* Modify Flang NVidia GPU variant to make use of built-in CudaPackage
* Add OpenMP Offload patch if March 2019 compiler is selected.
* Flang parallel build has a race condition.
* llvm-flang now uses built-in CudaPackage.
* Add variant for different build releases.
* Fix OpenMP target offload for NVidia GPUs.
* Additional commong flags that are needed with comments.
* NVidia BC required for libomp target requires special treatment. Use clang built in previous step to re-compile libomptarget.
* Add a new package: Metall
* Fix errors in metall/package.py
* Update var/spack/repos/builtin/packages/metall/package.py
Change to https style URL
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update in metall/package.py. Change Metall to depend on Boost always
* Update in metall/package.py. Change to install Boost with the default variants
* Update metall/package.py. Removed a comment
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Add the OpenBLAS variant `+consistentFPCSR`, by default `False`, which adds the compile definition `CONSISTENT_FPCSR=1` as documented in OpenBLAS `Makefile.rule`.
This PR adds an updated version to the r-rhtslib package as well as fix
the build.
- add patches to use compiler flags from R
- add variables for bzip2 and xz dependencies
- use the spack Makeconf file when building the in-tree htslib
- make patchelf available to allow R to remove reference to temporary
installation directory in htslib shared object
- Add new version of r-rsamtools as the r-rsamtools and r-rhtlib
packages are closely paired.
* Fix run environment
Trying to install Avizo, i get "Error: NameError: name 'run_env' is not defined". Correcting it to be just "env"
* fix identation
Starting with 2020, the tar files are named v2020.0.tar.gz,
v2020.1.tar.gz, etc, not 2020_U1.tar.gz.
https://github.com/intel/tbb/releases
The previous commit (7a10478708) fixed the checksum mismatch, but
didn't update url_for_version (my bad).
UnifyFS no longer has an option to depend on numa. This removes the
numa variant, dependency, and associated conflict.
This commit also
- renames the `pmpi` variant to the more appropriate `auto-mount`
- changes the preferred version to the most recent release
WarpX removed the `dev` branch in favor of a simpler,
`master`-centric development model.
`master` is the new development branch and there is no
stable branch anymore (we use tags and release branches
instead).
* Hydrogen now depends on `aluminum +nccl` vs. `aluminum +mpi_cuda`
* Hydrogen: Simplify Mac OS OpenMP-detection logic
* Aluminum: Add Mac OS OpenMP-detection logic
* LBANN: depend on conduit@0.4.0: instead of conduit@master
Fixes#10019
If multiple instances of a package were installed in a single
instance of Spack, and they differed in terms of dependencies, then
"spack find" would not distinguish specs based on their dependencies.
For example if two instances of X were installed, one with Y and one
with Z, then "spack find X ^Y" would display both instances of X.
This PR creates the r-watermelon package, along with dependencies.
- new package: r-fdb-infiniummethylation-hg19
- new package: r-illuminahumanmethylation450kanno-ilmn12-hg19
- new package: r-lumi
- new package: r-methylumi
- new package: r-roc
- new package: r-txdb-hsapiens-ucsc-hg19-knowngene
- updated package: r-matrixstats, new version needed as a dependency
This PR adds the r-pscbs package along with new dependencies and updates.
- new package: r-aroma-light
- new package: r-r-cache
- updated package: r-r-oo
This PR adds the r-copula package and dependencies.
- new package: r-adgoftest
- new package: r-gsl
- new package: r-pspline
- new package: r-stabledist
* New package - r-rmariadb
This PR creates the r-rmariadb package. It also includes an update to
the r-dbi package as a newer version of that is needed.
* Update var/spack/repos/builtin/packages/r-rmariadb/package.py
Argh, copy/paste. I wish the mirror would list itself as the archive site as well, but it just mirrors that data field from CRAN site. Thanks for catching that, I will make sure to look for that in the future.
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Use mariadb-client
Use mariadb-client so people can set a preferred provider.
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Fixes#14850. Commit 6b1958219 added versions 2020 and 2020.1 for
intel-tbb as part of updating several intel packages but added the
wrong sha256 sums for the github/01org repository.
Also, version 2020 is 2020, not 2020.0.
Add patch makefile-debug to restore the debug targets.
Python depends on gettext. Packages that depend on gettext and Python
together will encounter a concretizer bug which incorrectly detects
a constraint conflict. This sets the default value of +libxml2 in
Python to be the same as gettext so that packages which depend on
both (like mesa) can successfully concretize without adding manual
constraints.
