Commit graph

29627 commits

Author SHA1 Message Date
psakievich
b8d15e816b
Allow users to specify root env dir (#32836)
* Allow users to specify root env dir

Environments managed by spack have some advantages over anonymous Environments
but they are tucked away inside spack's directory tree. This PR gives
users the ability to specify where the environments should live.

See #32823

This is also taken as an opportunity to ensure that all references are to "managed environments",
rather than "named environments". Prior to this PR some references to the latter persisted.

Co-authored-by: Tom Scogland <scogland1@llnl.gov>
Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
Co-authored-by: Gregory Becker <becker33@llnl.gov>
2023-02-22 00:37:14 +00:00
Cameron Rutherford
0a233ce83a
ExaGO 1.5.1 release (#35595)
* Update exago w/ 1.5.1 and small updates to hiop.
* Fix styling.
* Add RAJA back to ExaGO package.
* Update RAJA requirement for ExaGO and HiOp.
* Update last RAJA requirement in HiOp.
2023-02-21 14:56:59 -08:00
G-Ragghianti
27ee08f5bb
Package slate: Improved MPI launcher search for smoke tests (#35448)
* Improved MPI launcher search for smoke tests
* Improving mpi launcher search
* Removing redundant logic
2023-02-21 13:10:01 -08:00
Massimiliano Culpo
cb4c60c709
Revert "Disable module generation by default (#35564)" (#35603)
This reverts commit 5b8917188a.
2023-02-21 21:53:07 +01:00
Wouter Deconinck
8e84dcd7ef
root: new version 6.28.00 (#35556)
* root: new version 6.28.00
  Full changelog: https://github.com/root-project/root/compare/v6-26-10...v6-28-00
  Based on the CMakeLists.txt file, no major build system changes. Upgraded requirements for cmake added.
* root: variant jemalloc deprecated
* root: rm define gsl_shared because unused
  "`gsl_shared` is unused" per https://github.com/root-project/root/pull/12203 (and has always been unused)
* [@spackbot] updating style on behalf of wdconinc

---------

Co-authored-by: wdconinc <wdconinc@users.noreply.github.com>
2023-02-21 12:20:46 -08:00
MicK7
447ad2a3e3
Add new sphinx rtd theme release 1.2.0 (#35579)
* Add new sphinx rtd theme release 1.2.0

The new release helps with supporting more recent version of docutils

* set docutils officially supported version

* add jquery dependency for sphinx-rtd-theme

* add conflict with jquery version

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

* correct dependency

* fix version dependency

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

* set sphinx version

* fix sha256

* add version for flit-core

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

---------

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-02-21 11:53:21 -08:00
Adam J. Stewart
6f65ff4952
py-nbmake: add new versions (#35591) 2023-02-21 11:46:43 -08:00
Adam J. Stewart
16adda3db9
py-jax: add v0.4.3 (#35460)
* py-jax: add v0.4.3

* Minimum version is minimum

* py-jax no longer has cuda variant

* Enable CUDA by default

* Link to discussion of upper bound
2023-02-21 13:14:27 -06:00
Oliver Perks
cddef35ef8
cmake: changed the regex to search for externals (#31688) 2023-02-21 17:29:14 +01:00
Rocco Meli
1636c89aba
Add pyedr and panedr (#35576)
* add pyedr

* black

* add panedr

* Update var/spack/repos/builtin/packages/py-pyedr/package.py

* Update var/spack/repos/builtin/packages/py-panedr/package.py

* Update var/spack/repos/builtin/packages/py-pyedr/package.py

* Update var/spack/repos/builtin/packages/py-pyedr/package.py

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

* Update var/spack/repos/builtin/packages/py-pyedr/package.py

* Update var/spack/repos/builtin/packages/py-panedr/package.py

---------

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-02-21 09:55:19 -06:00
Alec Scott
9110f5dfb6
ant: add v1.10.13 and deprecate previous versions due to CVE (#35572) 2023-02-21 15:18:07 +01:00
Harmen Stoppels
bc24a8f290
Spec.satisfies should be commutative when strict=False (#35598)
The call:
```
x.satisfies(y[, strict=False])
```
is commutative, and tests non-empty intersection, whereas:
```
x.satsifies(y, strict=True)
```
is not commutative, and tests set-inclusion.

There are 2 fast paths. When strict=False both self and other need to 
be concrete, when strict=True we can optimize when other is concrete.
2023-02-21 14:30:47 +01:00
simon-Leary42
33bf1fd033
nonexistent module concise error message (#35502) 2023-02-21 04:50:56 -08:00
Harmen Stoppels
5b8917188a
Disable module generation by default (#35564)
a) It's used by site administrators, so it's niche
b) If it's used by site administrators, they likely need to modify the config anyhow, so the default config only serves as an example to get started
c) it's too arbitrary to enable tcl, but disable lmod
2023-02-21 10:00:37 +01:00
luker
fbd5c5c2cd
superlu-dist: extend when to apply a patch (#32985) 2023-02-21 07:41:59 +01:00
Massimiliano Culpo
55e3026152
ccls: add v0.20220729 (#35593) 2023-02-21 07:13:58 +01:00
Massimiliano Culpo
874f76e45e
mvapich2: update checksum (#35587)
See #29340

Co-authored-by: Nat Shineman <shineman.5@buckeyemail.osu.edu>
2023-02-21 06:55:11 +01:00
Thomas Madlener
ebc24b7063
dd4hep: extend conflict on CMake (#27125) 2023-02-20 21:33:11 -08:00
Adam J. Stewart
ce9f8143cc
Fix view support for optional Python extensions (#35489)
Co-authored-by: Harmen Stoppels <harmenstoppels@gmail.com>
2023-02-20 11:58:28 -08:00
Harmen Stoppels
c1ff7bbf04
environment views: better, earlier error on clash (#35541)
Spack generally ignores file-file projection clashes in environment
views, but would eventually error when linking the `.spack` directory
for two specs of the same package.

This leads to obscure errors where users have no clue what the issue is
and how to fix it. On top of that, the error comes very late, since it
happens when the .spack dir contents are linked (which happens after
everything else)

This PR improves that by doing a quick check ahead of time if clashes
are going to be anticipated (by simply checking for clashes in the
projection of each spec's .spack metadir). If there are clashes, a
human-readable error is thrown which shows two of the conflicting specs,
and tells users to user unify:true, view:false, or set up custom
projections.
2023-02-20 19:14:27 +01:00
Rocco Meli
aa708c8981
Add pytng (#35575)
* add pytng

* black

* add setuptools

* fix

* Update var/spack/repos/builtin/packages/py-pytng/package.py

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

* Update var/spack/repos/builtin/packages/py-pytng/package.py

* Update var/spack/repos/builtin/packages/py-pytng/package.py

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

---------

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-02-20 11:15:19 -06:00
simonleary-umass-edu
712d358f7e
apptainer use the --with-suid configure option (#35513) 2023-02-20 17:39:28 +01:00
Ben Wibking
e8238fe330
Patchel shutil.copystat to avoid PermissionError on Lustre (#27247) 2023-02-20 17:28:03 +01:00
Alec Scott
e8a19aa089
Add Alluxio v2.9.1 and deprecate previous versions due to CVE (#35574) 2023-02-20 07:54:45 -08:00
Alec Scott
4a844a971a
httpd: add v2.4.55 and deprecate previous versions due to CVE-2022-31813 (#35571) 2023-02-20 07:35:16 -08:00
Harmen Stoppels
5e337d907b
spack ci: remove 120s db timeout since 60s is the default now (#35566) 2023-02-20 14:41:26 +01:00
Harmen Stoppels
208c9585b8
Revert "lib/spack/spack/store.py: Fix #28170 for padding relocation (#33122)" (#35077)
This reverts commit c721aab006.
2023-02-20 13:56:11 +01:00
Alec Scott
1ae4ca611e
Add restic v0.15.1 (#35563) 2023-02-20 12:53:10 +01:00
Alec Scott
54eddb2301
Add py-python-lsp-server v1.7.1 (#35561) 2023-02-20 12:52:55 +01:00
Alec Scott
01dafb8047
Add activemq v5.17.3 and deprecate previous version due to CVE (#35573) 2023-02-20 12:49:54 +01:00
Greg Becker
6ef2c33b0e
scale mpi dependency is incorrect (#35385) 2023-02-20 02:49:38 -08:00
Paul Kuberry
beddf4dcc4
xyce: add patch for pymi parameter merge and add maintainer (#35421)
* xyce: add maintainer

* xyce: add patch for pymi parameter merge
2023-02-20 11:37:17 +01:00
Alec Scott
e143065448
Add go v1.20.1, 1.19.6 and un-deprecate previous versions without CVEs (#35560) 2023-02-20 11:33:07 +01:00
Patrick Bridges
9d9ea07424
Fix kokkos package.py to filter spack wrappers in launch compiler and cmake configs (#35494)
Kokkos when compiled by spack without +wrapper could potentially capture the spack compiler wrappers, resulting in cmake configs and kokkos_launch_compiler trying to run the spack compiler wrapper after installation.
2023-02-20 01:23:37 -08:00
elenimath
c769582709
Pass tests argument to solver method when concretizing together (#35290)
to make the workaround for #29447 work with `concretizer:unify:true` option
2023-02-20 10:21:24 +01:00
Sebastian Ehlert
1958c2f986
Update xtb 6.6.0 (#35436) 2023-02-20 10:17:32 +01:00
Rocco Meli
3016da79fe
Add GNINA and related packages (#35439) 2023-02-20 10:14:00 +01:00
Adam J. Stewart
0500a3cec0
py-torchbenchmark: add new package (#35443) 2023-02-20 10:12:20 +01:00
Emil Briggs
313797e3d4
Update for v5.0.4 release. (#35511) 2023-02-20 09:52:38 +01:00
Wouter Deconinck
ae189cfab8
geant4: new version 11.1.1 (#35528)
Bugfix release only. No changes in build system.
2023-02-20 09:47:13 +01:00
Wouter Deconinck
7c09ab174b
acts: new versions 23.1.0, 23.2.0, 23.2.1 (#35540)
* acts: new versions 23.1.0, 23.2.0, 23.2.1

- https://github.com/acts-project/acts/compare/v23.0.0...v23.1.0: no changes needed to package.py
- https://github.com/acts-project/acts/compare/v23.1.0...v23.2.0: no changes needed to package.py
- https://github.com/acts-project/acts/compare/v23.2.0...v23.2.1: no changes needed to package.py

* actsvg: new versions 0.4.27, 0.4.28 (and updated list_url)

* acts: depends_on actsvg@0.4.28: when acts@23.2: +svg

* autodiff: new version 0.6.5-0.6.12 (and list_url fix)

* vecmem: new versions 0.13.0-0.22.0 (and list_url fix)
2023-02-20 09:42:58 +01:00
Wouter Deconinck
c14b6b80cc
clhep: new versions 2.4.6.2, 2.4.6.3, 2.4.6.4 (#35542)
Mostly minor changes in random and support for c++20. No build system changes needed.

Ref: https://gitlab.cern.ch/CLHEP/CLHEP/-/compare/CLHEP_2_4_6_2...CLHEP_2_4_6_4
2023-02-20 09:41:43 +01:00
Wouter Deconinck
899d2708a3
lhapdf: new versions 6.5.2, 6.5.3 (#35543)
https://gitlab.com/hepcedar/lhapdf/-/compare/lhapdf-6.5.3...lhapdf-6.5.1: bugfixes only
2023-02-20 09:41:26 +01:00
Wouter Deconinck
5ccc2e1a8e
whizard: new version 3.1.0 (#35550)
https://gitlab.tp.nt.uni-siegen.de/whizard/public/-/compare/v3.0.3...v3.1.0, no changes to package.py needed.
2023-02-20 09:40:23 +01:00
Adam J. Stewart
7c01d3ba35
Fix broken links in docs (#35582) 2023-02-20 09:21:18 +01:00
Thomas Bouvier
81f11d5562
py-pyarrow: fix build environment (#35567)
* `py-pyarrow`: fix build environment

* Use `satisfies()` for specs
2023-02-19 12:48:14 -08:00
Adam J. Stewart
747f032ec2
pandoc: disable texlive variant by default (#35569) 2023-02-19 13:22:51 +01:00
Alec Scott
97ea182ee0
hugo: add v0.110.0, v0.108.0, v0.107.0 (#35562) 2023-02-19 00:19:11 +01:00
Harmen Stoppels
011c28a538
openblas: fix prereqs / make race (#35395)
Fix a race in the makefile where the shared lib was built before the
object files were available.

See https://github.com/xianyi/OpenBLAS/issues/3899
2023-02-18 12:27:34 -08:00
Harmen Stoppels
86320eb569
Improve error handling in buildcache downloads (#35568)
The checksum exception was not detailed enough and not reraised when using cache only, resulting in useless error messages.

Now it dumps the file path, expected
hash, computed hash, and the downloaded file summary.
2023-02-18 19:22:48 +01:00