Commit graph

28753 commits

Author SHA1 Message Date
Thomas Madlener
01609b3111
py-awkward: Add latest versions (#29744)
* py-awkward: Add new versions

* py-awkward: Update dependencies

* Make setuptools a runtime dependency as well

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2022-04-15 09:53:27 -05:00
Theofilos Manitaras
fdc9a29a9b
Patch libfabric for the Nvidia compilers (#30090)
* Patch libfabric@1.6.0:1.14.0 for the Nvidia compilers

Signed-off-by: Theofilos Manitaras <manitaras@cscs.ch>
2022-04-15 06:42:26 -06:00
Robert Underwood
0e0c438dd6
Fix R build in containers (#30055)
R needs which as a build dependency, but it may not be provided in a
minimal container.

Co-authored-by: Robert Underwood <runderwood@anl.gov>
2022-04-14 23:06:15 -05:00
Axel Huebl
015046cb97
Add: openPMD-viewer 1.4.0 & validator update (#30083) 2022-04-15 06:03:59 +02:00
Matthieu Dorier
388d5fada3
mochi-thallium: add v0.10.1, update cereal dependency (#30059)
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2022-04-14 21:55:35 -06:00
John W. Parent
2d3a613128
NASM package: fix install on Windows (#29905)
* Don't rely on NASM's nmake to export install target. Spack
  now handles NASM installation; the install tree structure
  mimics NASM Windows installer behavior.
* Add dependency on perl
2022-04-14 12:20:41 -07:00
Jen Herting
ce0346abd9
New package: py-nara-wpe (#29451)
* espnet first build with depends

* [py-nara-wpe] fixed copyright

* [py-nara-wpe] fixing up dependencies

Co-authored-by: Sid Pendelberry <sid@rit.edu>
2022-04-14 14:09:03 -05:00
Jen Herting
00313f9e20
New package: py-distance (#29546)
* [py-distance] created template

* [py-distance]

- added homepage
- added description
- removed fixmes

* [py-distance] depends on setuptools
2022-04-14 14:08:09 -05:00
Howard Pritchard
6c03e1efb6
openmpi: main no longer depends on pandoc (#30068)
we switched to an optional sphinx based way of
generating docs, so remove pandoc, which can cause
issues with latex conflicts.

Signed-off-by: Howard Pritchard <howardp@lanl.gov>
2022-04-14 12:58:30 -06:00
John W. Parent
b1de8a5680
Windows platform: don't allow MakefilePackage (#29904) 2022-04-14 11:41:12 -07:00
Jason Lee
02a1f6f0f1
New package: SICM (#30066) 2022-04-14 12:30:42 -06:00
Cyrus Harrison
79be21c8e4
add conduit 0.8.3 release (#30067) 2022-04-14 11:42:31 -06:00
Dom Heinzeller
bb70e6ffcd
netcdf-cxx4 Package: updates to build on Mac OS (#29246)
Bug fixes for package netcdf-cxx4 so that it builds on macOS semi
case-sensitive filesystems; this includes additional changes to build
netcdf-cxx4 consistently with netcdf-fortran.

* netcdf-fortran: remove unused config_flags
* netcdf-fortran: avoid building without the optimization flags
* netcdf-cxx4: do not enforce autoreconf. This was a rudiment from the
  times when the package was fetched with git, which broke timestamp
  order of the automatically generated Autoconf files.
* netcdf-cxx4: inject PIC flags for C++ when '+pic'
* netcdf-cxx4: inject C/CXXFLAGS via the wrapper
* netcdf-cxx4: fix the underlinking problem for platforms other than darwin
  (add netcdf-c libs netcdf-cxx4 ldlibs flags)
* netcdf-cxx4: remove redundant extension of CPPFLAGS
* netcdf-cxx4: only need to use MPI compiler wrapper when building C
  (vs both C and C++)
* netcdf-cxx4: remove variant 'static'
  This makes it consistent with other packages from the NetCDF
  constellation: always build the static libraries and additionally
  build the shared ones when '+shared'.
* netcdf-cxx4: do not configure --with/--without-pic.
  This makes it consistent with other packages from the NetCDF
  constellation: build the shared libraries with the PIC flag and
  the static ones without it (the default for Autotools) when
  '~pic', and build the static libraries with PIC when '+pic' (to
  make them injectable into other shared libraries).
* netcdf-cxx4: run the tests serially
* netcdf-cxx4: build the plugins only when the tests are run

Co-authored-by: Sergey Kosukhin <sergey.kosukhin@mpimet.mpg.de>
2022-04-14 10:10:30 -07:00
dlkuehn
b09fb467f1
Package rna-seqc: Change jdk dependency to java (#30049)
Co-authored-by: David Kuehn <las_dkuehn@iastate.edu>
2022-04-14 10:02:06 -07:00
Zack Galbreath
dec3e31e60
spack ci: remove relate-CDash-builds functionality (#29950)
gitlab ci: Remove code for relating CDash builds

Relating CDash builds to their dependencies was a seldom used feature.  Removing
it will make it easier for us to reorganize our CDash projects & build groups in the 
future by eliminating the needs to keep track of CDash build ids in our binary mirrors.
2022-04-14 10:42:30 -06:00
Olivier Cessenat
f5520de4bd
libefence: add package for the Electric Fence library from B. Perens (#29595) 2022-04-14 08:53:52 -07:00
Massimiliano Culpo
be99a72d57 Add CHANGELOG for v0.17.2 2022-04-14 16:19:37 +02:00
Kevin Huck
6f1a5c8fee
apex: add v2.5.0 (#30018) 2022-04-14 11:45:02 +02:00
Valentin Volkl
a482970a35
sherpa: fix build of recola interface (#30000) 2022-04-14 11:43:39 +02:00
dependabot[bot]
bbb3f724af
build(deps): bump actions/setup-python from 3.1.1 to 3.1.2 (#30017)
Bumps [actions/setup-python](https://github.com/actions/setup-python) from 3.1.1 to 3.1.2.
- [Release notes](https://github.com/actions/setup-python/releases)
- [Commits](21c0493ecf...98f2ad02fd)

---
updated-dependencies:
- dependency-name: actions/setup-python
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

Signed-off-by: dependabot[bot] <support@github.com>

Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2022-04-14 10:47:01 +02:00
Peter Scheibel
89f6db21f1
Ad-hoc Git commit versions: support submodules (#30037)
* Allow packages to add a 'submodules' property that determines when ad-hoc Git-commit-based versions should initialize submodules

* add support for ad-hoc git-commit-based versions to instantiate submodules if the associated package has a 'submodules' property and it indicates this should happen for the associated spec

* allow Package-level submodule request to influence all explicitly-defined version() in the Package

* skip test on windows which fails because of long paths
2022-04-13 20:05:14 -07:00
dlkuehn
b28b24ccf8
express: version update to 1.5.3 (#29760)
Co-authored-by: snehring <snehring@iastate.edu>
2022-04-13 20:02:53 -06:00
Chris White
3dfa64edab
BLT package: add version 0.5.1 (#30053) 2022-04-13 20:02:27 -06:00
iarspider
2046ca7722
Add checksum for libisl 0.24 and update URL (#30025) 2022-04-13 17:41:34 -07:00
Mikael Simberg
4f5d5bb2ef
Add hpx-kokkos package (#29766)
Co-authored-by: Mikael Simberg <mikael.simberg@iki.if>
2022-04-14 00:23:33 +00:00
Veselin Dobrev
34d9d58924
New package version: mfem v4.4 (#29658) 2022-04-13 16:27:54 -07:00
Dylan Simon
0804637228
distcc: add 3.3.5 for gcc@10 (#29666) 2022-04-13 16:11:36 -07:00
Matthieu Dorier
a837008ff7
[mochi-thallium] added new version of mochi-thallium (#29791) 2022-04-13 14:51:06 -07:00
Jeremy L Thompson
1ffad2073d
libceed - add v0.9 and 0.10.1 (#29820) 2022-04-13 14:47:11 -07:00
Massimiliano Culpo
c846b5149d
Add support for Python 3.10 (#29581)
* Add support for Python 3.10

* Update unit-tests to use 3.10

* Update Getting started section of the docs

* Update bootstrap action
2022-04-13 14:32:23 -07:00
Seth R. Johnson
4c1250854a
perl: fix mac patch (#30001)
- Apply macosx version workaround to all 5.35 and less
- Delete an obsolete mac patch file that I didn't notice when adding
  #28797
2022-04-13 12:34:48 -06:00
iarspider
fbd94b9ad2
Add checksums for xtensor 0.24.1 and xtl 0.7.4 (#30032) 2022-04-13 11:22:59 -06:00
mcourtois
10a3822728
mumps: install header files as compiled (#29940)
Co-authored-by: Mathieu Courtois <mathieu.courtois@edf.fr>
2022-04-13 09:45:47 -07:00
Umar Arshad
586df30f9a
ArrayFire: new version and update CUDA usage (#29988)
* Set CUDA architectures in ArrayFire based on cuda_arch

The cuda_arch flag was not recognized by the ArrayFire package and
therefore any setting was not respected. This commit adds the appropriate
cmake flags if cuda_arch is specified. If no cuda_arch is specified,
then the flag is set to "Auto" which checks the installed compute
architectures on the build system.

* ArrayFire only requires boost headers to build. Update version to 1.75

ArrayFire only requires boost headers at build time. This commit also
updates the version to 1.75 to avoid some errors in Boost Compute

* Disable tests in ArrayFire by default

* Add support for ArrayFire v3.8.1

* Add maintainer for ArrayFire package

* Remove test variant from ArrayFire. Use comprehensions

* Reduce boost requirement in ArrayFire

* Address cuda_arch suggestions

* Add commit hashes to Release versions of ArrayFire

* Fix style issues in ArrayFire package
2022-04-13 09:31:40 -07:00
Paul
803900ddc5
Add Go 1.18 and 1.17.8 (#30035) 2022-04-13 09:29:12 -07:00
Massimiliano Culpo
0480afe29d
CI: avoid issues with Ubuntu patched git by adding safe.directory (#30042)
Ubuntu patched git v2.25.1 with a security fix that also
introduced a breaking change, so v2.25.1 behaves like
v2.35.2 with respect to the use cases in CVE-2022-24765
2022-04-13 11:10:00 +00:00
Harmen Stoppels
cb56e9b745
libbsd: fixes for %nvhpc (#29848) 2022-04-13 11:24:02 +02:00
renjithravindrankannath
6a8aa59717
reverting the changes present in 29017 as CFLAGS and CXXFLAGS which overrides defaults in other packages (#30036) 2022-04-13 08:29:56 +02:00
Daryl W. Grunau
110ade1804
Apply llvm7_intel.patch with intel@19.1.3 (#29955)
* llvm7_intel.patch required for intel@19.1.3 too

* apply llvm7_intel.patch forall intel@19.0 and intel@19.1

Co-authored-by: Daryl W. Grunau <dwg@lanl.gov>
2022-04-12 15:38:11 -07:00
Adam J. Stewart
5db279f986
py-numpy: add v1.21.6 (#30034) 2022-04-12 22:30:13 +00:00
Sergey Kosukhin
67a90a644f
hdf5: remove redundant dependency on numactl (#29914) 2022-04-12 14:55:28 -07:00
Jose E. Roman
fef84f2265
New patch release SLEPc 3.17.1 (#30010)
Co-authored-by: Satish Balay <balay@mcs.anl.gov>
2022-04-12 14:50:32 -07:00
Kyle Gerheiser
b0e35dffa3
Add grib_util v1.2.4 (#30033) 2022-04-12 13:32:19 -07:00
Nathan Hanford
a3520d14bd
Splice differing virtual packages (#27919)
Co-authored-by: Nathan Hanford <hanford1@llnl.gov>
2022-04-12 13:31:39 -07:00
psakievich
7d534f38d6
Don't allow replacement of root develop specs with --reuse (#28605)
* Fix to concretize.lp

do not allow dev specs to be reused

Co-authored-by: Gregory Becker <becker33@llnl.gov>
2022-04-12 10:37:24 -07:00
Peter Scheibel
2aec5b65f3
Git commit versions bugfix: Environments and Concretization (#29717)
Spack added support in #24639 for ad-hoc Git-commit-hash-based
versions: A user can install a package x@hash, where X is a package
that stores its source code in a Git repository, and the hash refers
to a commit in that repository which is not recorded as an explicit
version in the package.py file for X.

A couple issues were found relating to this:

* If an environment defines an alternative package repo (i.e. with
  repos.yaml), and spack.yaml contains user Specs with ad-hoc
  Git-commit-hash-based versions for packages in that repo,
  then as part of retrieving the data needed for version comparisons
  it will attempt to retrieve the package before the environment's
  configuration is instantiated.
* The bookkeeping information added to compare ad-hoc git versions was
  being stripped from Specs during concretization (such that user
  Specs which succeeded before concretizing would then fail after)

This addresses the issues:

* The first issue is resolved by deferring access to the associated
  Package until the versions are actually compared to one another.
* The second issue is resolved by ensuring that the Git bookkeeping
  information is explicitly applied to Specs after they are concretized.

This also:

* Resolves an ambiguity in the mock_git_version_info fixture used to
  create a tree of Git commits and provide a list where each index
  maps to a known commit.
* Isolates the cache used for Git repositories in tests using the
  mock_git_version_info fixture
* Adds a TODO which points out that if the remote Git repository
  overwrites tags, that Spack will then fail when using
  ad-hoc Git-commit-hash-based versions
2022-04-12 09:58:26 -07:00
Mikael Simberg
17e2fb0ef6
Add missing Boost dependencies to pika+generic_coroutines variant (#30026)
Co-authored-by: Mikael Simberg <mikael.simberg@iki.if>
2022-04-12 12:36:14 +02:00
Carlos Bederián
ce09b42cdd
curl: nss deprecated since 7.82 (#30020)
* curl: nss deprecated since 7.82
2022-04-12 03:30:24 -06:00
Brian Van Essen
433d404a93
lbann (and related stack): avoid bug in cmake 3.23.0 (#30019) 2022-04-12 08:56:48 +02:00
Massimiliano Culpo
8d56728984 vmd: remove custom phases 2022-04-12 08:39:15 +02:00