.
Let's wait for next upstream release then. :^)
Kind Regards,
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Étienne Mollier
so, either there is no system call during the loop,
or I don't strace the right process.
Kind Regards,
--
Étienne Mollier
-- System Information:
Debian Release: buster/sid
APT prefers unstable
APT policy: (500, 'unstable')
Architecture: amd64 (x86_64)
Foreign Architectures: i386
Kernel
/gtownsend/icon/commit/bfc4a6004d0d3984c8066289b8d8e563640c4ddd
Kind Regards,
--
Étienne Mollier
du/icon/current/
I'm wrong, it will be part of the next version probably, but not
icon 3.5.1. The patch may help finally.
Sorry for the confusion,
--
Étienne Mollier
xzcmp sent exit code 1
I will keep the modification in my /usr/bin/xzcmp for some time,
in case it inadvertently breaks things.
Please tell me if I should attach the current changelog.gz,
should the problem fail to reappear on your side.
Cheers
--
Étienne Mollier
ding my Noweb documents/programs
afterwards, but I have just the "iconx" package installed.
I hope this helps,
--
Étienne Mollier
kages from the system, no changes.
The configuration was Debian Buster, built using the Alpha 5
Debian installer on a virtual machine. The host was the main
Debian Sid machine.
Not sure if this is very helpful, but let's hope some bit will
be informative.
Kind Regards,
--
Étienne Mollier
wondering, wouldn't it be cleaner to put xclip as a
recommended package, or at least suggest it?
Kind regards,
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-- System Information:
Debian Release: bullseye/sid
APT prefers unstable
APT policy: (500, 'unstable')
Architecture: amd64 (x86_64)
Foreign Architectures: i386, riscv64
:
local IFS=$'\n'
COMPREPLY=( $( compgen -W '$( _umount_points_list )' -- "$cur" ) )
These changes go a bit beyond the scope of the description of
the bug, but I thought it would be a good idea to let you know
about the issue.
Oh, by the way, when hard coding the AWK interprete
onnect to the other server on the given port (active);
if not, it waits for the other server to connect (passive).
.PP
ngIRCd supports "server groups": You can assign an "ID" to every server
---8<---8<--
In hope this helps,
K
On 19/07/2019 20.50, Christoph Biedl wrote:
> Étienne Mollier wrote...
>
>>ngIRCd tries to connect to to the other server on the
>> ^
> Thanks for reporting, this exists in a few more places as well.
Wow, you are right
The upstream maintainer, Simon Thatam, noticed this build problem
and brought a fix in this commit:
https://git.tartarus.org/?p=simon/puzzles.git;a=commit;h=907c42bcf0f06826279d5be91be7f7f9c45876d9
Note that it fuzzes with the current 20170606.272beef-1 version
of the package, so I took the
/
In the prerequisite software, the availability of the
prinseq-lite.pl command is part of the requirements:
https://wupathlabs.wustl.edu/virusseeker/installation/install-prerequisite-software/
Thank you,
Kind Regards,
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The repository can be found on Salsa at:
https://salsa.debian.org/med-team/prinseq-lite/
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release ships with a bunch of old scripts licensed under OSL-2.1
apparently not compatible with the GPL-3+). However, it seems
still work in progress for the moment, as there are no releases
or tags to hang on yet.
Kind Regards,
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Étienne Mollier.
the clipboard with this option set in Gnuplot 5 would
require double clicking with the button 1 of the mouse in the
graph.
[1] http://www.gnuplot.info/docs_4.2/gnuplot.html#x1-20300043.37
[2] http://www.gnuplot.info/docs_5.2/Gnuplot_5.2.pdf
I hope this helps,
Kind Regards,
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Étienne Mollier
Fin
Control: tags -1 pending
Greetings Andrey,
Thank you for your report!
I brought some modifications to the installation procedure, to
make sure the program launcher knows it is installed into /usr.
This fix in "vrrender" should be part of the next upload of
"sight".
Kind
Package: python3-seaborn
Version: 0.10.0-1
Severity: important
Tags: patch upstream
Dear Maintainers,
With certain datasets having a particular distribution, the
seaborn library crashes with a runtime error, issued first by
the python3-statsmodels library. statsmodels seems to expect
the caller
.1 should be sufficient.
> Kind regards (and sorry if I seem a bit stupid - I had some
> wine after our video conference :-P ;-) )
No problem if the upgrade has to wait a bit, the package won't
be removed from Bullseye tomorrow. ;)
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Gcc 10:
https://gcc.gnu.org/gcc-10/porting_to.html
Putting it into the header helps moving forward with these build
errors. I took the liberty to inform upstream about this issue:
https://github.com/rvaser/bioparser/pull/7
I hope this helps,
Kind Regards,
Étienne Mollier.
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added by
the command routine-update. :)
I hope this helps,
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s the job. :)
Thank you for the confirmation!
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ption as well,
even preferred in many situations actually I guess.
> Étienne, thanks a lot for your work
You're welcome, thank you for the upload,
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graphs.pl command without
having to skip PCA graphs. The repository is available on
Salsa:
https://salsa.debian.org/perl-team/modules/packages/libmath-matrixreal-perl/
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Help find cures
Étienne Mollier, on 2020-05-21 18:34:03 +0200:
> The patch is now forwarded upstream; CI is ongoing, hopefully I
> haven't broke anything in the process:
>
> https://github.com/karelzak/util-linux/pull/1045
>
> Will see how the issue evolves...
Looks like it will
block 959381 by 842420
thanks
://salsa.debian.org/med-team/plotly-orca/
It is worth noting though that this package would depend on
electron, which is still quite some work in progress for
inclusion into the archive. This RFP is to document this need
as well.
Kind Regads,
Étienne Mollier.
Control: tags -1 upstream
Control: tags -1 patch
Control: thanks
Hi Andreas,
I pushed the patch on Salsa and verified it helped at least with
the "racon" package (#957747); build time test is still running,
but the build in itself went through.
Kind Regards,
--
Étienne Mollier
F
upstream, so that there's no need
> to carry such patch in Debian?
Sure, let's put that brand new Github account of mine to some
use! :D
The patch is now forwarded upstream; CI is ongoing, hopefully I
haven't broke anything in the process:
https://github.com/karelzak/util-linux/pull
hold in hopes that the
> upgrade will suffice, and to take care of the latter when I get a chance.
Sounds good to me, we may work the issue around by single
threading execution of tblastn in the meantime, and use this bug
as reference when we hit this problem again.
Thanks for your investigation
5816.faa
New DB title: NC_005816.faa
Sequence type: Protein
Deleted existing Protein BLAST database named /tmp/NC_005816.faa
Keep MBits: T
Maximum file size: 2000B
Adding sequences from FASTA; added 10 sequences in 0.166301 seconds.
Kind Regards,
Hi Aaron,
Aaron M. Ucko, on 2020-09-13 22:44:00 -0400:
> Étienne Mollier writes:
>
> > regression looks still there in version 2.10.0-3, at least on
> > arm64 architecture.
>
> How can I reproduce it?
I worked within an arm64 schroot built with sbuild-createchroot,
o
Control: tag -1 reopen
Greetings,
Étienne Mollier, on 2020-09-08 21:10:18 +0200:
> Aaron M. Ucko, on 2020-09-07 21:55:45 -0400:
> > Étienne Mollier writes:
> > > Thanks for your work on this topic. I attempted to remove the
> > > patches to address #960756 in Bi
ght be
simpler ?
Anyway in hope any of these ideas helps...
Kind Regards,
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Old rsa/3072: 5ab1 4edf 63bb ccff 8b54 2fa9 59da 56fe fff3 882d
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tting POPCNT_CAPABILITY=0 instead of listing
architectures that do not have this available:
---8<------8<--8<--8<---
commit ebb4152dc649d63bec2360a21bd909f1d4a44d2a
Author: Étienne Mollier
Date: Mon Oct 12 23:43:50 2020 +0200
reviewed debian/patch
ind Regards,
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Étienne Mollier
Old rsa/3072: 5ab1 4edf 63bb ccff 8b54 2fa9 59da 56fe fff3 882d
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a matter of these global
variables not being "extern" as they should; this is not always
applicable because of the way they are used.
I understood you might be busy next week, so requested access to
the Salsa Debian Science Team repository to bring the
modification myself if you wish, my
Package: src:changeo
Version: 1.0.0-1
Severity: wishlist
Tags: newcomer
Greetings,
it would be a nice addition for the package to have some test
suite "autopkgtest" available.
Kind Regards,
Étienne.
For newcomers: this package is maintained under the umbrella of
the Debian Med Team , so feel
Package: src:seqsero
Version: 1.0.1+dfsg-2
Severity: wishlist
Tags: newcomer
Greetings,
it would be a nice addition for the package to have some test
suite "autopkgtest" available.
Kind Regards,
Étienne.
For newcomers: this package is maintained under the umbrella of
the Debian Med Team , so
Package: src:prime-phylo
Version: 1.0.11-9
Severity: wishlist
Tags: newcomer
Greetings,
it would be a nice addition for the package to have some test
suite "autopkgtest" available.
Kind Regards,
Étienne.
For newcomers: this package is maintained under the umbrella of
the Debian Med Team , so
/packages/libstatistics-pca-perl
Kind Regards,
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in the package
prinseq-lite. The source code of the package for Math::Cephes
is available on Salsa:
https://salsa.debian.org/perl-team/modules/packages/libmath-cephes-perl
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Help find cures
nd on amd64 (without the patch).
Changes are available on Salsa for review:
https://salsa.debian.org/med-team/sweed
Thanks Paul for having reported the issue, and Thanks Nilesh for
having written the test suite that allowed to catch the bug! :)
Kind Regards,
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Étienne Mollier
Old rsa/
the package can be
safely removed from 32 bits architectures for good now. Would
it possible to proceed to the removal again please?
Sorry again for the duplicate,
Kind Regards,
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Étienne Mollier
Old rsa/3072: 5ab1 4edf 63bb ccff 8b54 2fa9 59da 56fe fff3 882d
New rsa/4096: 8f91 b227 c7d6 f2b1 948c
Package: wnpp
Owner: Étienne Mollier
Severity: wishlist
X-Debbugs-CC: debian-de...@lists.debian.org, debian-p...@lists.debian.org
* Package name: libhash-defhash-perl
Version : 0.071
Upstream Author : perlancar
* URL : https://metacpan.org/release/Hash-DefHash
https://github.com/biopython/biopython/pull/2998
This test failure will thus most likely be solved with the next
upstream version of biopython.
Thanks for having caught that issue.
Kind Regards,
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Étienne Mollier
Old rsa/3072: 5ab1 4edf 63bb ccff 8b54 2fa9 59da 56fe fff3 882d
New rsa/4096
.orig-data.tar.gz;
something specific to format 3.0 (quilt) if I understood
correctly dpkg-source(1). I'm not comfortable with this format,
so haven't marked the release as ready for upload yet, by fear
of having screwed the branch named "upstream", but maybe it is.
Kind Regards,
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Étien
Hi John,
John Marshall, on 2020-08-10 11:04:05 +:
> Étienne Mollier wrote:
> > After appending the zlib1g-dev package to dependencies of the
> > biobambam2 package,
>
> It is in fact libmaus2 that is dlopening "libz.so", so it would be better to
> add t
. The new revision of this library is available on
Salsa:
https://salsa.debian.org/med-team/libmaus2
Thanks John for having brought up the patch and forwarded the
issue upstream.
Kind Regards,
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Étienne Mollier
Old rsa/3072: 5ab1 4edf 63bb ccff 8b54 2fa9 59da 56fe fff3 882d
New rsa
Greeting,
On Mon, 3 Aug 2020 08:45:35 +0200 Étienne Mollier
wrote:
> Arf, no dice, there might be more changes needed, including
> maybe:
> * reviewing cmake build dependencies metainformations, as in
> the upstream commit documented in a previous entry, which
>
The patch in attachment applies against the existing catimg
version 2.6.0 available in Debian Sid to fix that very specific
bug, but I suppose updating the software to version 2.7.0 would
be a more appropriate approach.
Kind Regards,
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Étienne Mollier
Old rsa/3072: 5ab1 4edf 63bb ccff 8b54
#966472; should it be mentioned through a "Closes"
statement in the changelog ?
Kind Regards,
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Old rsa/3072: 5ab1 4edf 63bb ccff 8b54 2fa9 59da 56fe fff3 882d
New rsa/4096: 8f91 b227 c7d6 f2b1 948c 8236 793c f67e 8f0d 11da
Sent from /dev/pts/3, please excuse my
4),
I will push that change to salsa if I see the build succeed,
probably tomorrow morning given the build time, unless I can
get no sleep.
Kind Regards,
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Old rsa/3072: 5ab1 4edf 63bb ccff 8b54 2fa9 59da 56fe fff3 882d
New rsa/4096: 8f91 b227 c7d6 f2b1 948c 8236 793c f67e 8f0d 11d
trying -DCMAKE_CXX_STANDARD=11, but I'm
not too fond of downgrading.
Kind Regards,
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Old rsa/3072: 5ab1 4edf 63bb ccff 8b54 2fa9 59da 56fe fff3 882d
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Sent from /dev/pts/3, please excuse my verbosity.
signature.asc
Étienne Mollier, on 2020-08-02 20:25:07 +0200:
> I will push that change to salsa if I see the build succeed,
Arf, no dice, there might be more changes needed, including
maybe:
* reviewing cmake build dependencies metainformations, as in
the upstream commit documented in a previous en
n/gs.pvm
mv bin/$(PVM_ARCH)/hello debian/pvm-examples/usr/bin/hello.pvm
mv bin/$(PVM_ARCH)/srm debian/pvm-examples/usr/bin/srm.pvm
cp bin/$(PVM_ARCH)/* debian/pvm-examples/usr/bin/
-->8------------
I hope this helps, but I m
Greetings,
Étienne Mollier, on 2020-08-04 20:31:23 +0200:
> On Mon, 3 Aug 2020 08:45:35 +0200 Étienne Mollier
> wrote:
> > * an update to ITK 4.13.3.
>
> I am now working on this part. Hopefuly this will help getting
> through the build process further.
I updated t
and can't easily be raised in the future beyond FUTEX_TID_MASK).
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-- no debconf information
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; Thanks for the prompt fix! I have reported the issue upstream.
Thanks for the forwarding! (and also the upload attempt even if
you were not the first on this. :)
Kind Regards,
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Help find cures against t
nable to work
properly on most 32 bits machines, because the amount of memory
needing to be addressed by the process looks like it might
exceed too easily 32 bits architectural limits.
Have a nice day,
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Help fi
Hi Aaron,
Aaron M. Ucko, on 2020-06-09 10:32:20 -0400:
> Andreas Tille writes:
>
> > On Tue, Jun 09, 2020 at 02:25:58PM +0200, Étienne Mollier wrote:
> >> My current impression is that makeblastdb is unable to work
> >> properly on most 32 bits machines
In hope this helps,
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Old rsa/3072: 5ab1 4edf 63bb ccff 8b54 2fa9 59da 56fe fff3 882d
New rsa/4096: 8f91 b227 c7d6 f2b1 948c 8236 793c f67e 8f0d 11da
Sent from /dev/pts/3, please excuse my verbosity.
diff '--color=auto' '--palette=rs=0:hd=1:ad=00;32:de=00;31:ln=00;36' -Naur tcsh-6
Hi, I think I should have some time for q2-quality-filter this
evening (UTC+1), unless someone else beats me at it... :)
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ll
see what can be done about it.
Have a good evening, :)
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verbose and made a small refresh of the package while I was at
it:
https://salsa.debian.org/med-team/kmc
I marked the package ready for upload to see if such issue could
reoccur on CI infrastructure. Note that it would need sponsored
upload.
Kind Regards,
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gt; '10.1038/s41587-019-0209-9', 'issn': '1546-1696', 'pages': '852
The autopkgtest uses nosetests3, which does not cope with the
pytest-3 decorators. Moving to py.test-3 solves this without
impeding the test coverage it seems. I'll run a few tests to
make sure everything is okay, then I'll push to S
'
# expected: '74998'
# Looks like you failed 7 tests of 423.
After a couple of changes to smoothen the execution of test
suites and autopkgtest, I think the package is in an adequate
state to move forward.
Kind Regards,
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,
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Hi Lucas,
This is reproducible under amd64 machines. I think this issue
is related to a recent update of the dssp package; I'm having a
look to see if I can pinpoint the issue more precisely.
Thanks for reporting this!
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Étienne Mollier
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/med-team/e-mem/
Please consider review and upload or DM grants.
Have a nice day, :)
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Hi,
Synchronizing work on q2-* modules update, I think I'm on a good
trail for q2cli.
Kind Regards,
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, it
is not sufficient to benefit from the sides of full fledged
autopkgtests, so I marked it superficial for the moment.
Still, it would be a nice addition for the package to have some
full fledged autopkgtest available; I thus opened this wishlist
item to keep a record of it.
Kind Regards,
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e than I first thought.
Looks like I'll have to locate again that RoM removal procedure.
Have a nice evening,
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-architecture support
again in the future, through SIMDe or similar approach, but for
now the package is affected by the RC bug #954270, which seems
to be fixed by the new upstream version, so time is of the
essence, if we want that package available in Bullseye.
Kind Regards,
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care of the archive,
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-team/ivar/
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,
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,
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Package: wnpp
Severity: wishlist
Owner: Étienne Mollier
X-Debbugs-Cc: debian-de...@lists.debian.org
X-Debbugs-Cc: debian-...@lists.debian.org
* Package name: libsecrecy
Version : 0.0.2
Upstream Author : German Tischler
* URL : https://gitlab.com/german.tischler
Control: tag -1 -unreproducible
Control: tag -1 confirmed
Withdrawing the unreproducible tag, I pulled plain lambda-align
instead of lambda-align2. The issue occurs on my end as well.
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Sent from
result also passed autopkgtest without issues. Could it have
been a transient error?
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Control: tag -1 pending
Hi Helmut,
Thank you for your patch, it should be part of the 2.2.4+dfsg1-3
upload nextly.
Thanks for your work on Debian Ports!
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Hi Lucas,
Lucas Nussbaum, on 2020-11-23 08:53:10 +0100:
> Well I could reproduce it. Can you share a build log and diff it with
> me so that we can figure out what might cause this?
My apologies, I sent this:
> On 20/11/20 at 22:57 +0100, Étienne Mollier wrote:
[...]
> > I trig
Package: nutsqlite
Version: 2.0.6-2
Severity: important
The "nutsqlite" package is missing "tcl-thread" as dependency.
This has initially been caught by Flavio Visentin, thanks for
your report:
https://alioth-lists.debian.net/pipermail/debian-med-packaging/2020-November/085939.html
but should not occur during
normal operation of the package, as the case is really specific
to the build time testing.
I hope this helps,
Kind Regards,
--
Étienne Mollier
Old rsa/3072: 5ab1 4edf 63bb ccff 8b54 2fa9 59da 56fe fff3 882d
New rsa/4096: 8f91 b227 c7d6 f2b1 948c 8236 793c f67e 8f0d 11da
,
--
Étienne Mollier
Fingerprint: 8f91 b227 c7d6 f2b1 948c 8236 793c f67e 8f0d 11da
Sent from /dev/pts/2, please excuse my verbosity.
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# CONFIG_CARDMAN_4040 is not set
Anyone else is able to reproduce the problem ?
Kind Regards,
--
Étienne Mollier
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al cqm_mbm_local clzero irperf
xsaveerptr rdpru wbnoinvd arat npt lbrv svm_lock nrip_save
tsc_scale vmcb_clean flushbyasid decodeassists pausefilter
pfthreshold avic v_vmsave_vmload vgif umip rdpid overflow_recov
succor smca
Kind Regards,
--
Étienne Mollier
Fingerprint: 8f91 b227 c7d6 f2b1 948c 8236
s Completed: 1 sec
incorrect result
Note I had non printable characters between the bracket, so may
be pointing to uninitialized memory, or similar. Not sure how
relevant this is though.
In hope this helps,
--
Étienne Mollier
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of an integer(4) scalar, while trying to
maintain compatibility with Fortran 77.
Kind Regards,
--
Étienne Mollier
Fingerprint: 8f91 b227 c7d6 f2b1 948c 8236 793c f67e 8f0d 11da
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--- sparskit-2.0.0.orig/ORDERINGS/ccn.f
+++ sparskit-2.0.0
setting instead. Are there people at
ease with vsearch use around ?
[1] https://salsa.debian.org/med-team/q2-feature-classifier
Kind Regards,
--
Étienne Mollier
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never worked on these platforms anyway.
Kind Regards,
--
Étienne Mollier
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ctions; I see I have DM permissions on this one.
There is an ever growing breadcrumb of patches not forwarded
upstream behind me, I think I'll have to spend some time
forwarding them appropriately, at the end of the week hopefully.
Have a good evening,
--
Étienne Mollier
Fingerprint: 8f91 b227
.
--
Étienne Mollier
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not listed it here.
Discussions are going on Debian Med List on the topic[1], in
order to solve the build issues on affected architectures, but
we need to buy ourselves some time, given the timing of freeze
policy.
[1] https://lists.debian.org/debian-med/2021/01/msg00245.html
Kind Regards,
--
Étienne
/ntcard/-/blob/master/debian/patches/32bits.patch
Have a nice day, :)
--
Étienne Mollier
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, :)
--
Étienne Mollier
Fingerprint: 8f91 b227 c7d6 f2b1 948c 8236 793c f67e 8f0d 11da
Sent from /dev/pts/2, please excuse my verbosity.
diff --git a/debian/changelog b/debian/changelog
index 1116227..b92f146 100644
--- a/debian/changelog
+++ b/debian/changelog
@@ -1,3 +1,10 @@
+libmaus2 (2.0.768
ry debdiff in addition to the source debdiff, to
highlight the change in control files.
unblock libmaus2/2.0.768+dfsg-2
Thank you for patience and all your reviews this far!
Have a nice day, :)
--
Étienne Mollier
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Sent from /dev/tt
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