This also occurs with arb:
https://buildd.debian.org/fetch.cgi?pkg=arbarch=i386ver=6.0.2-1stamp=1412337993file=log
It seems to be a bug in binutils[1].
I'd say a change in binutils exposed a bug somewhere in the toolchain.
Here's the commit which added the check and the message:
As a disclaimer up front: I'm actually part of upstream. As a long term
Debian user I couldn't refuse the honor when Andreas asked me to help
with the package. *Thank you all for the great work you do to make
Debian the most awesome software environment on the planet!*
DebConf Template:
PT
Package: raxml
Version: 7.2.8-2
Severity: wishlist
Dear Maintainer,
the current RAxML package contains only the vanilla version of RAxML
compiled without support threading or SIMD. Given that typical use cases
of RAxML require days of computation, enabling parallel processing would
improve the
used RAxML using MPI parallelization, I cannot say much
about this, though.
Elmar
--
Dr. Elmar Pruesse
Max Planck Institute for Marine Microbiology
Microbial Genomics Group
Celsiusstrasse 1 | 28359 Bremen | Germany
Jacobs University Bremen gGmbH
School of Engineering Science - SES
Campus Ring
/builds/tagged/arb-5.21/
Elmar
On 03/17/2014 08:56 AM, Andreas Tille wrote:
Hi Elmar,
On Mon, Mar 17, 2014 at 05:18:23AM +0100, Elmar Pruesse wrote:
Hi!
Upstream here :)
Wow, that's quick response time! ;-)
I can confirm the issue, we fixed it in r9003
(http://bugs.arb-home.de
Hi!
Upstream here :)
I can confirm the issue, we fixed it in r9003
(http://bugs.arb-home.de/changeset/9003). Since ARB 6 is just about
ready, we won't do any more releases in the 5.x series, so I've
backported the fix for you (patch attached).
best,
Elmar
On 03/17/2014 01:42 AM, Nobuhiro
Hi Konstantinos!
I suppose you've got no objections against me merging the one-line fix
to GBS_reuse_buffer in the upstream svn/trunk. Would you prefer to be
mentioned or not mentioned?
Elmar
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Package: arb
Version: arb/0.0.20050506-2
Severity: normal
When exporting large amounts of sequence from ARB the export file
becomes larger than 2GB. ARB receives a SIGXFSZ and dumps its core.
Adding $(shell getconf LFS_CFLAGS) to the makefile made it work for me.
(You will need to have either
Package: arb
Version: arb/0.0.20050506-2
Severity: normal
The arb-nameserver expects the file names.dat.template to be in
/var/lib/nas. (Run Species - Generate New Names and click ok in the
appearing dialog to reproduce)
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