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2023-10-09parser: use non-capturing groups (#40373)Harmen Stoppels1-23/+23
2023-10-08Update CITATION.cff with conf dates (#40375)Mark (he/his) C. Miller1-0/+2
Add `start-date` and `end-date` to citation
2023-10-08py-setuptools: sdist + rpath patch backport (#40205)Harmen Stoppels3-199/+72
2023-10-08gettext: Add static and pic options (#37957)Alex Richert1-1/+11
2023-10-08py-tables: add 3.9.0 (#40340)Manuela Kuhn1-9/+17
* py-tables: add 3.9.0 * Add conflict with apple-clang
2023-10-08[py-tokenizers] added version 0.13.3 (#40360)Jen Herting1-0/+1
2023-10-08[py-tensorboardx] Added version 2.6.2.2 (#39731)Jen Herting1-1/+5
* [py-tensorboardx] Added version 2.6.2.2 * [py-tensorboardx] flake8 * [py-tensorboardx] requires py-setuptools-scm
2023-10-08py-torch-sparse: add v0.6.17 (#39495)Jen Herting1-2/+3
* [py-torch-sparse] New version 0.6.17 * [py-torch-sparse] added dependency on parallel-hashmap * [py-torch-sparse] - spack only supports python@3.7: - py-pytest-runner only needed with old versions
2023-10-08[py-lvis] New package (#39080)Jen Herting1-0/+36
* [py-lvis] New package * [py-lvis] flake8 * [py-lvis] os agnostic * [py-lvis] added comment for imported dependency * [py-lvis] style fix
2023-10-08py-bids-validator: add 1.13.1 (#40356)Manuela Kuhn1-0/+2
* py-bids-validator: add 1.13.1 * Fix style
2023-10-08[add] py-cylc-flow: new recipe (#39986)Lydéric Debusschère1-0/+36
* [add] py-cylc-flow: new recipe * py-cylc-flow: fix py-protobuf version Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * py-cylc-flow: fix py-colorama version Co-authored-by: Manuela Kuhn <36827019+manuelakuhn@users.noreply.github.com> * py-cylc-flow: Update dependence on py-aiofiles Co-authored-by: Manuela Kuhn <36827019+manuelakuhn@users.noreply.github.com> * py-cylc-flow: Update dependence on py-pyzmq Co-authored-by: Manuela Kuhn <36827019+manuelakuhn@users.noreply.github.com> * py-cylcflow: remove useless dependence * py-cylc-flow: fix indent * py-cylc-flow: fix argument in depends_on; move lines * py-cylc-flow: fix the type of the dependence py-setuptools --------- Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Manuela Kuhn <36827019+manuelakuhn@users.noreply.github.com> Co-authored-by: LydDeb <lyderic.debusschere.tgcc@cea.fr>
2023-10-07Update CITATION.cff (#40363)Mark (he/his) C. Miller1-11/+41
You will note the `Cite this repository` link is not working. This commit fixes the underlying file... * `authors` was not indented * `authors` required by `preferred-citation` * `authors` list required at top level (I simply duplicated) * `"USA"` not correct country code * `month` requires an integer month number * Added URL to the actual pdf of the cited paper * Used `identifiers` for doi and LLNL doc number * added `abstract` copied from paper Various fixes were confirmed by `cffconvert` using `docker run -v `pwd`:/app citationcff/cffconvert --validate`
2023-10-07Remove warning for custom module configuration, when no module is enabled ↵Massimiliano Culpo3-47/+2
(#40358) The warning was added in v0.20 and was slated for removal in v0.21
2023-10-06yaksa: add version 0.3 (#40368)Ken Raffenetti1-0/+1
2023-10-06Python add v3.11.5 (#40330)Massimiliano Culpo1-2/+6
2023-10-06Change 'exit' to 'return' in setup-env.sh (#36137)Alex Richert1-1/+1
* Change 'exit' to 'return' in `setup-env.sh` to avoid losing shell in some cases when sourcing twice.
2023-10-06MFEM: add new version v4.6 (#40170)Veselin Dobrev2-16/+36
* [mfem] Initial changes for v4.6 * [@spackbot] updating style on behalf of v-dobrev * [mfem] Set the proper download link for v4.6
2023-10-06Update bufr recipe (#40033)Alex Richert4-14/+126
* Update bufr recipe * Add v12.0.1 * style fixes * remove test-related functionality for bufr * Re-add testing --------- Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2023-10-06wise2: adding new package wise2 (#40341)snehring1-0/+58
2023-10-06VersionRange: improve error message for empty range (#40345)Harmen Stoppels4-4/+15
2023-10-06metal: new package @2020-05-05 (#40355)George Young1-0/+25
* metal: new package * style --------- Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
2023-10-06openmpi: add 4.1.6 release (#40361)Howard Pritchard1-2/+5
related to #40232 Signed-off-by: Howard Pritchard <howardp@lanl.gov>
2023-10-06g2: updated for 3.4.8 release (#40366)Edward Hartnett1-1/+7
* updated for 3.4.8 release
2023-10-06py-expecttest: new package (#40347)Manuela Kuhn1-0/+18
2023-10-06py-asttokens: add 2.4.0 (#40349)Manuela Kuhn1-0/+2
2023-10-06py-argcomplete: add 3.1.2 (#40348)Manuela Kuhn1-0/+4
2023-10-06py-anyio: add 4.0.0 (#40346)Manuela Kuhn1-2/+9
2023-10-06topaz: new package @0.2.5 (#40352)George Young1-0/+27
* topaz: new package @0.2.5 * switching over to pypi --------- Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
2023-10-06py-zipp: add 3.17.0 (#40278)Manuela Kuhn1-6/+9
* py-zipp: add 3.17.0 * Re-add python@3.7 dependency
2023-10-06RIOS: add recent versions (#40243)Sam Gillingham1-2/+11
* add recent versions of RIOS * fix depends_on syntax * fix typo * fix sha and add parallel variant * remove self * try doing in one
2023-10-06[add] py-metomi-rose: new recipe, required by py-cylc-rose (#39981)Lydéric Debusschère1-0/+27
* [add] py-metomi-rose: new recipe, required by py-cylc-rose * py-metomi-rose: remove version constraint on python --------- Co-authored-by: LydDeb <lyderic.debusschere.tgcc@cea.fr>
2023-10-06py-tuiview: add recent versions of tuiview (#40244)Sam Gillingham1-4/+18
* add recent versions of tuiview and remove Qt4 version * reformat * fix stray tabs * add back a deprecated 1.1.7 * tabs * more tabs * reformat * comma
2023-10-06unparse: drop python 2 remnants (#40329)Harmen Stoppels1-40/+0
2023-10-06openssh: 9.5p1 (#40354)Harmen Stoppels1-0/+1
2023-10-06Make "minimal" the default duplicate strategy (#39621)Massimiliano Culpo20-120/+2984
* Allow branching out of the "generic build" unification set For cases like the one in https://github.com/spack/spack/pull/39661 we need to relax rules on unification sets. The issue is that, right now, nodes in the "generic build" unification set are unified together with their build dependencies. This was done out of caution to avoid the risk of circular dependencies, which would ultimately cause a very slow solve. For build-tools like Cython, however, the build dependencies is masked by a long chain of "build, run" dependencies that belong in the "generic build" unification space. To allow splitting on cases like this, we relax the rule disallowing branching out of the "generic build" unification set. * Fix issue with pure build virtual dependencies Pure build virtual dependencies were not accounted properly in the list of possible virtuals. This caused some facts connecting virtuals to the corresponding providers to not be emitted, and in the end lead to unsat problems. * Fixed a few issues in packages py-gevent: restore dependency on py-cython@3 jsoncpp: fix typo in build dependency ecp-data-vis-sdk: update spack.yaml and cmake recipe py-statsmodels: add v0.13.5 * Make dependency on "blt" of type "build"
2023-10-06python: add 3.12.0 (but keep 3.11 preferred) (#40282)Harmen Stoppels9-6/+318
2023-10-05ecFlow update (#40305)Alex Richert1-5/+41
* Support static openssl for ecflow * Update ecflow/static openssl * Update ssl settings in ecflow * add pic variant for ecflow * style fix * Update package.py * Update package.py
2023-10-05Revert "cray rhel: disable due to runner issues (#40324)" (#40335)eugeneswalker1-16/+16
This reverts commit bf7f54449ba8ed157c9ee258007e0a7a509600cf.
2023-10-05pbmpi: adding new version and maintainer (#40319)snehring1-0/+5
2023-10-05unparse: drop python 3.4 remnants (#40333)Harmen Stoppels1-15/+0
2023-10-05whizard: Make sure to detect LCIO if requested (#40316)Thomas Madlener1-0/+2
2023-10-05Add pika 0.19.0 (#40313)Auriane R1-0/+1
2023-10-05cray rhel: disable due to runner issues (#40324)Harmen Stoppels1-16/+16
2023-10-05exago: add and logging variant. (#40188)Cameron Rutherford2-5/+9
2023-10-04trilinos: add variant to build tests (#40284)eugeneswalker1-0/+7
* trilinos: add variant: testing * trilinos: rename +testing to +test
2023-10-04Improve build isolation in PythonPipBuilder (#40224)Harmen Stoppels1-1/+99
We run pip with `--no-build-isolation` because we don't wanna let pip install build deps. As a consequence, when pip runs hooks, it runs hooks of *any* package it can find in `sys.path`. For Spack-built Python this includes user site packages -- there shouldn't be any system site packages. So in this case it suffices to set the environment variable PYTHONNOUSERSITE=1. For external Python, more needs to be done, cause there is no env variable that disables both system and user site packages; setting the `python -S` flag doesn't work because pip runs subprocesses that don't inherit this flag (and there is no API to know if -S was passed) So, for external Python, an empty venv is created before invoking pip in Spack's build env ensures that pip can no longer see anything but standard libraries and `PYTHONPATH`. The downside of this is that pip will generate shebangs that point to the python executable from the venv. So, for external python an extra step is necessary where we fix up shebangs post install.
2023-10-04yaksa: Allow unsupported host compiler with CUDA (#40298)Ken Raffenetti1-0/+2
Fixes #40272.
2023-10-04Damaris release v1.9.2 (#40285)Josh Bowden1-2/+7
* Update to latest dot versions and improved installation of Damaris python module damaris4py * fix for visit dependency typo * whitespace check * whitespace check * fix for style issue * reviewer suggestions for integrating Python added * suggestion for boost depends statement added
2023-10-04Add new package awscli-v2 and its missing dependency awscrt (#40288)Dom Heinzeller2-0/+50
* Add new package awscli-v2 and its missing dependency awscrt * Remove boilerplate comments from awscli-v2 and awscrt packages * Fix typos in var/spack/repos/builtin/packages/awscli-v2/package.py * Update var/spack/repos/builtin/packages/awscli-v2/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/awscli-v2/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/awscli-v2/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/awscli-v2/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/awscli-v2/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Address reviewer comments * Remove py-pip version dependency from var/spack/repos/builtin/packages/awscli-v2/package.py --------- Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-10-04py-isort: needs setuptools build dep before v5 (#40234)Harmen Stoppels2-1/+5
* py-isort: needs setuptools build dep before v5 Detected in #40224. In the past, system setuptools could be picked up when using an external python, so py-isort@4 would install fine. With the linked PR, pip can only consider packages that Spack controls from PYTHONPATH, so the issue of missing py-setuptools showed up. * py-importlib-metadata: fix lowerbounds on python * review * py-isort unconditionally add optional setuptools dep to prevent picking up user package at runtime * style * drop optional py-setuptools run dep
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