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Author SHA1 Message Date
Evgeny Posenitskiy
519e7e0bb0 New package: trexio (#31769) 
* [WIP] first working Spack spec for TREXIO

* add patch to prepend -lhdf5_hl to LIBS

* Fix spack stype issues

* trexio: Fix hashes and hdf5 variant build

* trexio: Remove import from Spack

* trexio: Fix the isort error

* Apply suggestions from code review

By @tldahlgren

Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>

Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
 2022-07-28 15:05:28 -07:00
snehring
bc555fd148 sentieon-genomics: update version to 202112.05 (#31788) 2022-07-28 15:03:40 -07:00
Harmen Stoppels
e4f0f3582e environment.py: only install root specs explicitly (#31645) 2022-07-28 12:16:35 -07:00
Sam Reeve
e8cce0f7cb Cabana: add test variants (#31776) 
* Simplify Cabana build flags
* Add unit tests, examples, and performance options
 2022-07-28 11:21:53 -07:00
Manuela Kuhn
fc4d74b132 py-rsatoolbox: add 0.0.4 (#31785) 2022-07-28 09:59:34 -07:00
Brent Huisman
9ec05f045f New version of Arbor package (#31660) 2022-07-28 13:11:51 +02:00
Harmen Stoppels
09a945d924 gcc: fix unstable patch urls (#31784) 
the patch urls dynamically generate a diff, which includes metadata
about the git version used, meaning they are not content-addressable.

instead ship the patches with spack.
 2022-07-28 11:49:56 +02:00
Filippo Spiga
9ed2d07d68 Adding NVIDIA HPC SDK 22.7 (#31770) 2022-07-28 03:25:58 -06:00
Stephen Sachs
584cc47fb3 Fix parsing of clean_url (#31783) 
In #31618 the idea was to determine the file extension heuristically by dropping query params etc from a url and then consider it as a file path. That broke for URLs that only have query params like http://example.com/?patch=x as it would result in empty string as basename. This PR reverts to the old behavior of saving files as ?patch=x in that case.

Co-authored-by: Stephen Sachs <stesachs@amazon.com>
 2022-07-28 09:24:19 +00:00
Erik Schnetter
2dd4795f56 mpitrampoline: New version 5.0.1 (#31772) 2022-07-28 02:33:45 -06:00
AMD Toolchain Support
6c0ca932aa Adding Flamemaster product (#31126) 
* Adding Flamemaster product

About FlameMaster: Flamemaster is an open source C++ program package for 0D
combustion and 1D laminar flame calculations.

* Addressed review comments and style tests errors

* Addressed style tests errors

* Incorporated spack style of coding

* Fixed following spack style error

[E228] missing whitespace around modulo operator

* Update package.py

addressing style issues

* Update package.py

* Changes to maintainers entry
 2022-07-27 15:44:27 -07:00
eugeneswalker
5f845f3f31 e4s ci: add slate +rocm (#31602) 2022-07-27 15:36:59 -07:00
Erik Schnetter
b86f8f41e8 c-blosc2: New version 2.2.0 (#31577) 2022-07-27 15:06:49 -07:00
Sam Reeve
180fc7cdf1 New ExaCA package (#31777) 2022-07-27 14:54:57 -07:00
David Boehme
075dd64883 Add Caliper v2.8.0 and rocm support (#31632) 
* Add Caliper v2.8.0

* Add conflict for +rocm+cuda
 2022-07-27 15:38:54 -06:00
Thomas Madlener
5bd44a795c lcio, podio, edm4hep: Add latest versions (#31749) 
* lcio: add latest version

* edm4hep: Add latest versions

* podio: Add latest versions
 2022-07-27 14:13:47 -07:00
Andrew-Dunning-NNL
5505c443bf ZSH: add lmod and local etc variants (#29651) 
* zsh: add lmod and local etc support

* zsh: fix indentation
 2022-07-27 14:06:07 -07:00
Eric Brugger
71657fffbd VisIt: Update to VisIt 3.3.0. (#31654) 2022-07-27 13:46:04 -07:00
kwryankrattiger
a3f8dc1874 WarpX: Add sensei insitu variant (#31542) 2022-07-27 13:17:44 -06:00
Valentin Volkl
afc044cbad dd4hep: add v1.21 (#31705) 2022-07-27 10:27:21 -07:00
Valentin Volkl
850b295ec5 herwig3, thepeg: correct lhapdfsets dependency, specify boost libs (#31744) 
* herwig3: change lhapdfsets dependency type to build

These data sets are needed for a check during build, but due to the difficulty of versioning the datasets it is preferred not to keep the them in the run environment.

* herwig3: explicitly state needed boost libs

* thepeg: explicitly state needed boost libs

* style

* stylestyle
 2022-07-27 10:23:03 -07:00
Pitamila
56ab4c9820 py-scipy: -fPIC appending trouble with gcc@10: (#31698) 
`-fPIC` mandatory option squeezed by error, the
NPY_DISTUTILS_APPEND_FLAGS appears handy

Co-authored-by: duperrayp <duperrayp@u-un00s16835>
 2022-07-27 10:20:49 -07:00
wspear
02151565e9 Tau must get GCC path from environment on Cray (#31751) 
* Tau must get GCC path from environment on Cray

self.compiler doesn't provide the path to the gcc compiler when using cray cc and the spack internal compiler overrides the location in PATH. If possible get the location from the GCC_PATH variable instead.

* Fix flake8 issues

* Update package.py
 2022-07-27 10:04:06 -07:00
Jonathan R. Madsen
3db87f207e Update omnitrace package with v1.3.0 (#31754) 2022-07-27 10:01:30 -07:00
Adam J. Stewart
fdd914c990 py-sphinx: add v5.1.1 (#31756) 2022-07-27 09:58:15 -07:00
Melven Roehrig-Zoellner
3d9b143296 tixi: new versions (#31761) 2022-07-27 09:51:21 -07:00
Melven Roehrig-Zoellner
179afcac4e valgrind: new version (#31762) 2022-07-27 09:48:55 -07:00
Melven Roehrig-Zoellner
1ab7f65920 itensor: new version, restrict hdf5 to :1.10 (#31764) 2022-07-27 09:44:38 -07:00
Harmen Stoppels
ade7bcd514 curl: 7.84.0 (#31725) 2022-07-26 20:37:49 -06:00
eugeneswalker
5b4c076ddb cabana: add cajita variant (#31753) 
* cabana: add cajita variant

* Update var/spack/repos/builtin/packages/cabana/package.py

Co-authored-by: Sam Reeve <6740307+streeve@users.noreply.github.com>

* cabana: cannot build +cajita ~mpi

Co-authored-by: Sam Reeve <6740307+streeve@users.noreply.github.com>
 2022-07-26 17:33:15 -07:00
eugeneswalker
b38a814dc9 e4s ci stack: add spec: hdf5-vol-async (#31747) 
* e4s ci stack: add spec: hdf5-vol-async

* hdf5-vol-async: add e4s tag
 2022-07-26 16:21:56 -06:00
eugeneswalker
3b692875d8 mpich@4.0.2 %oneapi: patch config.rpath (#31740) 2022-07-26 15:41:42 -06:00
Harmen Stoppels
1319e2d261 openmpi: +pmi implies schedulers=slurm (#31722) 2022-07-26 14:04:55 -07:00
Harmen Stoppels
cffdd86d11 libjwt: new versions, missing dep, disable examples (#31723) 2022-07-26 14:04:27 -07:00
Harmen Stoppels
43d53a032a jansson: new version, disable docs (#31724) 
We don't have the build deps for the docs, so disable for now.
 2022-07-26 14:04:11 -07:00
Harmen Stoppels
15ee035f97 json-c: 0.16 (#31726) 2022-07-26 13:50:23 -07:00
Harmen Stoppels
c8c46bd012 munge: 0.5.15 (#31727) 2022-07-26 13:50:08 -07:00
Harmen Stoppels
fa3808bebd libgcrypt: bump (#31728) 2022-07-26 13:49:52 -07:00
Harmen Stoppels
644cfb5197 libgpg-error: bump (#31729) 2022-07-26 13:44:12 -07:00
Harmen Stoppels
859b56a105 gnupg: bump and deprecate over cve (#31730) 2022-07-26 13:43:53 -07:00
Harmen Stoppels
ce039e4fa5 environment.py: reduce # of locks further (#31643) 
* environment.py: reduce # of locks further
 2022-07-26 09:00:27 -07:00
Harmen Stoppels
e2056377d0 containerize: fix concretization -> concretizer (#31594) 
* containerize: fix concretization -> concretizer

* fix test
 2022-07-26 08:56:24 -07:00
Harmen Stoppels
a552c27f74 cmake: missing patch releases (#31676) 2022-07-26 08:54:23 -07:00
Chuck Atkins
f38a2ebb25 llvm: Variant and dependency cleanup (#31331) 
* llvm: Use variant when clauses for many of the expressed conflicts

* llvm: Remove the shared variant as it wasn't really used

* llvm: Remove unnecessary deps and make explicit the ones that are

* llvm: Cleanup patch conditions

* pocl: Update for llvm cleanup

* unit-test: update unparse package hash with the updated llvm package

* llvm: Fix ppc long double patching and add clarifying comments
 2022-07-26 10:45:20 -05:00
Stephen Sachs
6a240c9b39 Fix self.extension for symlinks (#31743) 
`self.archive_file` is (among others) a symlink to a tarball. `extension()` on a
symlink will result in no extension. This patch fixes the behavior introduced in
https://github.com/spack/spack/pull/31618.

Co-authored-by: Stephen Sachs <stesachs@amazon.com>
 2022-07-26 13:05:41 +00:00
eugeneswalker
0662bbdc43 openblas %oneapi: patch f_check for proper linkage (#31737) 2022-07-25 15:38:11 -07:00
Richard Berger
7be0dac36b new package: singularity-eos (#31500) 2022-07-25 23:41:24 +02:00
snehring
885a7a1979 gdal: fixing typo for libxml2 (#31734) 2022-07-25 14:05:45 -06:00
psakievich
8cde20997d GCC: Add bootstrap conflict for M1 (#31189) 2022-07-25 15:12:54 -04:00
Paul Ferrell
babb0edf07 LLVM requires swig version > 3 (#31625) 2022-07-25 15:50:22 +02:00