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2022-10-21py-checkm-genome and py-pysam: bumped version and updated deps (#33449)Luke Diorio-Toth2-7/+16
* py-checkm-genome and py-pysam: bumped version and updated deps * updated setuptools dep type Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2022-10-21axom@0.7.0: require cmake@3.21: (#33450)eugeneswalker1-2/+2
* axom@0.7.0: require cmake@3.21: * Update var/spack/repos/builtin/packages/axom/package.py Co-authored-by: Chris White <white238@llnl.gov> Co-authored-by: Chris White <white238@llnl.gov>
2022-10-21git: new versions and deprecations (#33408)Harmen Stoppels1-3/+35
2022-10-21intel-tbb: add in versions 2021.7.0, 2021.6.0 (#33445)Satish Balay1-6/+3
2021.7.0 fixes build on linux-ubuntu20.04-skylake / oneapi@2022.2.0
2022-10-20replaced package shortbred with py-shortbred (#33404)Luke Diorio-Toth2-1/+30
* fixed version numbers to python 2 and old biopython * changed shortbred pacakge to pypi, removed python 2 version * added package description * re-added shortbred package with depreciated flag * fixed style and removed unnecessary python dep (it can't build with python 2 anyway) * removed whitespace and readded the python2.7.9+ dep * fixed style
2022-10-20Add Boost 1.80.0 (#32879)Mikael Simberg2-2/+10
* Add Boost 1.80.0 * Add conflict for Boost 1.80.0 and dealii * Add conflict for Boost 1.80 and %oneapi
2022-10-20hiop: add v0.7.0 (#33441)eugeneswalker1-0/+1
* hiop: add v0.7.0 * Update var/spack/repos/builtin/packages/hiop/package.py Co-authored-by: Cameron Rutherford <cameron.rutherford@me.com> Co-authored-by: Cameron Rutherford <cameron.rutherford@me.com>
2022-10-20kokkos and kokkos-kernels: add new versions (#33301)Cody Balos2-0/+5
* kokkos: add version 3.7.00 * kokkos-kernels: add versions 3.6.01 and 3.7.00 * add correct kokkos dependence
2022-10-20butterflypack: add version 2.2.2 and openmp variant (#33416)Satish Balay1-0/+6
- add conflcit with gcc < 7 - fails with MacOS sed - so add in (gnu) sed as build dependency
2022-10-20Update OpenFAST package file (#33438)Jon Rood1-17/+24
* Update OpenFAST package file. * Add comment.
2022-10-20ophidia-primitives: new package at v1.7 (#33434)SoniaScard1-0/+41
* ophidia-primitives: new package at v1.7 * ophidia-primitives: Add mantainers * ophidia-primitives: Fix style Co-authored-by: SoniaScard <SoniaScard@users.noreply.github.com>
2022-10-20py-rasterio: add v1.3.3 (#33428)Adam J. Stewart1-0/+1
2022-10-20spdlog: Add version 1.10.0 (#33431)Rémi Lacroix1-0/+1
2022-10-20Change scalapack to test-only dependency (#33433)G-Ragghianti1-3/+5
2022-10-20arpack-ng %cce: add -hnopattern to fflags (#33424)eugeneswalker1-0/+5
2022-10-20py-bakta: new package (#33417)Luke Diorio-Toth1-0/+36
2022-10-19singularity-eos: new version 1.6.2 (#33415)Richard Berger1-0/+1
2022-10-19Simplify TIOGA package (#33396)Jon Rood1-26/+5
* Update TIOGA package. * Add comment. * Remove cuda variant and MPI_ROOT. * Style.
2022-10-19py-pandas: add v1.5.1 (#33412)Adam J. Stewart1-0/+1
2022-10-19mpich: enable building when @3.4~cuda (#33325)Sergey Kosukhin1-1/+1
2022-10-19patch std::filesystem check as done in llnl/umpire pr#784 (#33250)eugeneswalker2-0/+34
2022-10-19umpire +rocm: use hipcc as CMAKE_CXX_COMPILER (#33377)eugeneswalker1-0/+3
2022-10-19raja +rocm: use hipcc as CMAKE_CXX_COMPILER (#33375)eugeneswalker1-0/+7
2022-10-19pilercr: new package (#33251)Luke Diorio-Toth1-0/+28
* new package * fixed style * actually building now
2022-10-19axom: python only reliably available when +python, +devtools (#33414)eugeneswalker1-1/+1
2022-10-18intel-oneapi-compilers: do not pass -Wno-unused-command-line-argument to icc ↵Robert Cohn1-27/+21
+ refactor (#33389)
2022-10-18go,gcc: Support external go compilers for Go bootstrap (#27769)Bernhard Kaindl3-10/+54
For ARM64, fallback to gccgo. (go-bootstrap@1.4 can't support ARM64)
2022-10-18papi: fix for Intel OneAPI compiler (#33225)Howard Pritchard1-0/+5
Without this patch one hits this error trying to compiler papi with Intel OneAPI: icx: error: Note that use of '-g' without any optimization-level option will turn off most compiler optimizations similar to use of '-O0' [-Werror,-Wdebug-disables-optimization] Signed-off-by: Howard Pritchard <howardp@lanl.gov> Signed-off-by: Howard Pritchard <howardp@lanl.gov>
2022-10-18vsearch: add v2.22.1 (#33327)snehring1-0/+4
2022-10-18mothur: add v1.48.0 and variants (#33326)snehring1-20/+63
2022-10-18intel-oneapi-compilers: fix Python 2.7 compliance (#33383)Massimiliano Culpo1-2/+2
2022-10-17py-fiona: add v1.8.22 (#33372)Adam J. Stewart1-1/+2
2022-10-17lz4: add 1.9.4 (#33334)Michael Kuhn1-0/+1
2022-10-17Bugfix HIP and aluminum rocm build (#33344)Brian Van Essen2-7/+31
* Fixed two bugs in the HIP package recipe. The first is that the HIP_PATH was being set to the actual spec, and not the spec prefix. The second bug is that HIP is expected to be in /opt/rocm-x.y.z/hip but it's libraries can exist at both /opt/rocm-x.y.z/hip/lib and /opt/rocm-x.y.z/lib. This means that the external detection logic may find it in either and it turns out that some modules only expose one of those two locations. Logic is added to ensure that the internal HIP_PATH and associated ROCM_PATH are correctly set in both cases. * Added support for Aluminum to use the libfabric plugin with either RCCL or NCCL.
2022-10-17grid: reference `fftw-api` instead of `fftw` (#33374)Mosè Giordano1-1/+1
This makes it possible to compile with, e.g., `cray-fftw`, not just `fftw`.
2022-10-17New packages: libbigwig, methyldackel (#33273)snehring2-0/+66
* libbigwig: adding new package libbigwig * methyldackel: adding new package methyldackel * libbigwig: tighten up curl variant
2022-10-17Initial contribution of LibPressio ecosystem (#32630)Robert Underwood34-26/+1408
* Add libpressio and dependencies; some of these packages are maintained as forks of the original repositories and in those cases the docstring mentions this. * Add optional dependency in adios2 on libpressio * cub package: set CUB_DIR environment variable for dependent installations * Clear R_HOME/R_ENVIRON before Spack installation (avoid sources outside of Spack from affecting the installation in Spack) * Rename dlib to dorian3d-dlib and update dependents; add new dlib implementation. Pending an official policy on how to handle packages with short names, reviewer unilaterally decided that the rename was acceptable given that the new Spack dlib package is referenced more widely (by orders of magnitude) than the original Co-authored-by: Samuel Li <shaomeng@users.noreply.github.com>
2022-10-17py-xopen: version bump to 1.6.0 (#33231)Luke Diorio-Toth2-1/+28
* version bump to 1.6.0 * added py-isal, updated URL
2022-10-17Classic Intel compilers do not support gcc-toolchain (#33281)Stephen Sachs1-15/+26
* Classic Intel compilers do not support gcc-toolchain This fix removes `--gcc-toolchain=` from the ~.fcg` files for the classic Intel compilers. AFAIK this option is only supported for Clang based compilers. This lead to an issue when installing cmake. Reproducer: ``` spack install cmake@3.24.2%intel@2021.7.0~doc+ncurses+ownlibs~qt build_type=Release arch=linux-amzn2-skylake_avx512 ``` Tagging maintainer @rscohn2 * Add `-gcc-name` for icc .. and `-gxx-name` for icpc. AFAIK this is used for modern C++ support, so we can ignore `ifort`. Co-authored-by: Stephen Sachs <stesachs@amazon.com>
2022-10-17py-horovod: add v0.26 (#33311)Adam J. Stewart2-0/+6
* py-horovod: add v0.26 * py-petastorm: add v0.12.0
2022-10-17GnuPG: add v2.3.8 and update stack (#33368)Massimiliano Culpo6-1/+12
2022-10-17Add checksum for py-ipykernel 6.15.2 (#33360)iarspider1-0/+1
2022-10-17Add checksum for py-secretstorage 3.3.3 (#33366)iarspider1-0/+1
2022-10-17python: add 3.10.7, 3.9.14, 3.8.14, 3.7.14 (#32623)Carlos Bederián1-2/+6
2022-10-17hypre 2.26.0 (#33299)Rui Peng Li1-0/+1
2022-10-17Add checksum for py-prompt-toolkit 3.0.31 (#33362)iarspider1-0/+1
2022-10-17Add checksum for py-grpcio-tools 1.48.1 (#33358)iarspider1-2/+5
2022-10-17Add checksum for py-astroid 2.12.7, py-astroid 2.12.10, py-setuptools ↵iarspider4-30/+46
62.6.0, py-wrapt 1.14.1, py-pylint 2.15.0 (#32976) * Add checksum for py-astroid 2.12.7, py-setuptools 62.6.0 * Also add checksum for py-wrapt * Update package.py * Update package.py (#57) * Update package.py * Update package.py * Update package.py
2022-10-17py-jupyterlab-pygments: install from wheel to avoid cyclic dependency (#33278)iarspider1-7/+21
* py-jupyterlab-pygments: avoid cyclic dependency * Fix style * Update package.py * Update package.py * [@spackbot] updating style on behalf of iarspider * Update package.py * Flake-8 * fix Co-authored-by: iarspider <iarspider@users.noreply.github.com>
2022-10-17py-numpy: add v1.23.4 (#33260)Adam J. Stewart1-0/+1
generated by cgit v1.2.3-70-g09d2 (git 2.46.0) at 2024-11-17 11:02:15 +0000