ADIOS2 is the latest implementation of the ADaptable Input Output System,
ADIOS. This brand new architecture was designed to continue supporting the
performance legacy of ADIOS, and extend its current capabilities to address
current and future input/output (IO) challenges in the scientific data
lifecycle through effective research and development (R&D) activities.
ADIOS2 was recently added as a Third Party Library of Trilinos when it
was integrated to IOSS, a library inside the SEACAS package.
Due to the large number of issues this migration has caused, this rolls back
to the older autotools build. However, it still keeps the updates wrt
variants and virtual packages.
* Apply patch to git to make it search for config files from its current location instead of the locations hard coded at install.
* Add provenance info for patch
* Pass needed flags to make
* Environment variables need because of relocation
* Updating the TAU package with 2.28 and public repo
* Cleaning up TAU package and fixing binutils to install extras
The extras variant will install the extra ELF headers needed
by the TAU package. The TAU package has been cleaned up and
extended.
* Adding some comments to the changes in binutils
* Adding correct python support, finding include and lib paths.
* Added PDT 3.25.1.
* Added TAU v2.28.1 with libdwarf and libelf.
* When +libdwarf is activated, +libelf is not automatically activated. It checks separately for libelf.
* Xrootd: set PYTHON_EXECUTABLE with +python variant
When building with python3 PYTHON_EXECUTABLE needs to be set for deprecated FindPythonInterp to work as expected.
* Add comment
* Flake8
* More flake8
* Update package.py
* typo
* Also add versions 0.9.9.104, 0.9.9.52, 0.9.9.0, and 'develop'
* Replace version 0.9.7 with 0.9.7.0
* Update Rose to be an Autotools package
* Update boost dependency to 1.60.0 or later (previously 1.47.0)
* Add EDG binary identifiers for ROSE versions installing from
archives (rather than git)
* Add variants for mvapich2 backend, c++11, debug symbols,
optimization, and ROSE-based projects (codethorn, autopar, and
polyopt)
* Remove patch add_spack_compiler_recognition
* Improve C++ standard computation in ACTS package
* Use a more clever strategy for aligning ACTS cxxstd with ROOT cxxstd
* Add new ACTS releases
* ACTS is not compatible with the new Boost CMake build system yet
* Explain why Boost 1.70 does not work currently
* Add LSF package, which cannot be installed by Spack and must be
system-installed. The package install will fail if no external
LSF is registered in packages.yaml (LSF may not be installed in a
well-known location and the external entry helps Spack locate it
for dependents).
* Add LSF dependency to OpenMPI when schedulers=lsf is chosen
Previously, the vtkm package was adding a "../" option to the
cmake command line. I suppose this was supposed to be pointing
to the source code, but did not. Rather, Spack correctly adds
the source directory as the first argument to cmake. However,
because ../ was added, it used that as the source directory
instead.
Simply remove this argument to make CMake work correctly.
* bump eospac version
* Revert "bump eospac version"
This reverts commit 835b1f822d8c083f6ab9eb17222c00409e8eb3da.
* Add support for new package: unittest-cpp
Add variant 'pic' for including in shared libraries.
Add build dependency on perl. Compiling mbedtls runs several perl
scripts.
Add versions 2.7.10 and 2.16.1, the heads of the two main stable
branches.
This PR implements several refactors requested in #11373, specifically:
- Config scopes are used to handle builtin defaults, command line overrides
and package overrides (`parallel=False`)
- `Package.make_jobs` attribute has been removed; `make_jobs` remains
as a module-scope variable in the build environment.
- The use of the argument `-j` has been rationalized across commands
- move '-j'/'--jobs' argument into `spack.cmd.common.arguments`
- Add unit tests to check that setting parallel jobs works as expected
- add new test to ensure that build job setting is isolated to each build
- Fix packages that used `Package.make_jobs` (i.e. `bazel`)
* When fabrics=auto or schedulers=auto, the intent is to defer to the
OpenMPI configure and let it determine and use what it finds
available on the system. The current behavior for 'with_or_without'
in the case of 'auto' explicitly disables all possible values.
This updates the logic to call 'with_or_without' only when the
value of fabrics/schedulers is not 'auto'.
* To allow explicitly disabling all fabrics/schedulers, each of these
variants has added support for 'none' (which is also the default
value).
* Add a conflict for the loadleveler scheduler for openmpi-3 and
above as it is no longer a valid configure option.
* Update optional-lite and span-lite to use CMakePackage
These packages only have CMake installs on their most recent versions.
Therefore, we overload all of the CMake stages to fallback to the old
versions (no-op for most, copytree for install), and use CMakePackage on
the new versions.
* Add new string-view-lite version with CMake install support
* Only override phases for old versions of *-lite packages
* trilinos: add variant to disable chaco from seacas
keep it OFF by default due to the presence of the global symbol "divide"
that can lead to symbol clash with other libraries, for example see
https://github.com/dealii/dealii/issues/8170#issuecomment-492700787
* dealii: add conflict statement for adol-c and Trilinos SEACAS Chaco
* dyninst: rework the cmake args for version 10.1 and later
Add a separate when() case for the cmake args for Dyninst 10.1.0 and
later. The prereq args have changed enough that this makes things
easier going forward. (My previous commit 26b9369c was inaccurate and
temporary.)
Dyninst 10.1.0 accepts boost 1.70, but earlier dyninst are restricted
to <= 1.69 (not worth back porting every boost change).
Change all the dyninst versions to 3 digits for clarity and
consistency.
* Add version 10.1.0.
* added patch for intel-tbb@2019.1: with old compilers
* sparately specify when @:2018 and @2019
the reason we can't say @:2019 is that would include @2019.1 where the
patch doesn't work.
* should be possible to list when constraint as @:2019
According to my reading of ["Version ranges" in the Spack
docs](https://spack.readthedocs.io/en/latest/packaging_guide.html#version-ranges),
this should apply to up to `2019` but not `2019.1:`
* @:2019.0 appears to be necessary to specify 2019 but not 2019.1
* specifying 2019.1 2019.2 2019.3 2019.4 separately and explcitly
* flake8 fixes for long lines.
* add comments to explain why so many different patch directives
* remove blank like for flake8
* revert spec %gcc@4.8.0:4.99999 -> %gcc@4.8.0:
- CMake is built *very* frequently, and the number of dependencies it has
accumulated can take a very long time on some systems.
- Use +ownlibs by default to avoid the build overhead. This won't
interfere with other packages by introducing conflicting libraries, as
CMake is nearly always a build dependency.
This avoids using Boost 1.70.0, fixes library access in OpenSpeedShop
packages, adds new versions, and updates QT dependency constraints
in CBTF and OpenSpeedShop packages
- Constrain Boost dependency to 1.69.0 or earlier to avoid issues
with 1.70.0 for Open|SpeedShop and CBTF packages
- Update DYNINSTAPI_RT_LIB environment variable to use single library
from "find_libraries" (which returns a list) in OpenSpeedShop
packages
Fixes#11443
- Add version 1.9.3 for CBTF Argo Navis, CBTF Krell, CBTF LANL, and
CBTF packages
- Add version 2.4.1 for OpenSpeedShop Utils and OpenSpeedShop
packages
- Update QT dependency to 5.10.0 or greater for QtGraph and CBTF Argo
Navis packages
This makes several changes to make CDO work with gcc@9:
- Add version 1.9.7rc2
- Add a patch to make version 1.9.7rc2 build with gcc@9:
- Add a conflict with GCC 9 for earlier versions of CDO
It also adds a pkgconfig build dependency as configure checks for it.
* recon: new package at 1.08
* recon: add period
* recon: use proper decorators, better documentation
* recon: fix incorrect os import
* recon: add repeatmasker patch as variant
The source is managed as a set of files in an FTP URL. Since there
are no FetchStrategy's implemented for this setup, the files are
managed as a set of Resource's
Add dependencies to CMake and GnuTLS which would otherwise be
picked up from the system
* Add gnutls as explicit dependency of CMake
* Add new package libidn2 as explicit dependency for gnutls
* LBANN: add python dependency and required python library dependencies
* LBANN: add version 0.99 as alias for develop branch
* LBANN: build Conduit library by default
* LBANN: CUB is included with Hydrogen for later versions
* New package: py-graphviz (dependency for LBANN)
* New package: py-texttable (dependency for LBANN)
* New package: py-onnx (dependency for LBANN)
* New package: py-typing-extensions (dependency for py-onnx)
* Conduit: add version 0.4.0
* NCCL: Add versions 2.4.6-1 and 2.4.2-1
* Protobuf: Add versions 3.7.1 and 3.7.0
* py-protobuf: add version 3.7.1
* py-typing: add version 3.6.4
* cuDNN: add versions. The source differs depending on the
architecture, so the versions include a suffix to encode this.
For example this adds 7.5.1-10.1-x86_64 as well as
7.5.1-10.1-ppc64le
* cuDNN: Newer versions require newer versions of CUDA
* Hydrogen: add configure options for CUB and Aluminum
The --enable-relax-coord-bound option was added in 1.8.0. NetCDF
4.6.3 enabled relax coords by default and required it from PNetCDF.
PNetCDF 1.10.0 enabled it by default but for versions between 1.8.0
and 1.10.0 it should be enabled explicitly.
* megadock: new package at 4.0.3
* megadock: remove CudaPackage redundancies
* megadock: move env vars to build targets, use cuda_arch variant
* megadock: flake8 fixes, more flexible mathlib
* Fix py-yt for Python 2 by requesting older py-ipython version.
* Add conflicts statement to py-ipython because version 7: is not
compatible with python@2.7
f242f5f removed spec.architecture.platform_os, which was used to test
an option in the 'm4' package. The attribute is now accessed as
'spec.architecture.os'.
* Add versions 3.27.{0,1,2} and 3.28.0
* Add url_for_version: the URL format includes the year so this
function maps version ranges to years
* Restore patches for versions removed in 84c547c: this commit
removed versions before 3.26.0 due to a security issue with FTS
support. Add a +fts variant (default true) that enables FTS
support along with a conflict for +fts with earlier versions.
* Starting with the upcoming 10.1 release, Dyninst changed the names of
some cmake args to camel case: LIBELF_* to LibElf_* and LIBDWARF_* to
LibDwarf_*. This change is needed now for @develop and will be used
for 10.1 when it is released.
* New versions of Dyninst now requires cmake version 3.4.0 or later.
* Restrict boost dependency version to < 1.70.0 to avoid build error
+ The additional patch enables a non-optimized random123 code path that will
work on ARM architectures. This solution is provided only for version 1.09 to
allow the most current version of Random123 to function on ARM architectures.
+ A more complete, long term solution will be the addition of a native ARM
intrinsics-based implementation of random123. This solution is being worked
on but it is several weeks or months away. Once the full implementation is
available it will be provided to the author/maintainer of Random123.
The default install for llvm should just be the common typical case, i.e.
support for local host and cpu architectures. Enablingsupport for the wide
array of auxiliary architectures should be explicit rather than implicit.
* Mesa should depend_on('glproto')
The mesa package refers to `GL/glproto.h`. On systems that don't have
the OS packages installed, this leads to failures during the build
[e.g. this comment in
01482](https://github.com/spack/spack/pull/10482#issuecomment-488786745).
This fixes it. Tested on a minimally provisioned CentOS 7.
* Constrain glproto prereq to when +glx
* mesa: make glproto a build only dep
* The 'mkl' variant implementation was not complete and was
preventing the package from building, so remove it.
* The slate.hh file has moved in the 'develop' version (which is
currently the only version of SLATE listed)
* FAODEL: Add FAODEL package to spack
FAODEL (Flexible, Asynchronous, Object Data-Exchange Libraries) is a collection
of software libraries that are used to implement different data management
services on high-performance computing (HPC) platforms. This project is part of
the Advanced Technology Development and Mitigation (ATDM) effort for NNSA's ASC
program at Sandia National Laboratories.
(cherry picked from commit 6afe045d25b5c000b612116a5695aebbec56b61a)
* FAODEL: Update FAODEL package
Dependencies: set minimum versions for boost, cmake and libfabric
Dependencies: add conflict for boost v1.59.0
Patch: add a patch for v1.1803.1
Patch: add a when= for the v1.1811.1 specific patches
Compiler: check for C++11 support in gcc
(cherry picked from commit fb6ed2b3cf20d7e4fff647cba5a70887a78f627f)
* FAODEL: Update FAODEL package
* replace previous maintainers with @tkordenbrock and @craigulmer
* default to shared libs to meet Spack policy
* increase min boost version to 1.60.0 and remove boost 1.59.0 conflict
* replace complex version check with conflict for gcc <= 4.8.0 (C++11 support required)
* set type=build for cmake
* enable googletest for all versions with type=build
* enable tests for for all versions except when MPI is disabled
* FAODEL: Update FAODEL package
* add version v1.1811.2
* limit comment line length
* arm-forge: add all available versions
* Add TODO for the version hell
* Fix linting
Looks like 'black' formatter isn't Spack friendly
* Fix versions ordering
* Remove obsolete package (allinea-forge → arm-forge)
* Set mpi compiler wrappers using CC/etc. variables as recommended
at https://spack.readthedocs.io/en/latest/packaging_guide.html#compiler-wrappers
rather than setting CMake variables like -DCMAKE_C_COMPILER
* Use convenience functionality provided by inherited CMakePackage to
export all compiler flags as CMake options
* Remove old Singularity versions, add version 3.1.1
* Recent versions of Singularity build with go rather than autotools:
update dependencies and build logic
* Move old Singularity versions to new singularity-legacy package
which uses the autotools build system
* Some binaries built by Singularity need to be run as root: include
a script that the user can run after the Spack Singularity install
to change these permissions.
* The Singularity go build expects to work with a custom stage
directory relative to GOPATH: override the stage phase to create
this expected path.
* Update Singularity install config to point to Spack-installed
makesquashfs dependency
Based on the LLVM documentation [1], Python is used to run the automated
test suite. Therefore is it always a dependency for LLVM. However, if
build without Python (~python), we limit it to a build time dependency.
Note that py-lit is not added as a spack dependency even though it is
available as a spack package. This is because it is already included
in llvm and llvm is difficult to configure using an external py-lit
(several CMake variables to set correctly). Additionally, having
py-lit as a spack dependency adds Python as a runtime dependency
for llvm even though it is not required at runtime.
[1] https://llvm.org/docs/GettingStarted.html#requirements
* extend Version class so that 2.0 > 1.develop > 1.1
* add concretization tests, with preferences and preferred version.
* add master, head, trunk as develop-like versions, develop > master > head > trunk
* update documentation on version comparison
* Version 1.0.0 was released and the master branch tracks the
latest release.
* Multiple issues with MacOS have been fixed. The static patch is
now unneeded.
* Add support for building Ginkgo with the full Block Jacobi
performance (compilation takes a long time).
* Do not build anything which is not useful for the installation.
Namely, documentation, benchmarks, examples and tests.
* mesa: re-writen to new meson build system
* xorg-server: Remove unneeded mesa dependency
* glx: provide the virtual GLX package
* Convert most "mesa" dependencies to use virtual gl and glx dependencies
* mesa: Switch to always building from the git repo instead of a tarball
* Use gl and glx version ranges instead of exact versions
* glx: provide a default package
* add auto to swr variant
* Revert "add auto to swr variant"
This reverts commit 2e7cd8a8aca07767c00657d0d09985ddd6306883.
* update mesa package to version 19.0
* set +glx by default only when running on linux
* fix style issues in geant4 package
* remove virtual package "egl"
margo package is a required dependency for unifycr but the package
was not available in spack. margo requires a recent version of argobots
that has the ABT_SCHED_BASIC_WAIT scheduler (rc1 does while previously
available versions of this package in spack did not have it).
Kahip does not build with clang (conflicts('%clang') in kahip package.
Because of this, openfoam-com %clang fails concretization. Therefore,
this changes the default openfoam-com variant for kahip to False.
* Remove -ffast-math optimization flag
* Add 'develop' version which points to git repo
* Depend on libint for all versions >= 3.0
* Build directory is different for versions >= 7 (including develop)
* Add "make test" as post install check
* Add versions 3.4.4 through 4.1.0 and 4.1.0-openvino
* Add conflict for gcc version >= 7 when building with +cuda
* Later version of protobuf is required for later versions of OpenCV
* Explicitly remove protobuf dependency with CMake option when not
building with +dnn
* root: new versions, variants and patches to bring in to line with FNAL's use.
* Support MySQL.
* Patches:
* Bigger stringbuf.
* Find MySQL even when it's called mariadb-c-client.
* Honor external provision of unuran.
* Properly handle the ROOT7 web GUI for 6.16/00.
* `memstat` variant is now default-OFF due to version-related constraints.
* Add missing dependencies.
* Propagate `python` to `libxml2`.
* Handle external FTGL dependency with X / OpenGL: depends on PR ####
* Force `SPACK_INCLUDE_DIRS` to avoid warning.
* New `gminimal` variant default ON per discussion with Javier Cervantes.
* Style fixes per flake8.
* Remove redundant `PATH_SUFFIX` per https://github.com/root-project/root/pull/1993#discussion_r276840329
* Comment patches per https://github.com/spack/spack/pull/11215#discussion_r276887199.
* Reflect the fact that MariaDB support patch is now upstream.
* Restore ncurses dependency for libtinfo.
Add zlib dependency to squashfs
On my CentOS system it was getting linked in (from Spack, no less)
fortuitously.
On a minimal Ubuntu system it failed until it was added as an explicit
dependency.
* ftgl: update to 2.1.3-rc5.
This updates to the last release (from 2008) with patches required to work with Spack and Root.
* Working 2.1.2 with/without docs, 2.1.3-rc5 without.
Allow specifying whether AVX2 or AVX512 should be enabled or disabled
on x86 targets.
As AVX2 hardware and toolchain support is quite ubiquitous by now,
AVX2 is enabled by default. Also AVX2 support is not disabled when
building the +virtual_machine variant.
AVX512 is not supported in older but still supported toolchains,
hardware is still expensive, and OpenBLAS AVX512 kernels still have
bugs. Thus AVX512 is disabled by default.
* Add Mercury version 1.0.1
* Remove cci and bmi dependency requirements: these are not currently
defined in Spack. If +bmi is enabled, the effect is that it may
use a system install of bmi
* Add a note that fabtests is deprecated and has been folded into the
libfabric package. Add the fabtests resource to the libfabric
package
* Add CMake option settings to Mercury based on variant settings
* Mercury: Set OFI testing protocol depending on how libfabric was
built
* Mercury: add version constraints to dependencies
Fixes#11226
MySQL 5.7.X and Boost 1.59.0 have a closer relationship than
MySQL >= 8.0 and their corresponding Boost versions: 5.7.X needs to
link against boost libraries which is indicated by marking boost as
a link dependency (removing the 'type' reverts to the default, which
includes link and build).
Starting with version 7.64.0, curl skips cookies specified with "-H"
(generic custom header specification) when following redirects, which
causes the "accept-license"-cookie for jdk to disappear. The result
is that jdk fails to download. This uses the "-b" option (which is
used specifically for configuring cookies) instead, which is more
permissive.
