According to the docs, r is needed for plotting, but plotting is
untested. In addition, the specific version requirement of java for gatk
could lead to multiple installations of r being triggered in an
environment. That might cause people to have to be deliberate about
java in a deployment. All in all, it seems that r is better as a
variant for gatk.
* Set job_id for SGE in darshan-runtime package
* Use a multi value variant for scheduler
Only one scheduler can be selected so make the variant multi valued and
set multi=False.
* hdf-eos5: Fix issue when linking against hdf5+szip (#23411)
Should fix issue #23411 when linking against hdf5+szip
Also fix bug if hdf5 does not depend on zlib
Reluctantly added payerle as a maintainer
Added version 1.1.13
Fixed versions for dependencies based on README.md for package
In particular:
* versions 1.1.x require python@3, at least 3.4 and for 1.1.13 at least 3.6
* py-osqp had been pinned to version 0.4.1, but README.md either shows
no version restriction, of 0.4.1 and higher
* @1.1.13 requires at least 1.1.6 of py-scs
* I am assuming since 1.1.x is python@3 only, py-six no longer required
(it was not explicitly showing up in README.md for these versions)
* add versions 2.2.0.2 and 2.2.1.1
* Add maintainer
Added Ishaan as additional maintainer as he is also maintainer of the Python bindings
* add new major precice version as dependency
* New Package:py-haphpipe@1.0.3
* removed llvm restrict. & changed freebayes
* Style fix
* Removed pip, wheel, added url for deps list
* used proper gsutil naming
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* url src for deps, samtools fix
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* petsc: add hip variant
* libceed: add 0.8, disable occa by default, and let autodetect AVX
Disabling OCCA because backend updates did not make this release and
there are some known bugs so most users won't have reason to use OCCA.
https://github.com/CEED/libCEED/pull/688
* WIP: ceed: 4.0 release
* MFEM package updates (#19748)
* MFEM package updates
* mfem: flake8
* [mfem] Various fixes and tweaks.
[arpack-ng] Add a patch to fix building with IBM XL Fortran.
[libceed] Fix building with IBM XL C/C++.
[pumi] Add C++11 flag for version 2.2.3.
* [mfem] Fix the shared CUDA build.
Reported by: @MPhysXDev
* [mfem] Fix a TODO item
* [mfem] Tweak the AmgX dependencies
* [suite-sparse] Fix the version of the mpfr dependency
* MFEM: add initial HIP support using the ROCmPackage.
* MFEM: add 'slepc' variant.
* MFEM: update the patch for v4.2 for SLEPc.
* mfem: apply 'mfem-4.2-slepc.patch' just to v4.2.
* ceed: apply 'spack style'
* [mfem] Add a patch for mfem v4.2 to work with petsc v3.15.0.
[laghos] Add laghos version 3.1 based on the latest commit in
the repository; this version works with mfem v4.2.
[ceed] For ceed v4.0 use laghos v3.1.
* [libceed] Explicitly set 'CC_VENDOR=icc' when using 'intel'
compiler.
* [mfem] Allow pumi >= 2.2.3 with mfem >= 4.2.0.
[ceed] Use pumi v2.2.5 with ceed v4.0.0.
* [ceed] Explicitly use occa v1.1.0 with ceed v4.0.0.
Use mfem@4.2.0+rocm with ceed@4.0.0+mfem+hip.
* [ceed] Add NekRS v21 as a dependency for ceed v4.0.0.
* [ceed] Fix NekRS version: 21 --> 21.0
* [ceed] Propagate +cuda variant to petsc for ceed v4.0.
* [mfem] Propagate '+rocm' variant to some other packages.
* [ceed] Use +rocm variant of nekrs instead of +hip.
* [ceed] Do not enable magma with ceed@4.0.0+hip.
* [libceed] Fix hip build with libceed@0.8.
* [laghos] For v3.1, use the release .tar.gz file instead of commit.
* Remove cuda & hip variants as they are inherited
* [ceed] Remove comments and FIXMEs about 'magma+hip'.
* [ceed] [libceed] Remove TODOs about occa + hip.
* libceed: use ROCmPackage and +rocm
* petsc: use ROCmPackage for HIP
* libceed, petsc: use CudaPackage
* ceed: forward cuda_arch and amdgpu_target
* [mfem] Use Spack's CudaPackage as a base class; as a result,
'cuda_arch' values should not include the 'sm_' prefix.
Also, propagate 'cuda_arch' and 'amdgpu_target' variants
to enabled dependencies.
* petsc: variant is +rocm, package name is hip
Co-authored-by: Jed Brown <jed@jedbrown.org>
Co-authored-by: Thilina Rathnayake <thilinarmtb@gmail.com>
