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Anyone who believes exponential growth can go on forever in a finite
world
is either a madman or an economist
categories.
I know from WNPP that Enrico Zini is packaging grib-api from ECMWF ;
is anyone else working on Meteorology or climate software ?
Any comments on creating a Debian meteorology metapackage ?
Regards
Alastair McKinstry
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All the best,
António Amorim
Alastair McKinstry escreveu:
Hi,
I'm packaging two packages for Debian right now:
* Package name: EMOSLIB
Version : 000360
Upstream Author : European Centre for Medium-range Weather Forecasts
* URL :
http://www.ecmwf.int/products/data
present. Perhaps szip can be added to non-
free then.
Regards
Alastair
On 28 Apr 2009, at 16:13, George White wrote:
On Mon, 27 Apr 2009, Alastair McKinstry wrote:
Hi,
Has anyone any experience with HDF-EOS ? This is a specialised form
of the HDF data format from NASA.
http
? Contact listmas...@lists.debian.org
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Alastair
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toolkits), and be able to do:
LIBS:= $(shell pkg-config mpi blas netcdf --libs)
Once we iterated on this, I will create a page on the wiki to summary
all discussions.
Cheers,
Sylvestre
Regards
Alastair
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* Package name: xdmf
Version : 2.1
Upstream Author : Name somebody@
* URL : http://www.xdmf.org/
* License : BSD
Programming Lang: C++, Python, Fortran
Description
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is either a madman or an economist - Kenneth Boulter, Economist
Dear Mathieu,
Uploading the package to experimental is blocked by lintian errors
Reject Reasons:
python-vtk: lintian output: 'package-installs-python-bytecode
usr/lib/python2.6/dist-packages/vtk/__helper.pyc', automatically rejected
package.
python-vtk: lintian output:
are transitioning to multiarch: these libraries
will probably
need to go to /usr/lib/triplet. Shall we fix visit, paraview, etc. to
build from these
directories and remove the symlinks?
regards
Alastair
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Anyone who
it is, but within
Debian we should
stick with the latest
It should also trigger some performance improvements!
regards
Alastair
Ciao,
Enrico
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compilers;
e.g. /usr/lib/i386-linux-intel/pkgconfig contains the .pc files for the
Intel versions;
we can either then set the PKG_CONFIG_PATH or use the 'cross-compiler
pkgconfig'
to get pkg-config to Do The Right Thing.
Regards
Alastair
Ciao,
Enrico
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* Package name: drslib
Version : 0.3.0a3
Upstream Author : Stephen Pascoe stephen.pas...@sftc.ac.uk
* URL : http://esgf.org/esgf-drslib-site/
* License : BSD
Programming Lang
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Severity: wishlist
Owner: Alastair McKinstry mckins...@debian.org
* Package name: pygrib
Version : 1.9.3
Upstream Author : Jeff Whittaker jeffrey.s.whita...@noaa.gov
* URL : https://pygrib.googlecode.com/svn/trunk/docs/index.html
* License : BSD
, in that it is based on netcdf4 rather
than netcdf3, but otherwise
follows the same API. ( I don't believe the underlying objects are
compatible).
I'm proposing to package python-netCDF4 for Debian, as some code depends
on it. Does anyone know
of plans to merge these projects?
Regards
Alastair
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to manipulate netCDF4.
It only depends on numpy and obviously of python.
Regards,
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2012/4/18 Alastair McKinstry alastair.mckins...@ichec.ie
mailto:alastair.mckins
on numpy and obviously of python.
Regards,
Arnaldo.
---
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Lab. de Estudos dos Oceanos e Clima
Instituto de Oceanografia - FURG
2012/4/18 Alastair McKinstry alastair.mckins...@ichec.ie
Hi,
I'm looking at the problem of netcdf-wrappers for python
Package: wnpp
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Owner: Alastair McKinstry mckins...@debian.org
* Package name: ecflow
Version : 2.0.30
Upstream Author servic...@ecmwf.int
* URL : http://software.ecmwf.int/wiki/display/ECFLOW/Home
* License : Apache
Programming Lang: python
-wily.mit.edu
http://permalink.gmane.org/gmane.linux.debian.science/5353
[2] http://bugs.debian.org/680400
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* Package name: python-iapws
Version : 1.0.0
Upstream Author : jjgomera jjgom...@gmail.com
* URL : http://pypi.python.org/pypi/iapws
* License : GPL
Programming Lang: Python
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* Package name: flextra
Version : 5.0
Upstream Author : Andreas Stohl
* URL : http://transport.nilu.no/flexpart
* License : GPL
Programming Lang: Fortran
Description
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* Package name: flexpart
Version : 90.02
Upstream Author : Andreas Stohl
* URL : http://transport.nilu.no/flexpart
* License : GPL
Programming Lang: Fortran
Description
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* Package name: metview
Version : 4.3.4
Upstream Author : ECMWF http://www.ecmwf.int
* URL : https://software.ecmwf.int/wiki/display/METV/Home
* License : Apache
Programming Lang
Package: wnpp
Severity: wishlist
Owner: Alastair McKinstry mckins...@debian.org
* Package name: python-gsw
Version : 3.0.1
Upstream Author : Filipe Fernandes
* URL : http://pypi.python.org/pypi/seawater/
* License : MIT
Programming Lang: Python
Description
mobile:+61_415544621
irc:{swiftirc|freenode|oftc}:znalo
skype:znalo7
xmpp:ambr...@jabber.fsfe.org|ambro...@member.fsf.org
diaspora:zn...@diasp.eu
99D8 6FF6 190D BF09 BA55 1E5F DF42 552D 9A90 14D7
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whichever is installed using
`pkg-config --cflags --libs blas`
for example.
For atlas, I propose to provide atlas.pc with blas.pc being an
alternatives symlink
to it.
Are there any comments before I write a patch to do this?
best regards
Alastair
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On 18/11/2013 18:18, Sébastien Villemot wrote:
Le lundi 18 novembre 2013 à 12:50 +, Alastair McKinstry a écrit :
For atlas, I propose to provide atlas.pc with blas.pc being an
alternatives symlink to it.
I don't understand what you want to achieve there. ATLAS basically ships
two
netcdf significantly and is testing it.
So perhaps it would be good to synchronise these changes. I will upload
new versions
of cdftools and flexpart when netcdf has moved to 4.3.2+
Please follow-up with results to this bug report.
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installed.
[2] http://ftp.gnu.org/old-gnu/Manuals/ld-2.9.1/html_node/ld_25.html
[3] http://en.wikipedia.org/wiki/Weak_symbols
A.
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A decent provision for the poor is the true test of civilization
Package: netcdf
Version: 4.2.1+
Severity: normal
I maintain the ExodusII package, which has in its README:
The exodus library uses the netcdf library for low-level data
storage.
Exodus requires NetCDF version 4.2.1.1 or later.
The netcdf library must be modified slightly in order to handle the
in the builds.
Cheers,
Nico
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regards
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-BEGIN PGP SIGNATURE-
Version: GnuPG v1
replied
and found it easier
to simply add a symlink for compatability. I can back it out if peeople
disagree.
regards
Alastair
On 04/06/2014 20:00, Gilles Filippini wrote:
Hi Alastair,
Alastair McKinstry a écrit , Le 04/06/2014 11:09:
In working on a co-installability patch for HDF5, I see
-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256
On 12/06/2014 00:43, Gilles Filippini wrote:
Hi,
Alastair McKinstry a écrit , Le 11/06/2014 12:15:
I've pushed some work on this to a dev-alternatives branch on alioth.
Thanks a lot for this work.
How did you produce the detailed map files
be to ship them both; maybe you guys can give some
advice here.
Cheers,
Nico
On Fri, May 30, 2014 at 4:29 PM, Alastair McKinstry
alastair.mckins...@sceal.ie wrote:
Hi,
Whats the status of the various netcdf4.3 packages?
As you may have seen from a previous email, I'm working with Gilles
12:14:26.233650002 +0100
@@ -1,3 +1,11 @@
+openblas (0.2.11-2.1) UNRELEASED; urgency=medium
+
+ [ Alastair McKinstry ]
+ * Non-maintainer upload.
+ * Add blas-openblas.pc file, and blas.pc symlink via update-alternatives
+
+ -- Alastair McKinstry mckins...@debian.org Wed, 08 Oct 2014 12:13:24
it to the contact URL:
Osmium Developers (http://osmcode.org/contact)
While for the (old) osmium package it's
Jochen Topf joc...@topf.org
What is your preference as upstream developer?
Kind Regards,
Bas
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://github.com/Kitware/VTK/pull/21
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Package: wnpp
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* Package name: cylc
Version : 6.4.1
Upstream Author : Hilary Oliver, hilary.oli...@niwa.org
* URL : http://cylc.github.io/cylc
* License : GPLv3
Programming Lang: Python
Package: wnpp
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Owner: Alastair McKinstry mckins...@debian.org
* Package name: fcm
Version : 2015.5.0
Upstream Author : UK Met Office
* URL : http://www.metoffice.gov.uk/research/collaboration/fcm
* License : GPLv3
Programming Lang: Perl
, then collapsing/merging
the patch into master.
How can I disable -commit messages on the dev-* branches?
regards
Alastair
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it (without the
ascend bindings) rather than installing the .deb
Could you provide a link to the source package (*.dsc) of what you
tried to install?
Kind regards
Andreas.
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Hi,
Anyone going to Supercomputing'15 in Austin?
It would be good to meet up and discuss the state of HPC in Debian.
regards
Alastair
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* Package name: opencoarrays
Version : 1.6.0
Upstream Author : Alessandro Fanfarillo
* URL : http://www.opencoarrays.org/
4* License : BSD 3-Clause
Programming Lang: C, F
Source: hdf5
Severity: normal
libaec-dev has recently entered sid (and testing/backports). It is a free
implementation
of the SZLIB compression library, and provides a drop-in replacement for the
libsz library
used in HDF5, particularly for climate and weather data.
-- System Information:
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Owner: Alastair McKinstry <mckins...@debian.org>
* Package name: eccodes
Version : 0.13.1
Upstream Author : ECMWF (The European Centre for Medium-Range Weather
Forecasts)
* URL : https://software.ecmwf.int/wiki/display/ECC/ecCode
Package: wnpp
Severity: wishlist
Owner: Alastair McKinstry <mckins...@debian.org>
* Package name: cmor-tables
Version : 1.0
Upstream Author : Laurence Livermore Labs (LLNL), PCMDI
* URL : https://github.com/PCMDI/
* License : Public
Programming Lang: No
Package: release.debian.org
Severity: normal
User: release.debian@packages.debian.org
Usertags: unblock
Please unblock package openmpi to fix RC bug #848574
Openmpi 2.0.2 was released just as Stretch was being frozen. The package in
testing,
2.0.2~git.20161225 was packaged to get relevant
gt;
> Those tests were done in VirtualBox.
>
> Looking at the last successful run of autopkgtest on ci.debian.net and
> the first failed one, the version of openmpi seems to be the same
> (libopenmpi1.10).
>
> Does anyone have a clue what might be going on here? I have the
n 07/10/16 16:30, Alastair McKinstry wrote:
> Hi,
>
> Are we going to try and do the HDF5 transition before the freeze, which
> is the end of the month for transitions?
>
> I'm testing out the last of my changes for co-installable netcdf which I
> hope to have ready by t
regards
Alastair
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On 07/10/2016 18:44, Sebastiaan Couwenberg wrote:
> On 07/10/16 16:30, Alastair McKinstry wrote:
>> Are we going to try and do the HDF5 transition before the freeze, which
>> is the end of the month for transitions?
> I'll leave that to Gilles who has done a marvellous job o
/debian/changelog 2017-06-28 22:30:05.0 +0100
+++ libhdf4-4.2.13/debian/changelog 2017-07-25 15:58:54.0 +0100
@@ -1,3 +1,10 @@
+libhdf4 (4.2.13-1.1) UNRELEASED; urgency=medium
+
+ * Non-maintainer upload.
+ * Enable SZIP support
+
+ -- Alastair McKinstry <mck
/usr/include.
Best regards
Alastair McKinstry
Forwarded Message
Subject:ITP: dh-fortran-mod -- debhelper add-on to handle Fortran
'.mod' files
Date: Tue, 11 Jul 2017 08:32:31 +0100
From: Alastair McKinstry <mckins...@debian.org>
To: Debian Bug Tr
Package: wnpp
Severity: wishlist
Owner: Alastair McKinstry <mckins...@debian.org>
* Package name: dh-fortran-mod
Version : 1.0
Upstream Author : Sebastien Villemont <sebast...@debian.org>
* URL :
http://anonscm.debian.org/gitweb/?p=debian-science/package
Threading seems to be
> OpenMPI's weak point at the moment.
>
> Drew
>
> On Thu, 2017-07-06 at 15:10 +0100, Alastair McKinstry wrote:
>> Having worked on OpenMPI I'm slightly biased in favour of it over
>> MPICH.
>>
>> I'd still favour OpenMPI, as I believe it h
On 24/07/2017 11:59, Matthias Klose wrote:
> On 05.07.2017 11:28, Alastair McKinstry wrote:
>> Hi,
>>
>> We will be transitioning to gcc7 soon for Buster, and with it there is
>> another Fortran transition. This is because the format for gfortrans mod
>&g
n no longer applies: both openmpi and mpich now build
> successfully on all Debian arches (except sh4, where both fail to
> build).
>
> PETSc upstream, for comparison, supports openmpi but prefers mpich,
> asserting that mpich has a lot fewer bugs.
>
> Should we consider switchi
Package: wnpp
Severity: wishlist
Owner: Alastair McKinstry <mckins...@debian.org>
* Package name: psyclone
Version : 1.4.1
Upstream Author : Rupert Ford <rupert.f...@stfc.ac.uk>
* URL : https://github.com/stfc/PSyclone
* License : BSD-3-Clause
Package: wnpp
Severity: wishlist
Owner: Alastair McKinstry <mckins...@debian.org>
* Package name: odb-api
Version : 0.17.1
Upstream Author : European Centre for Medium-Range Forecasts (ECMWF)
* URL : http://software.ecmwdf.int/wiki/display/ODBAPI
* L
Package: wnpp
Severity: wishlist
Owner: Alastair McKinstry <mckins...@debian.org>
* Package name: cf-python
Version : 2.1.2
Upstream Author : David Hassell
* URL : http://cfpython.bitbucket.io
* License : MIT
Programming Lang: Python
Descr
Package: ftp.debian.org
Severity: normal
This was packaged as a dependency of the visualization tool VisIt.
However it has since been deprecated and superceded by AMReX, with no
dependencies
within Debian. Time to remove.
to
sponsor packages, fix RC-bugs and do some general work.
[1] https://lists.debian.org/debian-science/2017/10/msg00078.html
Best regards
Anton
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On 30/04/2018 15:46, Bas Couwenberg wrote:
> On 2018-04-30 16:05, Bas Couwenberg wrote:
>> Hi Alastair,
>>
>> On 2018-04-30 15:42, Alastair McKinstry wrote:
>>> This is an update to netcdf that I proposed for Debian stretch, but
>>> postponed due to the HD
of packages (ADIOS, XDMF) would be
using the parallel / MPI versions; most packages would continue unchanged.
Would it be possible to merge this package for buster?
Best regards
Alastair McKinstry
>> Since netcdf 4.4.1 is in testing/unstable for some time, that's no
>> longer a blocker
Package: wnpp
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Owner: Alastair McKinstry <mckins...@debian.org>
* Package name: coda
Version : 2.18.3
Upstream Author : CODA develpers, <c...@stcorp.nl>
* URL : https://github.com/stcorp/coda/
* License : BSD
Programming Lang
local checkout with the debian/1.9 tag, git (deliberately)
> doesn't update local tags, so you'll need to delete it and re-fetch it
> once
> this has been fixed if you want to have the correct one.
>
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On 05/02/2018 16:18, Mattia Rizzolo wrote:
> On Mon, Feb 05, 2018 at 12:48:31PM +0000, Alastair McKinstry wrote:
>> I think we also need to change powerpc and ppc64 to mpich, as of openmpi3:
> Remember that switching a default mpi requires a library transition, and
> an ordered
reas.
>
> On Sun, Jan 28, 2018 at 04:26:35PM +, Alastair McKinstry wrote:
>> Package: wnpp
>> Severity: wishlist
>> Owner: Alastair McKinstry <mckins...@debian.org>
>>
>> * Package name: harp
>> Version : 1.1
>> Upstream A
Package: wnpp
Severity: wishlist
Owner: Alastair McKinstry <mckins...@debian.org>
* Package name: harp
Version : 1.1
Upstream Author : ST Corp, NL <h...@stcorp.nl>
* URL : https://github.com/stcorp/harp
* License : BSD
Programming Lan
propose that mpi-defaults-dev depend on openmpi-bin as well as
libopenmpi-dev (on relevant archs) and similarly for mpich.
Are there any objections / better solutions ?
Best regards
Alastair
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t I recognize that it might read as "back to square
one".
I agree with promoting pkg-config (and potentially cmake, etc) over
mpicc, etc. ; what I'm looking to do here is a small fix, not
to undo the effort of deprecating mpicc.
Regards
Alastair
Helmut
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Drew
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testing. Can you give a
reproducible test case for me to test against, as I think this release
may have the necessary fix.
regards
Alastair
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Package: wnpp
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Owner: Alastair McKinstry
* Package name: cfgrib
Version : 0.8.4.4
Upstream Author : ECMWF (European Centre for Medium-Range Weather Forecasts)
* URL : https://github.com/ecmwf/cfgrib
* License : Apache2
Programming Lang
On 31/08/2018 11:04, Drew Parsons wrote:
On 2018-08-30 14:18, Alastair McKinstry wrote:
On 30/08/2018 09:39, Drew Parsons wrote:
If you want a break from the openmpi angst then go ahead and drop
mpich 3.3b3 into unstable. It won't make the overall MPI situation
any worse... :)
Drew
On 30/08/2018 09:39, Drew Parsons wrote:
On 2018-08-29 12:15, Alastair McKinstry wrote:
On 28/08/2018 22:20, Drew Parsons wrote:
On 2018-08-03 22:46, Dima Kogan wrote:
2. Is the MPI implementation significant? Would mpich behave
potentially
differently here from openmpi?
For what it's
Hi
On 30/04/2018 15:56, Alastair McKinstry wrote:
On 30/04/2018 15:46, Bas Couwenberg wrote:
On 2018-04-30 16:05, Bas Couwenberg wrote:
If you want to get a parallel enabled netcdf into buster, you'll need
maintain a fork of the netcdf package (e.g. netcdf-parallel) which
provides the MPI
Hi,
I propose to change the Maintainer: for mpich from "Debian Science
Maintainers" which is an Alioth list, to debian-...@lists.debian.org.
Any comments or objections?
regards
Alastair McKinstry
--
Alastair McKinstry, <alast...@sceal.ie>, <mckins...@debian.org>,
htt
On 16/04/2018 09:42, Drew Parsons wrote:
> On Mon, 2018-04-16 at 08:27 +0100, Alastair McKinstry wrote:
>
> Thanks Alastair. OpenMPI 3 has just arrived in unstable. Is it still
> the case that openmpi 3 does not provide failed image support?
Yes :-(
> Drew
>
--
Alastair
rrays, but this requires that open-coarrays is built with mpich.
--
Alastair McKinstry, <alast...@sceal.ie>, <mckins...@debian.org>,
https://diaspora.sceal.ie/u/amckinstry
Commander Vimes didn’t like the phrase “The innocent have nothing to fear,”
believing the innocent had everything to fear, m
` or I
> notice there is a `mpiCC` now (for openmpi, didn't look at mpich).
>
Argh. Sorry, should have checked mpi-defaults; I just updated mpich and
openmpi and made sure they work together. See other mail i've just sent
about alternatives. It should check /etc/alternatives/mpi
(See openmpi-bin, mpich package postinsts)
regards
Alastair
--
Alastair McKinstry, <alast...@sceal.ie>, <mckins...@debian.org>,
https://diaspora.sceal.ie/u/amckinstry
Misentropy: doubting that the Universe is becoming more disordered.
: providing them in
/usr/include/$(ARCH)/mpi. Used in libopenmpi-dev, libmpich-dev.
mpi , for mpicc, mpifort, etc and manpages. Not multi-arch aware. Used
in openmpi-bin, mpich.
mpiexec , for mpiexec, mpirun, in openmpi-bin and mpich, as before.
Regards
Alastair
--
Alastair McKinstry, <al
.
regards
Alastair
On 31/08/2018 11:17, Alastair McKinstry wrote:
On 31/08/2018 11:04, Drew Parsons wrote:
On 2018-08-30 14:18, Alastair McKinstry wrote:
On 30/08/2018 09:39, Drew Parsons wrote:
If you want a break from the openmpi angst then go ahead and drop
mpich 3.3b3 into unstable
Package: release.debian.org
Severity: normal
User: release.debian@packages.debian.org
Usertags: binnmu
nmu aces3_3.0.8-5.1 . ANY . unstable . -m "Build against openmpi 3.1.2"
aces3 builds hung due to a bug in openmpi/pmix which led to thread locking.
This was fixed with #904825, and test
Package: wnpp
Severity: wishlist
Owner: Alastair McKinstry
* Package name: flang
Version : 7.0
Upstream Author : Steve Scalpone
* URL : https://github.com/flang-compiler
* License : BSD
Programming Lang: C++, Fortran
Description : Fortran compiler
On 11/12/2018 18:26, Drew Parsons wrote:
On 2018-12-08 12:31, Drew Parsons wrote:
On 2018-12-07 19:49, Alastair McKinstry wrote:
Looking into it further, I'm reluctant now to move to mpich for buster
as the default. One was the experience of the openmpi3 transition,
shaking out many issues
re-done open-coarrays to build
both openmpi and mpich variants, so that issue went away.
So I think more testing of mpich3 builds with CH4 /pmix / OFI support is
needed, but moving over openmpi-> mpich at this stage is iffy.
regards
Alastair
--
Alastair McKinstry, , ,
ht
uild
-us -uc.
Oops; correct. No need to do the "apt remove".
Do the above, without the apt remove, _before_ doing the rebuild a la NMU.
Regards,
-- st
--
Alastair McKinstry, email: alast...@sceal.ie, matrix: @alastair:sceal.ie
Commander Vimes didn’t like the phrase “The innoce
depend on it (only depending on eg libopenmpi-dev if its specifically
openmpi dependent).
Edit /usr/share/mpi-default-dev/debian_defaults locally, change openmpi
-> mpich. Then
# apt install libmpich-dev mpich
# apt remove libopenmpi-dev openmpi-bin
regards
Alastair
--
Alastair McKins
On 01/04/2019 13:33, lukshun...@gmail.com wrote:
On 27/3/2019 9:23 PM, Alastair McKinstry wrote:
I found out that OpenMPI *can* be removed if I install the locally
rebuilt mpi-default-dev and mpi-default-bin after changing
/usr/share/mpi-default-dev/debian_defaults. They now depend
ORIES. Possible reasons include:
* The path was deleted, renamed, or moved to another location.
* An install or uninstall procedure did not complete successfully.
* The installation package was faulty and references files it does not
provide.
...
Any further hint?
Kind regards
A
Package: release.debian.org
Severity: normal
User: release.debian@packages.debian.org
Usertags: rm
grib-api should be removed from Debian.
It is obsolete upstream, being replaced by eccodes (already in buster).
-- System Information:
Debian Release: 10.0
APT prefers stable
APT policy:
!)
- pycollada
- pysph
- python-bayespy
- python-ltfatpy
- sfepy
If you have an interest in some of these packages, please let me know
within the next
few days. I will add you then as an uploader.
Otherwise I will orphan them.
Thanks
Anton
--
Alastair McKinstry, , ,
https://diaspora.sceal.ie/u
ound. We will always have
features in our codes that our build/test systems aren't capable of
testing: eg. pmix is designed to work scalably to > 100,000 cores. We
can't test that :-)
Drew
Alastair
--
Alastair McKinstry, , ,
https://diaspora.sceal.ie/u/amckinstry
Misentropy: doubting that t
Package: wnpp
Severity: wishlist
Owner: Alastair McKinstry
* Package name: eckit
Version : 1.1.1
Upstream Author : European Centre for Medium-Range Forecasts
* URL : http://github.com/ecmwf/eckit
* License : Apache 2
Programming Lang: C++
Description
Package: wnpp
Severity: wishlist
Owner: Alastair McKinstry
* Package name: gridtools
Version : 1.0.2
Upstream Author : ETH Zurich
* URL : https://eth-cscs.github.io/gridtools/
* License : BSD-3-Clause
Programming Lang: C++
Description : Framework
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