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2022-10-12py-poetry-core: jail git to stage directory (#33181)Adam J. Stewart1-0/+7
2022-10-12Add new vtk 9.2.2 release (#33001)MicK71-8/+10
Co-authored-by: Harmen Stoppels <harmenstoppels@gmail.com>
2022-10-12Update CRAN packages (#33223)Glenn Johnson269-38/+527
2022-10-12infernal: add v1.1.4 (#33230)Luke Diorio-Toth1-0/+2
2022-10-12trnascan-se: add v2.0.11 (#33232)Luke Diorio-Toth1-1/+2
2022-10-12Fix typo in docs (#33182)Massimiliano Culpo1-1/+1
2022-10-11Add checksum for py-cryptography 37.0.4 (#33186)iarspider1-0/+1
2022-10-11Add checksum for py-frozenlist 1.3.1 (#33193)iarspider1-0/+4
2022-10-11Add checksum for py-yarl 1.8.1 (#33195)iarspider1-0/+2
2022-10-11Add checksum for py-immutables 0.18 (#33197)iarspider1-0/+1
2022-10-11Add checksum for py-google-auth-oauthlib 0.5.2 (#33198)iarspider1-0/+1
2022-10-11Add checksum for py-jupyter-server 1.18.1 (#33204)iarspider1-0/+1
2022-10-11Add checksum for py-websocket-client 1.4.1 (#33205)iarspider1-0/+2
2022-10-11Add checksum for py-requests-unixsocket 0.3.0 (#33206)iarspider1-1/+2
2022-10-11Add checksum for py-typed-ast 1.5.4 (#33207)iarspider1-0/+2
2022-10-11Add checksum for py-scinum 1.4.3 (#33208)iarspider1-0/+2
2022-10-11Add checksum for py-python-rapidjson@1.8 (#33210)iarspider1-0/+1
2022-10-11Add checksum for py-pysqlite3 0.4.7 (#33211)iarspider1-0/+1
2022-10-11version bump to 3.10.42 (#33220)Luke Diorio-Toth1-0/+1
2022-10-11py-rtree: add v1.0.1 (#33222)Adam J. Stewart1-0/+1
2022-10-11GCC: update Xcode 14 conflict (#33226)Adam J. Stewart1-1/+1
2022-10-11Specify GCC prefix in LLVM-based compilers (#33146)Harmen Stoppels6-35/+45
* spack.compiler.Compiler: introduce prefix property We currently don't really have something that gives the GCC install path, which is used by many LLVM-based compilers (llvm, llvm-amdgpu, nvhpc, ...) to fix the GCC toolchain once and for all. This `prefix` property is dynamic in the sense that it queries the compiler itself. This is necessary because it's not easy to deduce the install path from the `cc` property (might be a symlink, might be a filename like `gcc` which works by having the compiler load a module that sets the PATH variable, might be a generic compiler wrapper based on environment variables like on cray...). With this property introduced, we can clean up some recipes that have the logic repeated for GCC. * intel-oneapi-compilers: set --gcc-sysroot to %gcc prefix
2022-10-11Darshan variant cleanup (#33165)kwryankrattiger2-27/+13
* Darshan-Runtime: Cleanup version dependent variants * Darshan-Util: Cleanup version dependent variants.
2022-10-11Omega-H: Current constraint doesn't allow any cuda (#33164)kwryankrattiger1-4/+4
From the issue referenced, it seems later and earlier versions of cuda work.
2022-10-11Refactor a few classes related to package repositories (#32273)Massimiliano Culpo29-684/+485
Caches used by repositories don't reference the global spack.repo.path instance anymore, but get the repository they refer to during initialization. Spec.virtual now use the index, and computation done to compute the index use Repository.is_virtual_safe. Code to construct mock packages and mock repository has been factored into a unique MockRepositoryBuilder that is used throughout the codebase. Add debug print for pushing and popping config scopes. Changed spack.repo.use_repositories so that it can override or not previous repos spack.repo.use_repositories updates spack.config.config according to the modifications done Removed a peculiar behavior from spack.config.Configuration where push would always bubble-up a scope named command_line if it existed
2022-10-11`spack diff` any specs you want (#32737)Peter Scheibel1-4/+6
Resolves #31782 With this change, if a spec is concrete after parsing (e.g. spec.yaml or /hash-based), then it is not disambiguated (a process which requires (a) that the spec be installed and (b) that it be part of the currently-active environment). This commit allows you to: * Diff specs from an environment regardless of whether they have been installed (more useful for projection/matrix-based envs) * Diff specs read from .yaml files which may or may not be entirely different installations of Spack Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2022-10-11Bump actions/setup-python from 4.2.0 to 4.3.0 (#33166)dependabot[bot]4-12/+12
Bumps [actions/setup-python](https://github.com/actions/setup-python) from 4.2.0 to 4.3.0. - [Release notes](https://github.com/actions/setup-python/releases) - [Commits](https://github.com/actions/setup-python/compare/b55428b1882923874294fa556849718a1d7f2ca5...13ae5bb136fac2878aff31522b9efb785519f984) --- 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> Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2022-10-11py-importlib-resources: add v5.9.0 (#33047)iarspider1-2/+4
2022-10-11e4s ci: add cabana +rocm (#33177)eugeneswalker1-0/+1
2022-10-10new package: r-profvis (#33171)Glenn Johnson1-0/+18
2022-10-10new package: r-urlchecker (#33174)Glenn Johnson1-0/+23
2022-10-10new package: r-ragg (#33172)Glenn Johnson1-0/+26
2022-10-10Add bioc attribute to r-do-db (#33179)Glenn Johnson1-1/+1
2022-10-10new package: r-optimparallel (#33169)Glenn Johnson1-0/+21
2022-10-10hpctoolkit: add version 2022.10.01 (#33078)Mark W. Krentel1-66/+55
* hpctoolkit: add version 2022.10.01 1. add version 2022.10.01 2. remove version for master branch, develop is now the main branch 3. add CPATH and LD_LIBRARY_PATH to module run environment, this is for apps that want to use the start/stop interface 4. cleanup style in variants, depends and conflicts 5. remove all-static variant, nothing uses it 6. deprecate more old versions * [@spackbot] updating style on behalf of mwkrentel * Add when(+level_zero) to the gtpin variant. * Test commit to see if this passes E4S. * Another test commit to see if E4S succeeds. * Add temporary hack to ignore +mpi for version 2022.10.01 and issue a warning instead. Co-authored-by: mwkrentel <mwkrentel@users.noreply.github.com>
2022-10-10Add checksum for py-virtualenv 20.16.4 (#33154)iarspider1-11/+22
* Add checksum for py-virtualenv 20.16.4 * [@spackbot] updating style on behalf of iarspider * Update package.py * Update package.py Co-authored-by: iarspider <iarspider@users.noreply.github.com>
2022-10-10Add checksum for py-msgpack 1.0.4 (#33161)iarspider1-0/+3
* Add checksum for py-msgpack 1.0.4 * Update var/spack/repos/builtin/packages/py-msgpack/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2022-10-10new package: r-textshaping (#33173)Glenn Johnson1-0/+26
2022-10-10new package: r-pkgdown (#33170)Glenn Johnson1-0/+41
2022-10-10new package: r-interp (#33168)Glenn Johnson1-0/+38
2022-10-10Update py werkzeug (#33155)iarspider1-1/+4
* Add checksum for py-virtualenv 20.16.4 * Add checksum for py-werkzeug 2.2.2 * Restore py-virtualenv/package.py * Update var/spack/repos/builtin/packages/py-werkzeug/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2022-10-10Docs: Getting Started Dependencies (#32480)Axel Huebl4-2/+33
* Docs: Getting Started Dependencies Finally document what one needs to install to use Spack on Linux and Mac :-) With <3 for minimal container users and my colleagues with their fancy Macs. * Debian Update Packages: GCC, Python - build-essential: includes gcc, g++ (thx Cory) - Python: add python3-venv, python3-distutils (thx Pradyun) * Add RHEL8 Dependencies
2022-10-10new package: r-downlit (#33167)Glenn Johnson1-0/+31
2022-10-10e4s: add hypre +rocm (#32148)eugeneswalker1-0/+1
2022-10-10Add checksum for py-mako 1.2.2 (#33141)iarspider1-0/+4
2022-10-10Add checksum for py-pyrsistent 0.18.1 (#33084)iarspider1-3/+5
2022-10-10Add checksum for py-parso 0.8.3 (#33050)iarspider1-0/+1
2022-10-10julia: add latest 1.8.x and 1.6.x releases and update deps, remove ↵Harmen Stoppels4-82/+56
deprecated versions (#32956) * julia: add latest 1.8.x and 1.6.x releases and update deps, remove deprecated versions * get libuv verisons right * resurrect libuv 1.44.1
2022-10-10ML CPU pipeline: test py-torch-nvidia-apex (#33158)Adam J. Stewart1-2/+1
2022-10-10Add checksum for py-skl2onnx 1.12 (#33137)iarspider1-1/+4
* Add checksum for py-skl2onnx 1.12 * Update var/spack/repos/builtin/packages/py-skl2onnx/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Update package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>