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2024-05-21--- (#44281)dependabot[bot]3-7/+7
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>
2024-05-21linaro-forge: added 24.0 version (#44292)kenche-linaro1-0/+3
2024-05-21grpc: remove a maintainer (#44294)Federico Ficarelli1-2/+0
2024-05-21Metall: add v0.26, v0.27, and v0.28 (#44284)Keita Iwabuchi1-1/+4
Co-authored-by: Keita Iwabuchi <iwabuchi1@lln.gov>
2024-05-21Cleanup of Apple OpenGL shim packages (#44269)Massimiliano Culpo2-58/+20
- Remove duplicated code - Use BundlePackage as a base class
2024-05-21grpc: forward compat bound abseil (#44290)Harmen Stoppels1-1/+6
2024-05-21ASP-based solver: fix version optimization for roots (#44272)Massimiliano Culpo3-5/+36
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.
2024-05-20rayleigh: new package (#38338)Philipp Edelmann1-0/+71
* 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>
2024-05-20seqkit: add 2.4.0, switching to 'go build' install mechanic (#38192)George Young1-11/+17
* 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>
2024-05-21gitlab ci: fix untouched spec pruning on windows (#44279)Scott Wittenburg1-2/+2
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
2024-05-20build(deps): bump types-six in /.github/workflows/style (#44167)dependabot[bot]1-1/+1
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>
2024-05-21libsigsegv: fix patch filename extensionWouter Deconinck2-1/+1
2024-05-20libpressio update (#44076)Robert Underwood24-107/+518
* 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>
2024-05-20Add llvm v1816 (#44271)Paul R. C. Kent1-0/+1
2024-05-20Update, fix serenity & serenity-libint (#43816)Loris Ercole2-57/+99
* 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>
2024-05-20heimdall: Astronomy software package (#38328)Tony Weaver3-0/+119
* 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
2024-05-20py-pytest: add v8.2.1 (#44267)Adam J. Stewart2-54/+63
* py-pytest: add v8.2.1 * py-pluggy: add v1.5.0
2024-05-20caliper: add new variant to support Intel Vtune (#44147)Pramod Kumbhar1-0/+7
2024-05-20awscli-v2: add v2.15.53, and other updates (#44258)Teague Sterling2-17/+23
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2024-05-20Deprecate py-cmake and py-ninja (#44257)Adam J. Stewart18-31/+32
2024-05-20gh: add v2.49.2 (#44231)Matt Thompson1-0/+2
2024-05-20hpctoolkit: restrict one patch to :2022 (#44268)Mark W. Krentel1-0/+1
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.
2024-05-20gettext: no link dep on tar (#44256)Harmen Stoppels1-1/+1
2024-05-20py-matplotlib: add v3.9.0 (#44225)Adam J. Stewart1-62/+105
2024-05-20htslib, STAR: add zlib-ng conflict (#44261)Teague Sterling2-0/+5
2024-05-20nimrod-aai: add version 24.2 and fix url (#42464)Jacob King1-9/+8
shas changed due to reorganization of GitLab.com repo into an open subgroup.
2024-05-20py-gdown: add new package (#44265)Adam J. Stewart1-0/+28
2024-05-19Add openjdk@15.0.2 (#35936)Benjamin Meyers1-0/+11
2024-05-19audit: disallow github.com/org/repo/pull/n/commits/hash.patch?full_index=1 ↵Wouter Deconinck10-25/+59
(#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 2ecec9923829c9514f6e09885ee57cda3688b2f4. * Revert "audit: github.com/o/r/pull/n/commits/sha.patch -> sha.patch" This reverts commit 5bd7da2cadee9dae44ce14f35a4fb72323c0b98e. * 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>
2024-05-19py-pyqt5-sip: add 12.13.0 and fix build with gcc@14 (#44133)Michael Kuhn1-0/+7
2024-05-18gaudi: don't apply patch for 38.2 (#44252)Wouter Deconinck1-1/+1
2024-05-18podio: cleanup recipe, remove deprecated versions and patches (#44111)Juan Miguel Carceller4-136/+6
Co-authored-by: jmcarcell <jmcarcell@users.noreply.github.com>
2024-05-18Add Pyomo 6.7.2 (#44097)Miranda Mundt1-2/+5
2024-05-18perl-xml-libxml: add new versions and conflicts (fixes #44253) (#44254)Teague Sterling1-0/+4
* 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>
2024-05-18namd: add 3.0b7 (#44198)Carlos Bederián1-0/+1
2024-05-18Adding new spark versions (#44250)Teague Sterling1-0/+6
* Adding new spark versions (in preparation of HAIL package) * Adding myself as potential maintainer
2024-05-18yq: add new package (#44249)Teague Sterling1-0/+23
2024-05-18oci buildcache: handle pagination of tags (#43136)Scott Wittenburg6-10/+171
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>
2024-05-18git: bump v2.39 to 2.45; deprecate unsafe versions (#44248)Chris Green1-15/+81
2024-05-18whizard: add gosam variant (#43595)Valentin Volkl3-2/+16
* whizard: add gosam variant * adress comments, fix compiler wrapper issue
2024-05-18ZeroSum: add new package (#44228)Kevin Huck1-0/+73
2024-05-18perl: add v5.36.3, v5.38.2; deprecate unsafe versions (#44186)Derek Ryan Strong1-36/+103
2024-05-17protobuf: update hash for patch needed when="@3.4:3.21" (#44210)dmagdavector1-2/+2
* 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>
2024-05-17docs: remove warning about repositories and package extension (#44247)Todd Gamblin1-6/+0
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.
2024-05-17netlib-scalapack: fix build with gcc@14 (#44120)Michael Kuhn1-1/+5
2024-05-17kakoune: add v2024.05.09 (#44124)James Taliaferro1-3/+7
2024-05-17GDAL: add v3.9.0 (#44128)Adam J. Stewart1-41/+65
2024-05-17Add latest Python versions (#44130)Derek Ryan Strong1-2/+6
2024-05-17spectre: add v2024.05.11 (#44139)SXS Bot1-0/+3
Co-authored-by: sxs-bot <sxs-bot@users.noreply.github.com>
2024-05-17py-cython: add 3.0.10 (#44140)Michael Kuhn1-0/+1
generated by cgit v1.2.3-70-g09d2 (git 2.46.0) at 2025-02-04 06:39:43 +0000