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2023-02-16Add py-mlflow and its dependencies (#34463)Erik Heeren10-1/+199
* Add py-mlflow and its dependencies * mlflow: fix syntax error in package.py * py-mlflow: cleanup Process review remarks, add missing dependencies, add skinny variant * Apply suggestions from code review * Fix flake8 issues * More formatting fixes * Fix py-waitress dependency version * py-mlflow: platform-specific dependency * Update var/spack/repos/builtin/packages/py-mlflow/package.py * Update var/spack/repos/builtin/packages/py-mlflow/package.py * Process review remarks * Fix typo in dependency version * py-shap: fix dependencies * py-arrow: fix dependencies * py-slicer: remove py-setuptools explicit version * py-pyarrow: dataset variant and pass options through environment It appears there are some issues when using `pip install` instead of `python setup.py` - this setup_build_environment should fix that. * py-pyarrow: review remark * Decouple setup_build_environment from install_options * py-pyarrow: style * Bump licenses to 2023 --------- Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Matthias Wolf <matthias.wolf@epfl.ch>
2023-02-16EVE 2023.02.15 update (#35493)Joel Falcou1-1/+5
2023-02-16bump mochi-margo to 0.13 (#35499)Phil Carns1-0/+1
2023-02-16thrift: add v0.17.0 (#35210)Thomas Bouvier1-10/+17
2023-02-16lammps: refactor variants, add new versions (#34011)Richard Berger1-605/+359
2023-02-16spack uninstall: follow run/link edges on --dependents (#34058)Harmen Stoppels4-0/+67
`spack gc` removes build deps of explicitly installed specs, but somehow if you take one of the specs that `spack gc` would remove, and feed it to `spack uninstall /<hash>` by hash, it complains about all the dependents that still rely on it. This resolves the inconsistency by only following run/link type deps in spack uninstall. That way you can finally do `spack uninstall cmake` without having to remove all packages built with cmake.
2023-02-16netcdf-c: add patch to enable '@4.9.0:~mpi+parallel-netcdf' (#35462)Sergey Kosukhin2-0/+14
2023-02-16Add support for star-ccm-plus v17 (#35056)rfbgo1-1/+9
2023-02-16cp2k: add v2023.1 (#35346)Rémi Lacroix1-5/+11
2023-02-16ROCm packages: add v5.4.3 release (#35478)Sreenivasa Murthy Kolam47-114/+174
2023-02-15py-pytorch-lightning: add v1.9.2Adam J. Stewart1-0/+1
2023-02-15XZ package: enable building on Windows (#35095)John W. Parent1-3/+62
* Convert XZ to multi build system * Add MSBuild builder to XZ to support Windows compatibility
2023-02-14Orca: Added required runtime libraries (#35481)Hector Martinez-Seara1-0/+5
* Update package.py Several libraries are need to be present at run time so that the code can be run in parallel. I have added them as dependencies and to LD_LIBRARY_PATH. Orca comes as a binary so the libraries cannot be added as RPATH at compilation time. Also, orca 5.0.3 was compiled against 4.1.1, not 4.1.2.
2023-02-14Add gsl-lite from JCSDA/NOAA-EMC spack fork (#35468)Dom Heinzeller1-0/+50
* Add gsl-lite from JCSDA/NOAA-EMC spack fork * Black-format var/spack/repos/builtin/packages/gsl-lite/package.py * Update maintainers and remove redundant dependency in var/spack/repos/builtin/packages/gsl-lite/package.py
2023-02-14py-matplotlib: add v3.7.0 (#35471)Adam J. Stewart1-5/+5
2023-02-14libmonitor: add version 2023.02.13 (#35474)Mark W. Krentel1-0/+1
2023-02-14fftw-api should be used for amdfftw and mkl (#35477)nkgh771-5/+6
fftw-api should be used instead of fftw because amdfftw and mkl can be linked.
2023-02-14Remove obsolete autotools patches (#35479)Sergey Kosukhin12-593/+0
* netcdf-fortran: remove obsolete Autotools patches * openmpi: remove obsolete Autotools patches * parallel-netcdf: remove obsolete Autotools patches
2023-02-14fix intel-tbb build with rocmcc (#35472)Philipp Edelmann1-1/+1
rocmcc is a clang compiler. Pass that information on to the TBB build system.
2023-02-13Add fortls (#35455)Rocco Meli1-0/+26
* fortls * Update var/spack/repos/builtin/packages/py-fortls/package.py * review * Update var/spack/repos/builtin/packages/py-fortls/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * fixes * review --------- Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-02-13py-radiant-mlhub: add new versions (#35470)Adam J. Stewart1-2/+6
2023-02-13py-rasterio: add v1.3.6 (#35464)Adam J. Stewart1-15/+16
2023-02-13shtools: New version 4.10.1 (#35452)Erik Schnetter1-2/+3
2023-02-13Add hdf5-vol-log version 1.4.0. (#35453)Larry Knox1-0/+1
2023-02-13Add chemfiles and py-chemfiles (#35410)Rocco Meli2-0/+53
2023-02-11py-pip: add v23.0 (#35369)Adam J. Stewart1-0/+5
2023-02-10Automated deployment to update package flux-sched 2023-02-09 (#35415)Vanessasaurus1-0/+1
Co-authored-by: github-actions <github-actions@users.noreply.github.com>
2023-02-10py-pytorch-lightning: add v1.9.1 (#35445)Adam J. Stewart2-2/+9
* py-pytorch-lightning: add v1.9.1 * flake8
2023-02-10Adding checksum for 5.3.3 of RVS (#35446)renjithravindrankannath1-0/+1
Co-authored-by: sreenivasa murthy kolam <sreenivasamurthy.kolam@amd.com>
2023-02-10Maintainer username update chissg -> greenc-FNAL (#35444)Chris Green3-3/+3
2023-02-10pmdk: add the latest release 1.12.1 (#35440)H. Joe Lee1-1/+4
* pmdk: add the latest release 1.12.1 Both master and 1.12.1 require CMake. * pmdk: fix style
2023-02-10new py-amplpy package (#35359)Sangu Mbekelu1-0/+25
* new py-amplpy package * [@spackbot] updating style on behalf of sm2939 * Update package.py * Rename var/spack/repos/builtin/py-amplpy/package.py to var/spack/repos/builtin/packages/py-amplpy/package.py * Edited file to change copyright year/dependencies and changed the directory of the file --------- Co-authored-by: Sangu Mbekelu <s.mbekelu9@gmail.com>
2023-02-10spectre: add v2023.02.09 (#35426)SXS Bot1-0/+3
Co-authored-by: sxs-bot <sxs-bot@users.noreply.github.com>
2023-02-10py-fiona: add v1.9.1 (#35433)Adam J. Stewart1-0/+1
2023-02-10bug fix: halide -> Halide or something. (#35431)Teo1-0/+4
2023-02-10Add AlexanderRichert-NOAA as ESMF maintainer (#35430)Alex Richert1-1/+1
2023-02-10singularity-eos: add v1.7.0, cleanup package (#35163)Richard Berger1-27/+11
* singularity-eos: add v1.7.0, cleanup package * Update var/spack/repos/builtin/packages/singularity-eos/package.py --------- Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com> Co-authored-by: rbberger <rbberger@users.noreply.github.com>
2023-02-10Automated deployment to update package flux-core 2023-02-09 (#35414)Vanessasaurus1-0/+1
Co-authored-by: github-actions <github-actions@users.noreply.github.com>
2023-02-10meme add perl-xml-simple dependency (#35408)simonleary-umass-edu1-0/+1
Meme 4.5.0 has the first occurrence of the string ``` use XML::Simple ``` I found this by doing a binary search manually extracting tarballs until `grep` came up empty.
2023-02-09malt: new package (versions : 1.2.1) (#35272)Sébastien Valat1-0/+42
* malt: new package (versions : 1.2.1) * malt: Fix remarks on new package (versions : 1.2.1) * malt: Fix PR remarks by removing un-needed functions overriding * malt: Fix NodeJs => NodeJS * Use new maintainers syntax.
2023-02-09new ampltools package (#35357)Sangu Mbekelu1-0/+19
* new ampltools package * [@spackbot] updating style on behalf of sm2939 * Update and rename var/spack/repos/builtin/py-ampltools/package.py to var/spack/repos/builtin/packages/py-ampltools/package.py Edited file to change copyright year/dependencies and edited directory --------- Co-authored-by: Sangu Mbekelu <s.mbekelu9@gmail.com>
2023-02-09protobuf: add 3.21.12. (#35396)H. Joe Lee1-0/+2
* protobuf: add 3.21.12. * protobuf: add maintainer and fix checksum
2023-02-09Score-P updates for version 8.0 (#35256)Bill Williams4-27/+148
* Add Score-P 8.0 and Cube 4.7/4.8 packages. * Score-P 8.0 requires 4.8, not 4.7, Cube packages * Add maintainer * Add CUDA and HIP variants. Add version checks for CUDA (Score-P 8 requires CUDA 7), ROCm (variant only valid as of Score-P 8), and MPI (Score-P 7 requires at least version 2.2 of the MPI standard). * Deprecate everything pre-7.0. * Fix HIP dependencies and enable CUDA and HIP variants for configure. * Deprecate OTF2 pre-2.3 and Cube pre-4.6
2023-02-09rabbitmq-c: fix bug when POLT < 1.14 compilation failed (POPT_ARG_ARGV ↵Loïc Pottier1-0/+3
undeclared) (#35403) Signed-off-by: Loïc Pottier <pottier1@llnl.gov>
2023-02-09Update package.py (#35402)Frank Willmore1-0/+1
adding explicit dependency on X11 (needed when there is not a system install)
2023-02-09Windows: MSMPI package fixes (#35112)John W. Parent1-7/+17
* Add "fake" mpi compiler wrappers to msmpi: msmpi doesn't actually provide wrappers, so this just assigns the wrappers to be whatever compiler that a dependent is using. Packages referencing the wrappers would otherwise break. This is assumed to be workable because build scripts will need to assemble appropriate information to pass to the compiler anyway * Fix msmpi detection stanza ('executable' is not the correct name of the property) * Fix compiler pkg dereference
2023-02-09tiramisu: new package (#35364)Teo1-0/+71
* add initial package. * Update package.py * Update var/spack/repos/builtin/packages/tiramisu/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/tiramisu/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/tiramisu/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * Update package.py * Hopefully this will be fine. * Update package.py * Update package.py * Update package.py * Update var/spack/repos/builtin/packages/tiramisu/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> --------- Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2023-02-08py-netcdf4: adding version 1.6.2 (#35393)snehring1-1/+3
* py-netcdf4: adding version 1.6.2 * py-netcdf4: updating setuptools dep.
2023-02-08cvise: new package (#35366)Erik Heeren1-0/+36
* cvise: new package * cvise: colordiff as optional dependency * cvise: remove old versions and correctly name master version * cvise: update license date * cvise: use maintainers directive * Remove @olupton as maintainer After live discussion: it's been too long since he did anything with this package.
2023-02-08protobuf-c: add 1.4.1 version (#35397)H. Joe Lee1-0/+2
* protobuf-c: add 1.4.1 version * protobuf-c: add maintainers
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