Otherwise, if I run `xenv` after `spack load py-xenv` it fails with:
```
Traceback (most recent call last):
File "/home/vavolkl/spack/opt/spack/linux-centos7-broadwell/gcc-8.3.0/py-xenv-develop_2018-12-20-lqbxakapsepqo5w3sjhhokj5o7c5jei2/bin/xenv", line 6, in <module>
from pkg_resources import load_entry_point
ModuleNotFoundError: No module named 'pkg_resources'
```
* [gaudi] fixes and patches
* Update var/spack/repos/builtin/packages/gaudi/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/gaudi/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Apply suggestions from code review
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* [gaudi] add older versions and fold +tests into +optional
* [gaudi] set run environment
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* grass
* Update var/spack/repos/builtin/packages/grass/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Elizabeth Fischer <elizabeth.fischer@alaska.edu>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
We can control the shared/static build of CMake and the default in
Spack is to build shared libraries. The old, uncontrolled default
of this package is a static build.
* Revise description of patch variant.
* Add qmcpack variant. Apply QE-to-QMCPACK wave function converter patch.
* Clean-up, document, and re-organize.
* ELPA patches did not nead when=`+patch` variant.
* Need to be more precise here with QE version numbers.
* satisfies seems to be necessary here in order to get correct behaviour.
* Buglet with zlib link line.
* Update var/spack/repos/builtin/packages/quantum-espresso/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/quantum-espresso/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Fix for QE-to-QMCPACK wave function converter w.r.t. QE 6.3. Also adjust comments to reflect changes in code.
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
mfem variant hypre is now rolled into variant mpi - so update spec accordingly
mfem@4.0.1-xsdk+superlu-dist is broken and unsupported - so disable it
with the addition of py-petsc4py@3.13.0 - conretizer gets confused and is not picking py-petsc4py@3.12.0 as a compatible dependency with petsc@3.12. So manually specify it.
Also depends_on('py-libensemble@0.5.2+petsc4py ^py-petsc4py@3.12.0' causes concretizer to hang forever
* Add more checksummed versions
* Remove all versions not supported by autotools build method
* Add old build system for older versions
* Add suggested changes
* add amgx package
* add amgx variants for mkl and magma support
* fix typo in cmake option
* flake8 fix formatting
* Apply suggestions from code review - use mkl virtual provider
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Apply suggestions from code review - fix copypasta
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Add additional variants to netcdf-fortran
* Fix duplicate variant
* Clean up variants based on review feedback
* Addtional variant changes
* Convert jna variant to single line
* Fix proper version constraints for jna variant
* cp2k: prettify arch-file, call pkg-config directly
this allows to re-use the arch-file without having to load the complete
Spack environment, for example after a dev-build
* cp2k: use consistency check instead of blas lib enum
this makes using other BLAS/LAPACK implementations possible without
explicitly adding support for them
* cp2k: add basic support for Cray and XL Compilers, correct Intel fp mode
* cp2k: add myself as maintainer
* cp2k: use "master" to denote the git version
* cp2k: use spack_cc/fc/cxx when possible, set CXX explicitly
* cp2k: set __MKL when using the MKL, not just the Intel compiler
* cp2k: drop self. when referencing spec where possible
* cp2k: add forgotten elpa+openmp dep
* cp2k: set C++14 for recent versions
* Add new version: "Abseil LTS branch, Feb 2020, Patch 1"
* Build shared libraries by default with new version
* Older versions do not support building shared libraries
* Update bat and make the url dynamic
- Now depending on the version it will calculate
the url
- This also fixes a weird issue that was reported
on Darwin, back when I reported that Rust wasn't
linking properly on Darwin #15887 on the comment
by hartzell i was also experiencing this issue
* Remove unnecessary stuff
- Removes the need for LLVM
- Removes the need for version calculation.
* Keep the versions on 1 line
* Pass flake8 tests
* Add new package exa
* Format and fix a silly typo
* Fix SHA256 SUM and make URL calculation dynamic
* Remove unnecessary URL calculation
* Update package.py
* Keep the version on 1 line
* Pass flake8 checks
* Add ShengBTE
Adding a new package; ShengBTE. I tried adding it a MakefilePackage, and use build_directory = 'Src', but it was as if the build_directory gets ignored and make complains about target not found. and using the make funtion here instead of os.system, I get errors that config.f90 is not found which is already available under Src as well.
* more enhancmenets
fix lint; use mkl spec; use build_directory variable
* one more fix
* Use Makefile template
* Update var/spack/repos/builtin/packages/shengbte/package.py
use mkl instead of intel-mkl as a dependency
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/shengbte/package.py
update recipe as suggested by reviewer
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* enhance recipe
remove white space; changes as suggested by reviewer
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Fixed SSL pathing for older versions of Python (i.e. @:3.6.999).
* Fixed an issue where the 'python~ssl' variant wasn't properly being respected.
* Improved the '~ssl' patch by making it functional instead of diff-based (enables 3.X.Y patches).
* Fixed comment formatting to satisfy 'flake8' style requirements.
On Power architectures cuDNN will install in a target directory. This
sets cuDNN_ROOT to point to the subdirectory to help dependents use
this install.
The singularity info should actually suggest where you might find the info about the post-install steps.
Co-authored-by: george.hartzell <george.hartzell@sana.com>
Building the `py-jupyter` stack on macOS with AppleClang breaks on
the `py-qtconsole` -> `py-qtconsole` -> `qt +opengl` package build
environment setup with:
```
==> Error: AttributeError: Query of package 'mesa' for 'libs' failed
...
==> Error: Failed to install qt due to ChildError: AttributeError: Query of package 'mesa' for 'libs' failed
```
This tries to add more library targets build by `mesa` to avoid this.
* LLVM: Python Dependency
Effort to expose the linked python library when building LLVM.
This might fix the forward propagation of libintl that comes
with the static python library build on darwin.
* LLDB Py: Remove Ignored Old Flags
Changed in LLVM 10.0+
This allows horovod to be built with frameworks=pytorch,tensorflow.
I tracked down the crash I observed in #15719, where loading torch
before tensorflow would cause a crash in:
google::protobuf::internal::(anonymous
namespace)::InitSCC_DFS(google::protobuf::internal::SCCInfoBase*)
The solution is to make tensorflow compile against the protobuf
version Spack provides, instead of allowing it to use it's own.
It's likely we'll want to go after some of the others
that are listed in third_party/systemlibs/syslibs_configure.bzl
in the future.
* Update var/spack/repos/builtin/packages/py-sqlparse/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Add new package py-sqlparse
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
The major building blocks in many software stacks:
- CPython
- CMake (libuv)
do not build on macOS with GCC. The main problem is that some macOS
framework includes pull in objective-c code and that code does get
misinterpreted as (invalid) C by GCC by default.
Last month VTK-m releases its lastest version named `v1.5.1`. This new
release only contains bugfixes related to compiler error / warnings.
- Depends on CMake >= 3.12
- Set VTKm_NO_ASSERT=ON by default
- add maintainers
Signed-off-by: Vicente Adolfo Bolea Sanchez <vicente.bolea@kitware.com>
Update compiler config with bootstrapped compiler when it was already installed and added config defaults to code so mutable_config test fixture works.
hwloc depends on MPI when netloc is enabled. Note that OpenMPI depends on
netloc, so hwloc cannot use OpenMPI as the MPI provider when netloc is
enabled (this would result in a cyclic dependency).
While building _visit_, I ran into an undefined symbol at link time. I tracked
the missing dependency to _libsm_ needing to know about _libuuid_ at link time.
* phist: add int64 variant and resulting conflicts and dependencies
* phist: use Trilinos TPLs as soon as they are in the spec, not just if +trilinos isexplicitly set
and remove a redundant depends-statement
* phist: use int as gotype for Trilinos dependency if ~int64
* phist: new version 1.9.0
* phist: remove trailing whitespace
* phist: updated checksum (version tag was moved)
* Fix: Flex Reconfigure
Learn the `flex` package how to reconfigure itself when needed.
Fix#11551
Co-authored-by: Andrew W Elble <aweits@rit.edu>
* Autoreconf: only when actually desired
Co-authored-by: Andrew W Elble <aweits@rit.edu>
* New package: sumo
This PR adds the sumo package, as well as the fox package as a
dependency. It also updates and adds some fixes for openscenegraph.
For fox, the patch is for the development version. That patch should not
be necessary in future versions as it has been applied upstream. The
stable version is 1.6.57 and is marked as preferred. This is the version
needed for sumo.
Added dependencies for openscenegraph as well as set constraints on qt
versions.
* Update var/spack/repos/builtin/packages/sumo/package.py
I had intended to set this version constraint but somehow did not.
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Add dependency types to sumo recipe
- googletest: 'test'
- swig: 'build'
- java: 'build', 'run'
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Since #16132, we've consolidated the setting of FORCE_UNSAFE_CONFIGURE to
`autotools.py`, so we don't need to use it in packages like `coreutils`,
in our commands, or in our container recipes.
- [x] Remove FORCE_UNSAFE_CONFIGURE from packages
- [x] Remove FORCE_UNSAFE_CONFIGURE from container recipes
- [x] Remove FORCE_UNSAFE_CONFIGURE from `spack ci` command
* [mfem] A few updates: add 'strumpack' variant; add 'zlib'
variant (same as 'gzstream'); fix optmization flag
for v4.0.
* [mfem] flake8 fix
* [mfem] Add version 4.1
* [mfem] Add/tweak some 'conflicts' directives.
* [gslib] Add new release versions + 'develop' version.
* [petsc] Restrict hdf5 version to <= 1.10.99 since 1.12.0 fails
* [metis] Use the original metis url for v4.0.3.
* [conduit] Remove restrictions to the used hdf5 variant to allow
building with other packages that use hdf5, e.g. petsc.
* [mfem] Few updates:
* Replace the 'gzstream' variant with 'zlib' variant.
* Do not add system library paths with -L flags.
* Allow '+pumi+shared' variant.
* Update the 'test_builds.sh' script.
* [occa] Add version 1.0.9.
* [mfem] Some OCCA and RAJA updates.
* [gslib] Fix the build for new versions of the library.
* [mfem] Add 'gslib' variant for GSLIB.
* [mfem] Add 'cuda' variant.
* [mfem] Add 'libceed' variant + a few more tweaks.
* [mfem] Add 'umpire' variant.
* [ceed] Add a draft for v3.0. Not tested. Just made sure that
concretization works for 'ceed' and 'ceed+cuda'.
* [nek] Fix Nek5000/NekCEM
* [nek] Add Nek5000-v19 & polishing Nek packages
* [flake8] Fix flake8 failure
* petsc: use of HDF5 does not care about +hl+fortran
* [petsc] Temporarily allow any hypre version with petsc@develop.
[ceed] Remove the requirement for hypre@develop.
* [libceed] Do not explicitly set NVCCFLAGS for v0.5 and later.
* [laghos] Add version 3.0, pointing to dev branch for now.
Do not set CXX at the make command line.
Simplify the dependecy directives a little.
[ceed] Use laghos v3.0 for ceed v3.0.0.
* [laghos] Keep the injection of CXX in the makefile for laghos
versions <= 2.0.
* [nekcem] Recovert hash-versions used by older versions of the
'ceed' package.
* [occa] Disable hip autodetection because it fails on some machines.
* [laghos] Update v3.0 with the actual release source.
* [suite-sparse] Explicitly add the c11 flag to CFLAGS.
* Update package.py (#15749)
* [magma] Add forgotten specification of the 'cuda_arch' variant.
* [ceed] Use magma v2.5.3 for ceed v3.0.
* libceed-0.6
* mfem: depend on libceed 0.6:, not 0.6.0:
* [libceed] Add 'magma' variant -- enable MAGMA backend.
* [ceed] In v3.0, use '+magma' variant of libceed when cuda is enabled.
* Initial package for Remhos (needs to be updated with actual sha256
* Adding Remhos to CEED-3.0, for now @develop
* petsc: add 3.13.0 (using petsc-lite) and 3.12.5
* ceed: update to petsc@3.13.0:3.13.99
* Temporary fix
* [nekcem] Add hash-version for ceed v3.0.
* [nek5000] Simplify source urls.
* [nektools] Use the same sources and versions as in nek5000.
* [ceed] Update Nek-related package versions.
* libceed: add v0.6 portabilty fix
* libceed: better v0.6 portabilty fix
* Adding Remhos 1.0 release in CEED-3.0
* Updating hash for Remhos-1.0
* [petsc] Add cuda variant.
* [libceed] Flake8 fix.
* [petsc] Add cuda variant.
* [ceed] Fix the OCCA version to 1.0.9. Enable petsc+cuda when
compiling ceed@3.0.0+cuda.
* nek5000: fix python 2.7+ syntax
* [laghos] Fix testing.
* [remhos] Fix testing.
* [remhos] For testing use the 'tests' target instead of 'test'.
* Add/update the maintainers for ceed, libceed, mfem, laghos, and remhos.
* [ceed] Remove unnecessary dependencies.
* libceed: activate AVX when supported
Co-authored-by: Thilina Rathnayake <thilinarmtb@gmail.com>
Co-authored-by: Jed Brown <jed@jedbrown.org>
Co-authored-by: Stan Tomov <tomov@eecs.utk.edu>
Co-authored-by: Tzanio <tzanio@llnl.gov>
* Throw an error at spack install invocation instead of most of the way through the build process when cuda_arch is unspecified.
* Clean-up of CMake booleans. No actual change.
* Use CMake variables for hwloc and libelf installation directories and avoid injecting extra flags into CMAKE_CXX_FLAGS
* Conflict should only exist for +cuda variant.
* Biopandas python package
* Update var/spack/repos/builtin/packages/py-biopandas/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-biopandas/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* remove scipy dependency
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
At least the v2.0.2.0 tar ball contains compiled object files etc, which
cause the build to fail on other architectures (ppc64le in particular), so
this patch adds a `make clean` after configuring first.
* SourceForge: Mirror Mixin
Add a mixing class for direct `CNAME`s to sourceforge mirrors.
Since the main gateway servers are often down, this could reduce
timeouts and fetch errors for sourceforge.net hosted software.
* SourceForge: unspectacular mirror replacement
add mirrors to all sourceforge packages with trivial
download logic.
tested fetch of latest version of each of these packages
with various mirrors before committing.
* SourceForge: xz
the author homepage is chronocially overrun and this is the offical
upload with many mirrors.
