Commit graph

29652 commits

Author SHA1 Message Date
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
Adam J. Stewart
ba0cff1831
py-gpytorch: add v1.7.0 (#31504) 2022-07-11 12:30:58 -07:00
Adam J. Stewart
12699787e7
py-numpy: add v1.23.1 (#31510)
* py-numpy: add v1.23.1

* Remove packaging dep
2022-07-11 10:47:20 -07:00
Adam J. Stewart
c020894f36
py-torchgeo: add v0.3.0 (#31514) 2022-07-11 10:10:30 -07:00
Carlos Bederián
05a32b5cf5
ucx: add 1.13.0 (#31517) 2022-07-11 10:06:33 -07:00
Michael Kuhn
359d094528
julia: fix patch (#31515) 2022-07-11 16:13:47 +02:00
Harmen Stoppels
92dfe7f25b
man-db: Don't use DESTDIR (#31492) 2022-07-10 21:41:55 +02:00
Erik Schnetter
2159ce036e
openssl: New version 1.1.1q (#31487) 2022-07-08 13:25:43 -06:00
Adam J. Stewart
7e6dbfb185
py-setuptools: add v63.0.0 (#31444) 2022-07-08 10:41:15 -07:00
Harmen Stoppels
4043b13d59
vim: deprecate 9.0.0000, add 9.0.0045 (#31490) 2022-07-08 10:16:50 +00:00
Luke Diorio-Toth
ec7513c8b5
py-panaroo, py-edlib, and py-intbitset: new packages (#31452) 2022-07-07 18:13:39 -06:00
Erin Newcomer
44b48cfe46
Package/py phylophlan (#31422)
* py-phylophlan: new package

* py-phyloseq: new package

* py-phylophlan: style fix

* py-phylophlan: fixed dependencies

* py-phylophlan: style fix
2022-07-07 14:06:55 -07:00
Tamara Dahlgren
a12ce9fd59
OpenBabel: Make building with GUI an option (#31456) 2022-07-07 09:43:17 -07:00
Cory Bloor
bb92ea59a2
Fix spack edit message when no editor installed (#31412)
When no default editor is installed and no environment variable is set,
which_string would return None and this would be passed to os.execv
resulting in a TypeError. The message presented to the user would be:

    Error: execv: path should be string, bytes or os.PathLike,
    not NoneType

This change checks that which_string has returned successfully before
attempting to execute the result, resulting in a new error message:

    Error: No text editor found! Please set the VISUAL and/or EDITOR
    environment variable(s) to your preferred text editor.

It's not strictly necessary, but I've also changed try_exec to catch
all errors rather than just OSErrors. This would have provided slightly
more context for the original error message.
2022-07-07 17:08:15 +02:00
Stephen Sachs
626b239c96
[py-distributed] Add version 2022.2.1 (#31465) 2022-07-07 08:06:18 -07:00
Adam J. Stewart
211030cd19
py-pytorch-lightning: remove upper bounds on deps (#31443) 2022-07-07 17:05:33 +02:00
Stephen Sachs
3787f0c64c
mpas-model: Overwrite compiler args in Makefile (#31431)
Use 8 byte reals only when `precision=double` is set

The pre-defined compilation targets do not follow the usual behavior of
Makefiles. Compiler flags are set as strings (not Makefile variables) and as
such are not able to be overridden by environment variables. This patch changes
the behavior to the expected behavior of a Makefile such that `fflags` etc have
the desired effect.

Co-authored-by: Stephen Sachs <stesachs@amazon.com>
2022-07-07 17:04:51 +02:00
Ryan Marcellino
be65e4471e
speexdsp: add pkgconfig dependency (#31455) 2022-07-07 16:53:11 +02:00