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Author SHA1 Message Date
Pariksheet Nanda
0b606b01dc
uqtk: bump (#36670) 
1. support version 3.1.3, which now depends on sundials@6

2. support version 3.1.2:, which broke the two patch files and
   therefore the two patch files have been replaced by more flexible
   filter_file() commands inside a patch() function.

3. rename the variant for python extension from using the package name
   "+pyuqtk" to the more standard "+python"

4. add maintainers @omsai and the upstream developer @bjdebus who
   offered to help with the spack packaging.

5. swig should only be a build-time dependency.  swig is only
   necessary until @:3.1.0

6. confirmed python dependencies are correct by inspecting imports,
   subset python dependencies type to build, run, and confirmed all
   31 build-time tests pass including the 9 python tests:

```console
$ spack env create uqtk-dev
$ spack add uqtk@3.1.3
$ spack install --test root && cat $(spack location -i uqtk)/.spack/install-time-test-log.txt
==> Testing package uqtk-3.1.3-nok6fut
==> [2023-04-19-14:56:25.005361] Running build-time tests
==> [2023-04-19-14:56:25.005536] RUN-TESTS: build-time tests [check]
==> [2023-04-19-14:56:25.009543] '/home/omsai/src/spack/opt/spack/linux-pureos10-skylake/gcc-10.2.1/gmake-4.4.1-b6g4apmfvxz3bn4eabh37dehcrg65fj7/bin/make' '-j4' '-n' 'test'
==> [2023-04-19-14:56:25.014903] '/home/omsai/src/spack/opt/spack/linux-pureos10-skylake/gcc-10.2.1/gmake-4.4.1-b6g4apmfvxz3bn4eabh37dehcrg65fj7/bin/make' '-j4' 'test'
Running tests...
/home/omsai/src/spack/opt/spack/linux-pureos10-skylake/gcc-10.2.1/cmake-3.26.3-zjmsfz23j5l4ytniz26uzvxonlu5qebr/bin/ctest --force-new-ctest-process
Test project /tmp/omsai/spack-stage/spack-stage-uqtk-3.1.3-nok6fut47h42cnaau7wkoohgqy5f2qqa/spack-build-nok6fut
      Start  1: ArrayReadAndWrite
      Start  2: ArrayDelColumn
      Start  3: Array1DMiscTest
      Start  4: Array2DMiscTest
 1/31 Test  #1: ArrayReadAndWrite ................   Passed    0.01 sec
      Start  5: ArraySortTest
 2/31 Test  #2: ArrayDelColumn ...................   Passed    0.01 sec
      Start  6: MultiIndexTest
 3/31 Test  #3: Array1DMiscTest ..................   Passed    0.01 sec
      Start  7: CorrTest
 4/31 Test  #4: Array2DMiscTest ..................   Passed    0.01 sec
      Start  8: QuadLUTest
 5/31 Test  #5: ArraySortTest ....................   Passed    0.02 sec
      Start  9: MCMC2dTest
 6/31 Test  #6: MultiIndexTest ...................   Passed    0.01 sec
      Start 10: MCMCRandomTest
 7/31 Test  #8: QuadLUTest .......................   Passed    0.02 sec
      Start 11: MCMCNestedTest
 8/31 Test #10: MCMCRandomTest ...................   Passed    0.02 sec
      Start 12: Deriv1dTest
 9/31 Test #12: Deriv1dTest ......................   Passed    0.01 sec
      Start 13: SecondDeriv1dTest
10/31 Test #13: SecondDeriv1dTest ................   Passed    0.01 sec
      Start 14: GradHessianTest
11/31 Test #11: MCMCNestedTest ...................   Passed    0.03 sec
      Start 15: GradientPCETest
12/31 Test #14: GradHessianTest ..................   Passed    0.01 sec
      Start 16: PCE1dTest
13/31 Test #15: GradientPCETest ..................   Passed    0.01 sec
      Start 17: PCEImplTest
14/31 Test #16: PCE1dTest ........................   Passed    0.01 sec
      Start 18: PCELogTest
15/31 Test #18: PCELogTest .......................   Passed    0.01 sec
      Start 19: Hessian2dTest
16/31 Test #19: Hessian2dTest ....................   Passed    0.01 sec
      Start 20: BCS1dTest
17/31 Test #20: BCS1dTest ........................   Passed    0.01 sec
      Start 21: BCS2dTest
18/31 Test #21: BCS2dTest ........................   Passed    0.01 sec
      Start 22: LowRankRegrTest
19/31 Test #22: LowRankRegrTest ..................   Passed    0.01 sec
      Start 23: PyModTest
20/31 Test #17: PCEImplTest ......................   Passed    0.07 sec
      Start 24: PyArrayTest
21/31 Test #23: PyModTest ........................   Passed    0.08 sec
      Start 25: PyArrayTest2
22/31 Test #25: PyArrayTest2 .....................   Passed    0.30 sec
      Start 26: PyQuadTest
23/31 Test #24: PyArrayTest ......................   Passed    1.44 sec
      Start 27: PyBCSTest1D
24/31 Test #26: PyQuadTest .......................   Passed    1.68 sec
      Start 28: PyBCSTest2D
25/31 Test #27: PyBCSTest1D ......................   Passed    1.66 sec
      Start 29: PyBADPTest
26/31 Test  #7: CorrTest .........................   Passed    3.43 sec
      Start 30: PyRegressionTest
27/31 Test #28: PyBCSTest2D ......................   Passed    1.50 sec
      Start 31: PyGalerkinTest
28/31 Test  #9: MCMC2dTest .......................   Passed    3.90 sec
29/31 Test #29: PyBADPTest .......................   Passed    1.66 sec
30/31 Test #30: PyRegressionTest .................   Passed    1.72 sec
31/31 Test #31: PyGalerkinTest ...................   Passed    1.63 sec

100% tests passed, 0 tests failed out of 31

Total Test time (real) =   5.35 sec
==> [2023-04-19-14:56:30.382797] '/home/omsai/src/spack/opt/spack/linux-pureos10-skylake/gcc-10.2.1/gmake-4.4.1-b6g4apmfvxz3bn4eabh37dehcrg65fj7/bin/make' '-j4' '-n' 'check'
==> [2023-04-19-14:56:30.385983] Target 'check' not found in Makefile
```
 2023-04-20 18:53:39 -07:00
afzpatel
134b954c7f
enabling test for rccl hsakmt-roct and rocm-opencl (#35465) 
* initial commit for enabling test for rccl hsakmt-roct and rocm-opencl
* fix styling and cleaning code
* adding missing imports and minor fixes
* minor style fix
* moidfying hsakmt-roct test to run right after installation
 2023-04-20 18:39:49 -07:00
Daniel Ahlin
bf970ebf9d
nccl-fastsocket: initial packaging for nccl-fastsocket (#36557) 
* nccl-fastsocket: Add NCCL transport plugin for GCP
* nccl-fastsocket: remove auto-gen. header and fix maintainers
* Update var/spack/repos/builtin/packages/nccl-fastsocket/package.py
* nccl-fastsocket: Add rationale for setting LD_LIBRARY_PATH

---------

Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
 2023-04-20 21:38:40 -04:00
MatthewLieber
af47b9170c
osu-micro-benchmarks: adding sha for 7.1 release (#36702) 
* adding sha for 7.1 release
* add a new version

---------

Co-authored-by: Matt Lieber <lieber.31@osu.edu>
 2023-04-20 18:33:58 -07:00
Ashwin Kumar Karnad
bf04551bf5
Fix bigdft-suite compilation (#36612) 
(from d20f284100)
 2023-04-20 18:18:11 -07:00
Wouter Deconinck
a419ffcf50
osg-ca-certs: igtf link should point to version, not 'current' (#35977) 
* osg-ca-certs: igtf link should point to version, not 'current'
* osg-ca-certs: new version 1.110.igtf.1.119
* [@spackbot] updating style on behalf of wdconinc

---------

Co-authored-by: wdconinc <wdconinc@users.noreply.github.com>
 2023-04-20 18:09:27 -07:00
Cory Bloor
de7c82f13f
hiprand: split into new package (#36798) 2023-04-20 17:48:54 -07:00
Adam J. Stewart
37fb2c8dce
py-kornia: add v0.6.12 (#37074) 2023-04-20 20:48:35 -04:00
Alec Scott
329fa0f067
libxaw3d: add v1.6.4 (#36854) 2023-04-20 17:35:32 -07:00
snehring
9d97ed1190
bamutil: fix filter_file invocation (#36978) 2023-04-20 17:25:51 -07:00
snehring
794fc47722
gmap-gsnap: adding new version 2023-03-24 (#36983) 2023-04-20 17:12:30 -07:00
Erik Schnetter
5842e17085
netlib-lapack: New version 3.11.0 (#36984) 2023-04-20 17:10:47 -07:00
Annop Wongwathanarat
5ef7e90462
lammps: add linking with acfl for FFT (#37000) 2023-04-20 16:48:24 -07:00
Adam J. Stewart
05215e016b
ML CI: fix mirror name (#37007) 2023-04-20 16:45:15 -07:00
Pieter Ghysels
1ddde85221
Upgrade to STRUMPACK v7.1.0, update minimum CMake version (#37014) 
* Upgrade to STRUMPACK v7.1.0, update minimum CMake version
* Update to v7.1.1, which has a fix for ROCm
 2023-04-20 16:42:36 -07:00
Glenn Johnson
da8be02e66
ants: add version 2.4.3 (#37031) 
* ants: add version 2.4.3
  - add version 2.4.3
  - deprecate old git version
* [@spackbot] updating style on behalf of glennpj

---------

Co-authored-by: glennpj <glennpj@users.noreply.github.com>
 2023-04-20 16:31:27 -07:00
Rémi Lacroix
c348776096
Add new package MozJPEG (#37052) 
* Add new package MozJPEG
  MozJPEG is a patched version of libjpeg-turbo which improves JPEG compression efficiency achieving higher visual quality and smaller file sizes at the same time.
* MozJPEG: Add myself as a maintainer and fix style
 2023-04-20 19:28:07 -04:00
Glenn Johnson
683b933f68
atompaw: add version 4.2.0.2 (#37035) 2023-04-20 16:07:33 -07:00
Alec Scott
5c5f3c00a3
emacs: default to +tls true (#37038) 
* emacs: default to +tls true
* Add myself as a maintainer for emacs pkg
 2023-04-20 15:53:11 -07:00
AMD Toolchain Support
d5c549f1e6
stream optimization for aocc (#37039) 2023-04-20 15:45:17 -07:00
Olivier Cessenat
8fb38e3982
poppler-data: new version 0.4.12 (#37042) 2023-04-20 15:35:51 -07:00
Olivier Cessenat
61ce48c2ac
poppler: new version 23.04.0 (#37043) 2023-04-20 15:34:40 -07:00
Olivier Cessenat
af19e51966
gxsview: new version 2022.11.04 (#37050) 2023-04-20 15:32:02 -07:00
Olivier Cessenat
04aaaa8270
netpbm: new version 10.73.43 (#37051) 2023-04-20 15:31:03 -07:00
Adam J. Stewart
f174bca689
py-lightly: add v1.4.2 (#37053) 
* py-lightly: add v1.4.2
* pytorch and lightning 2.0 now supported
 2023-04-20 15:29:53 -07:00
Cameron Book
7c9359d57e
Add scotch-7.0.3 checksum. (#37054) 2023-04-20 15:26:50 -07:00
Kelly (KT) Thompson
09100ac5d9
Provide version 1.16 of lcov; volunteer to be maintainer. (#37056) 2023-04-20 13:51:39 -07:00
Emil Briggs
2b2c84aa8a
rmgdft: new version 5.2.0 (#37059) 
* Update for v5.0.4 release.
* Updated for version 5.0.5.
* Updated for new release.
 2023-04-20 13:38:31 -07:00
snehring
a513272665
prism: adding new version 4.7 and java version restriction (#37061) 2023-04-20 13:36:01 -07:00
Matthew Thompson
843c0c060b
gftl: add version 1.9.0, 1.10.0 (#37062) 2023-04-20 13:32:10 -07:00
Matthew Thompson
772772f14d
gftl-shared: add version 1.6.0 (#37063) 2023-04-20 13:25:54 -07:00
Erik Schnetter
be133cd3d6
mpitrampoline: New version 5.3.0 (#37065) 2023-04-20 13:23:30 -07:00
Matthew Thompson
0ffedf2eba
fargparse: add version 1.5.0 (#37066) 2023-04-20 13:22:08 -07:00
Matthew Thompson
82cfccaf85
pfunit: add version 4.7.0 (#37067) 2023-04-20 13:21:10 -07:00
Matthew Thompson
7d9e531de2
yafyaml: add version 1.1.0 (#37068) 2023-04-20 13:19:47 -07:00
Matthew Thompson
c0f096467e
pflogger: add version 1.9.5, 1.10.0 (#37069) 2023-04-20 13:18:25 -07:00
Vicente Bolea
9684b03bff
adios2: add latest release (#36563) 2023-04-20 14:50:51 -05:00
Alec Scott
1fb5707235
r-renv: add v0.17.3 (#36944) 2023-04-20 12:33:29 -05:00
Brian Vanderwende
381f1b76a7
Add RPC lib path to wrapper flags for HDF4 (#35628) 2023-04-20 08:49:04 -07:00
Massimiliano Culpo
1b7cf171ce
Use core API to create a Makefile during bootstrapping (#37023) 2023-04-20 15:11:56 +02:00
Adam J. Stewart
01913d08e7
google-cloud-cli: add new package (#36830) 
* google-cloud-cli: add new package

* black fixes

* Less verbose

* [@spackbot] updating style on behalf of adamjstewart

* More robust if ver doesn't exist for platform

* Deprecate ancient GEE

* Fix ppc64le bug

---------

Co-authored-by: adamjstewart <adamjstewart@users.noreply.github.com>
 2023-04-19 16:12:03 -07:00
Adam J. Stewart
d5fa062e4a
py-einops: add v0.6.1 (#37027) 2023-04-19 15:23:19 -07:00
Erik Schnetter
b164c03b09
coreutils: New version 9.3 (#37021) 2023-04-19 14:18:34 -07:00
Harmen Stoppels
d51af675ef
make version(...) kwargs explicit (#36998) 
- [x] Replace `version(ver, checksum=None, **kwargs)` signature with
      `version(ver, checksum=None, *, sha256=..., ...)` explicitly listing all arguments.
- [x] Fix various issues in packages:
  - `tags` instead of `tag`
  - `default` instead of `preferred`
  - `sha26` instead of `sha256`
  - etc

Also, use `sha256=...` consistently.

Note: setting `sha256` currently doesn't validate the checksum length, so you could do
`sha256="a"*32` and it would get checked as `md5`... but that's something for another PR.
 2023-04-19 14:17:47 -07:00
Wouter Deconinck
c7508dc216
py-torch: define property cmake_prefix_paths (#37012) 
* py-torch: define property cmake_prefix_paths

`py-torch` installs `libtorch` and a cmake config in a non-standard location. This points downstream code to the relevant locations. From there it should pick up the correctly library and include paths for C++ projects.

* py-torch: python_platlib suggestion

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

* [@spackbot] updating style on behalf of wdconinc

* py-torch: back to self.spec["python"].package.platlib

* [@spackbot] updating style on behalf of wdconinc

---------

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: wdconinc <wdconinc@users.noreply.github.com>
 2023-04-19 17:12:45 -04:00
Veselin Dobrev
6ca41cfbcb
Add mfem v4.5.2 and related updates/tweaks in other packages (#36154) 
* Add mfem v4.5.2 and related updates/tweaks in other packages

* [mfem] Add the release source link for MFEM v4.5.2

* [mfem] Remove 'goxberry' (his request) from MFEM's maintainers list
 2023-04-19 05:55:31 -07:00
Harmen Stoppels
ae909b3688
Extract depfile logic from cli command into a core module (#36995) 2023-04-19 14:36:29 +02:00
Alec Scott
3a5e48f476
installer.py: drop build edges of installed packages by default (#36707) 
This means that `spack install` will now build the minimal set of packages
required to install the root(s).

To opt out of build edge pruning, use `spack install --include-build-deps`.

Co-authored-by: Harmen Stoppels <harmenstoppels@gmail.com>
 2023-04-19 10:00:40 +02:00
Alec Scott
899838b325
apachetop: add v0.23.2 (#37017) 2023-04-19 09:48:52 +02:00
Alec Scott
001bf93ea3
r-rcpptoml: add v0.2.2 (#36886) 2023-04-19 02:07:40 -04:00