Commit Graph

36227 Commits

Author SHA1 Message Date
Chris Marsh
08834e2b03
Add homebrew gcc@14.1.0 patch for aarch64 darwin (#44280) 2024-05-21 15:31:36 +02:00
Massimiliano Culpo
8020a111df
Demote a warning to debug message, if C compiler is not there (#44182) 2024-05-21 14:09:29 +02:00
dependabot[bot]
86fb547f7c
bump pytest from 8.2.0 to 8.2.1 --- (#44282)
updated-dependencies:
- dependency-name: pytest
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2024-05-21 13:42:22 +02:00
Robert Underwood
b9556c7c44
Additional packages for devtools-manylinux (#44273)
Co-authored-by: Robert Underwood <runderwood@anl.gov>
2024-05-21 13:37:04 +02:00
dependabot[bot]
7bdb106b1b
--- (#44281)
updated-dependencies:
- dependency-name: codecov/codecov-action
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2024-05-21 13:15:05 +02:00
kenche-linaro
2b191cd7f4
linaro-forge: added 24.0 version (#44292) 2024-05-21 05:13:42 -06:00
Federico Ficarelli
774f0a4e60
grpc: remove a maintainer (#44294) 2024-05-21 12:58:26 +02:00
Keita Iwabuchi
faf11efa72
Metall: add v0.26, v0.27, and v0.28 (#44284)
Co-authored-by: Keita Iwabuchi <iwabuchi1@lln.gov>
2024-05-21 12:50:44 +02:00
Massimiliano Culpo
5a99142b41
Cleanup of Apple OpenGL shim packages (#44269)
- Remove duplicated code
- Use BundlePackage as a base class
2024-05-21 12:49:18 +02:00
Harmen Stoppels
a3aca0242a
grpc: forward compat bound abseil (#44290) 2024-05-21 11:48:59 +02:00
Massimiliano Culpo
72f276fab3
ASP-based solver: fix version optimization for roots (#44272)
This fixes a bug occurring when two root specs need to select
old versions, and these versions have the same penalty in the
optimization. This sometimes caused an older version to be
preferred to a more recent one.

The issue was the omission of `PackageNode` in the optimization
tuple.
2024-05-21 08:41:09 +02:00
Philipp Edelmann
21139945df
rayleigh: new package (#38338)
* rayleigh: new package

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

Co-authored-by: Wouter Deconinck <wdconinc@gmail.com>

* split edit into three methods

* add comments to clarify use of configure

* rayleigh: copyright year

---------

Co-authored-by: Wouter Deconinck <wdconinc@gmail.com>
2024-05-20 19:23:02 -06:00
George Young
900bd2f477
seqkit: add 2.4.0, switching to 'go build' install mechanic (#38192)
* seqkit: add 2.4.0

* seqkit: add 2.4.0, switching to 'go build' install mechanic

* seqkit: add 2.4.0, switching to 'go build' install mechanic

* seqkit: update to @2.6.1, drop deprecated version and build system

* seqkit: add @2.7.0, convert to GoPackage

* tidying

* tidying

---------

Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
2024-05-20 18:08:57 -07:00
Scott Wittenburg
29d4a5af44
gitlab ci: fix untouched spec pruning on windows (#44279)
Use correct path separator in get_all_package_diffs for all platforms.
Ensures correct package change computation on Windows when pruning unchanged specs in Gitlab CI
2024-05-21 00:56:48 +00:00
dependabot[bot]
dd9b7ed6a7
build(deps): bump types-six in /.github/workflows/style (#44167)
Bumps [types-six](https://github.com/python/typeshed) from 1.16.21.9 to 1.16.21.20240513.
- [Commits](https://github.com/python/typeshed/commits)

---
updated-dependencies:
- dependency-name: types-six
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2024-05-20 17:41:42 -07:00
Wouter Deconinck
09ff74be62 libsigsegv: fix patch filename extension 2024-05-21 02:12:24 +02:00
Robert Underwood
a94ebfea11
libpressio update (#44076)
* libpressio update
* fix typos in libpressio packages
* Addressed review feedback from @tldahlgren
* fix ci issues
* add missing package for SZx
* simplify varient logic and fix GPU deps
* Update var/spack/repos/builtin/packages/py-langsmith/package.py

---------

Co-authored-by: Robert Underwood <runderwood@anl.gov>
Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2024-05-20 18:12:00 -06:00
Paul R. C. Kent
8f5fe1d123
Add llvm v1816 (#44271) 2024-05-20 16:39:43 -07:00
Loris Ercole
d4fb58efa3
Update, fix serenity & serenity-libint (#43816)
* Update, fix serenity & serenity-libint
   Version 1.6.1 of `serenity` is added, some dependencies are made more
   explicit, some options are improved or fixed.
   The url of `serenity-libint` is fixed. The old url is not reachable
   anymore.
* Use upstream patch, modify cmake patch
* Update var/spack/repos/builtin/packages/serenity/package.py

---------

Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2024-05-20 16:07:25 -07:00
Tony Weaver
ce900346cc
heimdall: Astronomy software package (#38328)
* heimdall: Astronomy software package.  Requires dedisp and psrdada (included as part of this commit)

* Updated packages to align with Spack's style

Minor updates based on wdconinc's comments regarding Spack's style guide

* [@spackbot] updating style on behalf of aweaver1fandm

* Minor edits to fix copyright year and dedisp install

Fixed copyright year to be 2024 instead of 2023

Removed the overridden version of install and created a preinstall function to create the missing lib and inc directories, therefore allowing the default install to run

Here is output from the spack install of heimdall showing successful build with cuda.  If necessary I do a spack clean and freshly install it
./spack install heimdall +cuda cuda_arch=86
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/libiconv-1.17-enpmbhsi3kztebwmpclpub2afhlbr3gy
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/xz-5.4.1-pte76kujkezxb3laqse3o4sctlbygsaw
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/zlib-1.2.13-utlfo5ltxz5v5bckirn5v3amtbxjdvwh
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/bzip2-1.0.8-x6navz7ucgfnb5xq7aelqmgd4zxsz5bs
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/libmd-1.0.4-ncomhrodpdul4dm64o6b7426fhmc2u64
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/ncurses-6.4-c77h34rooycbzapxjvc27sg5td5jiwyb
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/zstd-1.5.5-eporpybumydxveg5rwtfzysrsu4eqzcv
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/libffi-3.4.4-vskntokaojclfqxjfzkbyirkeogddbpx
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/libxcrypt-4.4.33-gtpn32p6mxztul3c3dxzqj7gvcyh555j
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/util-linux-uuid-2.38.1-g322a5peqjaad6gl5q64cdu4qo7kvw6o
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/libxml2-2.10.3-pza3kz2mtbncbbeim6rejfqkgftnf4rz
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/openssl-1.1.1t-adbquvgg4qpc3vq6jynf44qzq3gfwrv5
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/pigz-2.7-e7mxj4ya2u4a6zb4hu64g7docujmkxeb
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/libbsd-0.11.7-wh4xleivbe7wndiqt5nsehzlfrccnjcg
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/readline-8.2-hhb647bwmbcj7iwpmtetbylninfm5rxf
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/cuda-11.7.1-osue2sx5rv7dgzhsmaemydpwhyribxng
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/tar-1.34-35f5gki2ycxmy5zd7zs5tsvp3xoszxum
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/expat-2.5.0-4gizyhhqklciuyrbyinq2tdggt73gds4
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/gdbm-1.23-w3uzihtubj2iwv6es55fis6nt2q5zwlr
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/sqlite-3.40.1-m4ntzvuupsnbtkdfbz7oqpbjdlaffp2a
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/dedisp-1.0-pq6r3jnyxq6jzoygz3fp2e6jc2ojpvap
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/gettext-0.21.1-hglzdeadmgkzjb76bmemt6dnulfkrpha
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/python-3.10.10-khu36qq4p2te7jf475ewr2h7egidekfl
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/psrdada-master-by4w6mrpcfnoihlhos2jcfo2roiyagaz
[+] /home/htony/spack/opt/spack/linux-ubuntu22.04-zen3/gcc-11.3.0/heimdall-1.0-ohtdnltuhhejysshcert25h6nmuvluqp

* [@spackbot] updating style on behalf of aweaver1fandm
2024-05-20 13:39:23 -06:00
Adam J. Stewart
7cb64e465f
py-pytest: add v8.2.1 (#44267)
* py-pytest: add v8.2.1
* py-pluggy: add v1.5.0
2024-05-20 11:28:59 -07:00
Pramod Kumbhar
eb70c9f5b9
caliper: add new variant to support Intel Vtune (#44147) 2024-05-20 18:27:42 +02:00
Teague Sterling
a28405700e
awscli-v2: add v2.15.53, and other updates (#44258)
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2024-05-20 18:21:09 +02:00
Adam J. Stewart
f8f4d94d7a
Deprecate py-cmake and py-ninja (#44257) 2024-05-20 18:05:06 +02:00
Matt Thompson
32dfb522d6
gh: add v2.49.2 (#44231) 2024-05-20 13:51:46 +02:00
Mark W. Krentel
c61c707aa5
hpctoolkit: restrict one patch to :2022 (#44268)
Restrict the hpcrun-fmt.txt patch to :2022.  It's fixed in the code
after that, and in recent develop, some code paths have moved causing
this patch to fail.
2024-05-20 01:44:28 -06:00
Harmen Stoppels
60d10848c8
gettext: no link dep on tar (#44256) 2024-05-20 09:23:46 +02:00
Adam J. Stewart
dcd6b530f9
py-matplotlib: add v3.9.0 (#44225) 2024-05-20 09:22:30 +02:00
Teague Sterling
419f0742a0
htslib, STAR: add zlib-ng conflict (#44261) 2024-05-20 09:20:19 +02:00
Jacob King
c99174798b
nimrod-aai: add version 24.2 and fix url (#42464)
shas changed due to reorganization of GitLab.com repo 
into an open subgroup.
2024-05-20 09:13:33 +02:00
Adam J. Stewart
8df2a4b511
py-gdown: add new package (#44265) 2024-05-20 09:09:35 +02:00
Benjamin Meyers
c174cf6830
Add openjdk@15.0.2 (#35936) 2024-05-19 10:27:26 -06:00
Wouter Deconinck
5eebd65366
audit: disallow github.com/org/repo/pull/n/commits/hash.patch?full_index=1 (#44212)
* audit: disallow github.com/org/repo/pull/n/commits/hash.patch?full_index=1

* [@spackbot] updating style on behalf of wdconinc

* audit: fix style

* audit: github.com/o/r/pull/n/commits/sha.patch -> sha.patch

* [@spackbot] updating style on behalf of wdconinc

* Revert "[@spackbot] updating style on behalf of wdconinc"

This reverts commit 2ecec99238.

* Revert "audit: github.com/o/r/pull/n/commits/sha.patch -> sha.patch"

This reverts commit 5bd7da2cad.

* fix: modify audit message with suggested fix

* audit: github.com/o/r/pull/n/commits/sha.patch -> /o/r/commit/sha.patch?full_index=1

---------

Co-authored-by: wdconinc <wdconinc@users.noreply.github.com>
2024-05-19 09:30:19 -05:00
Michael Kuhn
625f5323c0
py-pyqt5-sip: add 12.13.0 and fix build with gcc@14 (#44133) 2024-05-19 08:05:18 +02:00
Wouter Deconinck
e05a32cead
gaudi: don't apply patch for 38.2 (#44252) 2024-05-18 23:13:46 -06:00
Juan Miguel Carceller
c69af5d1e5
podio: cleanup recipe, remove deprecated versions and patches (#44111)
Co-authored-by: jmcarcell <jmcarcell@users.noreply.github.com>
2024-05-18 15:17:54 -06:00
Miranda Mundt
1ac2ee8043
Add Pyomo 6.7.2 (#44097) 2024-05-18 10:31:57 -05:00
Teague Sterling
36af1c1c73
perl-xml-libxml: add new versions and conflicts (fixes #44253) (#44254)
* Address #44253 by adding new versions and declaring conflicts for perl-xml-libxml

* [@spackbot] updating style on behalf of teaguesterling

* Update var/spack/repos/builtin/packages/perl-xml-libxml/package.py

Co-authored-by: Wouter Deconinck <wdconinc@gmail.com>

---------

Co-authored-by: Wouter Deconinck <wdconinc@gmail.com>
2024-05-18 09:28:32 -06:00
Carlos Bederián
e2fa087002
namd: add 3.0b7 (#44198) 2024-05-18 10:15:55 -05:00
Teague Sterling
df02bfbad2
Adding new spark versions (#44250)
* Adding new spark versions (in preparation of HAIL package)

* Adding myself as potential maintainer
2024-05-18 10:06:12 -05:00
Teague Sterling
fecb63843e
yq: add new package (#44249) 2024-05-18 06:38:26 -06:00
Scott Wittenburg
b33e2d09d3
oci buildcache: handle pagination of tags (#43136)
This fixes an issue where ghcr, gitlab and possibly other container registries paginate tags by default, which violates the OCI spec v1.0, but is common practice (the spec was broken itself). After this commit, you can create build cache indices of > 100 specs on ghcr.

Co-authored-by: Harmen Stoppels <me@harmenstoppels.nl>
2024-05-18 11:57:53 +02:00
Chris Green
f8054aa21a
git: bump v2.39 to 2.45; deprecate unsafe versions (#44248) 2024-05-18 03:32:06 -06:00
Valentin Volkl
8f3a2acc54
whizard: add gosam variant (#43595)
* whizard: add gosam variant

* adress comments, fix compiler wrapper issue
2024-05-18 10:11:26 +02:00
Kevin Huck
d1a20908b8
ZeroSum: add new package (#44228) 2024-05-18 09:23:45 +02:00
Derek Ryan Strong
dd781f7368
perl: add v5.36.3, v5.38.2; deprecate unsafe versions (#44186) 2024-05-18 09:21:03 +02:00
dmagdavector
9bcc43c4c1
protobuf: update hash for patch needed when="@3.4:3.21" (#44210)
* protobuf: update hash for patch needed when="@3.4:3.21"

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

Co-authored-by: Wouter Deconinck <wdconinc@gmail.com>

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

Co-authored-by: Wouter Deconinck <wdconinc@gmail.com>

---------

Co-authored-by: Wouter Deconinck <wdconinc@gmail.com>
2024-05-17 17:50:29 -06:00
Todd Gamblin
77c83af17d
docs: remove warning about repositories and package extension (#44247)
Local package repositories are very well supported and we test them extensively, so this
warning from 8 years ago can be removed from the docs.
2024-05-17 22:03:57 +00:00
Michael Kuhn
574bd2db99
netlib-scalapack: fix build with gcc@14 (#44120) 2024-05-17 22:38:46 +02:00
James Taliaferro
a76f37da96
kakoune: add v2024.05.09 (#44124) 2024-05-17 22:36:58 +02:00