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Author SHA1 Message Date
Teague Sterling
6f5ba44431 perl-bioperl: add v1.6.924, v1.7.8, deprecate v1.007002, refactor dependeicies, update url (#46213) 
* perl-bioperl: add v1.6.924

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

* fix style

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

* perl-bioperl: add v1.6.924, v1.7.2, deprecate v1.007002, refactor dependencies

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

* perl-bioperl: add v1.7.8

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

* perl-bioperl: update url

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

* perl-bioperl: cleanup version urls

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

* remove v1.7.2

---------

Signed-off-by: Teague Sterling <teaguesterling@gmail.com>
 2024-09-10 11:36:43 +01:00
Harmen Stoppels
0905edf592 r: do not create dir in setup_dependent_package (#46282) 2024-09-10 09:04:09 +02:00
Harmen Stoppels
16dba78288 spec.py: dedent format logic (#46279) 2024-09-10 09:02:37 +02:00
Todd Gamblin
b220938d42 bugfix: elfutils has no bzip2 or xz variants (#46294) 
Signed-off-by: Todd Gamblin <tgamblin@llnl.gov>
 2024-09-10 06:20:39 +00:00
Mikael Simberg
78117877e0 boost: Refactor header-only install and add missing compiled libraries (#46281) 2024-09-10 08:16:47 +02:00
Harmen Stoppels
975f4fbf84 cmake: remove last occurrences of std_cmake_args globals (#46288) 2024-09-10 07:56:51 +02:00
AcriusWinter
dc853b2cf4 gptune: new test API (#45383) 
* gptune: new test API
* gptune: cleanup; finish API changes; separate unrelated test parts
* gptune: standalone test cleanup with timeout constraints
* gptune: ensure stand-alone test bash failures terminate; enable in CI
* gptune: add directory to terminate_bash_failures
* gptune/stand-alone tests: use satisifes for checking variants

---------

Co-authored-by: Tamara Dahlgren <dahlgren1@llnl.gov>
 2024-09-09 15:21:55 -07:00
Philipp Edelmann
69b628a3f0 makedepf90: new package (#45816) 
* makedepf90: new package

* reorder versions and dependencies
 2024-09-09 16:40:25 -05:00
David Collins
98fb9c23f9 numactl: Add versions 2.0.16-2.0.18 (#46150) 
* Add numactl 2.0.16-2.0.18

* Create link-with-latomic-if-needed-v2.0.16.patch

Add a link to libatomic, if needed, for numactl v2.0.16.

* Add some missing patches to v2.0.16

* Create numactl-2.0.18-syscall-NR-ppc64.patch

In short, we need numactl to set __NR_set_mempolicy_home_node on ppc64, if it's not already defined.

* Apply a necessary patch for v2.0.18 on PPC64

* Add libatomic patch for v2.0.16
 2024-09-09 14:33:13 -06:00
Pranav Sivaraman
d5e08abe46 py-poxy: add new package (#46214) 
* py-poxy: add new package
* py-poxy: depends on misk >= 0.8.1
 2024-09-09 12:19:54 -07:00
Harmen Stoppels
2f789f01d3 Revert "Set module variables for all packages before running setup_dependent_…" (#46283) 
This reverts commit 6f08db4631.
 2024-09-09 10:37:26 -07:00
Kevin Kuriakose
0229240df4 darshan-runtime: fix JOBID determination (#46148) 2024-09-09 10:53:15 -06:00
Harmen Stoppels
9059756a11 reindex: do not assume fixed layout (#46170) 
`spack reindex` relies on projections from configuration to locate
installed specs and prefixes. This is problematic because config can
change over time, and we have reasons to do so when turning compilers
into depedencies (removing `{compiler.name}-{compiler.version}` from
projections)

This commit makes reindex recursively search for .spack/ metadirs.
 2024-09-09 17:26:30 +02:00
Pierre Augier
67089b967e Add new package py-fluiddyn (#46235) 2024-09-09 09:47:44 -05:00
Mikael Simberg
98e35f7232 pika: Add conflict with fmt 11 and newer (#46280) 2024-09-09 14:30:32 +02:00
Teague Sterling
3ff441c5b0 perl-graphviz: add graphviz dependency (#46268) 
Signed-off-by: Teague Sterling <teaguesterling@gmail.com>
 2024-09-09 11:08:34 +02:00
Jordan Galby
2502a3c2b6 Fix regression in spec format string for indiviual variants (#46206) 
Fix a regression in {variants.X} and {variants.X.value} spec format strings.
 2024-09-09 10:42:04 +02:00
Adam J. Stewart
9bdc97043e PyTorch: unpin pybind11 dependency (#46266) 2024-09-09 08:42:09 +02:00
snehring
66ee4caeab nekrs: add v23.0, add new build system (#45992) 2024-09-09 07:32:14 +02:00
Eric Berquist
18218d732a intel-pin: add up to v3.31 (#46185) 2024-09-09 07:28:53 +02:00
Paul Ferrell
4c6b3ccb40 charliecloud: fix libsquashfuse dependency type (#46189) 
Should have been a link depenedency, not a build dependency.
 2024-09-09 07:26:20 +02:00
Satish Balay
1d9c8a9034 xsdk: add amrex variant (#46190) 
and remove compiler conditionals [as amrex conflict with clang no longer exists since #22967]
 2024-09-09 07:19:31 +02:00
AMD Toolchain Support
216619bb53 namd: variant updates (#45825) 
* Add missing variant, already used in recipe (avxtiles)

* Add memopt variant 

Co-authored-by: viveshar <vivek.sharma2@amd.com>
 2024-09-09 07:12:16 +02:00
Wouter Deconinck
47c771f03f assimp: add v5.4.3, enable testing (#46267) 2024-09-09 06:51:57 +02:00
Wouter Deconinck
c7139eb690 wayland-protocols: add v1.37 (#46269) 2024-09-09 06:50:30 +02:00
Wouter Deconinck
74ba81368a py-vector: add v1.5.1 (#46271) 2024-09-09 06:49:35 +02:00
Wouter Deconinck
ef11fcdf34 protobuf: patch @3.22:3.24.3 when ^abseil-cpp@20240116: (#46273) 2024-09-09 06:48:50 +02:00
Wouter Deconinck
c4f3348af1 (py-)onnx: add v1.16.2; onnx: enable testing (#46274) 2024-09-09 06:47:45 +02:00
Richard Berger
fec2f30d5a lammps: add 20240829 and 20230802.4 releases (#46131) 2024-09-09 06:46:12 +02:00
Wouter Deconinck
6af92f59ec xrootd: add v5.7.1 (#46270) 2024-09-09 06:45:15 +02:00
Pierre Augier
cb47c5f0ac Add package py-transonic (#46234) 2024-09-08 20:03:09 -05:00
Dom Heinzeller
32727087f1 Add patch vfile_cassert.patch for ecflow@5.11.4 (#46095) 2024-09-07 07:54:43 -06:00
Jen Herting
5f9c6299d1 [py-langsmith] added version 0.1.81 (#46259) develop-2024-09-08 2024-09-07 04:29:45 -06:00
Jen Herting
541e40e252 py-httpcore: add v1.0.5 (#46123) 
* py-httpcore: Added new version

* [py-httpcore]

- added version 0.18.0
- restructured dependencies as everything has a when and
  type/when ordering was all over the place

* [py-httpcore] ordered dependencies in the order listed in v1.0.5 pyproject.toml

---------

Co-authored-by: Alex C Leute <aclrc@rit.edu>
 2024-09-07 02:28:15 -06:00
Jen Herting
ddc8790896 [py-lpips] new package (#46256) 2024-09-06 18:54:51 -06:00
Jen Herting
7d6b643b58 [py-torch-fidelity] New package (#46257) 
* [py-torch-fidelity] New package
* [py-torch-fidelity] add patch to fix missing requirements.txt
 2024-09-06 18:54:36 -06:00
Dan Lipsa
6f08db4631 Set module variables for all packages before running setup_dependent_package (#44327) 
When a package is running `setup_dependent_package` on a parent, ensure
that module variables like `spack_cc` are available. This was often
true prior to this commit, but externals were an exception.

---------

Co-authored-by: John Parent <john.parent@kitware.com>
 2024-09-06 18:54:09 -06:00
eugeneswalker
7086d6f1ac use updated container with cmake@3.30.2 (#46262) 2024-09-06 18:48:45 -06:00
Robert Underwood
7a313295ac Sz3 fix (#46263) 
* Updated version of sz3
  Supercedes #46128
* Add Robertu94 to maintainers fo r SZ3

---------

Co-authored-by: Robert Underwood <runderwood@anl.gov>
 2024-09-06 14:35:55 -07:00
Jen Herting
3bdaaaf47c New package: py-monai (#46140) 
* New package: py-monai

* Fixed linked issues with py-monai

* [py-monai] removed extra line

* [py-monai]

- New version 1.3.2
- ran black
- update copyright

* [py-monai] added license

* [py-monai]

- moved build only dependencies
- specified newer python requirements for newer versions

---------

Co-authored-by: vehrc <vehrc@rit.edu>
 2024-09-06 15:19:12 -06:00
Massimiliano Culpo
a3fa54812f Remove deprecated config options (#44061) 
These options have been deprecated in v0.21, and
slated for removal in v0.23
 2024-09-06 15:14:36 -06:00
Kyle Gerheiser
afc9615abf libfabric: Add versions v1.22.0 and v1.21.1 (#46188) 
* Add libfabric v1.22.0 and v1.21.1

* Fix whitespace
 2024-09-06 14:21:41 -05:00
Adam J. Stewart
19352af10b GEOS: add v3.13.0 (#46261) 2024-09-06 12:17:41 -07:00
Robert Underwood
e4f8cff286 Updated version of sz3 (#46246) 
Supercedes #46128

Co-authored-by: Robert Underwood <runderwood@anl.gov>
 2024-09-06 12:15:03 -07:00
Sam Reeve
76df9de26a Update ExaCA backend handling and add version 2.0 (#46243) 
* Add exaca 2.0
* Add kokkos/cuda/hip backend support for exaca
 2024-09-06 14:53:21 -04:00
Auriane R.
983e7427f7 Replace if ... in spec with spec.satisfies in f* and g* packages (#46127) 
* Replace if ... in spec with spec.satisfies in f* and g* packages

* gromacs: ^amdfftw -> ^[virtuals=fftw-api] amdfftw

* flamemaster: add virtuals lapack for the amdlibflame dependency

---------

Co-authored-by: Wouter Deconinck <wdconinc@gmail.com>
 2024-09-06 13:22:19 -05:00
Adam J. Stewart
d9df520e85 py-pandas: relax build dependencies (#46229) 2024-09-06 11:19:49 -07:00
Adam J. Stewart
b51fd9f5a6 py-torchgeo: zipfile-deflate64 no longer required (#46233) 2024-09-06 11:18:10 -07:00
Robert Underwood
8058cd34e4 Require a newer version of cudnn for cupy (#46248) 
cupy 12 needs a newer version of cudnn as documented here.  Supercedes #46128

Co-authored-by: Robert Underwood <runderwood@anl.gov>
 2024-09-06 10:56:46 -07:00
Robert Underwood
2f488b9329 Use an HTTP git url for libpressio-opt (#46249) 
superceds #46128

Co-authored-by: Robert Underwood <runderwood@anl.gov>
 2024-09-06 10:43:23 -07:00