Commit Graph

39719 Commits

Author SHA1 Message Date
Adam J. Stewart
ddf94291d4 py-jsonargparse: add v4.28.0 (#44074) 2024-05-08 11:31:07 -07:00
Jon Rood
5d1038c512 hypre: add cublas and rocblas variants (#44038)
* Add cublas and roblas variants to hypre.

* Fix mistakes.

* Remove newline.

* Address suggestions.
2024-05-08 12:04:11 -06:00
renjithravindrankannath
2e40c88d50 Bump up the version for ROCm-6.1.0 (#43843)
* Bump up the version for ROCm-6.1.0
* Style check error correction and patch files
* Update for rocm-openmp-extras 6.1
* updating rocm-openmp-extras and math libraries with 6.1
* Style check error correcion
* updating hipcub, hipfort & miopen-hip for 6.1
* Rocm-openmp-extras and some mathlib updates
* iAudit error correction and rocmlir update
* Updating dependency on suite-sparse and adding path
* Style check error corection
* hip-tensor 6.1.0 update
* rdc 6.1 needs grpc 1.59.1
* rvs 6.1 updates and patch
2024-05-08 10:26:30 -07:00
dependabot[bot]
2bcba57757 build(deps): bump actions/checkout from 4.1.4 to 4.1.5 (#44045)
Bumps [actions/checkout](https://github.com/actions/checkout) from 4.1.4 to 4.1.5.
- [Release notes](https://github.com/actions/checkout/releases)
- [Changelog](https://github.com/actions/checkout/blob/main/CHANGELOG.md)
- [Commits](0ad4b8fada...44c2b7a8a4)

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

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2024-05-08 09:22:48 -07:00
shanedsnyder
37330e5e2b darshan-runtime,darshan-util,py-darshan: add darshan-3.4.5 packages (#43989)
* add darshan-3.4.5 packages, update URLs
* py-setuptools version switches for py-darshan
* more py-darshan test dependencies
* try a conditional importlib_resources dependency
2024-05-08 09:06:24 -07:00
snehring
b4411cf2db iq-tree: add new version delete duplicate package (#44043)
* iq-tree: add new version delete duplicate package
* Replace iqtree2 dependency
   orthofinder: replace iqtree2 with iq-tree@2
   py-phylophlan: replace iqtree2 with iq-tree@2
2024-05-08 09:02:06 -07:00
Harmen Stoppels
65d1ae083c gitlab ci: tutorial: add julia and vim (#44073) 2024-05-08 14:18:12 +02:00
andriish
0b8faa3918 cernlib: add 2023.08.14.0-free (#40211)
* Update CERNLIB

Update CERNLIB

* Update package.py

* Update package.py

* [@spackbot] updating style on behalf of andriish

* cernlib: merge crypto->crypt patches

* cernlib: depends_on xbae when `@2023:`

* cernlib: patch for Xbae and Xm link order (DSO)

* [@spackbot] updating style on behalf of andriish

---------

Co-authored-by: Wouter Deconinck <wdconinc@gmail.com>
2024-05-08 06:58:07 -05:00
Alec Scott
f077c7e33b unmaintained pkg bump: 2024-05-05 (#44021)
* unmaintained pkgs: bump versions

* Changes following review feedback

* glm: update cmake dependency

---------

Co-authored-by: Wouter Deconinck <wdconinc@gmail.com>
2024-05-08 05:53:49 -06:00
Massimiliano Culpo
9d7410d22e gcc: add v14.1.0 (#44053) 2024-05-08 12:14:44 +02:00
Tamara Dahlgren
e295730d0e mold: Replace maintainer (#44047)
* Remove maintainer at his request

* Add msimberg as the maintainer
2024-05-08 09:29:43 +02:00
Todd Gamblin
868327ee14 r: patch R-CVE-2024-27322 for r@3.5:4.3.3 (#44050)
Signed-off-by: Todd Gamblin <tgamblin@llnl.gov>
2024-05-08 08:56:37 +02:00
Massimiliano Culpo
f5430b16bc Bump removal version in deprecation messages (#44064) 2024-05-08 08:49:14 +02:00
Tamara Dahlgren
2446695113 Remove dead environment creation code (#44065) 2024-05-07 22:49:06 -06:00
snehring
e0c6cca65c orca: switching to xz archives, removing old version (#44035) 2024-05-07 15:18:53 -07:00
Auriane R
84ed4cd331 Add transformer engine package (#43982)
* Add py-flash-attn@2.4.2
* Add py-transfomer-engine package

---------

Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2024-05-07 14:56:34 -07:00
Juan Miguel Carceller
f6d50f790e gaudi: Add version 38.1 (#44055)
Co-authored-by: jmcarcell <jmcarcell@users.noreply.github.com>
2024-05-07 14:20:02 -07:00
Tim Haines
d3c3d23d1e Dyninst: update compiler requirements (#44033)
As of 13.0.0, Dyninst can now build with any Linux compiler.
2024-05-07 15:03:17 -06:00
Vicente Bolea
33752c2b55 fix(adios2): fix missing stdind include in 2.7 (#43786) 2024-05-07 15:52:20 -05:00
Harmen Stoppels
26759249ca gitlab: dont build paraview for neoverse v2 (#44060) 2024-05-07 18:59:12 +02:00
dependabot[bot]
8b4cbbe7b3 build(deps): bump pygments from 2.17.2 to 2.18.0 in /lib/spack/docs (#44044)
Bumps [pygments](https://github.com/pygments/pygments) from 2.17.2 to 2.18.0.
- [Release notes](https://github.com/pygments/pygments/releases)
- [Changelog](https://github.com/pygments/pygments/blob/master/CHANGES)
- [Commits](https://github.com/pygments/pygments/compare/2.17.2...2.18.0)

---
updated-dependencies:
- dependency-name: pygments
  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>
2024-05-07 18:55:04 +02:00
Richarda Butler
be71f9fdc4 Include concrete environments with include_concrete (#33768)
Add the ability to include any number of (potentially nested) concrete environments, e.g.:

```yaml
   spack:
     specs: []
     concretizer:
         unify: true
     include_concrete:
     - /path/to/environment1
     - /path/to/environment2
```

or, from the CLI:

```console
   $ spack env create myenv
   $ spack -e myenv add python
   $ spack -e myenv concretize
   $ spack env create --include-concrete myenv included_env
```

The contents of included concrete environments' spack.lock files are
included in the environment's lock file at creation time. Any changes
to included concrete environments are only reflected after the environment
is re-concretized from the re-concretized included environments.

- [x] Concretize included envs
- [x] Save concrete specs in memory by hash
- [x] Add included envs to combined env's lock file
- [x] Add test
- [x] Update documentation

    Co-authored-by: Kayla Butler <<butler59@llnl.gov>
    Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.co
m>
    Co-authored-by: Todd Gamblin <tgamblin@llnl.gov>
    Signed-off-by: Todd Gamblin <tgamblin@llnl.gov>
2024-05-07 09:32:40 -07:00
Massimiliano Culpo
05c1e7ecc2 Update the tutorial command to point to releases/v0.22 (#44056) 2024-05-07 17:56:29 +02:00
Massimiliano Culpo
f7afd67a26 Remove spurious ASP debug lines (#44051) 2024-05-07 11:28:38 +02:00
psakievich
d22bdc1c4e certs: fix interpolation and disallow relative paths (#44030) 2024-05-07 11:16:32 +02:00
Mikael Simberg
540f9eefb7 mold: Add 2.30.0 and 2.31.0 (#44034) 2024-05-07 10:41:13 +02:00
Massimiliano Culpo
2db5bca778 Warn users of the future removal of platform=cray (#43980) 2024-05-07 10:30:23 +02:00
Harmen Stoppels
bcd05407b8 llnl.util.tty.color._force_color: init in global scope (#44036)
Currently SPACK_COLOR=always is not respected in the build process on
macOS, because the global `_force_color` is re-evaluated in global scope
during module setup, where it is always `None`.

So, move global init bits from main.py to the module itself.
2024-05-07 09:49:46 +02:00
John W. Parent
b35ec605fe python-venv: use correct python name for which call (#44048) 2024-05-07 09:32:44 +02:00
Massimiliano Culpo
0a353abc42 Fix issues in packages with the new release of archspec (#44037) 2024-05-07 09:20:34 +02:00
Massimiliano Culpo
e178c58847 Respect requests when filtering reused specs (#44042)
Some specs which were excluded from reuse,
are currently added back to the solve when
we traverse dependencies of other reusable
specs.

This fixes the issue by keeping track of what
we can explicitly reuse.
2024-05-07 09:06:51 +02:00
Massimiliano Culpo
d7297e67a5 Maintenance for the "bootstrap" workflow in CI (#44031)
Removed a lot of duplication.

Fixed an issue in containers, leading to false negative
2024-05-07 08:49:53 +02:00
snehring
ee8addf04a neic-finitefault: adding new package and dependencies (#44032)
* neic-finitefault: adding new package
* py-obspy: adding new package
* py-okada-wrapper: adding new package
* py-pygmt: adding new package
* py-pyrocko: adding new package

---------

Signed-off-by: Shane Nehring <snehring@iastate.edu>
2024-05-06 15:45:32 -07:00
Jon Rood
fd3cd3a1c6 amr-wind: updates and fixes (#43993)
* Updates and fixes for AMR-Wind.

* Add versions and update openfast constraints.

* Style.

* Fix version.
2024-05-06 13:31:29 -06:00
Garth N. Wells
e585aeb883 (py)-fenics-dolfinx: version update (#44002)
* Update DOLFINx to v0.8
* Fix typo
2024-05-06 12:11:02 -07:00
James Taliaferro
1f43384db4 Add LSP client extension for Kakoune (#44000)
* new package: kakoune-lsp
* blacken
* add myself as a maintainer
2024-05-06 11:18:45 -07:00
Adam J. Stewart
814b328fca py-torchmetrics: add v1.4.0 (#44027) 2024-05-06 10:21:20 -07:00
Harmen Stoppels
125206d44d python: always use a venv (#40773)
This commit adds a layer of indirection to improve build isolation with 
and without external Python, as well as usability of environment views.

It adds `python-venv` as a dependency to all packages that `extends("python")`, 
which has the following advantages:

1. Build isolation: only `PYTHONPATH` is considered in builds, not 
   user / system packages
2. Stable install layout: fixes the problem on Debian, RHEL and Fedora where 
   external / system python produces `bin/local` subdirs in Spack install prefixes. 
3. Environment views are Python virtual environments (and if you add 
   `py-pip` things like `pip list` work)

Views work whether they're symlink, hardlink or copy type.

This commit additionally makes `spec["python"].command` return 
`spec["python-venv"].command`. The rationale is that packages in repos we do 
not own do not pass the underlying python to the build system, which could still 
result in incorrectly computed install layouts.

Other attributes like `libs`, `headers` should be on `python` anyways and need no change.
2024-05-06 16:17:35 +02:00
John W. Parent
a081b875b4 proj: patch for modern cmake (#43780) 2024-05-06 16:01:10 +02:00
Harmen Stoppels
a16ee3348b Do not cache indices in Gitlab (#44029) 2024-05-06 15:54:21 +02:00
Massimiliano Culpo
d654d6b1f4 Remove Fedora 37 and 38, Ubuntu 18 from CI (#44006) 2024-05-06 15:51:45 +02:00
Harmen Stoppels
9b4ca0be40 clingo bootstrap: remove 3.12 patch and concretizer workarounds (#44028) 2024-05-06 15:00:41 +02:00
Harmen Stoppels
dc71dcfdc2 bootstrap: lazy bootstrapping of clingo and GnuPG (#44026)
Currently bootstrapping from source fails because clingo requires gnupg
requires clingo.

This commit stops eager bootstrapping. We don't need `patchelf` nor `gnupg`
generally. They're bootstrapped when needed.
2024-05-06 14:02:39 +02:00
Greg Becker
1f31c3374c External package detection for compilers (#43464)
This creates shared infrastructure for compiler packages to implement the 
detailed search capabilities from the `spack compiler find` command for the 
`spack external find` command.

After this commit, `spack compiler find` can be replaced with 
`spack external find --tag compiler`, with the exception of mixed toolchains.
2024-05-06 10:33:33 +02:00
Massimiliano Culpo
27aeb6e293 Update vendored archspec to v0.2.4 (#44005) 2024-05-06 10:20:56 +02:00
Harmen Stoppels
715214c1a1 spack env create <env>: dir if dir-like (#44024)
A named env cannot contain `.` and `/`.

So when a user runs `spack env create ./here` do not error but treat it
as `spack env create -d ./here`.

Also fix help string of `spack env create`, which seems to have been
copied from `activate` incorrectly.
2024-05-06 02:00:23 -06:00
dependabot[bot]
b471d62dbd build(deps): bump black from 24.4.0 to 24.4.2 in /lib/spack/docs (#43878)
Bumps [black](https://github.com/psf/black) from 24.4.0 to 24.4.2.
- [Release notes](https://github.com/psf/black/releases)
- [Changelog](https://github.com/psf/black/blob/main/CHANGES.md)
- [Commits](https://github.com/psf/black/compare/24.4.0...24.4.2)

---
updated-dependencies:
- dependency-name: black
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2024-05-06 09:55:43 +02:00
Massimiliano Culpo
a5f62889ca archspec: add v0.2.4 (#44022) 2024-05-06 09:51:01 +02:00
Alec Scott
2a942d98e3 pkgconf: add v2.2.0 (#44008) 2024-05-06 09:31:41 +02:00
Alec Scott
4a4077d4ef rust: add v1.78.0 (#44012) 2024-05-06 09:30:34 +02:00