Commit graph

28782 commits

Author SHA1 Message Date
Matthias Wolf
7950311767
likwid: add a permission fixing script a la singularity (#33503) 2022-12-07 15:51:02 +01:00
Greg Becker
194f9a9ca9
compiler flags: fix mixed flags from cli and yaml (#34218) 2022-12-06 16:32:08 -08:00
Cameron Rutherford
a72021fd63
Fix dependency specification for CuSolver variant in HiOp. (#34138)
Co-authored-by: pelesh <peless@ornl.gov>
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2022-12-06 21:57:57 +01:00
Massimiliano Culpo
d910b3725b
Add back depends_on directives needed to bootstrap on Python 3.6 (#34355)
This partially reverts commit 95b5d54129.
2022-12-06 20:08:26 +01:00
David Zmick
99f209019e
htop: new version 3.2.1 (#34346) 2022-12-06 12:03:46 -07:00
Manuela Kuhn
c11a4e0ad3
py-nbclient: add 0.7.2 and py-jupyter-core: add 5.1.0 (#34348) 2022-12-06 10:43:28 -07:00
Nicholas Sly
4a429ec315
mercurial/py-pybind11: print_string no longer exists (#34340)
* Fix mercurial print_str failure.

* Perform same fix on py-pybind11 for print_string missing method.

Co-authored-by: Nicholas Cameron Sly <sly1@llnl.gov>
2022-12-06 09:28:00 -08:00
eugeneswalker
eadccfe332
trilinos: +teko conflicts with ~ml (#34339) 2022-12-06 09:19:25 -07:00
Harmen Stoppels
dfab5b5ceb
Stop checking for {s3://path}/index.html (#34325) 2022-12-06 09:19:04 -07:00
lorddavidiii
862029215c
cfitsio: add v4.2.0 (#34316) 2022-12-06 09:18:51 -07:00
Hadrien G
559c3de213
ROOT: new versions and associated dependency constraints (#34185)
* Add new root versions and associated dependency constraints

* Please style guide

* Avoid conflicts where possible

* Untested prototype of macOS version detection

* Fixes for macOS version prototype

* More logical ordering

* More correctness and style fixes

* Try to use spack's macos_version

* Add some forgotten @s

* Actually, Spack can't build Python 3.6 anymore, and thus no older PyROOT

Co-authored-by: Seth R. Johnson <johnsonsr@ornl.gov>
2022-12-06 08:25:52 -07:00
Harmen Stoppels
e3bf7358d7
Avoid stat call in llnl.util.symlink on non-windows (#34321) 2022-12-06 15:17:15 +00:00
Harmen Stoppels
b58ec9e2b9
Remove legacy yaml from buildcache fetch (#34347) 2022-12-06 16:12:20 +01:00
Adam J. Stewart
95b5d54129
pip/wheel/setuptools: extend PythonExtension (#34137)
* pip/wheel/setuptools: extend PythonExtension

* Base class still required
2022-12-06 08:58:05 -06:00
Houjun Tang
bcce9c3e9c
Fix compile errors with latest HDF5 1.13.3 (#34337)
* Fix compile errors with latest HDF5 1.13.3

* format

* Update var/spack/repos/builtin/packages/hdf5-vol-async/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2022-12-06 08:15:52 -06:00
Massimiliano Culpo
4c05fe569c
Bootstrap most of Spack dependencies using environments (#34029)
This commit reworks the bootstrapping procedure to use Spack environments 
as much as possible.

The `spack.bootstrap` module has also been reorganized into a Python package. 
A distinction is made among "core" Spack dependencies (clingo, GnuPG, patchelf)
and other dependencies. For a number of reasons, explained in the `spack.bootstrap.core`
module docstring, "core" dependencies are bootstrapped with the current ad-hoc
method. 

All the other dependencies are instead bootstrapped using a Spack environment
that lives in a directory specific to the interpreter and the architecture being used.
2022-12-06 11:54:02 +01:00
Sam Grayson
e550665df7
Update packages (#34344) 2022-12-05 23:52:05 -06:00
Glenn Johnson
d92d34b162
graphite2: add dependency on freetype (#34292) 2022-12-05 14:38:52 -08:00
Miguel Dias Costa
f27be808a4
berkeleygw: add back python dependencies and tweak testsuite (#34125)
* slightly raise tolerance of some tests
2022-12-05 23:37:19 +01:00
Seth R. Johnson
855d3519b6
SWIG: new version 4.1.0 (#34250) 2022-12-05 23:30:14 +01:00
downloadico
37f232e319
psrcat: fixed typo/undefined variable problem (#34334)
replaced the reference to the undefined "bindir" variable with prefix.bin
2022-12-05 15:19:54 -07:00
Luke Diorio-Toth
ac1c29eac0
pharokka and py-phanotate: new packages (#34333)
* pharokka and py-phanotate: new packages

* move libxcrypt edit

I don't need libxcrypt when not building dev infernal. Moving to a different PR
2022-12-05 16:16:59 -06:00
Bernhard Kaindl
56072172f5
jellyfish: add variants for python and ruby bindings (#33832)
Co-authored-by: teachers-uk-net <stuart.morrison@kcl.ac.uk>
2022-12-05 14:10:57 -07:00
Peter Scheibel
64d957dece
cray-mpich: fix dependencies for externals from manifest (#34231)
The cray manifest shows dependency information for cray-mpich, which we never previously cared about
because it can only be used as an external. This updates Spack's dependency information to make cray-mpich
specs read in from the cray external manifest usable.
2022-12-05 12:11:56 -08:00
Loïc Pottier
3edc85ec21
redis: newer version and added TLS support (#34230)
Signed-off-by: Loïc Pottier <pottier1@llnl.gov>
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2022-12-05 12:44:13 -07:00
Manuela Kuhn
d8006a9495
py-nodeenv: add 1.7.0 (#34314) 2022-12-05 12:32:30 -07:00
Manuela Kuhn
a2cfc07412
py-num2words: add 0.5.12 (#34315) 2022-12-05 12:25:01 -07:00
Sreenivasa Murthy Kolam
1295ea5d40
Drop support for older rocm releases - 4.5.0 till 5.0.2 (#34264)
* initial changes for rocm recipes
* drop support for older releases
* drop support for older rocm releases - add more recipes
* drop support for older releases
* address style issues
* address style error
* fix errors
* address review comments
2022-12-05 10:47:45 -08:00
Hector Martinez-Seara
4664b3cd1e
Added plumed version 2.8.1 including gromacs compatibility (#34268)
* Added plumed version 2.8.1 including gromacs compatibility
* Corrected ~mpi and +mpi variants in new depends
* Fixed regression logic plumed+gromacs@2020.6 support
2022-12-05 10:43:08 -08:00
Richard Berger
dc7e0e3ef6
LAMMPS: Add new versions (#32522)
* LAMMPS: Add version 20220803 and 20220623.1

* LAMMPS: Add 20220915, 20221103, and 20220623.2
2022-12-05 12:52:10 -05:00
H. Joe Lee
9aa615aa98
feat(Hermes)!: add yaml-cpp dependency (#34330)
The 0.9.0-beta requires yaml-cpp for parsing the configuration file format in YAML.

P.S. I'm using https://www.conventionalcommits.org/en/v1.0.0/#specification for this commit message.
2022-12-05 09:49:45 -08:00
downloadico
85b6bf99a4
Add packages related to the LWA software stack (#34112)
* epsic: add epsic package to spack

* psrcat: add psrcat to spack

* psrchive: add psarchive to spack

* tempo: add tempo package to spack
2022-12-05 09:48:04 -08:00
Todd Gamblin
78ec3d5662
clingo: add version 5.6.2 (#34317)
See release notes at https://github.com/potassco/clingo/releases/tag/v5.6.2
2022-12-05 10:39:30 -07:00
andriish
a7b5f2ef39
Add the very first version of cernlib package (#33911)
* Add the very first version of cernlib
* Update package.py
* Update package.py

Co-authored-by: Andrii Verbytskyi <andriish@pcatlas18.mpp.mpg.de>
2022-12-05 09:31:15 -08:00
Manuela Kuhn
f71701f39d
py-nbclassic: add 0.4.8 and new package py-notebook-shim (#34320)
* py-nbclassic: add 0.4.8 and new package py-notebook-shim

* Add missing dependencies
2022-12-05 09:51:28 -07:00
Todd Gamblin
54008a2342
vermin: remove all novm comments from code (#34308)
All the vermin annotations we were using were for optional features introduced in early
Python 3 versions. We no longer need any of them, as we only support Python 3.6+. If we
start optionally using features from newer Pythons than 3.6, we will need more vermin
annotations.

Co-authored-by: Harmen Stoppels <harmenstoppels@gmail.com>

Co-authored-by: Harmen Stoppels <harmenstoppels@gmail.com>
2022-12-05 08:59:27 -07:00
Manuela Kuhn
1670c325c6
py-llvmlite: add 0.39.1 (#34318) 2022-12-05 09:22:05 -06:00
SXS Bot
534a994b4c
spectre: add v2022.12.02 (#34277)
Co-authored-by: sxs-bot <sxs-bot@users.noreply.github.com>
2022-12-05 12:45:04 +01:00
Jean-Luc Fattebert
359efca201
Thermo4PFM: new package (#34287) 2022-12-05 12:03:44 +01:00
Glenn Johnson
65809140f3
gurobi: add v10.0.0, v9.5.2 (#34291) 2022-12-05 11:58:09 +01:00
Glenn Johnson
3f1622f9e7
freeglut: add dependency on libxxf86vm (#34293) 2022-12-05 11:57:27 +01:00
Glenn Johnson
8332a59194
wannier90: gfortran-10 support and libs property (#34278) 2022-12-05 11:43:23 +01:00
HELICS-bot
05abea3a3a
helics: add v3.3.2 (#34297)
Co-authored-by: github-actions[bot] <github-actions[bot]@users.noreply.github.com>
2022-12-05 11:42:03 +01:00
Luke Diorio-Toth
e7fc9ea243
mmseqs2: new package (#34189) 2022-12-05 11:38:56 +01:00
Adam J. Stewart
eea3ea7675
py-torch: fix patching on ppc64le (#34283) 2022-12-05 11:37:31 +01:00
Auriane R
895ac2626d
Add conflicts between gcc@12.2.0 and rocblas@5.2.1:5.2.3 (#34217)
* Add conflicts with gcc@12.2.0

* Add more links for reference
2022-12-05 11:13:22 +01:00
Todd Gamblin
94dc86e163
web: remove checks for SSL verification support (#34307)
We no longer support Python <3.6, so we don't need to check whether Python supports SSL
verification in `spack.util.web`.

- [x] Remove a bunch of logic we needed to appease Python 2
2022-12-05 08:46:27 +01:00
Manuela Kuhn
729b1c9fa6
py-mne: add 1.2.2, 1.2.3 and dependency packages (#34295)
* py-mne: add 1.2.2 and depencendy packages

* py-mne: add 1.2.3

* Remove unnecessary when statement
2022-12-05 00:02:27 -06:00
Todd Gamblin
82b7fe649f
typing: move from comment annotations to Python 3.6 annotations (#34305)
We've stopped supporting Python 2, and contributors are noticing that our CI no longer
allows Python 2.7 comment type hints. They end up having to adapt them, but this adds
extra unrelated work to PRs.

- [x] Move to 3.6 type hints across the entire code base
2022-12-04 21:41:12 -08:00
Adam J. Stewart
76417d6ac6
py-torchmetrics: add v0.11.0 (#34220) 2022-12-04 15:32:02 -07:00