Commit graph

26719 commits

Author SHA1 Message Date
Jen Herting
875b032151
[py-tensorflow-hub] full_index=1 caused checksum change (#31585) 2022-07-14 11:47:30 -07:00
snehring
c7e49ea5a0
interproscan: new version 5.56-89.0 (#31565)
* interproscan: new version 5.56-89.0

* interproscan: add maintainer
2022-07-14 09:53:12 -07:00
Adam J. Stewart
a1f07b68a8
py-statsmodels: add v0.13.2 (#31571) 2022-07-14 09:30:43 -07:00
Axel Huebl
c4efeab976
ADIOS2: 2.8.2 (#31564)
Add the latest ADIOS2 release.
2022-07-14 03:17:38 -06:00
Peter Scheibel
7741bfb7d1
Decompression: use tar exe vs. built-in Python tarfile support (#31563)
Python's built-in tarfile support doesn't address some general
cases of malformed tarfiles that are already handled by the system
'tar' utility; until these can be addressed, use that exclusively.
2022-07-13 14:12:21 -07:00
Stephen Sachs
d25315c2f6
Add package py-devito and it's dependencies (#31495)
* [py-devito] Add package

Also add dependencies:
- py-nbval
- py-cgen
- py-codepy
- py-contexttimer
- py-pyrevolve

* [py-devito] Fix some typos

* [py-devito] Fix: include examples directory

Upstream issue: https://github.com/devitocodes/devito/issues/1954

* [py-devito] clean up

* [py-devito] clean up dependency packages

* [py-devito] flake8: line too long

* Address @adamjstewart comments

* Make flake8 happy

Co-authored-by: Stephen Sachs <stesachs@amazon.com>
2022-07-13 13:12:28 -07:00
Jonathon Anderson
8e00aa7c79
m4: Add build dependency on diffutils (#31232) 2022-07-13 22:02:17 +02:00
Adam J. Stewart
752697add2
GDAL: CMake support and dependency variants (#31197)
Add support for CMake builds while preserving autotools support
for older versions of GDAL

* Add GDAL 3.5.0
* Remove GDAL 1
* Add support for new CMake build system
* Change defaults to build all recommended dependencies
* Simplify Autotools flag handling
* Determine version range for drivers
2022-07-13 11:58:39 -07:00
Ben Darwin
f7ed9092e5
ants: add version 2.4.0 (#31562) 2022-07-13 17:35:04 +00:00
Emil Briggs
5da8bae2a9
Add versions 4.3.0 and 4.3.1. Update boost reqs with component/versions. (#31559) 2022-07-13 10:08:29 -07:00
Erik Schnetter
a78e8bc54e
mpitrampoline: New version 4.1.2 (#31560) 2022-07-13 10:06:04 -07:00
Chris White
cdf541ac4a
Cppcheck: fix install and convert to cmake build system (#31488)
* fix cppcheck install and convert to cmake build system

* add white238 as a maintainer
2022-07-13 07:32:48 -07:00
Rémi Lacroix
0e783b2c47
ghostscript-fonts: fix URL (#31360) 2022-07-13 10:11:22 +02:00
H. Joe Lee
9c5ef2aafe
Hermes: add v0.7.0-beta, remove older versions (#31544) 2022-07-13 09:25:45 +02:00
Vicente Bolea
1f7ee4957b
vtk-m: add v1.8.0 (#31220) 2022-07-13 09:21:56 +02:00
Elizabeth Sherrock
6fbb01fe31
py-ford: add v6.1.13 (#31483) 2022-07-13 09:19:23 +02:00
Adam J. Stewart
a36c05068f
Open3D: fix build with external fmt (#31547) 2022-07-13 09:17:07 +02:00
Adam J. Stewart
16e079aa52
py-pytorch-lightning: add v1.6.5 (#31548) 2022-07-13 09:07:52 +02:00
Marco De La Pierre
79f67ba92b
Tower Agent / Tower CLI: new packages (#31539) 2022-07-13 09:05:03 +02:00
Massimiliano Culpo
7f2b5e8e57
spack.repo.get() can only be called on concrete specs (#31411)
The goal of this PR is to make clearer where we need a package object in Spack as opposed to a package class.

We currently instantiate a lot of package objects when we could make do with a class.  We should use the class
when we only need metadata, and we should only instantiate and us an instance of `PackageBase` at build time.

Modifications:
- [x] Remove the `spack.repo.get` convenience function (which was used in many places, and not really needed)
- [x] Use `spack.repo.path.get_pkg_class` wherever possible
- [x] Try to route most of the need for `spack.repo.path.get` through `Spec.package`
- [x] Introduce a non-data descriptor, that can be used as a decorator, to have "class level properties"
- [x] Refactor unit tests that had to be modified to reduce code duplication
- [x] `Spec.package` and `Repo.get` now require a concrete spec as input
- [x] Remove `RepoPath.all_packages` and `Repo.all_packages`
2022-07-12 19:45:24 -04:00
Seth R. Johnson
6ceb274de0
trilinos: add new release 13.4.0 and use sha256 instead of commit hashes (#31277) 2022-07-12 14:57:39 -06:00
Richard Berger
8e25fd4f16
spiner: update dependencies (#31486) 2022-07-12 11:16:34 -07:00
Adam J. Stewart
3fc8c3d18b
py-nbmake: add v1.3.0; py-nbclient: add v0.6.6, 0.5.13; py-traitlets: add v5.3.0 (#31513)
* py-nbmake: add v1.3.0

* Add newer versions
2022-07-12 11:03:40 -07:00
Carlos Bederián
bfe058aa57
amdblis: add 3.2 (#31518) 2022-07-12 10:40:54 -07:00
Carlos Bederián
45b77a2215
amdlibflame: add 3.2 (#31519) 2022-07-12 10:37:26 -07:00
Carlos Bederián
7dd22e93c6
amdfftw: add 3.2 (#31520) 2022-07-12 10:24:59 -07:00
nicolas le goff
cdb7c7a1db
fixed the cgal recipe and added the latest release. (#31523)
* fixed the cgal recipe and added the latest release.

* Update var/spack/repos/builtin/packages/cgal/package.py

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

* updated cgal recipe to new URL for tarballs

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2022-07-12 09:04:51 -07:00
Harmen Stoppels
ea91e8f4ca
file_cache.py: idempotent remove without races (#31477)
There's a race condition in `remove()` as the lockfile is removed after
releasing the lock, which is a problem when another process acquires a
write lock during deletion.

Also simplify life a bit in multiprocessing when a file is possibly
removed multiple times, which currently is an error on the second
deletion, so the proposed fix is to make remove(...) idempotent and not
error when deleting non-existing cache entries.

Don't tests for existence of lockfile, cause windows/linux behavior is different
2022-07-12 15:03:48 +00:00
Harmen Stoppels
74e2625dcf
compression.py: buffered copy (#31533) 2022-07-12 16:49:59 +02:00
RichardABunt
a4f0522468
arm-forge: add 22.0.2 and 22.0.3. (#31432) 2022-07-12 16:21:07 +02:00
Marco De La Pierre
ff67e10f60
lammps package: added fftw_precision variant (#31459) 2022-07-12 16:14:58 +02:00
Axel Huebl
c8931e390a
WarpX: 22.07 (#31508)
Update `warpx` & `py-warpx` to the latest release, `22.07`.
2022-07-12 16:13:51 +02:00
Harmen Stoppels
b2c519470b
environment.py: only acquire write lock when necessary (#31493) 2022-07-12 16:12:43 +02:00
marcosmazz
9087224e04
OpenMX: add v3.9 (#31466)
Co-authored-by: Marcos Mazzini - <mmazzini@serafin.ccad.unc.edu.ar>
2022-07-12 15:44:02 +02:00
Stephen Sachs
110a35a520
py-gevent: deprecated compiler flags (#31469)
Co-authored-by: Stephen Sachs <stesachs@amazon.com>
2022-07-12 15:23:26 +02:00
miheer vaidya
ea9151b2a5
abseil: add v20220623 (#31507) 2022-07-12 15:21:31 +02:00
Nicholas Brunhart-Lupo
9708afc3b3
amr-wind: add "ascent" variant (#31376) 2022-07-12 14:38:24 +02:00
Harmen Stoppels
d904a789d5
env depfile: add missing touch (#31494)
Oversight in #31433, the non-phony `env` target was missing a file being
created for it, which can cause make to infinitely loop when including
multiple generated makefiles.
2022-07-12 14:16:31 +02:00
Erik Schnetter
7917f87c63
cuda: New version 11.5.2 (#31463) 2022-07-12 13:52:12 +02:00
dependabot[bot]
e33a57ab65
build(deps): bump actions/setup-python from 4.0.0 to 4.1.0 (#31526)
Bumps [actions/setup-python](https://github.com/actions/setup-python) from 4.0.0 to 4.1.0.
- [Release notes](https://github.com/actions/setup-python/releases)
- [Commits](d09bd5e600...c4e89fac7e)

---
updated-dependencies:
- dependency-name: actions/setup-python
  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>
2022-07-12 13:50:30 +02:00
Mark W. Krentel
7f830295ae
hpcviewer: add v2022.06 (#31532) 2022-07-12 13:41:13 +02:00
Massimiliano Culpo
89b8d33d05
Remove os.getcwd from function signature (#31480)
fixes #29730

This is also wrong since it binds the directory at the time
of module import, rather than the one at the time of function
call.
2022-07-12 10:08:37 +02:00
Jonathon Anderson
25f198aa91
Sanitize ownership when extracting tarfiles (#31524) 2022-07-12 09:28:24 +02:00
Adam J. Stewart
5bd1074afb
py-hatchling: add new packages, document new build backend (#31512)
* py-hatchling: add new package, document new build backend

* Minor doc changes

Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>

Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2022-07-11 16:23:28 -07:00
Michael Kuhn
18b51e19df
glib: add 2.72.3 (#31516) 2022-07-11 17:09:43 -06:00
renjithravindrankannath
21822f233c
Fix for sanity check failure in spack upstream code: atmi, hip-rocclr (#31454)
* Fix for sanity check failure in spack upstream code

* Style check failure correction

* Correction as per the review comments
2022-07-11 15:01:47 -07:00
Keita Iwabuchi
5f7f8ce1eb
Metall package: add v0.21 (#31482)
* Metall package: add dependency to GCC for build test

* Package Metall: add v.017

* Package Metall: update the package file

* Update var/spack/repos/builtin/packages/metall/package.py

Co-authored-by: Bernhard Kaindl <43588962+bernhardkaindl@users.noreply.github.com>

* Metall package: add v0.18 and v0.19

* Metall Package: add v0.20

* Metall package: add v0.21

Co-authored-by: Bernhard Kaindl <43588962+bernhardkaindl@users.noreply.github.com>
2022-07-11 14:54:57 -07:00
Richard Berger
ac09607a5a
ports-of-call: new version 1.2.0, simplify (#31485) 2022-07-11 14:53:36 -07:00
miheer vaidya
e0bbf26f1f
[cppcodec] new package (#31506) 2022-07-11 14:11:24 -07:00
Adam J. Stewart
1d827a9ff6
py-mypy: add v0.961 (#31503) 2022-07-11 12:34:09 -07:00