Commit Graph

38190 Commits

Author SHA1 Message Date
Ray Huang
470774687d
fix 'command -v' not in csh (#45845) 2024-10-02 19:15:35 +02:00
Alex Tyler Chapman
20aec1536a
ipopt: add 3.14.12 to 3.14.14, improve mumps integration (#46673) 2024-10-02 19:11:39 +02:00
Mosè Giordano
9e1082b625
libblastrampoline: Add v5.9.0, v5.10.1, v5.11.0 (#46702) 2024-10-02 11:09:09 -06:00
Arne Becker
f8f13ad8aa
postgresql: Add icu4c dependency for versions 16+ (#46691)
* postgresql: Add icu4c dependency for versions 16+

* postgresql: make ICU an option

* postgresql: ICU variant only needed for v16+

* postgresql: Check for negated option

Check for negated option instead of negating the test

Co-authored-by: Alec Scott <hi@alecbcs.com>

---------

Co-authored-by: Alec Scott <hi@alecbcs.com>
2024-10-02 10:08:32 -07:00
Harmen Stoppels
fcf72201d3
aspell_dict: remove unused import (#46716) 2024-10-02 17:49:04 +02:00
Teague Sterling
1c528719cb
perl-bio-ensembl-variation: new package (#44507)
* Adding the perl-bio-db-bigfile package

* Adding perl-bio-ensembl-variation package

* Adding perl-bio-ensembl-io package

* Update package.py

* Update package.py

* Update package.py

* Update package.py

* Update package.py

* Updating dependent package handling

Signed-off-by: Teague Sterling <teaguesterling@gmail.com>

* Updating dependent package handling

Signed-off-by: Teague Sterling <teaguesterling@gmail.com>

* Reverting variants

Signed-off-by: Teague Sterling <teaguesterling@gmail.com>

* Update package.py

* Rename package.py to package.py

* Update package.py

* Update package.py

* Update package.py

* Fix variant installation and dependencies

Signed-off-by: Teague Sterling <teaguesterling@gmail.com>

* Styles

Signed-off-by: Teague Sterling <teaguesterling@gmail.com>

* Removing unneeded dependencies

Signed-off-by: Teague Sterling <teaguesterling@gmail.com>

* Update package.py

* Update package.py

* Update package.py

* perl-bio-ensembl: update sha256 of 112

* perl-bio-ensembl-variation: add perl-bio-ensembl-funcgen@{vers}

---------

Signed-off-by: Teague Sterling <teaguesterling@gmail.com>
Co-authored-by: Bernhard Kaindl <bernhardkaindl7@gmail.com>
2024-10-02 15:21:06 +01:00
Auriane R.
f3faeb0f77
py-flash-attn: add v2.6.3 (#46487)
* [py-flash-attn] Add version 2.6.3

* Update dependencies according to the latest version

* Add max_jobs environmental variable to avoid oom error

---------

Co-authored-by: aurianer <8trash-can8@protonmail.ch>
2024-10-02 16:11:50 +02:00
Wouter Deconinck
b1707c2e3c
dbus: fix url; add v1.14.10, v1.15.10 (meson); fix CVEs (#46625) 2024-10-02 15:48:04 +02:00
Asher Mancinelli
0093dd74e3
cbqn: new package (#46603) 2024-10-02 15:40:54 +02:00
Alec Scott
f92c5d7a2e
gh: add shell completions (#46701) 2024-10-02 15:34:30 +02:00
Alec Scott
dcdc678b19
GoPackage: fix attributes to allow for custom build_directory values (#46707) 2024-10-02 06:23:13 -06:00
Weston Ortiz
8e3e7a5541
goma: add v7.8.2 (#46696) 2024-10-02 06:05:32 -06:00
Andrew W Elble
4016172938
cuda: add conflict for aarch64 with gcc-13.2.0 and cuda@12.4 (#46694)
https://github.com/spack/spack/pull/39666#issuecomment-2377609263
2024-10-02 06:05:07 -06:00
Matthieu Dorier
95ea678d77
kafka: add v2.13-3.7.1, v2.13-3.8.0, remove v2.13-3.7.0 (#46692)
* kafka: added new versions

* kafka: add back deprecated version

* kafka: fixing style
2024-10-02 05:34:10 -06:00
Harmen Stoppels
8ccf244c6b
Revert "cc: ensure that RPATHs passed to linker are unique" (#46712)
* Revert "`cc`: ensure that RPATHs passed to linker are unique"

This reverts commit 2613a14c43.

* Revert "`cc`: simplify ordered list handling"

This reverts commit a76a48c42e.
2024-10-02 11:50:09 +02:00
Wouter Deconinck
308dfeb2a6
py-django: add v5.0.9, v5.1.1 (fix CVEs) (#46671)
Co-authored-by: Bernhard Kaindl <bernhardkaindl7@gmail.com>
2024-10-02 10:28:20 +02:00
Harmen Stoppels
118a9e8db7
tests: fix wrong install name (#46711) 2024-10-02 10:09:17 +02:00
Derek Ryan Strong
6740ea79af
Add openblas v0.3.28 with patch (#46495) 2024-10-02 01:40:03 -06:00
Adam J. Stewart
6af8526aa1
py-rasterio: add v1.4.1 (#46693) 2024-10-02 01:04:35 -06:00
Weiqun Zhang
f73cb0ded4
amrex: add v24.10 (#46697) 2024-10-01 22:18:31 -06:00
Thomas-Ulrich
0a683c14a4
add easi 1.4 and 1.5 (#46688) 2024-10-01 21:30:31 -06:00
Thomas-Ulrich
9cf5ba82c7
fix #46681 (#46682) 2024-10-01 21:23:04 -06:00
renjithravindrankannath
104b5c3f68
yaml-cpp library path is lib64 in centos (#46669) 2024-10-01 16:45:49 -07:00
Tamara Dahlgren
c8efea117f
Docs: environment update (#44087)
Updated the terminology for the two types of environments to be
consistent with that used in the tutorial for the last three years.

Additionally:
* changed 'anonymous' to 'independent in environment command+test for consistency.
2024-10-01 22:26:31 +02:00
Harmen Stoppels
486ff2beac
gha: brew gnupg2 is now gnupg (#46689) 2024-10-01 22:23:56 +02:00
Wouter Deconinck
12334099f7
umoci: fix my github handle (#46664) 2024-10-01 11:34:50 -06:00
Harmen Stoppels
e4f571b1ee
build_environment: small cleanup and add todo comments (#46687) 2024-10-01 18:35:23 +02:00
dependabot[bot]
f8b9178630
build(deps): bump actions/checkout from 4.1.7 to 4.2.0 (#46675)
Bumps [actions/checkout](https://github.com/actions/checkout) from 4.1.7 to 4.2.0.
- [Release notes](https://github.com/actions/checkout/releases)
- [Changelog](https://github.com/actions/checkout/blob/main/CHANGELOG.md)
- [Commits](https://github.com/actions/checkout/compare/v4.1.7...d632683dd7b4114ad314bca15554477dd762a938)

---
updated-dependencies:
- dependency-name: actions/checkout
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2024-10-01 08:49:18 -06:00
Bernhard Kaindl
ed57db9498 mplack depends on hermes-shm, and it needs pkgconfig 2024-10-01 16:39:08 +02:00
Wouter Deconinck
731abee6b4 mlpack: add v4.5.0 2024-10-01 16:39:08 +02:00
Sreenivasa Murthy Kolam
60469f83e2
ROCm packages: Bump up the version for ROCm-6.2.1 release (#46553) 2024-10-01 16:30:24 +02:00
Wouter Deconinck
f2f3af19c3
py-uwsgi: add v2.0.27 (fix CVE) (#46667) 2024-10-01 08:18:35 -06:00
suzannepaterno
cbbdf38f4f
totalview: add v2024.1-linux-arm64 -> v2024.2-x86-64 (#45490)
* Update package.py

Update to pull Totalview tar files from AWS instead of requiring the user to download ahead of time. Use new license type, RLM license. Only allow for installs of versions using the new license type. 2024.1 and 2024.2. User selects the platform with the version as it is down from the TotalView downloads website.

* Update package.py

Update to pass style test

* Update package.py

fixing syle

* Updating to pass style check

removing more spaces to pass style check

* final style fixes

fixing the last 2 style errors

* Typo

Typo correction to pass style check

* REmove new line

removing new line character

* Ran black to reformat

Ran black to clear errors

* Changing to use sha256

Updating to use sha256 checksums for all TotalView files.
2024-10-01 16:12:02 +02:00
Harmen Stoppels
44618e31c8
stable_partition: use TypeVar (#46686) 2024-10-01 15:58:24 +02:00
Wouter Deconinck
5bc105c01c
gfal2: new package (and dependencies) (#46559) 2024-10-01 12:01:10 +02:00
Wouter Deconinck
4e3a8b1928
ecdsautils: add v0.4.1 (fix CVEs) (#46628)
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2024-10-01 11:55:14 +02:00
Stephen Nicholas Swatman
59179764d7
acts dependencies: new versions as of 2024/09/30 (#46661)
* acts dependencies: new versions as of 2024/09/30

This commit adds new versions of acts, actsvg, and detray.

* Add vecmem version, patch detray version
2024-09-30 20:40:35 -06:00
Massimiliano Culpo
acce67241e
Do not use single letter packages in unit-tests (#46665)
#45205 already removed previous use of single letter packages
from unit tests, in view of reserving `c` as a language (see #45191).

Some use of them has been re-introduced accidentally in #46382, and
is making unit-tests fail in the feature branch #45189 since there
`c` is a virtual package.

Signed-off-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2024-10-01 02:33:24 +00:00
Wouter Deconinck
73036f9567
ffmpeg: add v7.0.2 (fix CVE) (#46629)
* ffmpeg: add v7.0.2 (fix CVE)
* ffmpeg: fix license directive for gpl variant
2024-09-30 18:14:46 -07:00
Harmen Stoppels
d40ea48db7
grpc/protobuf: new versions (#46408) 2024-09-30 19:08:21 -06:00
Wouter Deconinck
fdb5178f99
py-onnx: use out of source tree build for CMake part (#45266)
Co-authored-by: Bernhard Kaindl <contact@bernhard.kaindl.dev>
2024-09-30 19:07:57 -06:00
Afzal Patel
7a3525a053 patch clang++ path 2024-10-01 03:02:10 +02:00
Luc Berger
394ed4f90d
Kokkos sanity checks (#44589)
* Kokkos: adding some sanity checks
   We can pretty much guarentee that if bin, include or lib directory
   is missing, something is wrong. Additionally KokkosCore_config.h
   and Kokkos_Core.hpp. I guess technically we could look for all
   public headers at least but that seems a bit overkill as well?
* Kokkos Kernels: adding sanity checks
* Remove check for lib directory since it might end up being lib64
* Also remove lib from kokkos-kernels sanity check
2024-09-30 16:10:20 -07:00
Adrien Bernede
d7f5dbaf89
Update and standardize implementation of RADIUSS packages (#45648)
* Add latest releases of Camp, RAJA, Umpire, CHAI and CARE
* Address review comments + blt requirement in Umpire
* CARE @develop & @main: Submodules -> False
* Changes in Umpire
* Changes in RAJA
* Changes in CHAI
* Changes in RAJA: prefer 'spec.satisfies' to 'in spec'
   This is due to a non-equivalence in Spack with providers like mpi.
   See e.g. https://github.com/spack/spack/pull/46126
* Changes in Umpire: prefer 'spec.satisfies' to 'in spec'
   This is due to a non-equivalence in Spack with providers like mpi.
   See e.g. https://github.com/spack/spack/pull/46126
* Changes in CARE:
   Still need to update to CachedCMakePackage based on RADIUSS Spack Configs version
* Missing change in RAJA + changes in fmt
* Fix synta
* Changes in Camp
* Fix style
* CHAI: when ~raja, turn off RAJA in build system
* Fix: Ascent@0.9.3 does not support RAJA@2024.07.0
* Enforce same version constraint on Umpire as for RAJA
* Enforce preferred version of vtk-m in ascent 0.9.3
* Migrate CARE package to CachedCMakePackage
* Fix style in CARE package
* CARE: Apply changes for uniform implementation accross RADIUSS projects
* Caliper: move to CachedCMakePackage, from RADIUSS Spack Configs
* Adapt RAJA Perf to spack CI
* Activate CHAI, CARE and RAJAPerf in Spack CI
* Fixes and diffs with RADIUSS Spack Configs
* Caliper: fix
* Caliper : fix + RAJAPerf : style
* RAJAPerf: fixes
* Update maintainers
* raja-perf: fix license header
* raja-perf: Fix variant naming openmp_target -> omptarget
* raja-perf: style and blt dependency versions
* CARE: benchmark and examples off by default (like tests)
* CARE: fix missing variable
* Update var/spack/repos/builtin/packages/raja-perf/package.py
* CARE: fix branch name
* Revert changes in MFEM to pass CI
* Fix CXX17 condition in RAJA + add sycl option in RAJAPerf

---------

Co-authored-by: Rich Hornung <hornung1@llnl.gov>
2024-09-30 15:16:24 -07:00
Teague Sterling
cb43019455
cbindgen: new package plus 1 dependency package (#45393)
* cbindgen: new package
* Attempting to add rust dependencies for cbindgen
* adding rust-toml min rust version
* Removing dependencies that don't install with cargo
* cleanup broken packages

---------

Signed-off-by: Teague Sterling <teaguesterling@gmail.com>
2024-09-30 14:57:51 -07:00
Pranav Sivaraman
5303ec9aa5
neocmakelsp: new package (#46623)
* neocmake: add new package
* neocmake: add description, homepage, and license
* neocmakelsp: remove boilerplate
2024-09-30 14:39:25 -07:00
Harmen Stoppels
02499c72c9
avoid rpath'ing default search paths (#44686)
On sysroot systems like gentoo prefix, as well as nix/guix, our "is
system path" logic is broken cause it's static.

Talking about "the system paths" is not helpful, we have to talk
about default search paths of the dynamic linker instead.

If glibc is recent enough, we can query the dynamic loader's default
search paths, which is a much more robust way to avoid registering
rpaths to system dirs, which can shadow Spack dirs.

This PR adds an **additional** filter on rpaths the compiler wrapper
adds, dropping rpaths that are default search paths. The PR **does
not** remove any of the original `is_system_path` code yet.

This fixes issues where build systems run just-built executables
linked against their *not-yet-installed libraries*, typically:

```
LD_LIBRARY_PATH=. ./exe
```

which happens in `perl`, `python`, and other non-cmake packages.
If a default path is rpath'ed, it takes precedence over
`LD_LIBRARY_PATH`, and a system library gets loaded instead
of the just-built library in the stage dir, breaking the build. If
default paths are not rpath'ed, then LD_LIBRARY_PATH takes
precedence, as is desired.

This PR additionally fixes an inconsistency in rpaths between
cmake and non-cmake packages. The cmake build system
computed rpaths by itself, but used a different order than
computed for the compiler wrapper. In fact it's not necessary
to compute rpaths at all, since we let cmake do that thanks to
`CMAKE_INSTALL_RPATH_USE_LINK_PATH`. This covers rpaths
for all dependencies. The only install rpaths we need to set are
`<install prefix>/{lib,lib64}`, which cmake unfortunately omits,
although it could also know these. Also, cmake does *not*
delete rpaths added by the toolchain (i.e. Spack's compiler
wrapper), so I don't think it should be controversial to simplify
things.
2024-09-30 20:32:50 +02:00
Wouter Deconinck
f1275536a2
libexif: add v0.6.24 (fix CVEs) (#46634)
* libexif: add v0.6.24 (fix CVEs)

* libexif: operator Version -> spec.satisfies

Co-authored-by: Alec Scott <hi@alecbcs.com>

---------

Co-authored-by: Alec Scott <hi@alecbcs.com>
2024-09-30 11:14:38 -07:00
Wouter Deconinck
a88239affc
hazelcast: add v5.5.0 (fix CVE) (#46666) 2024-09-30 11:10:50 -07:00
Wouter Deconinck
260ea91b83
qpdf: add v11.9.1 (fix CVE) (#46645) 2024-09-30 10:01:15 -07:00