Larry Knox
2972d5847c
Remove experimental hdf5 versions 1.13.x and add hdf5 version 1.10.10. ( #38013 )
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* Remove experimental hdf5 versions 1.13.x.
Upgrade to 1.14 or remove dependencies on hdf5 1.13.x.
* Revert change to netcdf-c/package.py.
2023-06-15 22:41:39 -05:00
George Young
1577eb9602
star: add 2.7.10 ( #38197 )
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* star: add 2.7.10
* star: fix building for non-avx2 arch processors
* convert to MakefilePackage, second take at fixing for aarch64
* style
---------
Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
2023-06-15 12:53:32 -07:00
George Young
2f97c6ead2
perl-gd: update to 2.77, update urls ( #38413 )
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* perl-gd: update to 2.77, update urls
---------
Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
2023-06-15 12:39:57 -07:00
markus-ferrell
1df4afb53f
Enable build system guess tests on windows ( #36971 )
2023-06-15 11:40:09 -07:00
Adam J. Stewart
4991f0e484
MXNet: fix flag versions ( #38402 )
2023-06-15 11:34:21 -07:00
markus-ferrell
09fd7d68eb
Windows testing: enable graph, mark, and info cmd tests ( #36977 )
2023-06-15 11:28:52 -07:00
Jacob King
2ace8a55c1
Create package.py file for NIMROD abstract accelerated infrastructure. ( #38405 )
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Co-authored-by: jacobrking <jacobrking@users.noreply.github.com>
2023-06-15 11:24:55 -07:00
Manuela Kuhn
861acb9467
py-nibabel: add 5.1.0 ( #38379 )
2023-06-15 13:14:26 -05:00
Thomas Madlener
eea743de46
podio: Add py-tabulate as new run and test dependency ( #38409 )
2023-06-15 10:56:00 -07:00
George Young
e2b6e5a7ec
py-numba: add 0.57.0, update dependency ranges ( #38390 )
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* py-numba: add 0.57.0, update dependency ranges
* Update var/spack/repos/builtin/packages/py-numba/package.py
Co-authored-by: Manuela Kuhn <36827019+manuelakuhn@users.noreply.github.com>
* Update var/spack/repos/builtin/packages/py-numba/package.py
Co-authored-by: Manuela Kuhn <36827019+manuelakuhn@users.noreply.github.com>
* Update package.py
---------
Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
Co-authored-by: Manuela Kuhn <36827019+manuelakuhn@users.noreply.github.com>
2023-06-15 12:39:12 -05:00
Manuela Kuhn
2f2dc3695c
py-datalad: add 0.18.4 ( #37936 )
2023-06-15 12:22:45 -05:00
Tamara Dahlgren
6eb5e57199
tests/py-horovod: convert to new stand-alone test process ( #38366 )
2023-06-15 12:17:09 -05:00
Tamara Dahlgren
9a047eb95f
tests/py-libensemble: convert to new stand-alone test process ( #38344 )
2023-06-15 12:09:57 -05:00
Tamara Dahlgren
ef42fd7a2f
tests/py-eccodes: convert to new stand-alone test process ( #38346 )
2023-06-15 11:58:00 -05:00
Manuela Kuhn
e642c2ea28
py-neurora: add 1.1.6.10 ( #38378 )
2023-06-15 11:14:28 -05:00
Massimiliano Culpo
f27d012e0c
Add virtual information on DAG edges ( #34821 )
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* DependencySpec: add virtuals attribute on edges
This works for both the new and the old concretizer. Also,
added type hints to involved functions.
* Improve virtual reconstruction from old format
* Reconstruct virtuals when reading from Cray manifest
* Reconstruct virtual information on test dependencies
2023-06-15 07:16:54 -07:00
Tamara Dahlgren
c638311796
test/dust: convert to new stand-alone test process ( #38367 )
2023-06-14 20:27:35 -07:00
Manuela Kuhn
2a02bea405
py-nbclient: add 0.8.0 ( #38325 )
2023-06-14 17:31:03 -05:00
Manuela Kuhn
219b42d991
py-nbconvert: add 7.4.0 ( #38326 )
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* py-nbconvert: add 7.4.0
* Move historical dependencies after variant
2023-06-14 17:28:30 -05:00
Manuela Kuhn
c290ec1f62
py-docutils: re-add python@3.7 ( #38336 )
2023-06-14 17:19:27 -05:00
Satish Balay
e7ede86733
magma@master: add python dependency ( #38341 )
2023-06-14 17:15:40 -05:00
Thomas Madlener
e3e7609af4
edm4hep: Add version 0.9 ( #38205 )
2023-06-14 16:53:31 -04:00
Dennis Klein
49d7ebec36
fairmq: Add v1.6.0 ( #38392 )
2023-06-14 16:47:59 -04:00
Alec Scott
7c3d82d819
ltp: add v20230516 ( #38138 )
2023-06-14 16:27:27 -04:00
George Young
1c0fbec9ce
subread: add 2.0.6, update download paths ( #38200 )
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* subread: add 2.0.6, update download paths
* Update var/spack/repos/builtin/packages/subread/package.py
---------
Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
2023-06-14 13:20:29 -07:00
kjrstory
ca4d60ae25
openradioss-starter,engine: new package ( #38291 )
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* openradioss-starter,engine: new package
* openradioss-engine: change version name develop to main
* openradioss-starter: change version name develop to main
2023-06-14 13:04:03 -07:00
Alec Scott
dc571e20d6
freeipmi: add v1.6.9 ( #38349 )
2023-06-14 13:02:02 -07:00
Kim Liegeois
1485275d0c
Add Binder spackage ( #38371 )
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* Add Binder spackage
* Format binder recipe
* Format binder recipe
2023-06-14 12:41:35 -07:00
pabloaledo
1afbf72037
add bioconductor-ebseq ( #38380 )
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* add buiconductor-ebseq
Signed-off-by: Pablo <pablo.aledo@seqera.io>
---------
Signed-off-by: Pablo <pablo.aledo@seqera.io>
2023-06-14 12:40:57 -07:00
Rémi Lacroix
407fd80f95
ctffind: Add a patch to fix incorrect return types. ( #38085 )
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Prevent the code from crashing (cf. https://grigoriefflab.umassmed.edu/comment/1696#comment-1696 ).
2023-06-14 12:29:41 -07:00
Tamara Dahlgren
62525d9076
dsqss: convert to new stand-alone test process ( #38372 )
2023-06-14 11:54:47 -07:00
Alec Scott
c2371263d1
lastz: add v1.04.22 ( #38388 )
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* lastz: add v1.04.22
* Fix formatting of versions to include extra space
2023-06-14 10:05:45 -07:00
Alec Scott
5a870182ec
ipopt: add v3.14.9 ( #38387 )
2023-06-14 10:04:54 -07:00
Alec Scott
e33ad83256
imath: add v3.1.9 ( #38386 )
2023-06-14 10:03:41 -07:00
Alec Scott
0352a1df5d
imagemagick: add v7.1.1-11 ( #38385 )
2023-06-14 10:02:36 -07:00
Alec Scott
ade44bce62
cgal: add v5.5.2 ( #38384 )
2023-06-14 10:01:33 -07:00
Mark W. Krentel
ddb29ebc34
intel-xed: add version 2023.06.07 ( #38373 )
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Add version 2023.06.07, update python to 3.7.
2023-06-14 09:46:53 -07:00
Mark W. Krentel
19a62630e5
hpcviewer: add version 2023.05 ( #38374 )
2023-06-14 09:45:21 -07:00
Alec Scott
5626802aa0
cloc: add v1.96.1 ( #38348 )
2023-06-14 12:28:08 -04:00
kwryankrattiger
f68063afbc
DaV: Drop propagation of HDF5 to darshan ( #38361 )
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Darshan Runtime does not properly link symols for HDF5 when using shared
libraries.
2023-06-14 11:02:18 -05:00
Alec Scott
8103d019d6
hbase: add v2.5.4 ( #38353 )
2023-06-14 11:47:53 -04:00
Alec Scott
ce89cdd9d7
fzf: add v0.41.1 ( #38351 )
2023-06-14 11:38:02 -04:00
Alec Scott
20d9b356f0
hashcat: add v6.2.6 ( #38352 )
2023-06-14 11:32:56 -04:00
Alec Scott
3401438a3a
hyperfine: add v1.17.0 ( #38354 )
2023-06-14 11:23:20 -04:00
Alec Scott
dcf1999d22
ftxui: add v4.1.1 ( #38350 )
2023-06-14 11:16:13 -04:00
snehring
9e3c3ae298
Repeatmodeler 2.0.4 ( #38337 )
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* perl-devel-size: adding new package
* repeatmodeler: adding new version 2.0.4
* perl-devel-size: adding proper description
2023-06-14 11:10:50 -04:00
Tamara Dahlgren
40d6b84b4d
dssp: convert to new stand-alone test process ( #38368 )
2023-06-14 07:27:49 -07:00
Xavier Delaruelle
2db09f27af
modules: use depends-on to autoload module with Lmod on Tcl ( #38347 )
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Update Tcl modulefile template to use the `depends-on` command to
autoload modules if Lmod is the current module tool.
Autoloading modules with `module load` command in Tcl modulefile does
not work well for Lmod at some extend. An attempt to unload then load
designated module is performed each time such command is encountered. It
may lead to a load storm that may not end correctly with large number of
module dependencies.
`depends-on` command should be used for Lmod instead of `module load`,
as it checks if module is already loaded, and does not attempt to reload
this module.
Lua modulefile template already uses `depends_on` command to autoload
dependencies. Thus it is already considered that to use Lmod with Spack,
it must support `depends_on` command (version 7.6+).
Environment Modules copes well with `module load` command to autoload
dependencies (version 3.2+). `depends-on` command is supported starting
version 5.1 (as an alias of `prereq-all` command) which was relased last
year.
This change introduces a test to determine if current module tool that
evaluates modulefile is Lmod. If so, autoload dependencies are defined
with `depends-on` command. Otherwise `module load` command is used.
Test is based on `LMOD_VERSION_MAJOR` environment variable, which is set
by Lmod starting version 5.1.
Fixes #36764
2023-06-14 15:35:53 +02:00
dependabot[bot]
6979d6a96f
build(deps): bump python-levenshtein in /lib/spack/docs ( #38339 )
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Bumps [python-levenshtein](https://github.com/maxbachmann/python-Levenshtein ) from 0.21.0 to 0.21.1.
- [Release notes](https://github.com/maxbachmann/python-Levenshtein/releases )
- [Changelog](https://github.com/maxbachmann/python-Levenshtein/blob/main/HISTORY.md )
- [Commits](https://github.com/maxbachmann/python-Levenshtein/compare/v0.21.0...v0.21.1 )
---
updated-dependencies:
- dependency-name: python-levenshtein
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>
2023-06-14 13:03:15 +02:00
dependabot[bot]
deffd2acc9
build(deps): bump docker/build-push-action from 4.1.0 to 4.1.1 ( #38369 )
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Bumps [docker/build-push-action](https://github.com/docker/build-push-action ) from 4.1.0 to 4.1.1.
- [Release notes](https://github.com/docker/build-push-action/releases )
- [Commits](44ea916f6c...2eb1c1961a
2023-06-14 09:48:57 +02:00
