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2022-07-25openblas %oneapi: patch f_check for proper linkage (#31737)eugeneswalker2-0/+34
2022-07-25new package: singularity-eos (#31500)Richard Berger1-0/+181
2022-07-25gdal: fixing typo for libxml2 (#31734)snehring1-1/+1
2022-07-25GCC: Add bootstrap conflict for M1 (#31189)psakievich1-0/+1
2022-07-25LLVM requires swig version > 3 (#31625)Paul Ferrell1-1/+4
2022-07-25llvm: Add missing include for version range 8 to 11 (#31639)haralmha1-0/+5
2022-07-25wget: replacing prior workaround with proper fix (#31699)snehring2-9/+42
Co-authored-by: Harmen Stoppels <harmenstoppels@gmail.com>
2022-07-25py-torchdata: add new package (#31704)Adam J. Stewart3-4/+74
* py-torchdata: add new package * third_party deps only in 0.4+
2022-07-25py-torchmetrics: add v0.9.3 (#31707)Adam J. Stewart1-0/+1
2022-07-25py-geopandas: add v0.11.1 (#31710)Adam J. Stewart1-0/+1
2022-07-25py-sphinx: add v5.1.0 (#31711)Adam J. Stewart1-1/+3
2022-07-24[py-pyprecice] add v2.4.0.0 (#31697)Ishaan Desai1-3/+5
* Add py-pyprecice v2.4.0.0 * Adding lower bound to pip dependency * Removing when=@:2.1 from dependencies packaging and pip
2022-07-24py-vermin: add latest version 1.4.1 (#31708)Morten Kristensen1-1/+2
2022-07-22clingo patch fixed in patch release (#31690)Harmen Stoppels1-1/+1
2022-07-22llvm: fix patch already applied on main branch (#31694)Harmen Stoppels1-1/+1
2022-07-22coreutils: gnulib patch (#31693)Harmen Stoppels2-0/+42
Co-authored-by: snehring <snehring@iastate.edu>
2022-07-22gromacs: Added version 2021.6 (#31692)Hector Martinez-Seara1-0/+1
2022-07-22mpitrampoline: New version 4.2.0 (#31683)Erik Schnetter1-0/+1
2022-07-21py-torch: use immutable URLs for open-ce patches (#31672)Nicholas Sly1-9/+13
* Update open-ce patches for py-torch to us immutable URLs. Update magma dependency specs to be more explicit. * Address comments for PR regarding URLs and conflicting variants. Co-authored-by: Nicholas Cameron Sly <sly1@llnl.gov>
2022-07-21[py-numpy] Newer versions do not build with `icc` (#31637)Stephen Sachs1-0/+3
* [py-numpy] Newer versions do not build with `icc` Workaround until https://github.com/numpy/numpy/issues/22011 is solved. * [py-numpy] Remove whitespaces
2022-07-21Add version 3.2 of AMD libraries (#31538)AMD Toolchain Support6-20/+82
2022-07-21py-torch: ~caffe2 by default (#31656)Adam J. Stewart1-1/+1
2022-07-21py-torchvision: fix __version__ for stable releases (#31657)Adam J. Stewart1-2/+6
2022-07-21py-gpytorch: add v1.8.0 (#31649)Adam J. Stewart1-0/+1
2022-07-21py-nbmake: add v1.3.3 (#31651)Adam J. Stewart1-0/+2
2022-07-21flecsi: correct version 2.x depends_on (#31658)Richard Berger1-0/+1
Propagate +shared to legion
2022-07-21root does not actually install libraries in /lib but in /lib/root (#31624)Hadrien G1-5/+5
2022-07-21ncdu: add v1.16 and v1.17 (#31659)Johannes Blaschke1-0/+2
2022-07-21darshan: add v3.4.0 to runtime/util packages (#31666)shanedsnyder2-2/+4
2022-07-21giflib: restrict patch to darwin (#31670)snehring1-1/+1
2022-07-20py-wheel: 0.37.1 (#31619)Harmen Stoppels1-0/+1
2022-07-20xgboost: Add version 1.6.1 and make openmp variant compatible with clang ↵haralmha2-1/+25
(#31557)
2022-07-18py-pip: 22.x (#31621)Harmen Stoppels1-0/+2
2022-07-18Update py-xdot to use python_purelib #31616 (#31628)Servesh Muralidharan1-1/+1
Issue discussed in https://github.com/spack/spack/issues/31616
2022-07-18rocblas: tighten tensile dependencies (#31414)Cory Bloor1-15/+10
* rocblas: make tensile dependencies conditional * Remove rocm-smi from the rocblas dependency list rocm-smi was added to the rocblas dependency list because Tensile was a dependency of rocBLAS and rocm-smi was a dependency of Tensile. However, that reasoning was not correct. Tensile is composed of three components: 1. A command-line tool for generating kernels, benchmarking them, and saving the parameters used for generating the best kernels (a.k.a. "Solutions") in YAML files. 2. A build system component that reads YAML solution files, generates kernel source files, and invokes the compiler to compile then into code object files (*.co, *.hsco). An index of the kernels and their associated parameters is also generated and stored in either YAML or MessagePack format (TensileLibrary.yaml or TensileLibrary.dat). 3. A runtime library that will load the TensileLibrary and code object files when asked to execute a GEMM and choose the ideal kernel for your specific input parameters. rocBLAS developers use (1) during rocBLAS development. This is when Tensile depends on rocm-smi. The GPU clock speed and temperature must be controlled to ensure consistency when doing the solution benchmarking. That control is provided by rocm-smi. When building rocBLAS, Tensile is used for (2). However, there is no need for control of the GPU at that point and rocm-smi is not a dependency. At runtime, the rocBLAS library uses Tensile for (3), but there is again no dependency on rocm-smi. tl;dr: rocm-smi is a dependency of the tensile benchmarking tool, which is not a build dependency or runtime dependency of rocblas.
2022-07-18kraken2: add v2.1.2 (#31613)Luke Diorio-Toth1-0/+1
2022-07-18lhapdf: add gettext libs explicitly (#31555)haralmha1-1/+3
Co-authored-by: Valentin Volkl <valentin.volkl@cern.ch>
2022-07-18py-pyarrow: aarch64 patch no longer applies/required (#31609)Adam J. Stewart1-1/+1
2022-07-18py-kornia: add v0.6.6 (#31611)Adam J. Stewart1-0/+1
2022-07-18Fixes for kallisto package (#31617)Glenn Johnson4-2/+55
This PR contains several fixes for the kallisto package. - create hdf5 variant as hdf5 is optional beginning with 0.46.2 - provide patch for 0.43 to link against libz - provide patch for older versions to build again gcc-11 and up - patch and code to use autoconf-2.70 and up
2022-07-16py-phydms, py-pypdf2, and py-pyvolve: new packages (#31540)Luke Diorio-Toth4-2/+89
* py-panaroo: new package * moving panaroo to branch * py-phydms: new package * added dependencies and new packages * fixed py-pypdf2 dependencies
2022-07-16mizani, plotnine, and pystan: added more versions and variable dependencies ↵Luke Diorio-Toth4-36/+93
(#31541) * py-panaroo: new package * moving panaroo to branch * updated mizani, plotnine, and pystan versions and requirements * made suggested fixes * adding more requested fixes * added new versions of statsmodels and httpstan
2022-07-16py-horovod: add versions 0.22+, fix aarch64 build (#29310)FJ-NaokiMatsumura3-19/+754
* py-torch: add version 0.23.0 and fix to built on aarch64 * Add newer versions, fix build issues * Fix tests Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2022-07-15Qhull: fix RPATH on macOS (#31586)Adam J. Stewart1-0/+6
2022-07-15py-geocube: add v0.3.2 (#31588)Adam J. Stewart1-0/+1
2022-07-15tamaas: new version 2.5.0 (#31501)Lucas Frérot1-0/+2
* tamaas: new version 2.5.0 * tamaas: do not build/install documentation * tamaas: hash correction for v2.5.0.post1 Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com> Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2022-07-15gperftools: Add version 2.10 and add unwind to LDFLAGS (#31574)haralmha1-0/+5
* gperftools: Add version 2.10 and add unwind to LDFLAGS * Make unwind flag conditional on libunwind variant
2022-07-14openssl: add patch for @1.1.1q. fixed issues #31545 (#31575)牟展佑1-0/+4
2022-07-14blight, fparser, typing_extensions (#31566)Elizabeth Sherrock4-5/+72
* Added fparser 0.0.16 * Created package * Change from GitHub download to pypi * py-typing-extensions: 4.3.0 * Added py-pdoc3 * Finished adding py-blight * Fixed typos * Fixed dependency specs * Fixed some things after PR review * Added @woodruffw as blight maintainer * Removed maintainer comment block from pdoc3
2022-07-14snappy: Update to version 1.1.9 (#31578)Erik Schnetter1-1/+3