robbins wrote:
Hi Nilesh,
On Tuesday, January 4, 2022 1:32:37 A.M. CST Nilesh Patra wrote:
On 1/4/22 5:40 AM, Steven Robbins wrote:
Hi,
As far as I can discern, the build job for Elastix successfully builds the
package, but then fails trying to upload
On 1/15/22 4:35 PM, Andreas Tille wrote:
Hi,
I tried to build plastimatch against libinsighttoolkit5-dev[1]. When I try to
build latest HEAD I'm running into
Pushed a patch to get build going fwd from this point, will see if it chokes.
Regards,
Nilesh
OpenPGP_signature
Description: OpenPG
On 1/15/22 4:45 PM, Nilesh Patra wrote:
I tried to build plastimatch against libinsighttoolkit5-dev[1]. When I try to
build latest HEAD I'm running into
Pushed a patch to get build going fwd from this point, will see if it chokes.
This is the real error now. Full long here[1]
Gr
On 1/17/22 2:42 AM, Andreas Tille wrote:
Hi,
my time to upgrade packages today is running out. I assumed that the
autopkgtest of idseq-bench might need internet-access which I enabled
but it seems there is some other issue[1]
Looking at it, it looks like it is stemming from insilicoseq's /usr
> Hi,
> I gave the packaging of diann a try but failed[1]. Any idea how
> to fix these goto statements?
I have got the package building and sanitized a little (with a Makefile)
however, admittedly the code looks a bit too messy to me, so I would
request/suggest skimming/reading the code before
On 1/22/22 3:50 PM, Andreas Tille wrote:
Hi,
Am Sat, Jan 22, 2022 at 09:17:07AM +0100 schrieb Pjotr Prins:
thanks Andreas! I also bumped vcflib
https://github.com/vcflib/vcflib/releases/tag/v1.0.3
It should build as before.
I adapted some patches and now I'm running into[1]
You are lookin
On 1/24/22 8:39 PM, Andreas Tille wrote:
Hi folks,
on Mon, 21 Jan 2002 11:59:11 +0100 the first mail to this list was
sent[1]. So somehow we can celebrate some anniversary. :-)
Yay! :)
https://app.element.io/#/room/#_oftc_#debian-ftp:matrix.org
Correct link: https://app.element.io/#/
On 1/24/22 10:39 PM, Andreas Tille wrote:
Am Mon, Jan 24, 2022 at 05:53:13PM +0100 schrieb Flavien Bridault:
Well this is weird, I also built with pbuilder with sid (chroot updated last
friday). Is it maybe testing on your side?
Its definitely not testing since I never use a testing chroot for
Hi,
I have attempted to port plast to pcre2 for fixing up #91
But since I have not used pcre2 myself earlier, I am unsure whether my patch is
sensible enough.
Could someone please do a review?
Andreas, since you ported 'src:phast' to fix the one-million'th bug, could you
please take a look
January 25, 2022 12:24 AM, "Andreas Tille" wrote:
> Thanks a lot for working on this
Thanks for uploading!
> PS: Another package in need of pcre3 -> pcre2 migration is pftools.
> IMHO we should rewrite its test first (which is needed due to new
> upstream way to run test and do the pcre-rewrite
Hi Philipp/Thierry
pftools (build-)depends on the old, obsolete PCRE3 libraries
(i.e. libpcre3-dev). This has been end of life for a while now, and
upstream does not intend to fix any further bugs in it.
Corresponding bug report #102 has been filed in debian, and I have uploaded
pftools w/o
On 1/25/22 8:22 PM, Flavien Bridault wrote:
I confirm I managed to reproduce the FTBFS before by updating my pbuilder image.
Hoping that nothing else is updated up to the time you read this email, this
should be fixed thanks to a new patch. :)
Thanks Flavien, it is currently building on my ma
On 1/25/22 10:43 PM, Andreas Tille wrote:
Am Tue, Jan 25, 2022 at 09:44:52PM +0530 schrieb Nilesh Patra:
@Andreas,
something is wrong with lintian-brush/routine-update and it is adding
"debhelper" as a B-D, for instance
here[1] and here[2] and pretty much every other package that y
Hi Sebastien,
On 1/26/22 7:32 PM, Sebastien Moretti via RT wrote:
Hi Nilesh
Thierry is not longer working at the SIB Swiss Institute of Bioinformatics, nor
for the pftools.
The official repository for the pftools is now
https://github.com/sib-swiss/pftools3
There were already several fixes d
On 1/27/22 4:42 PM, Sebastien Moretti via RT wrote:
It looks the PCRE API has changed between versions 8 (pcre3) and 10 (pcre2).
Yep, and hence the request.
I will try to do something. But it may take some time...
No worries, thanks a lot for prompt responses!
Regards,
Nilesh
OpenPGP_si
On Fri, Jan 28, 2022 at 06:25:41PM +0100, Andreas Tille wrote:
> Hi Pierre (and others),
>
> I realised that king was moved to Github and tried to upgrade the
> package to the latest upstream version. Unfortunately I failed as you
> can see in Salsa-CI[1].
>
> Any help would be welcome
I hope y
On 1 February 2022 6:35:25 pm IST, Lance Lin wrote:
>Hi Thomas,
>
>> I've never packaged a C or C++ library so I'd be grateful for somebody else
>> to
>> package this. One could look at nlohmann-json3 which is also a C++ header
>> library.
>
>If no one else volunteers, I would be able to packa
On 2 February 2022 4:14:02 pm IST, "Maarten L. Hekkelman"
wrote:
>OK, the transition for both has started, see [1]. But I wonder, what does the
>status 'partial' mean? Is there something I should do?
Probably not, it's fine I guess.
However you probably should fix/rebuild density-fitness, sin
On 2/2/22 4:14 PM, Maarten L. Hekkelman wrote:
OK, the transition for both has started, see [1]. But I wonder, what does the
status 'partial' mean? Is there something I should do?
Probably not, it is fine I guess. However, you should fix/rebuild
density-fitness since that is
showing up as bad
Hi Lance,
On Wed, Feb 02, 2022 at 01:48:49PM +, Lance Lin wrote:
> > It is an RFP, just change it to ITP, assign it to yourself and go ahead,
> > you don't have to wait :)
> How would I go about doing this? I've seen a few ways to do this (emailing
> reque...@debian.org with a command, for e
On Thu, Feb 03, 2022 at 01:50:39PM +, Lance Lin wrote:
> Hi Nilesh,
>
> On Wednesday, February 2nd, 2022 at 9:33 PM, Nilesh Patra
> wrote:
> Ok, I've tested the package and the only warning is an improbable bug number.
> However, it is the correct bug number.
I
On 2/10/22 2:42 PM, Sebastien Moretti via RT wrote:
Hi Nilesh
some news about PCRE2 and the pftools.
The code has been updated with PCRE2 (see the PCRE2 branch).
We need to do intensive testing now...
Thanks a lot, Sebastian.
I am not a bioinformatics person myself, but I've just pinged a cou
On Sat, Feb 12, 2022 at 01:27:44PM +, Tony Travis wrote:
> I'd like to attend, but I don't have permission to edit the Wiki page:
>
> > https://salsa.debian.org/med-team/community/sprints/-/wikis/202202_debian-med_sprint_online
>
> I've requested access, but have not got it yet...
Granted ac
On 2/12/22 11:33 PM, Andreas Tille wrote:
Hi Lance,
Am Fri, Feb 11, 2022 at 09:03:12PM +0700 schrieb Lance Lin:
I can have a look but not before Monday.
Thank you! I think I have completed the packaging. The only
outstanding item is the autopkgtest. I am having some issues with the
upstream's
On 2022-02-18 01:34, Steffen Möller wrote:
> Hello,
>
> q2-emperor is flagged as "RFS" in
> https://docs.google.com/spreadsheets/d/1tApLhVqxRZ2VOuMH_aPUgFENQJfbLlB_PFH_Ah_q7hM/edit#gid=1986383821
> and late January, its dependency EMPEROR made it into the distribution.
> I have not seen any reject
On Tue, Feb 22, 2022 at 03:23:01PM +0100, Andreas Tille wrote:
> > In short, I just noted my progress on the mailing list and stopped. I
> > believe Tony said the test set he was using was the smallest possible, so
> > it may not be feasible to have an autopkgtest for PIQUE.
>
> I do not like to s
On Thu, Feb 24, 2022 at 11:04:43AM +0100, olivier sallou wrote:
> got this autoremoval message I do not understand. biomaj3-core (and other
> biomaj3 packages) do not depend on dh-php.
> It is python app, not php related and a apt-rdepends do not show any dh-php
> relation
Just checking that i
I had packaged shovill, which is a workflow package
roughly two years ago. However, pretty soon I had realised,
for every analysis you want to do, you need to _manually_ modify the
bin/shovill file[1]
Since in debian, it is in /usr/bin/shovill, you need to be modifying that file
for each and every
On 3/13/22 8:05 PM, Pierre Gruet wrote:
What should I do? My proposal would be to design a multiple upstream tarball for
gatk-bwamem-jni: original one + the sources at the tip of the Apache2 branch of
bwa.> It would build a libbwa.a lib which would not be installed in /usr/lib,
but in a privat
On Wed, Mar 16, 2022 at 03:53:25PM +0100, Mathieu Malaterre wrote:
> I've done a little mess with the git repository, which I'd like to fix
> with a quick 'git push -f'.
Is it not possible to rebase and merge instead?
> Could someone with proper right level
> grant me a higher role level for 'pix
On Tue, Mar 22, 2022 at 10:19:09PM +0100, Andreas Tille wrote:
> I've updated dipy to latest upstream but the autopkgtest is failing[1].
> There are lots of own modules that are not found and I have no idea why.
That is because it is trying to run tests in the source-tree itself
and it does not se
Hi Steffen,
On 25 March 2022 12:48:33 am IST, "Steffen Möller"
wrote:
>I am tempted to upload the package as it is. It is apparently version 4
>of Vega that is expected, not version 5 that just entered the archive
>(many, many thanks!!) and they are apparently using
>https://github.com/vega/v
On 2022-03-24 21:52, Sebastien Moretti via RT wrote:
Hi
I have pushed a new release v3.2.12 with PCRE2 support. PCRE2 is used
by default now.
https://github.com/sib-swiss/pftools3/releases
Great thanks, will update accordingly.
Hi Michael,
On Sat, Mar 26, 2022 at 07:03:31PM +0100, Michael Ikwuegbu wrote:
> I am Michael Ikwuegbu an Outreachy applicant for the DebianMed project ,
> I have setup a Debian unstable environment and sbuild.
Welcome!
> While trying to add
> autopkgtest to the package (python-wdlparse):
> https
On Wed, Mar 30, 2022 at 12:12:27AM +0530, Nilesh Patra wrote:
> > Also the ci reprotest fails[5] for python-datacache and I don't know how to
> > proceed further.
> > I would like someone to guide as to what is to be done inorder to fix this.
>
> That failure is odd
On Thu, Mar 31, 2022 at 12:43:57AM +0530, Vinay wrote:
> I am Vinay from India, a student currently pursuing Computer Science
> Engineering.
Hello and welcome. I am from India as well so it is nice to
see you on this list.
> I use GNU/Linux and have been using Debian for 2 years.
> I have basic p
Please do not reply to me personally, rather reply on the list.
See below :-
On Fri, Apr 01, 2022 at 01:14:09AM +0530, Vinay wrote:
>> Cool. But I do not see this package in the archive.
>> Am I misunderstanding something?
> The package isn't uploaded to the archive yet.
Okay, do you need sponso
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