Tom Payerle
561fe13bad
cgal: add v5.3.2 ( #42378 )
2024-02-05 12:08:27 +01:00
George Young
c15ed38cef
star: updating to 2.7.11a ( #42011 )
...
Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2024-02-05 12:06:01 +01:00
David Boehme
fa4568d9c9
kripke: add adiak dependency with Caliper enabled ( #42414 )
2024-02-05 11:17:24 +01:00
Nathalie Furmento
ef4f78a6cd
starpu: add release 1.4.4 ( #42446 )
2024-02-05 11:12:50 +01:00
Adam J. Stewart
da36d069db
py-lightly: fix conflict definition ( #42449 )
2024-02-05 11:11:23 +01:00
Cameron Rutherford
6ff3e17a7d
hiop: require RAJA when cuda is enabled ( #42407 )
2024-02-05 11:04:08 +01:00
snehring
bb200be57d
sentieon-genomics: add new version 202308.02 ( #42465 )
2024-02-05 11:01:00 +01:00
Olivier Cessenat
a238563fdb
mpfr: add v4.2.1 ( #42479 )
2024-02-05 02:59:22 -07:00
Adam J. Stewart
bfc6f1d2a9
py-lightning: add v2.1.4 ( #42468 )
2024-02-05 10:59:00 +01:00
Olivier Cessenat
99b8a08366
stripack: sets the licence SPDX ( #42473 )
2024-02-05 10:45:23 +01:00
Olivier Cessenat
dba5ae939d
visit-ffp and visit-unv: sets the licence SPDX ( #42474 )
2024-02-05 10:42:07 +01:00
Olivier Cessenat
7a4aa823d1
ngspice: new version 42 ( #42475 )
2024-02-05 10:41:06 +01:00
Olivier Cessenat
89e387cb67
latex2html: new version 2024 ( #42476 )
2024-02-05 10:38:24 +01:00
Olivier Cessenat
19c46de69f
nlopt: new version 2.7.1 ( #42477 )
2024-02-05 10:27:01 +01:00
Michael Kuhn
e35fbfab77
gtkplus: add v3.24.41 and fix CUPS problems ( #42480 )
...
Fixes #42297
2024-02-05 10:23:57 +01:00
Massimiliano Culpo
478203dc68
asio: remove self-referential dependencies ( #42469 )
...
These shouldn't be an issue, but they can be expressed
in terms of variants on the package.
2024-02-05 10:10:58 +01:00
Massimiliano Culpo
5713ffd143
converge: fix self-referential dependencies ( #42471 )
2024-02-05 10:03:20 +01:00
Elsa Gonsiorowski, PhD
1711b6dee1
scr: fix @develop dependency versions ( #42379 )
2024-02-05 09:15:19 +01:00
Massimiliano Culpo
7fbd4afaaa
cp2k: fix self-referential dependencies ( #42472 )
2024-02-05 09:12:47 +01:00
Massimiliano Culpo
f396dbcb4f
berkeleygw: fix self-referential dependencies ( #42470 )
...
Also, remove a couple of duplicate directives
2024-02-05 09:04:32 +01:00
David Guibert
57fe3430fd
py-pymummer: init ( #42412 )
...
* py-pymummer: init
* Update py-pymummer copyright date
Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
---------
Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2024-02-04 06:27:46 -07:00
snehring
8428bef040
py-ete3: adding version 3.1.3 ( #42462 )
2024-02-04 06:12:19 -06:00
George Young
47c91c9163
ldsc: new package @2.0.1 ( #42430 )
...
Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
2024-02-04 06:06:45 -06:00
David Guibert
6c57360eac
py-pyfastaq: init ( #42413 )
2024-02-04 05:50:44 -06:00
George Young
624292d685
sicer2: new Python package @1.0.3 ( #42383 )
...
Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
2024-02-04 05:17:27 -06:00
Mike Renfro
55ecc47dce
fix ipyrad numpy dependencies ( #42098 )
...
* fix ipyrad numpy depedencies
ipyrad versions through 0.9.90 use np.int, which is deprecated in numpy 1.20.
* fix whitespace
* Correct numpy dependency restrictions
2024-02-04 05:16:22 -06:00
Massimiliano Culpo
f2125882c5
flecsi: fix constraints on mpi providers ( #42447 )
2024-02-03 12:11:03 +01:00
Massimiliano Culpo
d23cb39a3f
quantum-espresso: fix self-referential dependencies ( #42458 )
2024-02-03 12:09:42 +01:00
Mosè Giordano
7f7d5b899a
py-alphafold: use permanent link for openmm patch ( #42461 )
2024-02-03 11:07:16 +01:00
Harmen Stoppels
c44e854d05
Environment views: dependents before dependencies, resolve identical file conflicts ( #42350 )
...
Fix two separate problems:
1. We want to always visit parents before children while creating views
(when it comes to ignoring conflicts, the first instance generated in
the view is chosen, and we want the parent instance to have precedence).
Our preorder traversal does not guarantee that, but our topological-
order traversal does.
2. For copy style views with packages x depending on y, where
<x-prefix>/foo is a symlink to <y-prefix>/foo, we want to guarantee
that:
* A conflict is not registered
* <y-prefix>/foo is chosen (otherwise, the "foo" symlink would become
self-referential if relocated relative to the view root)
Note that
* This is an exception to [1] (in this case the dependency instance
overrides the dependent)
* Prior to this change, if "foo" was ignored as a conflict, it was
possible to create this self-referential symlink
Add tests for each of these cases
2024-02-03 11:05:45 +01:00
John W. Parent
8fa8dbc269
Sqlite package: export api symbols on Windows ( #42299 )
...
* Sqlite requires the user to provide a command line arg (DYNAMIC_SHELL)
to export shared symbols to import lib from .def
* Add other options recommended by Sqlite docs:
https://github.com/sqlite/sqlite/blob/master/doc/compile-for-windows.md
* Some of these options mean we can restore variants that were
disabled for Windows (fts, functions, rtree).
2024-02-02 13:27:53 -08:00
jalcaraz
e59303d4ff
tau: update test functions ( #42432 )
...
* Updated with generic test functions
* Added level_zero test
As the compiler is not installed by TAU, it should be loaded first and run with --dirty. Will check if there is a way to make it work without --dirty.
* Update var/spack/repos/builtin/packages/tau/package.py
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
---------
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2024-02-02 11:12:24 -08:00
Massimiliano Culpo
494d943a24
ascent: fix self-referential dependencies ( #42457 )
2024-02-02 19:25:56 +01:00
kwryankrattiger
d227da5554
CI: Call timing script in after_script ( #42166 )
...
The main script body is over-written for power. Putting thet timing
aggregation in the after script allows it to be called on all of the
current pipelines.
2024-02-02 12:02:46 -06:00
Olivier Cessenat
714590426f
astyle: new version 4.1.11 and build using cmake ( #42390 )
...
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2024-02-02 18:58:27 +01:00
Massimiliano Culpo
9ffe179934
acts: fix self-referential dependencies ( #42455 )
2024-02-02 18:34:34 +01:00
dependabot[bot]
9c4e44a0ad
build(deps): bump codecov/codecov-action from 4.0.0 to 4.0.1 ( #42439 )
...
Bumps [codecov/codecov-action](https://github.com/codecov/codecov-action ) from 4.0.0 to 4.0.1.
- [Release notes](https://github.com/codecov/codecov-action/releases )
- [Changelog](https://github.com/codecov/codecov-action/blob/main/CHANGELOG.md )
- [Commits](f30e4959ba...e0b68c6749
2024-02-02 12:20:29 +01:00
dependabot[bot]
1ef69a8bfb
build(deps): bump python-levenshtein in /lib/spack/docs ( #42440 )
...
Bumps [python-levenshtein](https://github.com/rapidfuzz/python-Levenshtein ) from 0.23.0 to 0.24.0.
- [Release notes](https://github.com/rapidfuzz/python-Levenshtein/releases )
- [Changelog](https://github.com/rapidfuzz/python-Levenshtein/blob/main/HISTORY.md )
- [Commits](https://github.com/rapidfuzz/python-Levenshtein/compare/v0.23.0...v0.24.0 )
---
updated-dependencies:
- dependency-name: python-levenshtein
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>
2024-02-02 12:20:02 +01:00
Massimiliano Culpo
55db090206
Extract low-level clingo wrappers from spack.solver.asp ( #42429 )
2024-02-02 12:19:38 +01:00
Matthew Whitlock
f8ce84860c
Update packages_yaml.rst ( #42438 )
...
Fix an incorrect example.
2024-02-02 11:05:26 +01:00
Mosè Giordano
795360fe48
openmm: Apply patch use FindCUDAToolkit ( #42437 )
2024-02-02 11:04:03 +01:00
Axel Huebl
3d3d075496
WarpX: Disable CCache ( #42434 )
...
https://github.com/ECP-WarpX/WarpX/pull/4637
2024-02-02 11:02:00 +01:00
Frédéric Simonis
35630c219d
preCICE: add v3.0.0 ( #42426 )
...
* preCICE: add version 3.0.0
* preCICE: add version conflict for libxml2 2.12.x
2024-02-01 22:56:18 -07:00
stefanfechter
5ef9bb7752
Bugfix: fix build of xforms ( #35391 )
...
This additional patch fixes the build of the now unmaintained library
xforms.
2024-02-01 13:07:57 -08:00
kjrstory
5bd5a219a6
Add algorithmic differentiation packages for SU2 ( #39975 )
...
* Add algorithmic differentiation packages for SU2
* Simplify checking boolean variants
* spack prefix and spec satisfies methos fix
* spelling fix
* style fix
2024-02-01 13:01:35 -08:00
fpruvost
c1450d26ff
Add new package Qrmumps ( #42393 )
2024-02-01 13:00:14 -08:00
Weiqun Zhang
10d826597a
amrex: add v24.02 ( #42431 )
2024-02-01 12:23:51 -07:00
Adam J. Stewart
00cbcd5dbc
py-lightly: add v1.4.25 ( #42421 )
2024-02-01 11:54:01 -07:00
George Young
6bd8fda597
foldseek: new package @8 ( #42422 )
...
Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
2024-02-01 11:33:28 -07:00
Rémi Lacroix
8b88255b43
pv: Add version 1.8.5. ( #42419 )
...
Switch to "tar.gz" source packages as the "tar.bz2" archives are not available for newer versions.
2024-02-01 09:54:53 -08:00
