Commit Graph

22768 Commits

Author SHA1 Message Date
natshineman
0d92c39d47 Update mvapich2 to 2.3.6 (#23574)
Co-authored-by: Nat Shineman <shineman.5@buckeyemail.osu.edu>
2021-05-14 09:32:21 +02:00
sebrowne
19c7188cbf netcdf-c: refactor fsync variant (#23477)
Simplify logic by just enabling or disabling fsync as user specified
(default to off currently).  Also remove the 4.1 version check, since
that version isn't actually supported in here.

Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2021-05-14 08:59:43 +02:00
Massimiliano Culpo
f47066967b spec: simplify __str__ implementation (#23593)
The implementation for __str__ has been simplified to traverse the spec directly, 
and doesn't call anymore the flat_dependencies method. Dead code has been 
removed.
2021-05-13 21:51:41 -07:00
Frank Willmore
b70bf073b5 cc: change mode to ccld for loopopt edit (#23482)
For configure (e.g. for hdf5) to pass, this option needs to be pulled out when invoked in ccld mode.

I thought it had fixed the issue but I still saw it after that. After some digging, my guess is that I was able
to get hdf5 to build with ifort instead of ifx. Lot of overlapping changes occurring at the time, as it were.
There are still outstanding issues building hdf5 with ifx, and Intel is looking into what appears to be a
compiler bug, but this manifests during build and is likely a separate issue.

I have verified that the making the edit in 'ccld' mode removes the -loopopt=0 and enables hdf5 to pass
configure. It should be fine to make the edit in 'ld' mode as well, but I have not tested that and didn't
include an -or- condition for it.
2021-05-13 21:31:20 -07:00
eugeneswalker
b91f24fa8a py-warpx: new version: 21.05 (#23628) 2021-05-14 02:35:14 +00:00
eugeneswalker
cce59095bf veloc: add v1.3 and v1.2 (#23626) 2021-05-13 18:32:13 -07:00
Axel Huebl
34ec69d140 openPMD-api: 0.13.4 (#23619)
Add the latest release.
2021-05-13 18:22:22 -07:00
Jon Rood
0cc42acbbd Add -DSTK_NO_BOOST_STACKTRACE to compile line in trilinos if +stk and on a Mac. (#23625) 2021-05-13 18:21:40 -07:00
Sreenivasa Murthy Kolam
8b25bdcf4d Enable image_support flag to fix the issues with hipMalloc3D,hipMallocPitch() (#23620) 2021-05-14 00:37:55 +02:00
Greg Sjaardema
98cf0f5e07 seacas: new version, update dependency versions (#23609)
Add new release of SEACAS.

Update netcdf-c version to recent release which fixes some issues that have caused problems in past

Use release version of CGNS instead of develop
2021-05-13 16:48:04 +02:00
Ben Boeckel
9ed1208650 libcatalyst: add package (#23595)
There are no official releases yet, so just use a git snapshot for now.
2021-05-13 16:47:18 +02:00
Davide Mancusi
98d1d40e46 libbsd: do not apply local-elf.h.patch after version 0.10 (#23565) 2021-05-13 11:58:45 +00:00
Adam J. Stewart
91b58112f1 py-cocotools: add new package (#23573) 2021-05-13 13:18:18 +02:00
Davide Mancusi
9a71bd3893 python: use CFLAGS=-fp-model=strict with %oneapi (#23575) 2021-05-13 11:04:21 +00:00
Sreenivasa Murthy Kolam
a4f03dba9c update the version for rocm packages comgr,hip-rocclr ,... for rocm-4.2.0 release (#23608) 2021-05-13 12:27:20 +02:00
dependabot[bot]
725bcd1e80 build(deps): bump actions/cache from 2.1.4 to 2.1.5 (#23584)
Bumps [actions/cache](https://github.com/actions/cache) from 2.1.4 to 2.1.5.
- [Release notes](https://github.com/actions/cache/releases)
- [Commits](https://github.com/actions/cache/compare/v2.1.4...v2.1.5)

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

Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2021-05-13 11:51:30 +02:00
Michael Kuhn
ce0733a4c3 rocksdb: update pkg-config patch (#23601)
The previous version did not fix an error that only occured with clang.
2021-05-13 11:38:05 +02:00
Michael Kuhn
d294438c24 glib: add v2.68.2 (#23603) 2021-05-13 11:31:52 +02:00
Michael Kuhn
a88206de03 libbson: add v1.17.5 (#23604) 2021-05-13 11:31:36 +02:00
Michael Kuhn
4bc043da85 mongo-c-driver: add v1.17.5 (#23605) 2021-05-13 11:31:17 +02:00
Michael Kuhn
2df7947f02 lmdb: add v0.9.29 (#23606) 2021-05-13 11:31:02 +02:00
Michael Kuhn
52145be122 mariadb-c-client: add v3.1.13 (#23607) 2021-05-13 11:30:46 +02:00
Greg Becker
190b043161 config key error: fix format string (#23610) 2021-05-13 11:20:32 +02:00
Jon Rood
97e6c0fda4 nalu-wind: remove SuperLU dependency from Trilinos and simplify recipe (#23600)
* Update Nalu-Wind to remove SuperLU from Trilinos requirement. Also simplify Nalu-Wind package.

* Leave boost option in nalu-wind.

* Add git branches into TPL requirements. Update OpenFAST for change to main branch.
2021-05-13 11:18:43 +02:00
G-Ragghianti
8a40a3a70f slate: add v2021.05.01 (#23612)
Adds a new release version for SLATE and includes 
HIP/ROCm backend support. Now can build with either 
CUDA or ROCm support.
2021-05-13 10:32:31 +02:00
Greg Becker
f8740c8c75 env views: make view updates atomic (#23476)
Currently, environment views blink out of existence during the view regeneration, and are slowly built back up to their new and improved state. This is not good if other processes attempt to access the view -- they can see it in an inconsistent state.

This PR fixes makes environment view updates atomic. This requires a level of indirection (via symlink, similar to nix or guix) from the view root to the underlying implementation on the filesystem. 

Now, an environment view at `/path/to/foo` is a symlink to `/path/to/._foo/<hash>`, where `<hash>` is a hash of the contents of the view.  We construct the view in its content-keyed hash directory, create a new symlink to this directory, and atomically replace the symlink with one to the new view.

This PR has a couple of other benefits:
* It future-proofs environment views so that we can implement rollback.
* It ensures that we don't leave users in an inconsistent state if building a new view fails for some reason.

For background:
* there is no atomic operation in posix that allows for a non-empty directory to be replaced.
* There is an atomic `renameat2` in the linux kernel starting in version 3.15, but many filesystems don't support the system call, including NFS3 and NFS4, which makes it a poor implementation choice for an HPC tool, so we use the symlink approach that others tools like nix and guix have used successfully.
2021-05-13 06:56:20 +00:00
Desmond Orton
ee73f75239 New Package r-dexseq (#23457) 2021-05-12 19:56:56 -05:00
wspear
c2577275f5 tau: depend on provider of elf (#23602)
* tau: depend on provider of elf

* Depends on elf when +elf, not +libdwarf
2021-05-13 00:14:33 +00:00
Terry Cojean
735c48c4aa Update: Ginkgo ROCm setup and smoke tests (#23280)
Add Ginkgo ROCmPackage support and improve tests.
2021-05-12 17:04:08 -06:00
Robert Mijakovic
d19d81a3f4 sqlite3: new version, 3.35.5 (#23592)
Co-authored-by: Robert Mijakovic <robert.mijakovic@lxp.lu>
2021-05-12 21:18:53 +02:00
Brian Van Essen
6b7c57ad47 High performance linkers for LBANN (#23594)
* Added the option to use high performance linkers: gold and lld, for
LBANN.  Including them as build flags causes unnecessary propagation
to all dependent packages, reducing package reuse.
2021-05-12 12:18:01 -07:00
Olivier Cessenat
3c05130258 gmsh: fix variant flags and dependencies (#23563)
* Package gmsh making clear dependencies
* Improvements from reviewer advise
2021-05-12 14:40:00 -04:00
Olivier Cessenat
6403f80a96 ngspice: enhanced to produce bin and more options. (#23495)
* Enhancing package ngspice to produce bin, take options

* Enhancing package ngspice, adding dependencies

* Enhancing package ngspice, typo
2021-05-12 11:04:43 -04:00
Massimiliano Culpo
fc2ac099cd ASP-based solver: account for deprecated versions (#23491)
fixes #22351

The ASP-based solver now accounts for the presence
in the DAG of deprecated versions and tries to minimize
their number at highest priority.
2021-05-12 07:17:38 -07:00
Harmen Stoppels
b768d7bb09 lzo, lz4, xz, binutils: add libs multi-valued variant (#23474) 2021-05-12 12:31:02 +02:00
Tamara Dahlgren
e7219db93d Bugfix for "Revert "craype fix for rempi"" (#23580)
This reverts and fixes commit 1ae28f66c6.

Co-authored-by: lukebroskop <luke.roskop@hpe.com>
2021-05-12 01:31:15 +00:00
Tamara Dahlgren
1ae28f66c6 Revert "craype fix for rempi (#23507)" (#23577)
This reverts commit 297f0e489a.
2021-05-11 17:35:41 -07:00
eugeneswalker
edd35eae71 mercury: flag_handler: fix incorrect indent on return statement (#23579) 2021-05-12 00:34:38 +00:00
eugeneswalker
1d3a4820f6 kvtree: flag_handler: fix incorrect indent on return statement (#23578) 2021-05-12 00:31:27 +00:00
lukebroskop
8d4c2d1c76 Fix cray-libsci package to find correct libraries (#23501) 2021-05-11 16:35:28 -07:00
lukebroskop
297f0e489a craype fix for rempi (#23507)
When comping with cce, use the mpi wrappers
2021-05-11 16:08:51 -07:00
lukebroskop
d549e3a600 CrayPE fix for kvtree (#23513)
Allow for multiple definitions at link time (with cce's linker)

Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2021-05-11 16:01:49 -07:00
lukebroskop
a011564b19 CrayPE fix for mercury (#23514)
allow for multiple definitions at link time (for CCE's linker)


Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2021-05-11 16:00:34 -07:00
lukebroskop
d089409079 CrayPE fix for ascent (#23517)
Pass the -ef flag to the CCE fortran compiler

Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2021-05-11 15:58:36 -07:00
Robert Mijakovic
444c5edf4d blis: new version, 0.8.1 (#23561)
Co-authored-by: Robert Mijakovic <robert.mijakovic@lxp.lu>
2021-05-11 15:38:27 -07:00
Michael Kuhn
c18f87d419 meson: add 0.57.2, 0.58.0 (#23572) 2021-05-11 16:34:36 -06:00
Michael Kuhn
e763ac00fa rocksdb: add 6.20.3 (#23571)
This also adds a patch to fix the pkg-config file when used with C compilers, Clang etc.
2021-05-11 15:34:12 -07:00
lukebroskop
4a50e35262 CrayPE patch for conduit (#23516)
Pass -ef to the CCE Fortran compiler
2021-05-11 15:25:50 -07:00
Peter Scheibel
5230730941 Environments: add run deps to shell modifications (#23485)
When adding an Environment to a user's shell, Spack was only adding
root specs. This now includes run dependencies of root specs.
2021-05-11 14:30:57 -07:00
Robert Mijakovic
57ce5f390b gobject-introspection: fix for Python 3.9. (#22869)
* gobject-introspection: fix for Python 3.9.

* Fixes the too long line formatting issue.

* gobject-introspection: limits the scope of the patch

Co-authored-by: Robert Mijakovic <robert.mijakovic@lxp.lu>
2021-05-11 21:40:21 +02:00