control: forwarded -1 https://github.com/seqan/needle/issues/128
They are different programs, with different interfaces, alas.
So a workaround will be needed: probably we should rename the binary
`seqan-needle` and provide a directory with a regular `needle` that can be
added to a user's `PATH`.
at 11:52:16AM +0200, Michael Crusoe wrote:
> > Reply from upstream
> >
> > https://gitter.im/seqan/Lobby?at=5f1e97ece9066820051dc93e
> >
> > > You can fix that reported error by specifying `cmake
> > -DCMAKE_CXX_FLAGS="-std=c++17 -fconcepts" <...>`
Reply from upstream
https://gitter.im/seqan/Lobby?at=5f1e97ece9066820051dc93e
> You can fix that reported error by specifying `cmake
-DCMAKE_CXX_FLAGS="-std=c++17 -fconcepts" <...>`
Sure, I'll add this to my queue
On Sun, May 31, 2020 at 7:54 AM Andreas Tille wrote:
> Hi Michael,
>
> On Sat, May 23, 2020 at 11:10:37PM +0300, Adrian Bunk wrote:
> > Source: hyphy
> > Version: 2.2.7+dfsg-1
> > Severity: serious
> >
> > https://buildd.debian.org/status/package.php?p=hyphy
> >
>
Attached is a fix , also available at
https://salsa.debian.org/multimedia-team/obs-studio/-/merge_requests/3 for
the convenience of the maintainers
On Fri, May 29, 2020 at 7:51 AM Adrian Bunk wrote:
> Source: obs-studio
> Version: 25.0.8+dfsg1-1
> Severity: serious
> Tags: ftbfs
>
> https://bui
That's fine by me
--
Michael R. Crusoe
On Thu, May 7, 2020, 09:53 Andreas Tille wrote:
> Hi Michael,
>
> this bug continuously creates noise on the testing removal front. I'd
> really love to ask for removal the failing arches for the moment.
>
> What do you think?
>
> Kind regards
>
> An
This looks like something I can fix for all architectures and still respect
the baselines with SIMDe, yes.
On Sat, Apr 18, 2020 at 6:26 PM Andreas Tille wrote:
> Hi Adrian,
>
> recently Michael Crusoe injected simde which should solve the SSE issue
> in a more elegant way. Michae
On Tue, Mar 31, 2020 at 1:19 PM Andreas Tille wrote:
> Hi Michael,
>
> On Tue, Mar 31, 2020 at 11:12:45AM +0200, Matthias Klose wrote:
> > Package: src:bedtools
> > Version: 2.29.2+dfsg-3
> > Severity: serious
> > Tags: sid bullseye
> >
> > bedtools ftbfs, failing tests on armel, armhf, i386, mip
I've uploaded new packages of toil, cwltool, and python-schema-salad that
should fix this
On Wed, 27 Nov 2019 16:00:05 +0200 Povilas Kanapickas
wrote:
> On 11/27/19 1:19 PM, Michael Crusoe wrote:
> > Maybe this patch from Ubuntu will help?
> >
http://patches.ubuntu.com/c/cppreference-doc/cppreference-doc_20170409-1.1ubuntu1.patch
>
> Hi,
>
> I will look into
724D609337113C710550D7473C26763F6C67E6E2 --allow bio-tradis
On Wed, Jan 8, 2020 at 9:15 PM Paul Gevers wrote:
> Hi Micheal,
>
> On Fri, 3 Jan 2020 09:31:43 +0100 Michael Crusoe
> wrote:
> > > With a recent upload of bio-tradis the autopkgtest of bio-tradis fails
> > > in testing when th
[whoops, forgot to CC everyone]
On Mon, 9 Dec 2019 12:14:02 +0100 Matthias Klose wrote:
> On 09.12.19 11:46, Andreas Tille wrote:
> > Hi,
> >
> > I have upgraded python-datrie in Git[1] to latest upstream version
> > (0.8). It shows the same issue - so I admit I have no better clue than
> > repo
Control: severity -1 important
Control: forwarded -1
https://github.com/samtools/htslib/issues/355#issuecomment-566058829
Dear Graham,
Thank you for your report. This issues is already known by upstream. So as
to not hold up multiple transitions, the s390x builds of htslib (and its
reverse-depend
Hello,
I've fixed this at https://salsa.debian.org/med-team/gatb-core and it is
available for sponsoring by any Debian Developer.
gbp clone g...@salsa.debian.org:med-team/gatb-core
Or I can be given permission to upload the fixed package
dcut dm --uid 724D609337113C710550D7473C26763F6C67E6E2 --
Control: forwarded -1
https://github.com/sanger-pathogens/Bio-Tradis/issues/116
On Fri, 27 Dec 2019 11:42:05 +0100 Paul Gevers wrote:
> Dear maintainers,
>
> With a recent upload of bio-tradis the autopkgtest of bio-tradis fails
> in testing when that autopkgtest is run with the binary packages
On Mon, 9 Dec 2019 12:14:02 +0100 Matthias Klose wrote:
> On 09.12.19 11:46, Andreas Tille wrote:
> > Hi,
> >
> > I have upgraded python-datrie in Git[1] to latest upstream version
> > (0.8). It shows the same issue - so I admit I have no better clue than
> > reporting the issue upstream which I'
pbcopper's latest release has slipped in a code copy of libssw which uses
x86 SIMD intrinsics. I've pushed up a fix along the lines I made to libssw
to enable cross architecture compilation at
https://salsa.debian.org/med-team/pbcopper/commit/f9678ed29590b57fe30638eed3d6819577b4ace1
and it awaits s
I did look at the code, the AVX2 code is actually used, and I've made the
package more compatible for more architectures via the simde library at
https://salsa.debian.org/med-team/last-align/tree/simde
Since I don't have upload rights to last-align, I invite sponsorship of my
changes. Or someone c
A Python3 version of this package, also updated to the latest release, is
available at https://github.com/yarikoptic/nitime/pull/1 for sponsorship
Thanks
On Sun, Dec 15, 2019 at 3:18 AM Matthias Klumpp
wrote:
> Am Do., 28. Nov. 2019 um 16:37 Uhr schrieb Pjotr Prins <
> pjotr2...@thebird.nl>:
> >
> > When 1.18 arrives I think it is a good time to get sambamba and biod
> > in Debian again.
>
> They always were in Debian, just not in a release becaus
A future Seqan3 release will need liblemon, so I'll look into it.
On Mon, Dec 2, 2019 at 12:36 PM Andreas Tille wrote:
> Control: tags -1 help
>
> Hi,
>
> I wonder if there might be some remaining interest in liblemon. The
> Debian Med team who introduced it into Debian does not need it any mor
Thanks Andreas Beckmann!
Would breaks+replaces libbio-perl-run-perl (<<1.7.3) make sense?
On Thu, Nov 28, 2019 at 12:00 AM Andreas Beckmann wrote:
> Followup-For: Bug #921495
> Control: found -1 1.7.6-1
>
> libbio-perl-perl is missing proper
> Breaks+Replaces: libbio-perl-run-perl (<< 1.7.3)
On Thu, 21 Nov 2019 10:35:24 -0300
=?utf-8?q?Lisandro_Dami=C3=A1n_Nicanor_P=C3=A9rez_Meyer?= <
lisan...@debian.org> wrote:
> Source: cppreference-doc
> Version: 20170409-1
> Severity: serious
> Justification: FTBFS
>
> Hi! Your package is currently trying to install a file no longer created
since Q
Control: forwarded -1 https://github.com/bxlab/bx-python/issues/48
On Sat, 9 Nov 2019 13:53:25 +0100 Matthias Klose wrote:
> see https://buildd.debian.org/status/package.php?p=python-bx
> Exception: 2147483648 is larger than the maximum possible size
(2147483647)
Thanks, I had already reported t
On Thu, 4 Apr 2019 07:21:25 +0200 Andreas Tille
wrote:
> Hi,
>
> I stumbled again about this package:
>
> $ runPmv
> Run PMV from /usr/lib/python2.7/dist-packages/Pmv
> Traceback (most recent call last):
> File "/usr/lib/python2.7/dist-packages/Pmv/__init__.py", line 378, in
runPmv
> from P
Maybe this isn't worth our time. libgtextutils is only needed for fastx
toolkit.
Both are officially abandoned by upstream since 2017.
>From the fastx toolkit readme:
https://github.com/agordon/fastx_toolkit/blob/master/README#L7
* FASTX TOOLKIT is unmaintained software.
All of those have been submitted, but were rejected due to my lack of
uploader privileges.
Any DD can allow me to upload the fixed packages via the following command
dcut dm --uid 724D609337113C710550D7473C26763F6C67E6E2 --allow ${srcpackage}
--
Michael R. Crusoe
On Wed, Oct 30, 2019, 19:09 A
Attached is a patch to force gcc 8; so far it has gotten farther than the
previous failure for me (but my local build is still at 86%)
On Fri, Oct 4, 2019 at 7:57 AM Andreas Tille wrote:
> Hi Steve and Gert,
>
> since I have no idea about itk I have ignored this issue. Is there
> any chance t
3, 2019 at 12:35 PM olivier sallou wrote:
>
>
> Le jeu. 3 oct. 2019 à 12:08, Michael Crusoe a
> écrit :
>
>> On Sat, 9 Mar 2019 17:44:02 +0100 olivier sallou
>> wrote:
>> > Looking at core generated file and using gdb we see that it fails in
>> >
On Sat, 9 Mar 2019 17:44:02 +0100 olivier sallou wrote:
> Looking at core generated file and using gdb we see that it fails in
> fortran lib.
>
> Either program tries something wrong in a fortran updated lib version,
> either the fortran lib is itself buggy.
>
> I have no fortran knowledge to debu
The current packaging builds and installs fine for me; shall I upload?
On Thu, Sep 5, 2019 at 4:51 PM Andreas Tille wrote:
> Hi folks,
>
> this issue is urgent since if snakemake is not installable several of
> our packages where snakemake is in (Build-)Depends are broken. Is
> anybody working
I think this can be worked around by adding -Werror=stringop-truncation to
CXXFLAGS
--
Michael R. Crusoe
Dear maintainers,
I have a fix for this bug (by copying in the relevant files from OpenJDK 9)
at https://salsa.debian.org/java-team/icedtea-web/merge_requests/5
It is a hack, but from my testing it works.
I hope this is helpful; I would like to see this package stay in Debian
Buster.
Cheers,
-
On Mon, 04 Feb 2019 08:43:08 +0200 Adrian Bunk wrote:
> Source: samtools
> Version: 1.9-2
> Severity: serious
> Tags: patch
>
> SSE is not part of the i386 baseline, fix:
>
> --- debian/rules.old 2019-02-03 20:43:51.747130097 +
> +++ debian/rules 2019-02-03 20:44:04.383129977 +
> @@ -5,7 +
On Wed, 12 Sep 2018 22:40:38 +0200 "Gudjon I. Gudjonsson"
wrote:
> Hi
>
> On Wednesday, 12 September 2018 21:01:16 CEST Flavio Coelho wrote:
> > This error seems to be due to missing "dbfread" package which is
available
> > on Debian as "python3-dbfread"
>
> You are right but epigrass is built wit
On Sat, 5 Jan 2019 11:05:38 +0200 Faidon Liambotis
wrote:
> Therefore attached is a patch that addresses this using the je_rallocx
> API. It also deals with the deprecation of the stats.cactive statistic
> (as of jemalloc 4.0), using the stats.active instead.
>
> The patch should be 3.6.0-compatib
I think 0.9.9.7+sog+git20160415.14274c9-1 is the source of the recent FTBFS
of hhsuite: https://bugs.debian.org/917495 as our packaged version is
missing the "ffsort_index" function.
The hh-suite github repo contains a submodule pointing at their fork of
ffindex at ~ 2017-06-01:
https://github.com
Andreas Tille, et al. I propose that we drop *-i386 for htslib, as it is
blocking a lot of packages.
On Sat, 04 Aug 2018 16:45:42 +0200 Andreas Beckmann wrote:
> Source: htslib
> Version: 1.9-1
> Severity: serious
> Tags: ftbfs
> Justification: fails to build from source (but built successfully i
Control: tag -1 pending
Hello,
Bug #891752 in cwltool reported by you has been fixed in the
Git repository and is awaiting an upload. You can see the commit
message below, and you can check the diff of the fix at:
https://salsa.debian.org/med-team/cwltool/commit/9c1bd76a8598898dea22f2f81d3b51860
On Sat, 16 Dec 2017 16:40:11 +0100 Andreas Beckmann wrote:
> Source: seqan2
> Version: 2.3.2.000platform-issues8-6f85721+dfsg-2
> Severity: serious
> Justification: fails to build from source (but built successfully in the
past)
>
> Hi,
>
> seqan2 FTBFS on most platforms with failing unittests:
>
On Sun, 19 Nov 2017 21:26:34 +0100 Andreas Beckmann wrote:
> Source: seqan2
> Version: 2.3.2.000platform-issues6-9cf5a69+dfsg-3
> Severity: serious
> Justification: fails to build from source (but built successfully in the
past)
>
> Hi,
>
> seqan2 FTBFS during the indep-only build of the arch:all
I have a fix checked in as part of the 2.1-1 release, but it is blocked on
me uploading a python3 version of sphinx-guzzle
Pe 4 iul. 2017 23:12, "Sascha Steinbiss" a scris:
> Hi all,
>
> >> I've applied this patch to get the build working now that Python 3.6 is
> a
> >> supported version in Ubun
The khmer package latest upstream version now uses this theme. I would be
happy to take over maintenance.
On Thu, 5 May 2016 09:29:14 -0400 David =?iso-8859-1?Q?Pr=E9vot?= <
taf...@debian.org> wrote:
> Package: python-guzzle-sphinx-theme
> Version: 0.7.10-1
> Severity: serious
>
> [ Filled as an R
forwarded 852819 https://github.com/python/mypy/issues/2769
tags 852819 confirmed
thanks
Hello Leonhard,
My apologies for not testing the package. Clearly a test needs to be added!
On Sat, Sep 3, 2016 at 11:21 AM, Axel Beckert wrote:
> Hi Antonio,
>
> Antonio Terceiro wrote:
> > On Tue, Aug 18, 2015 at 06:26:06PM +0200, Christian Hofstaedtler wrote:
> > - something else can replace ruby-ronn and we manage to make reverse
> > (build) dependencies switch to it.
>
> Before s
Thanks Sascha!
Pe 13 mai 2016 11:45 p.m., "Sascha Steinbiss" a
scris:
> Hi all,
>
> I re-introduced the build dependency on bowtie and also did some minor
> housekeeping. Committed the fix in git.
>
> Cheers
> Sascha
>
> > On 19 Mar 2016, at 14:34, Andreas Beckmann wrote:
> >
> > Package: rsem
>
Thank you Martin for your report. I've contacted upstream who has already
fixed the issue in a soon to be released new version.
Hello Andreas Beckmann,
Thank you for the report!
I've uploaded a new version though I was unable to replicate the piuparts
test to verify it. Any guidance on what command I should add to my
checklist would be appreciated.
On Tue, Mar 8, 2016 at 9:34 PM, Andreas Beckmann wrote:
> Package: libb
I've attached a patch
You'll need to make use of the `jvm_includes` variable that /usr/share/java/
java_defaults.mk defines.
On Wed, Feb 17, 2016 at 10:03 PM Andreas Tille wrote:
> Sorry, but do you have a better hint for me since my attempt below did
> not change anything?
>
> Kind regards
>
>
On Thu, Feb 26, 2015 at 4:26 PM Andreas Tille wrote:
> Hi Michael,
>
> On Thu, Feb 26, 2015 at 09:16:07PM +, Michael Crusoe wrote:
> > > Since we are using a wrapper anyway I have set this inside the wrapper
> > > and thus do not see any need for README.De
On Thu, Feb 26, 2015 at 4:01 PM Andreas Tille wrote:
> Hi Michael,
>
> On Thu, Feb 26, 2015 at 08:40:22PM +, Michael Crusoe wrote:
> > End users will expect adapter files to be installed and available. Please
> > push into Jessie.
>
> OK. I'll bump the
Thanks!
On Tue Feb 03 2015 at 4:21:08 AM Debian Bug Tracking System <
ow...@bugs.debian.org> wrote:
> This is an automatic notification regarding your Bug report
> which was filed against the bowtie package:
>
> #776881: bowtie: '-debug' binaries break `bowtie-build`
>
> It has been closed by Cha
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