Re: VTK 9.5.2 upload to experimental?

2025-09-24 Thread Drew Parsons
On 2025-09-23 21:54, Dominique Belhachemi wrote: Thank you for your detailed feedback, Drew. Based on your points, I’ll go ahead and make only the switch to Qt6 for now and drop the other proposed changes. Actually I think your idea to move the useless binary package vtk9 to vtk9-utils is a g

Re: nlohmann-json3-dev need to be reverted to trixie version

2025-09-20 Thread Drew Parsons
On 2025-09-20 17:19, Bill Allombert wrote: On Sat, Sep 20, 2025 at 02:42:05PM +0200, Drew Parsons wrote: On 2025-09-20 13:18, Bill Allombert wrote: > On Sat, Sep 20, 2025 at 07:52:16AM +, Gianfranco Costamagna wrote: > > > > How do we move forward? Ok also to create a nloh

Re: nlohmann-json3-dev need to be reverted to trixie version

2025-09-20 Thread Drew Parsons
On 2025-09-20 13:18, Bill Allombert wrote: On Sat, Sep 20, 2025 at 07:52:16AM +, Gianfranco Costamagna wrote: How do we move forward? Ok also to create a nlohmann-json3-3.12-dev or whatever, but I guess this one (3.11) should also go away as soon as possible, and let people migrate to the n

Re: Is the chemical media type still used?

2025-09-04 Thread Drew Parsons
n has been raised on the Debian Science mailing list, https://lists.debian.org/debian-science/. Andrius Merkys made a reply in-thread, https://lists.debian.org/debian-science/2025/09/msg00001.html Drew Parsons On 2025-09-03 15:12, Charles Plessy wrote: Hi all, I am preparing the next update of

Re: Internship Introduction - Coordination on OpenCL Autopkgtest Scripts for Debian ROCm CI for have an overview of code compatibility with various AMD GPU cards

2025-05-09 Thread Drew Parsons
Salút Clément, benvenue a SOLEIL. 1) It could be constructive in the context of your project to communicate with the bug submitter of #1082816 to provide advice on the questions raised in the bug discussion (ROCm support in PETSc). https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1082816 2)

Re: ITP: python3-qutip-{core,qip,qtrl,qoc}, python-qutip-core-{core,qip,qtrl,qoc}

2025-04-05 Thread Drew Parsons
On 2025-03-31 18:11, Dirk Lehmann wrote: Hey Debian Science Team =D in the next hour/s I will report 8 ITPs for the new QuTiP packages to WNPP. As the Debian Science Policy directs, I will * X-Debbugs-Cc: Please DO NOT consider it as spam. To I will just send a summary subsequently. You

Re: ITP: python3-qutip-{core,qip,qtrl,qoc}, python-qutip-core-{core,qip,qtrl,qoc}

2025-03-31 Thread Drew Parsons
On 2025-03-31 19:01, Dirk Lehmann wrote: Hello Drew =) I don't think python-qutip-core-doc is necessary. There is already a python-qutip-doc package, and it's still the right place for the core docs. You are right, there is one `-doc` too much. Hmmm, in my concept it would be better to dro

Re: boost and numpy2 transition

2025-03-12 Thread Drew Parsons
On 2025-03-12 10:43, PICCA Frederic-Emmanuel wrote: python is more and more like javascript... So I've effectively orphaned it, but within the team so others can pick it up. Roland Mas did pick it up, and added his name to uploaders. Roland, will you have time to update python-mp-api before t

Re: boost and numpy2 transition

2025-03-12 Thread Drew Parsons
On 2025-03-12 10:24, PICCA Frederic-Emmanuel wrote: ** I'll make xrayutilities RC soon for the same reason, for scipy 1.15. fixed :) great :) Do you have an opinion about python-mp-api ? python-mp-api was kind of unstable as a package, in the sense that upstream kept changing its depende

Re: boost and numpy2 transition

2025-03-11 Thread Drew Parsons
On 2025-03-10 14:12, PICCA Frederic-Emmanuel wrote: Hello, I am working on the cctbx package and found this issue in boost numpy library https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1099671 Do you think that this bug should be raise to RC ? We've got freeze about to start, we need to

Re: autopkgtest of silx on armhf

2025-03-03 Thread Drew Parsons
On 2025-03-03 10:31, PICCA Frederic-Emmanuel wrote: Hello, I am trying to make silx releasable for trixie, but I have this error message https://ci.debian.net/packages/s/silx/testing/armel/58313353/ 921s /usr/lib/python3/dist-packages/silx/gui/plot/test/test_plotwidget.py:149: AssertionErro

Re: ROCm for AMD GPUs at Ubuntu Summit 2024

2025-02-11 Thread Drew Parsons
On 2025-02-11 09:57, PICCA Frederic-Emmanuel wrote: On 2025-02-11 09:32, Cordell Bloor wrote: On 2025-02-02 15:22, Cordell Bloor wrote: One of the most important things I'd like to share is the list of packages I found that have AMDGPU support upstream, and that could have support enabled withi

Re: Do we need quadrule in Debian

2025-01-08 Thread Drew Parsons
On 2025-01-08 17:23, Andreas Tille wrote: Hi, there was a hint about Debian Science maintained packages that are not featuring Salsa Vcs fields (so not yet uploaded after Salsa migration)[1] I had a look and found: So I had a random pick quadrule: It has seen two uploads in 2013, the homepage

Bug#1092347: ITP: scifem -- Scientific Computing Tools for Finite Element Methods

2025-01-07 Thread Drew Parsons
Package: wnpp Severity: wishlist Owner: Drew Parsons X-Debbugs-Cc: debian-de...@lists.debian.org, debian-science@lists.debian.org * Package name: scifem Version : 0.3.0 Upstream Contact: Henrik Finsberg * URL : https://scientificcomputing.github.io/scifem * License

Re: mpi-testsuite

2025-01-05 Thread Drew Parsons
On 2025-01-05 08:39, Alastair McKinstry wrote: Hi, I am thinking about re-instating mpi-testsuite, last in the archive in 2018. Any thoughts? Alastair I'd say it's a good idea. mpi4py has sort of been serving in the role of a test suite, but it annoys the mpi4py maintainer if we report

Bug#1088872: RFP: python-jupyterlite-sphinx -- a Sphinx extension that provides utilities for embedding JupyterLite in your docs

2024-12-02 Thread Drew Parsons
Package: wnpp Severity: wishlist X-Debbugs-Cc: debian-pyt...@lists.debian.org, debian-science@lists.debian.org Control: block 1088105 by -1 * Package name: python-jupyterlite-sphinx Version : 0.16.5 Upstream Contact: Martin Renou and JupyterLite Contributors * URL : htt

Re: [Help] molds: FTBFS with mpich as default MPI provider: /usr/bin/ld: cannot find -lmpi_cxx: No such file or directory

2024-11-08 Thread Drew Parsons
On 2024-11-08 20:26, Bill Allombert wrote: Le Thu, Nov 07, 2024 at 08:12:22PM +0100, Andreas Tille a écrit : Control: tags -1 help Thanks Hi, today molds (from Debichem team) came up as candidate for the Bug of the Day[1]. I considered bug #1075979 easy to fix by simply adding libopenmpi-de

Re: How to deal with gfortran dependencies?

2024-11-02 Thread Drew Parsons
On 2024-11-02 14:55, Matthias Klose wrote: A lot of the fortran packing, including the module provisions were suggested and are maintained (?) by other Debian developers, some of them from the science team. It would make sense to include these people into the discussions as well. Thanks Matt

Re: mpirun and --allow-run-as-root

2024-09-22 Thread Drew Parsons
On 2024-09-22 10:09, PICCA Frederic-Emmanuel wrote: Hello, I try to fix the compilation of bitshuffle due to the openmpi 32bit removal. In my code I have this mpirun --allow-run-as-root .. but this does not work with mpich mpirun --allow-run-as-root -n 1 dh_auto_test [mpiexec@runner-f0fdd533

Bug#1082552: transition: petsc and numerical library stack

2024-09-21 Thread Drew Parsons
Package: release.debian.org Severity: normal X-Debbugs-Cc: pe...@packages.debian.org, debian-science@lists.debian.org Control: affects -1 + src:petsc User: release.debian@packages.debian.org Usertags: transition I'd like to update the numerical library stack, for petsc and related libraries. L

Bug#1076711: RFP: mda-xdrlib -- a stand-alone XDRLIB module

2024-07-22 Thread Drew Parsons
Package: wnpp Severity: wishlist X-Debbugs-Cc: Debichem Team , Debian Science List , debian-pyt...@lists.debian.org * Package name: mda-xdrlib Version : 0.2.0 Upstream Contact: Irfan Alibay * URL : https://github.com/MDAnalysis/mda-xdrlib * License : PSF Licens

Re: jupyter-notebook packages

2024-07-04 Thread Drew Parsons
On 2024-07-04 16:23, Drew Parsons wrote: On 2024-07-03 08:34, Diane Trout wrote: Upstream's release files for debugpy includes a vendored copy of pydevd. For the 1.8.2 release it looks like it includes pydevd 2.9.5. I tried building 1.8.2 with the embedded copy of pydevd removed and

Re: jupyter-notebook packages

2024-07-04 Thread Drew Parsons
On 2024-07-03 08:34, Diane Trout wrote: Upstream's release files for debugpy includes a vendored copy of pydevd. For the 1.8.2 release it looks like it includes pydevd 2.9.5. I tried building 1.8.2 with the embedded copy of pydevd removed and the tests immediately crashed without making much pr

Re: RFS: getfem/5.4.2+dfsg1-4 [RC] [Team] -- transitional package

2024-07-02 Thread Drew Parsons
Thanks Bo, your patch looks good. I've uploaded from your dsc on mentors. Can you prepare a MR for salsa? (or push the commits to salsa if you already have access) Drew On 2024-06-25 18:10, Bo YU wrote: Hi team, I am working on this to fix the ftbfs. Dear mentors, I am looking for a sp

Re: jupyter-notebook packages

2024-07-01 Thread Drew Parsons
On 2024-07-01 14:55, Bill Allombert wrote: On Mon, Jul 01, 2024 at 02:40:00PM +0200, Drew Parsons wrote: On 2024-06-29 14:20, Bill Allombert wrote: > Dear Debian science, > > The jupyter-notebook packages are in bad shape, > there are 4 RC bugs and the last maintainer upload was ne

Re: jupyter-notebook packages

2024-07-01 Thread Drew Parsons
On 2024-06-29 14:20, Bill Allombert wrote: Dear Debian science, The jupyter-notebook packages are in bad shape, there are 4 RC bugs and the last maintainer upload was nearly 2 years ago, the version in unstable does not start, there are new usptreamm versions etc. Maybe we can do something a

Re: numba

2024-06-26 Thread Drew Parsons
Might be worth pinging Mo Zhou. I'm not sure if he subscribes to the Debian Science mailing list. Drew On 2024-06-26 06:43, PICCA Frederic-Emmanuel wrote: - Le 26 Juin 24, à 4:39, Diane Trout di...@ghic.org a écrit : On Tue, 2024-06-25 at 22:18 +0200, PICCA Frederic-Emmanuel wrote: >

Re: numba

2024-06-25 Thread Drew Parsons
On 2024-06-25 13:46, PICCA Frederic-Emmanuel wrote: Hello, I would like to know what is the status of numba. A bunch of my packages can not migrate into testing due to numba. Is it plane to upload numba 0.6 and to migrate to a newer llvmlite ? numba (and with it llvmlite) is generally a ongo

Re: Intersphinx tips and tricks (was Re: Acknowledgment)

2024-06-17 Thread Drew Parsons
On 2024-06-17 15:38, Michael R. Crusoe wrote: "numpy": ("/usr/share/doc/python-numpy/html/", None), Due to the "None", sphinx will append "objects.inv" to the base path to find the inventory file "/usr/share/doc/python-numpy/html/objects.inv" ; links will be made to the packaged docs starti

Re: Introduction and Greetings

2024-06-01 Thread Drew Parsons
On 2024-06-01 18:18, Yogeswaran Umasankar wrote: Hi, Although I have been part of the Debian Science Team for some time, I realized I haven't officially introduced myself on this mailing list. I have contributed to few Debian Science Team packages to fix bugs. I have had the opportunity to work

Re: How to handle NMUs in salsa

2024-05-10 Thread Drew Parsons
On 2024-05-11 00:09, Santiago Vila wrote: El 10/5/24 a las 23:59, Drew Parsons escribió: (btw: Didn't realize there was a 3.20 release in experimental, will test it before reporting anything, thanks!) Great :)  Upstream is reasonably conservative, likely your makefile problem will sti

Re: How to handle NMUs in salsa

2024-05-10 Thread Drew Parsons
On 2024-05-10 23:54, Santiago Vila wrote: El 10/5/24 a las 23:33, Drew Parsons escribió: On 2024-05-10 20:30, Santiago Vila wrote: Hello. Need some guidance here: It is ok if I commit to salsa the NMU of slepc made by Benjamin Drung for the t64 transition? (The package is already in testing

Re: How to handle NMUs in salsa

2024-05-10 Thread Drew Parsons
On 2024-05-10 23:33, Drew Parsons wrote: On 2024-05-10 20:30, Santiago Vila wrote: Hello. Need some guidance here: It is ok if I commit to salsa the NMU of slepc made by Benjamin Drung for the t64 transition? (The package is already in testing and unstable) I ask because I want to report (and

Re: How to handle NMUs in salsa

2024-05-10 Thread Drew Parsons
On 2024-05-10 20:30, Santiago Vila wrote: Hello. Need some guidance here: It is ok if I commit to salsa the NMU of slepc made by Benjamin Drung for the t64 transition? (The package is already in testing and unstable) I ask because I want to report (and maybe fix myself) a makefile bug. Also: T

Bug#1063856: hdf5: new upstream release

2024-02-13 Thread Drew Parsons
Source: hdf5 Version: 1.10.10+repack-3 Severity: normal X-Debbugs-Cc: debian-science@lists.debian.org What our situation with our hdf5 package version? We're currently using hdf5 1.10.10, but 1.12.2 has been available in experimental for some time, and upsteam has released 1.14.3. Should we be u

Bug#1063352: ITP: ngspetsc -- a PETSc interface for NGSolve

2024-02-06 Thread Drew Parsons
Package: wnpp Severity: wishlist Owner: Drew Parsons X-Debbugs-Cc: debian-de...@lists.debian.org, debian-science@lists.debian.org, francesco.balla...@unicatt.it * Package name: ngspetsc Version : git HEAD Upstream Contact: Umberto Zerbinati * URL : https

Re: Updating ortools

2024-01-23 Thread Drew Parsons
On 2024-01-23 14:02, Kari Pahula wrote: Hi, I requested access to https://salsa.debian.org/science-team/ortools some time ago. Is anyone available to process it? I have a prospective (experimental) changes available at https://salsa.debian.org/kaol/ortools. It requires versions of abseil and p

Re: Bug#1043240: transition: pandas 1.5 -> 2.1

2024-01-21 Thread Drew Parsons
On 2024-01-21 21:22, Andrew M.A. Cater wrote: [Replying off list in case this person is reading this through a digest or some such and is not subscribed to all lists] On Sun, Jan 21, 2024 at 07:31:58PM +, Stelios Moschos wrote: Hi, how to remove myself from these lists? ... The answer is

Bug#1061255: ITP: custodian -- flexible just-in-time job management framework in Python

2024-01-21 Thread Drew Parsons
Package: wnpp Severity: wishlist Owner: Drew Parsons X-Debbugs-Cc: debian-de...@lists.debian.org, debian-pyt...@lists.debian.org, debian-science@lists.debian.org, debichem-de...@lists.alioth.debian.org * Package name: custodian Version : 2024.1.9 Upstream Contact: Shyue Ping Ong

Re: pandas 1.5 -> 2.1?

2023-12-10 Thread Drew Parsons
On 2023-12-10 21:55, Kingsley G. Morse Jr. wrote: Hi Rebecca, Julian and all science minded pythonistas of debian, great and small! 3.) The following one-liner suggests 44 debian packages might be affected by the breaks Rebecca said would be caused by pandas 2.x: $ for s in augur c

Re: OpenMPI / MPI transition

2023-12-07 Thread Drew Parsons
On 2023-12-07 10:46, Adrian Bunk wrote: On Sun, Dec 03, 2023 at 05:32:38PM +, Alastair McKinstry wrote: ... Two issues regarding this transition: ... 2. Packages building for both mpi implementations The 9 yellow packages in the tracker (e.g. ScaLAPACK) currently provide packages for bo

Re: OpenMPI / MPI transition

2023-11-24 Thread Drew Parsons
On 2023-11-24 15:00, Alastair McKinstry wrote: My understanding is that MPICH has been typically the reference implementation, higher quality but less performant, particularly with the range of fabrics. Certainly I've seen mostly OpenMPI but not MPICH on various HPC machines. People would use eit

Re: OpenMPI / MPI transition

2023-11-23 Thread Drew Parsons
On 2023-11-23 12:13, Emilio Pozuelo Monfort wrote: Hi, On 23/11/2023 09:36, Alastair McKinstry wrote: Hi, OpenMPI has a new upstream release 5.0.0. It is in experimental now; the SOVERSION for libraries remains 40.X (minor version increment), there is  an SOVERSION increment for private libr

Re: Removing ATLAS?

2023-11-05 Thread Drew Parsons
On 2023-11-05 14:02, Sébastien Villemot wrote: Le samedi 08 juillet 2023 à 10:01 +0200, Sébastien Villemot a écrit : As the maintainer of the atlas package over the last decade, I now wonder whether we should remove it from the archive. Since the present thread seems to indicate that there to

Re: upgrading XTL, xtensor, xsimd, pythran

2023-09-24 Thread Drew Parsons
On 2023-09-23 20:21, Drew Parsons wrote: On 2023-09-23 16:31, Vincent Bernat wrote: On 2023-09-17 14:06, Drew Parsons wrote: As far as I can tell we're ready to upgrade the family of XTL-related packages (xtl-dev, xtensor, xsimd, pythran). Previously dolfinx was holding it back sin

Re: upgrading XTL, xtensor, xsimd, pythran

2023-09-23 Thread Drew Parsons
On 2023-09-23 16:31, Vincent Bernat wrote: On 2023-09-17 14:06, Drew Parsons wrote: As far as I can tell we're ready to upgrade the family of XTL-related packages (xtl-dev, xtensor, xsimd, pythran). Previously dolfinx was holding it back since it didn't support the latest version

upgrading XTL, xtensor, xsimd, pythran

2023-09-17 Thread Drew Parsons
As far as I can tell we're ready to upgrade the family of XTL-related packages (xtl-dev, xtensor, xsimd, pythran). Previously dolfinx was holding it back since it didn't support the latest version of xtensor. That restriction is now removed so I think we're good to go. Since these are header-

Bug#1042005: transition: mumps hypre2.28.0 superlu combblas

2023-07-25 Thread Drew Parsons
Package: release.debian.org Severity: normal User: release.debian@packages.debian.org Usertags: transition X-Debbugs-Cc: mu...@packages.debian.org, debian-science@lists.debian.org Control: affects -1 + src:mumps I'd like clear out some transitions in the numerical library stack: combblas: 1.

Re: Please give-back armhf build of opm-common-2022.10+ds-6

2023-03-22 Thread Drew Parsons
The armhf (and x32) failure seems enduring. I guess it needs to be fixed in code. Or ignored. Drew On 2023-03-22 15:07, Drew Parsons wrote: done On 2023-03-22 12:48, Markus Blatt wrote: Hi, somehow the armhf build of opm-common-2022.10+ds-6 failed. This seems to happen from time to time

Re: Please give-back armhf build of opm-common-2022.10+ds-6

2023-03-22 Thread Drew Parsons
done On 2023-03-22 12:48, Markus Blatt wrote: Hi, somehow the armhf build of opm-common-2022.10+ds-6 failed. This seems to happen from time to time, see [1]. Not nice, but I am unable to replicate this. There were no changes between the versions that would explain the build failure Would be

Bug#1031523: ITP: iqmol -- molecular builder and visualization package

2023-02-17 Thread Drew Parsons
Package: wnpp Severity: wishlist Owner: Drew Parsons X-Debbugs-Cc: debian-de...@lists.debian.org, Debichem Team , Debian Science List * Package name: iqmol Version : 3.1.2 Upstream Contact: Andrew Gilbert * URL : http://iqmol.org/ * License : GPL

Re: Bug#1030907: [Help] Possible scikit-learn issue (Was: Bug#1030907: umap-learn: FTBFS (failing tests))

2023-02-09 Thread Drew Parsons
On 2023-02-09 20:37, Andreas Tille wrote: Hi again, Am Thu, Feb 09, 2023 at 05:52:13PM +0100 schrieb Andreas Tille: > That said, the np.matrix discrepancy was only just fixed recently, in > December, by > https://github.com/lmcinnes/umap/pull/946 I've updated the packaging, added the PR, fixe

Re: [Help] Possible scikit-learn issue (Was: Bug#1030907: umap-learn: FTBFS (failing tests))

2023-02-09 Thread Drew Parsons
On 2023-02-09 15:02, Andreas Tille wrote: Control: tags -1 help Am Thu, Feb 09, 2023 at 12:50:45AM +0100 schrieb Santiago Vila: Package: src:umap-learn Version: 0.4.5+dfsg-3 Severity: serious Tags: ftbfs Dear maintainer: During a rebuild of all packages in bookworm, your package failed to bu

Re: OpenMPI 5.0 to be 32-bit only ?

2023-02-07 Thread Drew Parsons
On 2023-02-07 10:54, Alastair McKinstry wrote: Hi I've been pinged by the upstream maintainer of OpenMPI    Jefff Squyres as to our opinions on maintaining 32-bit support. See a  thread here: https://github.com/open-mpi/ompi/pull/11282 Until now I've asked for OMPI to hold off going to 64-bit

Re: scikit-learn Re: Are we still trying to do scipy 1.10, given transition freeze?

2023-02-07 Thread Drew Parsons
On 2023-02-07 08:33, Graham Inggs wrote: Hi Drew I think python3-scipy should declare a Breaks on python3-skbio less than the version in unstable (0.5.8-3). This should sort out the autopkgtest regressions of emperor, python-skbio itself, q2-metadata and q2-quality-control, which are all passing

Bug#1030520: ITP: python-emmet -- core models, data pipelines for Materials Project

2023-02-04 Thread Drew Parsons
Package: wnpp Severity: wishlist Owner: Drew Parsons X-Debbugs-Cc: debian-de...@lists.debian.org, debian-science@lists.debian.org, debichem-de...@lists.alioth.debian.org * Package name: python-emmet Version : 0.36.4 Upstream Contact: Jason Munro * URL : https

Bug#1030518: ITP: python-mp-api -- Materials Project API

2023-02-04 Thread Drew Parsons
Package: wnpp Severity: wishlist Owner: Drew Parsons X-Debbugs-Cc: debian-de...@lists.debian.org, debian-science@lists.debian.org, debichem-de...@lists.alioth.debian.org Control: affects -1 src:pymatgen * Package name: python-mp-api Version : 0.27.3 Upstream Contact: Jason Munro

Re: scikit-learn Re: Are we still trying to do scipy 1.10, given transition freeze?

2023-01-29 Thread Drew Parsons
On 2023-01-27 10:25, Andreas Tille wrote: https://qa.debian.org/excuses.php?experimental=1&package=scikit-learn scikit-learn looks like it should manageable. I've uploaded scipy 1.10 to unstable now. Drew

Re: Are we still trying to do scipy 1.10, given transition freeze?

2023-01-26 Thread Drew Parsons
On 2023-01-26 16:56, Andreas Tille wrote: Am Thu, Jan 26, 2023 at 04:51:25PM +0100 schrieb Drew Parsons: Thanks Andrea. armel has revealed which tests it needs skipped, so I'll push scipy 1.10 to unstable after scipy 1.8.1-22 is done migrating to testing I just notice that bug #10297

Re: Are we still trying to do scipy 1.10, given transition freeze?

2023-01-26 Thread Drew Parsons
On 2023-01-26 16:46, Andreas Tille wrote: Hi Drew, Am Thu, Jan 26, 2023 at 01:46:18PM +0100 schrieb Drew Parsons: > for the release architectures with autopkgtests, so expect results for > more architectures to appear over the next few hours. > [1] https://qa.debian.org/ex

Re: Are we still trying to do scipy 1.10, given transition freeze?

2023-01-26 Thread Drew Parsons
On 2023-01-26 14:32, Graham Inggs wrote: I'll try to wait for scipy's own tests (armel, riscv64) before uploading to unstable. riscv64 is not a release architecture (yet) and the hardware is still a little slow, so it is not enabled for experimental pseudo excuses. True. armel is the main

Re: Are we still trying to do scipy 1.10, given transition freeze?

2023-01-26 Thread Drew Parsons
On 2023-01-26 13:35, Graham Inggs wrote: Hi Drew, Andreas ... scipy/1.8.1-22 and numpy/1:1.24.1-2 have just migrated to testing, so please go ahead with uploading scipy 1.10 to unstable when you're ready. ... The experimental pseudo excuses for scipy 1.10.0-1exp6 [1] look good to me, only 12

Re: Are we still trying to do scipy 1.10, given transition freeze?

2023-01-25 Thread Drew Parsons
On 2023-01-25 16:25, Andreas Tille wrote: Am Wed, Jan 25, 2023 at 04:23:58PM +0100 schrieb Andreas Tille: I'm just building an according package locally and will hopefully upload soon. ... but Drew Parsons seems to have beaten me. ;-) Thanks also to Drew Andreas. heh yeah, I was

Re: Are we still trying to do scipy 1.10, given transition freeze?

2023-01-18 Thread Drew Parsons
On 2023-01-18 22:31, Rebecca N. Palmer wrote: This "broken by numpy 1.24" bug looks to me like 17033, not 17630. This has what looks like a trivially-backportable patch, though I haven't actually tried that: https://github.com/scipy/scipy/pull/17035 We can try applying that patch to scipy 1.8

Re: Helping hands needed to upgrade scipy

2023-01-17 Thread Drew Parsons
On 2023-01-17 18:12, Andreas Tille wrote: Hi, I upgraded the experimental branch of scipy to contain the submodules upstream includes. I'm *not* convinced that we need them all - hopefully we can get rid of boost (but upstream has some patches here) and scipy-mathjax. For the moment I've tried

Re: Do we want to keep up pyfr?

2023-01-17 Thread Drew Parsons
On 2023-01-17 08:53, Andreas Tille wrote: I pushed some changes to pyfr git[1] including the latest upstream version. Unfortunately the autopkgtest fails[2] with pkg_resources.DistributionNotFound: The 'h5py>=2.10' distribution was not found and is required by pyfr (which is a bit strange s

Bug#1026079: ITP: dolfinx-mpc -- Multi-point constraints with FEniCS-X

2022-12-14 Thread Drew Parsons
Package: wnpp Severity: wishlist Owner: Drew Parsons X-Debbugs-Cc: debian-de...@lists.debian.org, Debian Science List * Package name: dolfinx-mpc Version : 0.5.0.post0 Upstream Contact: Jørgen S. Dokken * URL : https://github.com/jorgensd/dolfinx_mpc * License

Re: state of 'getfem'

2022-11-24 Thread Drew Parsons
On 2022-11-24 17:54, IOhannes m zmölnig wrote: hi, getfem-5.4.2+dfsg1-1 has been uploaded recently (thanks). unfortunately, it fails to build on s390x (see [1]), resulting in #1023788 which in turn now threatens one of my packages to be removed from testing. i would like to avoid that. it's on

Re: Upload Requests

2022-06-19 Thread Drew Parsons
On 2022-06-18 17:20, Julien Lamy wrote: Hi Drew, Le 17/06/2022 à 15:28, Drew Parsons a écrit : On 2022-06-16 15:06, Julien Lamy wrote: Hi Ileana, I've uploaded xsimd. Thanks for your work! -- Julien Le 16/06/2022 à 14:43, Ileana Dumitrescu a écrit : Hi, I contributed and merged code

Re: Upload Requests

2022-06-17 Thread Drew Parsons
On 2022-06-16 15:06, Julien Lamy wrote: Hi Ileana, I've uploaded xsimd. Thanks for your work! -- Julien Le 16/06/2022 à 14:43, Ileana Dumitrescu a écrit : Hi, I contributed and merged code into salsa for several science packages. Can someone please sponsor the uploads? Thank you! ... xsim

Re: libscotch-dev/7.0.1-2: Why is there no libscotchmetis.so?

2022-03-18 Thread Drew Parsons
On 2022-03-18 23:13, Drew Parsons wrote: On 2022-03-18 21:50, Markus Blatt wrote: Hi, while investigating several bugs [1] [2] [3] caused by the scotch transition, I started wondering why there is no libscotchmetis.so library but just libscotchmetisv3.so and libscotchmetisv5.so. .. It

Re: libscotch-dev/7.0.1-2: Why is there no libscotchmetis.so?

2022-03-18 Thread Drew Parsons
On 2022-03-18 21:50, Markus Blatt wrote: Hi, while investigating several bugs [1] [2] [3] caused by the scotch transition, I started wondering why there is no libscotchmetis.so library but just libscotchmetisv3.so and libscotchmetisv5.so. The cause for the bugs seems to be that the CMake scri

Re: Google Summer of Code, Debian Science

2022-03-01 Thread Drew Parsons
based science packages) and point special requirements for possible applicants. Feel free to propose a text for that. Thanks again! Regards Anton Am Di., 22. Feb. 2022 um 12:52 Uhr schrieb Drew Parsons : On 2022-02-21 17:42, Anton Gladky wrote: > Dear all, > > Google Summer of Code call

Re: Google Summer of Code, Debian Science

2022-03-01 Thread Drew Parsons
Gimme a few minutes, I'll line up my text On 2022-03-01 15:04, Anton Gladky wrote: Hi Nilesh, yes, thanks for the reminder. I will do it today. News from the last few days beated me personally. So, it is difficult to concentrate on the work. Regards Anton Am Di., 1. März 2022 um 14:51 Uhr s

Re: Google Summer of Code, Debian Science

2022-02-23 Thread Drew Parsons
On 2022-02-23 07:21, Andreas Tille wrote: Hi, > It would be helpful to run parallel/HPC performance testing for our MPI > numerical packages. Am Tue, Feb 22, 2022 at 01:06:30PM +0100 schrieb Anton Gladky: It is a very good idea! +1 Though I would separate this task from QA-work on Debian

Re: Google Summer of Code, Debian Science

2022-02-22 Thread Drew Parsons
On 2022-02-21 17:42, Anton Gladky wrote: Dear all, Google Summer of Code call for Debian is announced [1]. I am going to apply Debian Science Team as one of the projects. Main topic is QA-Work: Autopkgtests for high-popcon packages, gitlab-CI for most of packages, bringing not-in-testing packag

Re: pandas 1.3.5+dfsg-2 autopkgtest failures

2022-02-04 Thread Drew Parsons
On 2022-02-03 23:01, Rebecca N. Palmer wrote: In Debian (only change from -1 should be disabling some tests, i.e. real pandas-related failures are unlikely): mdtraj/amd64: upstream tests pass but a warning is printed to stderr, which autopkgtest counts as a fail partd/ppc64el: save/load of a plai

Fwd: Scotch v7.0 is out!

2022-01-01 Thread Drew Parsons
Hi Debian Science folk, SCOTCH has made a new major release, and has also made a particular announcement I'd like to draw your attention to. To strengthen the long-term value of the software, they are creating a Consortium to drive governance and development planning. As part of that, they

Re: Upgrading tbb

2021-12-23 Thread Drew Parsons
On 2021-12-23 10:24, Drew Parsons wrote: On 2021-12-23 06:57, Andreas Tille wrote: Hi, Am Wed, Dec 22, 2021 at 05:09:35PM -0800 schrieb Diane Trout: On Wed, 2021-12-22 at 22:24 +0530, Nilesh Patra wrote: > > Actually because of the current state of numba, several reverse > depends

Re: Upgrading tbb

2021-12-23 Thread Drew Parsons
On 2021-12-23 06:57, Andreas Tille wrote: Hi, Am Wed, Dec 22, 2021 at 05:09:35PM -0800 schrieb Diane Trout: On Wed, 2021-12-22 at 22:24 +0530, Nilesh Patra wrote: > > Actually because of the current state of numba, several reverse > depends are FTBFS so it's > bit urgent to push. Apologies for

Re: Debian Math Team

2021-12-06 Thread Drew Parsons
On 2021-12-06 16:04, Drew Parsons wrote: On 2021-10-29 19:31, Torrance, Douglas wrote: During the Debian Science BoF at this year's DebConf, there was some discussion of creating a team devoted to packaging mathematical software. This seemed like a pretty good idea, so I figured that I

Re: Debian Math Team

2021-12-06 Thread Drew Parsons
On 2021-10-29 19:31, Torrance, Douglas wrote: During the Debian Science BoF at this year's DebConf, there was some discussion of creating a team devoted to packaging mathematical software. This seemed like a pretty good idea, so I figured that I'd go ahead and start working on getting it set u

Re: Failures for sklearn

2021-12-06 Thread Drew Parsons
On 2021-12-06 11:42, Andreas Tille wrote: Hi Drew, Am Sat, Dec 04, 2021 at 05:34:54PM +0100 schrieb Drew Parsons: > Would you have any plans to fix the situation? My first plan is for someone to notice that it's a team package that they can fix themselves. That's for grante

Re: Failures for sklearn

2021-12-04 Thread Drew Parsons
On 2021-12-04 16:20, Nilesh Patra wrote: Hi Drew, You uploaded new version of sklearn a week ago, but unfortunately it seems to not build on several architectures and also has a failing autopkgtest on amd64. Would you have any plans to fix the situation? My first plan is for someone to not

Bug#1001105: RFP: pyvista -- 3D plotting and mesh analysis

2021-12-04 Thread Drew Parsons
Package: wnpp Severity: wishlist X-Debbugs-Cc: debian-pyt...@lists.debian.org, debian-science@lists.debian.org * Package name: pyvista Version : 0.32.0 Upstream Author : The PyVista Developers * URL : https://github.com/pyvista/pyvista * License : MIT Programm

Bug#1000311: ITP: python-meshzoo -- simple geometric meshes

2021-11-21 Thread Drew Parsons
Package: wnpp Severity: wishlist Owner: Drew Parsons X-Debbugs-Cc: debian-de...@lists.debian.org, debian-science@lists.debian.org * Package name: python-meshzoo Version : 0.9.0 Upstream Author : Nico Schlömer * URL : https://github.com/nschloe/meshzoo * License

Re: Upgrading pandas

2021-11-12 Thread Drew Parsons
On 2021-11-12 14:06, George N. White III wrote: On Wed, 10 Nov 2021 at 13:14, Andreas Tille wrote: I wonder what you think here whether it makes sense to stop providing the docs for this package. Packaging itself is complex enough and spending extra amounts of work for something users can eas

Re: transition: pandas 1.1 -> 1.3

2021-11-10 Thread Drew Parsons
On 2021-11-10 20:19, Rebecca N. Palmer wrote: Source: pandas On 10/11/2021 17:14, Andreas Tille wrote: pandas is lagging behind upstream by several versions. I guess we should try to get in sync with upstream a bit more. Yes, but please don't upload this yet: it's common for a pandas upgrade

Re: What should be moved to math-team (Re: Debian Math Team

2021-11-09 Thread Drew Parsons
On 2021-11-09 16:20, Nilesh Patra wrote: Makes sense to me. Maybe, it is also a fine idea to move packages which are important in the science team, but are unmaintained. Ofcourse, only if some volunteer is willing to take care of it. Makes sense to move meschach to the Maths team. Technicall

Re: Debian Math Team

2021-11-05 Thread Drew Parsons
On 2021-11-05 14:44, Andrius Merkys wrote: Hi Ole, On 2021-11-03 13:52, Ole Streicher wrote: ... Why can't a Python math package be maintained by both the Python and the math team? Maintainer: Debian Math Team <...> Uploaders: Debian Python Team <...>, me This would set a primary team (and

Re: xsimd portability to other archs?

2021-10-21 Thread Drew Parsons
On 2021-10-14 18:30, Drew Parsons wrote: On 2021-10-14 17:52, Julien Lamy wrote: I don't think it's purely related to gtest: the test programs (benchmark and Mandelbrot set) don't use it, and also fail to compile. Regarding the arch limitation, Drew Parsons suggested earlier

Re: xsimd portability to other archs?

2021-10-14 Thread Drew Parsons
fail to compile. Regarding the arch limitation, Drew Parsons suggested earlier [2] that build failures on a never-uploaded package wasn't really a problem: we could keep the failing architectures so that, when the situation improves with a future upstream version, they would be packaged automatically.

Bug#996204: transition: numerical library stack

2021-10-12 Thread Drew Parsons
Package: release.debian.org Severity: normal User: release.debian@packages.debian.org Usertags: transition X-Debbugs-Cc: debian-science@lists.debian.org, Anton Gladky I'd like to proceed with a transition of the numerical library stack. This involves superlu 5.2.2+dfsg1 -> 5.3.0+dfsg1

Bug#995883: ITP: python-npx -- extensions for NumPy

2021-10-07 Thread Drew Parsons
Package: wnpp Severity: wishlist Owner: Drew Parsons X-Debbugs-Cc: debian-de...@lists.debian.org, debian-pyt...@lists.debian.org, debian-science@lists.debian.org * Package name: python-npx Version : 0.0.20 Upstream Author : Nico Schlömer * URL : https://github.com

Re: upgrading numerical libraries and sundials

2021-10-01 Thread Drew Parsons
Regards Anton Am Fr., 1. Okt. 2021 um 02:23 Uhr schrieb Drew Parsons : I'm preparing the numerical library upgrade to push to unstable. That's superlu-dist hypre mumps petsc slepc. I discovered that sundials 2.7.0 is incompatible with hypre 2.22. But right in the middle of testing they rele

upgrading numerical libraries and sundials

2021-09-30 Thread Drew Parsons
I'm preparing the numerical library upgrade to push to unstable. That's superlu-dist hypre mumps petsc slepc. I discovered that sundials 2.7.0 is incompatible with hypre 2.22. But right in the middle of testing they released 2.8.0, so it's already ready to go. Anton, do you prefer to prepare s

Re: Team upload policy

2021-09-16 Thread Drew Parsons
The Python Team policy looks sensible to me. Any member of the team should be able to fix and upload any team package in general. That helps spread the load and keeps the packages fresh. But reasonable also to have a stronger oversight model (the weak collaboration case) if a particular pack

Bug#991143: RFP: pythran -- an ahead of time compiler for Python

2021-07-15 Thread Drew Parsons
Package: wnpp Severity: wishlist X-Debbugs-Cc: debian-pyt...@lists.debian.org, debian-science@lists.debian.org * Package name: pythran Version : 0.9.12 Upstream Author : Serge Guelton * URL : https://github.com/serge-sans-paille/pythran * License : BSD Progra

Re: Quick Poll: Debian to better support hardware acceleration?

2021-05-20 Thread Drew Parsons
CUDA is a poor solution. nVidia only, proprietary. Need to enourage upstreams to use the other solutions. I don't know ROCm, maybe it's good. Open source at least. SYCL is a good target, should be supported. Supersedes OpenCL. Drew On 2021-05-21 06:40, M. Zhou wrote: Hi folks, --- Q: Ho

Re: double handling of BLAS alternatives: blas.so vs blas.so.3

2021-05-06 Thread Drew Parsons
On 2021-05-06 14:43, M. Zhou wrote: On Wed, 2021-05-05 at 14:57 +0200, Drew Parsons wrote: it's not a build disaster as such, since they keep ABI compatibility. But it is a system maintenance disaster in the sense that it makes it harder than it needs to be to keep track of which BL

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