Package: wnpp
Owner: Debian Med team
Severity: wishlist
* Package name: python-rdflib-jsonld
Version : 0.3
Upstream Author : RDFLib Team
* URL : https://github.com/RDFLib/rdflib-jsonld
* License : BSD
Programming Lang: Python
Description : rdflib extens
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: python-schema-salad
Version : 1.6.2016020448
Upstream Author : Common workflow language working group
* URL : https://pypi.python.org/pypi/schema-salad
* License : Apache-2.0
Progra
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: cwltool
Version : 1.0.20160203221531
Upstream Author : Common Workflow Language working group
* URL : http://www.commonwl.org
* License : Apache-2.0
Programming Lang: Python
Descripti
Package: wnpp
Owner: Debian Med team
Severity: wishlist
* Package name: varna
Version : 3-93
Upstream Author : Kevin Darty, Alain Denise and Yann Ponty
* URL : http://varna.lri.fr/
* License : GPL-3
Programming Lang: Java
Description : Visualization A
==
>
> Please feel free to respond to this email if you don't understand why
> your files were rejected, or if you upload new files which address our
> concerns.
>
>
--
Michael R. Crusoe CWL Community Engineer cru...@ucdavis.edu
Common Workflow Language
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: python-typing
Version : 3.5.0.1
Upstream Author : Guido van Rossum, Jukka Lehtosalo, Łukasz Langa
* URL : https://docs.python.org/3.5/library/typing.html
* License : Python 2.0
Programm
at 7:38 PM, Scott Kitterman
wrote:
> On Monday, March 07, 2016 09:01:30 AM Michael R. Crusoe wrote:
> > Package: wnpp
> > Severity: wishlist
> > Owner: Debian Med team
> >
> > * Package name: python-typing
> > Version : 3.5.0.1
> > U
See
https://www.python.org/dev/peps/pep-0484/#suggested-syntax-for-python-2-7-and-straddling-code
Pe 8 mar. 2016 06:24, "Brian May" a scris:
> "Michael R. Crusoe" writes:
>
> > This is a backport of the standard library typing module to Python
> > vers
> Please feel free to send on the information to anyone who might be
> interested, or to get in touch with myself to discuss further.
>
>
>
> Best wishes
>
> Jonathan
>
>
>
> Jonathan Boyle
>
> HPC Application Analyst
>
> Numerical Algorithms Group (NAG
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: mypy
Version : 0.3.1
Upstream Author : Jukka Lehtosalo
* URL : http://www.mypy-lang.org/
* License : MIT
Programming Lang: Python
Description : Optional static typing for Python
A
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: cnvkit
Version : 0.7.11
Upstream Author : Eric Talevich
* URL : http://cnvkit.readthedocs.io/
* License : Apache-2.0
Programming Lang: Python
Description : Copy number variant dete
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: r-cran-r.cache
Version : 0.12.0
Upstream Author : Henrik Bengtsson
* URL : https://github.com/HenrikBengtsson/R.cache
* License : LGPL (>= 2.1)
Programming Lang: R
Description : R
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: r-bioc-dnacopy
Version : 1.46.0
Upstream Author : Venkatraman E. Seshan
* URL :
http://www.bioconductor.org/packages/release/bioc/html/DNAcopy.html
* License : GPL-2.0+
Programming Lang
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: r-cran-listenv
Version : 0.6.0
Upstream Author : Henrik Bengtsson
* URL : https://github.com/HenrikBengtsson/listenv
* License : LGPL 2.1+
Programming Lang: R
Description : R packa
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: r-cran-globals
Version : 0.6.1
Upstream Author : Henrik Bengtsson
* URL : https://github.com/HenrikBengtsson/globals
* License : LGPL-2.1+
Programming Lang: R
Description : R packa
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: r-cran-future
Version : 1.0.0
Upstream Author : Henrik Bengtsson
* URL : https://github.com/HenrikBengtsson/future
* License : LGPL-2.1+
Programming Lang: R
Description : R package
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: r-cran-pscbs
Version : 0.61.0
Upstream Author : Henrik Bengtsson
* URL : https://github.com/HenrikBengtsson/PSCBS
* License : GPL-2+
Programming Lang: R
Description : R package: An
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: r-bioc-geneplotter
Version : 1.50.0
Upstream Author : Bioconductor Package Maintainer
* URL : http://bioconductor.org/packages/geneplotter/
* License : Artistic-2.0
Programming Lang: R
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: r-bioc-deseq2
Version : 1.12.3
Upstream Author : Michael Love
* URL : https://bioconductor.org/packages/DESeq2
* License : LGPL-3+
Programming Lang: R
Description : R package for R
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: python3-typed-ast
Version : 0.5.5
Upstream Author : David Fisher
* URL : https://pypi.python.org/pypi/typed-ast
* License : Python, Apache-2.0
Programming Lang: Python, C
Description
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: hisat2
Version : 2.0.4
Upstream Author : HISAT2 team
* URL : https://ccb.jhu.edu/software/hisat2/index.shtml
* License : GPL-3+
Programming Lang: Perl, Python, C++
Description : gr
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: r-hms-dbmi-spp
Version : 1.14
Upstream Author : peterK
* URL : http://compbio.med.harvard.edu/Supplements/ChIP-seq/
* License : GPL-2
Programming Lang: R, C++
Description : GNU R p
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: python-pybedtools
Version : 0.7.8
Upstream Author : Ryan Dale
* URL : https://github.com/daler/pybedtools
* License : GPL 2+
Programming Lang: Python, Cython,
Description : Python
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: python-gffutils
Version : 0.8.7.1
Upstream Author : Ryan Dale
* URL : http://daler.github.io/gffutils/
* License : MIT
Programming Lang: Python
Description : Work with GFF and GTF
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: easel
Version : 0.43
Upstream Author : Sean R. Eddy
* URL : https://github.com/EddyRivasLab/easel
* License : BSD-3-clause
Programming Lang: C
Description : a library of C function
their software and
a better user response.
Kind regards and thanks for considering,
--
Michael R. Crusoe
Co-founder & Lead,
Common Workflow Language project <http://www.commonwl.org/>
https://impactstory.org/u/-0002-2961-9670
m...@commonwl.org
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: galaxy-lib
Version : 17.9.10
Upstream Author : Galaxy Project and Community
* URL : https://github.com/galaxyproject/galaxy-lib
* License : AFL
Programming Lang: Python
Description
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: ctdopts
Version : 1.2
Upstream Author : Andras Szolek et al.
* URL : https://github.com/WorkflowConversion/CTDopts
* License : GPL-3+
Programming Lang: Python
Description : Gives yo
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: ctdconverter
Version : 2.0
Upstream Author : WorkflowConversion
* URL : https://github.com/WorkflowConversion/CTDConverter/
* License : GPL-3 / Apache-2.0
Programming Lang: Python
Descr
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: libdeflate
Version : 1.0
Upstream Author : Eric Biggers
* URL : https://github.com/ebiggers/libdeflate
* License : MIT
Programming Lang: C
Description : fast, whole-buffer DEFLATE-
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: python-typing-extensions
Version : 3.6.6
Upstream Author : Guido van Rossum, Jukka Lehtosalo, Lukasz Langa, Michael
Lee
* URL :
https://github.com/python/typing/blob/master/typing_extensions/REA
Package: ftp.debian.org
Severity: normal
Owner: Debian Med team
Upstream report: https://github.com/samtools/htslib/issues/565
The provided workaround does not fix the issue and it has now been a year with
no progress
Thanks!
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: bagit
Version : 1.7.0
Upstream Author : Ed Summers
* URL : https://libraryofcongress.github.io/bagit-python/
* License : CC0
Programming Lang: Python
Description : Create and valid
Package: release.debian.org
Severity: normal
User: release.debian@packages.debian.org
Usertags: rm
Hello,
Please remove python-htseq-doc from the testing distribution. It is no
longer build by the source package and its presence is blocking a migration
from unstable.
Thanks!
-- System Infor
Package: d-shlibs
Version: 0.83
Severity: normal
Dear Maintainer,
While fixing the missing linkage to libsvm in libpsortb I received the
following message:
devlibs error: There is no package matching [libsvm3-dev] and noone provides
it, please report bug to d-shlibs maintainer
So here I am :-)
Package: ftp.debian.org
Severity: normal
Hello,
This package was missing a source and binary dependency on BWA which is only
built for amd64.
Please remove the non-amd64 binary packages of tnseq-transit so that the new
Debian package can migrate from sid to testing.
Thanks!
Package: ftp.debian.org
Severity: normal
This was originally packaged as a dependency of Toil[1], but by the time that
made
it to the NEW queue Toil had dropped its dependency on cgcloud.
[1] https://ftp-master.debian.org/new/toil_3.18.0-1.html
Package: ftp.debian.org
Severity: normal
Control: block -1 by 918869
To be removed after python-cgloud, #918869 [1] for the same reasons:
python-bd2k was originally packaged as a dependency of Toil[2], but by the time
Toil arrived in the NEW queue it had dropped its dependency on python-bd2k.
Ot
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: python-mypy-extensions
Version : 0.4.1
Upstream Author : Jukka Lehtosalo and contributors
* URL : https://github.com/python/mypy_extensions/
* License : Expat
Programming Lang: Python
D
Package: wnpp
Severity: wishlist
Owner: Debian Med team
* Package name: sourmash
Version : 2.0.0~a11
Upstream Author : C. Titus Brown , Luiz C. Irber, Jr
* URL : http://sourmash.readthedocs.io/en/latest/
* License : BSD-3-Clause
Programming Lang: Python, C+
Package: ftp.debian.org
Severity: normal
Hello,
Please remove the binary package python-schema-salad version
2.6.20171201034858-3 and the binary package python-typing-extensions version
3.7.2-1 from the archive. We now only need and build for Python 3
and these packages are holding up the migrati
Package: ftp.debian.org
Severity: normal
Thanks!
Package: wnpp
Severity: wishlist
Subject: ITP: pufferfish -- An efficient index for the colored, compacted, de
Bruijn graph
Package: wnpp
Owner: Michael R. Crusoe
Severity: wishlist
* Package name: pufferfish
Version : 1.0.0
Upstream Author : , 2016 Rob Patro, Avi Srivastava
Package: ftp.debian.org
Severity: normal
Thanks!
Yes, the package should use libcolt-free-java. You probably saw the nutty
lengths I was going to to try to keep nonfree dependencies out. Should be a
lot more straightforward now.
On Fri, Aug 21, 2015, 04:29 olivier sallou wrote:
> hi Mickael,
> I have a question regarding your packaging of libj
Wonderful, thank you!
On Fri, Aug 21, 2015, 07:48 olivier sallou wrote:
> Hi,
> I have made a few updates (typo, cleanup, ...) and uploaded the package.
>
> git repo is up-to-date
>
> Olivier
>
s that fine ?
> After we should go on for trinity. I made local changes to patch it to
> compile with gcc5 as well as a patch to compile with jung.
>
> Le ven. 21 août 2015 à 13:55, Michael R. Crusoe a
> écrit :
>
>> Yes, the package should use libcolt-free-java. You probably s
Package: wnpp
Owner: "Debian Med Team"
Severity: wishlist
X-Debbugs-CC: debian-med@lists.debian.org
* Package name: transrate-tools
Version : 1.0.0
Upstream Author : Richard Smith-Unna & Chris Boursnell
* URL : https://github.com/Blahah/transrate-tools
* License
Package: wnpp
Severity: wishlist
Subject: ITP: libbio-db-swissprot-perl -- Database object interface to
SwissProt retrieval
Package: wnpp
Owner: Michael R. Crusoe
Severity: wishlist
* Package name: libbio-db-swissprot-perl
Version : 1.7.3
Upstream Author : Copyright: Jason
Package: wnpp
Severity: wishlist
Subject: ITP: libbio-db-refseq-perl -- Database object interface for RefSeq
retrieval
Package: wnpp
Owner: Michael R. Crusoe
Severity: wishlist
* Package name: libbio-db-refseq-perl
Version : 1.7.3
Upstream Author : Copyright: Heikki Lehvaslaiho
Package: wnpp
Severity: wishlist
Subject: ITP: libbio-procedural-perl -- Simple low-dependency procedural
interfaces to BioPerl
Package: wnpp
Owner: Michael R. Crusoe
Severity: wishlist
* Package name: libbio-procedural-perl
Version : 1.7.4
Upstream Author : Copyright: Ewan
Package: wnpp
Severity: wishlist
Subject: ITP: libbio-variation-perl -- BioPerl variation-related functionality
Package: wnpp
Owner: Michael R. Crusoe
Severity: wishlist
* Package name: libbio-variation-perl
Version : 1.7.4
Upstream Author : Copyright: Allen Day , Heikki
Package: ftp.debian.org
Severity: normal
Dear ftp.debian.org people,
htslib FTBFS on big-endian systems
https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=947462 and this is
blocking the following transitions: auto-htslib, python2-rm, python3.8,
and auto-pbbam
I propose we delete the affected s39
Package: wnpp
Severity: wishlist
Subject: ITP: libbio-featureio-perl -- Modules for reading, writing, and
manipulating sequence features
Package: wnpp
Owner: Michael R. Crusoe
Severity: wishlist
* Package name: libbio-featureio-perl
Version : 1.6.905
Upstream Author : BioPerl
Package: wnpp
Severity: wishlist
Subject: ITP: libsys-info-driver-linux-perl -- Linux driver for Sys::Info
Package: wnpp
Owner: Michael R. Crusoe
Severity: wishlist
* Package name: libsys-info-driver-linux-perl
Version : 0.7905
Upstream Author : , Burak Gursoy
* URL
Package: wnpp
Severity: wishlist
Subject: ITP: libsys-info-perl -- Fetch information from the host system
Package: wnpp
Owner: Michael R. Crusoe
Severity: wishlist
* Package name: libsys-info-perl
Version : 0.7811
Upstream Author : , Burak Gursoy
* URL : https
Package: ftp.debian.org
Severity: important
A follow on to https://bugs.debian.org/948092 as I forgot to include
grabix in the list; this appears to be holding up the transition to
testing if I'm reading https://release.debian.org/britney/update_output.txt
correctly.
Thanks!
Package: wnpp
Severity: wishlist
Subject: ITP: bwa-mem2 -- the next version of the bwa-mem algorithm in bwa
Package: wnpp
Owner: Michael R. Crusoe
Severity: wishlist
* Package name: bwa-mem2
Version : 2.0~pre2
Upstream Author : , Vasimuddin Md, Sanchit Misra, Intel Corporation
Package: wnpp
Severity: wishlist
Subject: ITP: htscodecs -- Custom compression for CRAM and others
Package: wnpp
Owner: Michael R. Crusoe
Severity: wishlist
* Package name: htscodecs
Version : 0.5
Upstream Author : , Genome Research Ltd.
* URL : https://github.com
icy/
Sincerely,
Michael R. Crusoe on behalf of the Debian-Med team
https://10.20944/preprints202005.0376.v1
--
Michael R. Crusoe
Pardon me, https://doi.org/10.0.81.208/preprints202005.0376.v1 is the
correct link
--
Michael R. Crusoe
On Thu, Jun 4, 2020, 20:06 Michael R. Crusoe wrote:
> https://10.20944/preprints202005.0376.v1
>
> --
> Michael R. Crusoe
>
Alas the DOI is too new!
It will work later. https://www.preprints.org/manuscript/202005.0376/v1
works today.
--
Michael R. Crusoe
On Thu, Jun 4, 2020, 20:11 Michael R. Crusoe wrote:
> Pardon me, https://doi.org/10.0.81.208/preprints202005.0376.v1 is the
> correct link
>
> --
On Thu, Jun 4, 2020 at 9:07 PM Andreas Tille wrote:
> Hi Michael,
>
> On Thu, Jun 04, 2020 at 08:12:01PM +0200, Michael R. Crusoe wrote:
> > Alas the DOI is too new!
>
Here is the working DOI link:
https://doi.org/10.20944/preprints202005.0376.v1
> >
>
Thank you Andreas for announcing the meeting, and thanks to the attendees
for their participation. Our meeting notes are at
https://storm.debian.net/shared/6NfKT87njAmCg3tr_uhkE2Qp9SQhVxy8mwD1fQUzfMy
On Fri, Jun 12, 2020 at 1:07 PM Andreas Tille wrote:
> Hi,
>
> for those who would like to join
Done. I also ran `routine-update -f` which did a number of cleanups. It
would be nice if you ran that yourself in the future :-)
I also fixed a spelling error in the upstream source that lintian now
notices.
Uploaded. Thanks!
On Thu, Jul 9, 2020 at 8:52 AM Pranav Ballaney
wrote:
> Hi,
> I've
!
--
Michael R. Crusoe
On Mon, Aug 24, 2020 at 4:51 PM Olek Wojnar wrote:
> Hi Mo,
>
> Sorry about the slow reply, I've been a bit buried with emails and I'm not
> answering them as well as I would like. :(
>
> On Wed, Aug 19, 2020 at 12:40 AM Mo Zhou wrote:
>
>> Hi Olek,
>>
>> What a good news! Your hardword is much
I'd like to see Debian/Debian-Med become an official ELIXIR Core Data
Resource during the next cycle.
https://f1000research.com/articles/5-2422/v2 has the details about the last
review round.
Would anyone like to help me with the application process?
Thanks,
On Fri, Oct 16, 2020 at 3:50 PM Andreas Tille wrote:
> Hi,
>
> the video conferences of the Debian Med team have shifted to two
> meetings per month now. Do enable different people joing we shift
> weekdays by simply meeting on every
>
>2th and 17th
>
> of a month. So the next meeting is
On Sat, Oct 24, 2020 at 4:18 AM Steffen Möller
wrote:
> Dear all,
>
> We got our first RNA-seq pipeline as a package in Debian. Many thanks go
> to all who contributed. I need to let this sink in for a while, which
> coincides with being distracted with what I am paid to do :o) And then
> let's u
where
--
Michael R. Crusoe
rformance gain for that
> software when extensions are available?
>
> Michael R. Crusoe, on 2020-11-05 21:26:30 +0100:
> > As documented at
> > https://wiki.debian.org/SIMDEverywhere
>
> shapeit4 provides a dedicated code path for "-mfma -mavx2" build
> option
Should I upload gkl (after some routine-update)?
>
Already done :-)
> I also wonder why that package is in java-team if only Debian Med
> members are working on it and its relevant for Debian Med.
>
I don't know!
--
Michael R. Crusoe
Bus error tends to be about unaligned memory access. I personally don't fix
such issues, but I do report them upstream and then disable that
architecture for building.
For bioinformatics, there is no reason to support armhf.
--
Michael R. Crusoe
On Sat, Nov 21, 2020, 22:11 Nilesh Patra
hanges:
> > kmc (3.1.1+dfsg-2) unstable; urgency=medium
> > .
> >* Team upload.
> > .
> >[ Étienne Mollier ]
> >* Remove non-portable -m64 flag put back by error.
> > .
> >[ Michael R. Crusoe ]
> >* Support non-x86 systems
https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=980997
[1] https://github.com/simd-everywhere/simde-no-tests
[2] https://github.com/simd-everywhere/simde/blob/master/amalgamate.py
--
Michael R. Crusoe
On Wed, 27 Jan 2021 at 10:59, Nilesh Patra wrote:
> Hi Michael
>
> On Wed, 27 Jan 2021 at 14:51, Michael R. Crusoe wrote:
>
>> Hello,
>>
>> After scheduling a binary rebuild[0] of packages using libsimde-dev
>>
>
> First off, thanks a lot for doing t
Thanks both :-)
Yeah, I remember thinking about this, but in my rush I forgot. I've pulled
the installation of the simd-dispatcher script into
override_dh_install-indep.
Cheers,
On Sun, 31 Jan 2021 at 00:41, Juhani Numminen
wrote:
> Hi Nilesh and Michael,
>
> On Sat, 30 Jan 2021, 23.24 Nilesh
omatically run autodep8 which
> fails because the import name is community and not louvain.
>
In the short term I recommend fixing this by adding a file to the Debian
python-louvain package named "debian/tests/autopkgtest-pkg-python.conf"
with the contents "import_name = community"
--
Michael R. Crusoe
? We would like to link to it, and we
could also provide these and future patches in the form of
pull(merge)-requests.
Many thanks for providing your software under an open source license.
Cheers,
--
Michael R. Crusoe
OpenPGP_signature
Description: OpenPGP digital signature
se keep me CC'd)
--
Michael R. Crusoe
Thanks for catching this, Steffen!
A bug report would be appreciated, so we don't lose track of this.
--
Michael R. Crusoe
On Sun, May 23, 2021, 14:51 Steffen Möller wrote:
> Hello,
>
> cudaSV needs bgziptabix to be happy, which is how I became aware fo all
> the scripts in
On Mon, Aug 23, 2021 at 5:32 PM Nilesh Patra wrote:
>
>
> On 8/23/21 9:00 PM, Nilesh Patra wrote:
> > Recently I added autopkgtest to the latest version of resfinder, which
> uses kma_index binary from src:kma package. That started failing on
> > 32 bit architectures[1]
> >
> > I reported the sam
Hello Jelmer,
Can you make a source-only upload of debmutate 0.35-1 or later? This is
blocking lintian-brush & routine-updates's migration back into testing.
I'm happy to make a NMU, if you wish.
Cheers,
On Tue, Nov 2, 2021 at 3:25 AM Aaron M. Ucko wrote:
> sra-sdk in unstable fixes this bug, but is blocked by ncbi-vdb, which
> FTBFS on i386 as of the latest release. I have a fix worked out
> (disabling vdb3 for now, which AFAICT has no effect on the resulting
> binaries), and plans for some oth
Great, thank you!
I forget, what's the best way to advertise that cwltool and the toil
packages can handle those media types?
On Sun, May 15, 2022 at 10:22 AM Charles Plessy wrote:
> Hello everybody,
>
> I just updated the media-types package in Sid, which brings (among other
> changes) the app
g/events/workshop/2023/cwl-seminar
--
Michael R. Crusoe
OpenPGP_signature
Description: OpenPGP digital signature
That's a shame. The 2.7.3 release (which is quite small) is still under the
original license
https://github.com/epi2me-labs/pychopper/compare/v2.7.2...v2.7.3
https://github.com/epi2me-labs/pychopper/releases/tag/v2.7.3
On Thu, Jun 15, 2023 at 5:54 PM Nilesh Patra
wrote:
> Hi,
>
> I'm dropping t
The real error is at
gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2
-DTARGET=\"x86_64-pc-linux-gnu\" -DGMAPDB=\"/var/cache/gmap\"
-DGSNAP=1 -mpopcnt -DHAVE_SSE2=1 -msse2 -mno-ssse3 -mno-sse4.1
-mno-sse4.2 -mno-avx2 -g -O2
-ffile-prefix-map=/builds/med-team/gmap/debian/output/source_dir=
pports up to AVX512, it
> would be good to create multiple binaries (as we did in VeryFastTree) with
> different levels so that modern hardware can take advantage of them while
> preserving compatibility.
>
> El jue, 13 jul 2023 a las 9:36, Michael R. Crusoe (<
> michael.r.c
Here is my fix
https://salsa.debian.org/med-team/gmap/-/commit/596beba027da3944b0f45a9ffc9e03d1d9dca5ba
On Thu, Jul 13, 2023 at 11:15 AM Michael R. Crusoe <
michael.r.cru...@gmail.com> wrote:
> Thanks César; I've done much of this already. I'll push my changes shortly
> (te
I thought I patched out all the WDL tests; I suggest adding `WdlToilTest`
to the skip list.
On Thu, Jul 13, 2023 at 9:42 PM Andreas Tille wrote:
> Hi folks,
>
> before I switch of my laptop for today I'd like to hand over some
> remaining build time error in toil:
>
> ___ Wdl
Hey César,
Can you look at the build failures for non-x86?
https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1041451
https://buildd.debian.org/status/fetch.php?pkg=gmap&arch=arm64&ver=2023-06-01%2Bds-1&stamp=1689254473&raw=0
Note: /<>/build/src/gmap.nosimd does not exist. For faster
speed, may
This is wonderful news, thank you very much!
On Monday, September 25, 2023, Nicole Redaschi via RT
wrote:
> Hi Michael,
>
> I got the go ahead to change the HAMAP license to CC-BY-4.0. We intend to
do
> this for the next release, which is due on Nov 8.
>
> Hope that helps!
>
> Cheers,
> Nicole
>
I find autopkgtest-pkg-pybuild to often be superior, but it can't be
enabled automatically like the -python version as it won't work
automatically nearly as often without additional configuration like the
"-python" version.
--
Michael R. Crusoe ; he/him
On Tue 27 Feb 2024,
This is a great tip, thanks!
I've pushed commits that use the provisions from the
architecture-properties package to clean up d/control for the following
packages:
abyss
bazel-bootstrap
bowtie
bowtie2
canu
diamond-aligner
gmap
jellyfish
kallisto
mmseqs2
pbcopper
python-skbio
subread
On Sun, Mar
and the new uploads to migrate to
testing, responding to any queries from the FTP team.
Alas this is an involved process. If we have to do it a lot, it would be nice
if someone writes a tool to automate any aspect of the above!
---
Fweh, that's a long email. Please do share your fee
On 28/03/2024 14.51, Michael R. Crusoe wrote:
Dear colleagues and users,
[snip]
Fweh, that's a long email. Please do share your feedback here and on the
Debian-Med Matrix channel for instant discussions:
https://app.element.io/#/room/#debian-med:matrix.org
Thank you all for the thoug
On 01/04/2024 21.12, Sascha Steinbiss wrote:
Hi all,
first of all thanks Michael for this idea and also for the elaborate
proposal email that outlines the intended way to go quite well.
Thanks!
[...]
Support Debian-Med packages for 32-bit and/or big-endian architectures is not a
good us
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