Commit graph

19663 commits

Author SHA1 Message Date
Desmond Orton
de99535f9a
Package/r require and subpackage dep fix (#21433) 2021-02-07 13:48:14 -06:00
Sreenivasa Murthy Kolam
fef79b7e9b
fix build failure with boost-1.58.0 by using higher revision (#21376) 2021-02-07 13:32:59 +01:00
Mark Abraham
9414b11490
Clarify GROMACS relaxed double option (#21510)
* Clarify relaxed double precision option

This is only intended for use on the Fujitsu PRIMEHPC platform

* Fix typo

* Shorten line to keep linter happy
2021-02-07 05:29:53 -07:00
Richarda Butler
5f75221522
Bugfix: Install font-util (#20179)
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Greg Becker <becker33@llnl.gov>
2021-02-07 12:52:07 +01:00
m-shunji
6e29a36d88
mpas-model: add a necessary resource (#21478) 2021-02-07 12:47:54 +01:00
Aurelien Bouteiller
eb3338ed1b
Parsec: new release (#21481) 2021-02-07 12:47:20 +01:00
Hanqi Guo
4f73dff204
adding new package FTK (the feature tracking kit) (#21493) 2021-02-07 12:46:08 +01:00
Robert Pavel
3387cefe1e
Fixed xsbench~mpi Spec (#21498) 2021-02-07 12:45:43 +01:00
Christoph Junghans
d5953d75bf
libecpint: add v1.0.5 (#21502) 2021-02-07 12:44:23 +01:00
Adam J. Stewart
f37ffbe932
py-xarray: fix smoke tests (#21503) 2021-02-07 12:43:40 +01:00
marvinbernhardt
d58ed20239
handle other architectures than Intel (#21509) 2021-02-07 12:37:56 +01:00
Robert Pavel
d630d63755
Added Conflict for macsio@1.1 ~mpi (#21513)
Added conflict for macsio@1.1~mpi after investigating source code. As of
1.1 tag macsio does not properly guard out MPI commands. This is
verified as corrected in @develop
2021-02-07 12:34:00 +01:00
Filippo Spiga
7d371e5b55
Adding NVIDIA HPC SDK 21.1 (#21514) 2021-02-07 12:33:08 +01:00
Robert Pavel
35b5d37f10
Fixed Typo in Examinimd Spackage (#21515) 2021-02-07 12:29:24 +01:00
darmac
adb350c23c
collectd: add test dependency (#21522) 2021-02-07 12:28:49 +01:00
Phil Carns
b54e9b0b31
mercury variant to control checksumming feature (#21467) 2021-02-07 12:26:49 +01:00
Adam Moody
121e55832a
mpifileutils: add v0.11 (#21432) 2021-02-07 12:18:42 +01:00
darmac
7bfb4a2d7d
gobject-introspection: enable gobject option in cairo (#21404) 2021-02-07 12:09:20 +01:00
kkauder
1b9be33f84
Removed boost dependence and other outdated bits (#21394) 2021-02-07 12:06:59 +01:00
darmac
7b38221798
aspcud: update version to fix build error (#21521) 2021-02-07 11:55:37 +01:00
darmac
7020c86874
r-rmariadb: add mariadb library path (#21406) 2021-02-07 02:49:42 +00:00
eugeneswalker
f3f8a72bbd
trilinos: @develop requires cxxstd>=14 (#21519) 2021-02-06 13:24:30 -05:00
Jean-Paul Pelteret
a544030517
Add package: py-fava (#21275)
* Add package: py-beancount-fava

* Rename package; fixes

* Fixes

* Cleanup; simplify regex used to ignore files
2021-02-05 21:12:29 +00:00
Adam J. Stewart
c3206656bc
mxnet: convert to CMakePackage (#21385)
* mxnet: convert to CMakePackage

* Package isn't installed yet, can't find libs

* Fix bug with GCC 8+ and CUDA 10 on PowerPC

* Add space

* Add patch to fix cmake cuda flags

* Space no longer needed

* Add patch to fix OpenBLAS linking

* Add missing CMake flag

* Fix env set, default to Distribution

* Add new version, patch
2021-02-05 12:48:20 -06:00
albestro
02b64c8903
let intel consider cray-mpich as mpich (#21512) 2021-02-05 17:55:39 +00:00
Bryan Herman
67667c96db
py-python-benedict: new package (#21501)
* added py-python-benedict recipe

* Update var/spack/repos/builtin/packages/py-python-benedict/package.py

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

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2021-02-05 10:38:17 -06:00
Evan Bollig
204e8f4fa4
gromacs: added v2021 (#21473)
Fixed broken gromacs builds. gmxapi requires mpicxx to link properly

Gromacs requires mpicc override on CMAKE_C_COMPILER, not MPI_C_COMPILER
2021-02-05 11:47:22 +01:00
Evan Bollig
52058ad5a7
New versions of libfabric (1.11.1, 1.11.2) (#21496) 2021-02-04 16:36:57 -08:00
Evan Bollig
38e6d411a3
libjwt: Added openssl to resolve broken CICD pipeline (#21443) 2021-02-04 16:35:43 -08:00
Robert Pavel
87512df699
Disabled Non-Existant miniamr~mpi Variant (#21495)
Identified build error for miniamr~mpi. Upon further investigation, the
MPI dependencies are hard coded in that tag
2021-02-04 22:13:15 +00:00
Tom Payerle
935ad53649
lammps: Add support for a number of new LAMMPS add-on packages (#21494)
mliap
user-adios
user-awpmd
user-bocs
user-cgsdk
user-colvars
user-diffraction
user-dpd
user-drude
user-eff
user-fep
user-manifold
user-mesodpd
user-mesont
user-mgpt
user-mofff
user-phonon
user-plumed
user-ptm
user-qtb
user-reaction
user-sdpd
user-smd
user-smtbq
user-sph
user-tally
user-uef
user-yaff
2021-02-04 21:29:49 +00:00
Cody Balos
4ec044817b
sundials: add new version (#21488) 2021-02-04 12:19:12 -08:00
Sergei Shudler
10204826db
superlu: Add e4s testsuite-inspired smoke test (#21230) 2021-02-04 12:10:15 -08:00
Laurent Aphecetche
e0b7ca47d8
config: (darwin only) change prefix of external libuuid (#21480) 2021-02-04 14:01:40 -06:00
Adam J. Stewart
6fdb9309d6
py-xarray: add v0.16.2 (#21489) 2021-02-04 11:15:50 -08:00
Kelly (KT) Thompson
473f075896
[pkg][new version] Provide draco@7.9.1 (#21486)
+ Provide optional variant `pythontools` (default False) that adds a run-time dependency on
  `py-matplotlib`.
+ Latest versions require `cmake@3.18:` to support cuda features.
+ Enable a cmake option that forcibly disables qt support.  Previously, draco would enable qt
  support if it was available in the local build environment (outside of spack).
2021-02-04 10:37:36 -08:00
Kurt Sansom
f506b9c7f8
update: update pfunit releases (#21485) 2021-02-04 10:29:52 -08:00
m-shunji
0910f37f45
parallelio: add necessary resources (#21477)
Co-authored-by: Toyohisa Kameyama <kameyama@riken.jp>
2021-02-04 10:13:30 -08:00
Kelly (KT) Thompson
331a1b59b1
Provide eospac-6.4.2. (#21476) 2021-02-04 10:07:34 -08:00
Adam J. Stewart
ba70f90ee0
Fix usage of PythonPackage.test outside of PythonPackage (#20555) 2021-02-04 11:00:37 -06:00
Tomoki, Karatsu
f0cafd21ce
py-numpy: Fix for new version of numpy with Fujitsu compiler. (#21479)
* Change the version to apply patches.

* Change the name of the Fujitsu compiler to 'fujitsu' in numpy.
2021-02-04 10:58:48 -06:00
Adam J. Stewart
df5992293a
Python: add maintainer(s) (#21125)
* Python: add maintainer(s)

* Fix unit tests
2021-02-04 10:00:21 -06:00
Adam J. Stewart
d14a6dc1f7
py-mypy: add v0.800 (#21386) 2021-02-04 10:00:03 -06:00
Seth R. Johnson
31722ac994
Graphviz: don't build ghostscript when ~ghostscript (#19615)
* graphviz: Remove ghostscript requirement when ~ghostscript

* Add doc variant and patch for 2.44.1

* Patch does not apply

* Update graphviz versions, using archives rather than git hash

* Complete implementation of doc variant

* Fix typo
2021-02-04 09:59:24 -06:00
Harmen Stoppels
39a429b2a3
dbcsr: add opencl as a third backend (#21468) 2021-02-04 13:44:59 +00:00
Massimiliano Culpo
694d633a2c
spack external find: allow to search by tags (#21407)
This commit adds an option to the `external find`
command that allows it to search by tags. In this
way group of executables with common purposes can
be grouped under a single name and a simple command
can be used to detect all of them.

As an example introduce the 'build-tools' tag to
search for common development tools on a system
2021-02-04 13:17:32 +01:00
Andrew-Dunning-NNL
e9ae44fd8c
py-flufl-lock: new recipe (#21334)
* py-flufl-lock: new recipe

* py-flufl-lock: fix typing extension when no longer provisional
2021-02-03 21:15:48 -06:00
Greg Becker
457fc4c095
link gettext properly for git when gettext does not provide libintl (#21472) 2021-02-04 01:45:53 +00:00
Frank Willmore
beb4d968ef
intel-oneapi-compilers/mpi: add module support (#20808)
Facilitate running intel-oneapi-mpi outside of Spack (set PATH,
LD_LIBRARY_PATH, etc. appropriately).

Co-authored-by: Robert Cohn <rscohn2@gmail.com>
2021-02-03 16:21:54 -08:00
Frank Willmore
eb345faa57
intel-oneapi-compilers: add to LD_LIBRARY_PATH so that it finds libimf.so (#20717)
* add  to LD_LIBRARY_PATH so that it finds libimf.so

* amrex: fix handling of CUDA arch (#20786)

* amrex: fix handling of CUDA arch
* amrex: fix style
* amrex: fix bug
* Update var/spack/repos/builtin/packages/amrex/package.py
* Update var/spack/repos/builtin/packages/amrex/package.py

Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>

* ecp-data-vis-sdk: Combine the vis and io SDK packages (#20737)

This better enables the collective set to be deployed togethor satisfying
eachothers dependencies

* r-sf: fix dependency error (#20898)

* improve documentation for Rocm (hip amd builds) (#20812)

* improve documentation

* astyle: Fix makefile for install parameter (#20899)

* llvm-doe: added new package (#20719)

The package contains duplicated code from llvm/package.py,
will supersede solve.

* r-e1071: added v1.7-4 (#20891)

* r-diffusionmap: added v1.2.0 (#20881)

* r-covr: added v3.5.1 (#20868)

* r-class: added v7.3-17 (#20856)

* py-h5py: HDF5_DIR is needed for ~mpi too (#20905)

For the `~mpi` variant, the environment variable `HDF5_DIR` is still required.  I moved this command out of the `+mpi` conditional.

* py-hovorod: fix typo on variant name in conflicts directive (#20906)

* fujitsu-fftw: Add new package (#20824)

* pocl: added v1.6 (#20932)

Made version 1.5 or lower conflicts with a64fx.

* PCL: add new package (#20933)

* r-rle: new package (#20916)

Common 'base' and 'stats' methods for 'rle' objects, aiming to make it
possible to treat them transparently as vectors.

* r-ellipsis: added v0.3.1 (#20913)

* libconfig: add build dependency on texinfo (#20930)

* r-flexmix: add v2.3-17 (#20924)

* r-fitdistrplus: add v1.1-3 (#20923)

* r-fit-models: add v0.64 (#20922)

* r-fields: add v11.6 (#20921)

* r-fftwtools: add v0.9-9 (#20920)

* r-farver: add v2.0.3 (#20919)

* r-expm: add v0.999-6 (#20918)

* cln: add build dependency on texinfo (#20928)

* r-expint: add v0.1-6 (#20917)

* r-envstats: add v2.4.0 (#20915)

* r-energy: add v1.7-7 (#20914)

* r-ellipse: add v0.4.2 (#20912)

* py-fiscalyear: add v0.3.0 (#20911)

* r-ecp: add v3.1.3 (#20910)

* r-plotmo: add v3.6.0 (#20909)

* Improve gcc detection in llvm. (#20189)

Co-authored-by: Tom Scogland <tom.scogland@gmail.com>
Co-authored-by: Thomas Green <ca-tgreen@gw4a64fxlogin00.head.gw4.metoffice.gov.uk>

* hatchet: updated urls (#20908)

* py-anuga: add new package (#20782)

* libvips: added v8.10.5 (#20902)

* libzmq: add platform conditions to libbsd dependency (#20893)

* r-dtw: add v1.22-3 (#20890)

* r-dt: add v0.17 (#20889)

* r-dosnow: add v1.0.19 (#20888)

* add version 1.0.16 to r-doparallel (#20886)

* add version 1.3.7 to r-domc (#20885)

* add version 0.9-15 to r-diversitree (#20884)

* add version 1.3-3 to r-dismo (#20883)

* add version 0.6.27 to r-digest (#20882)

* add version 1.5 to r-rngtools (#20887)

* add version 1.5.8 to r-dicekriging (#20877)

* add version 1.4.2 to r-httr (#20876)

* add version   1.28 to r-desolve (#20875)

* add version   2.2-5 to r-deoptim (#20874)

* add version   0.2-3 to r-deldir (#20873)

* add version   1.0.0 to r-crul (#20870)

* add version   1.1.0.1 to r-crosstalk (#20869)

* add version   1.0-1 to r-copula (#20867)

* add version 5.0.2 to r-rcppparallel (#20866)

* add version   2.0-1 to r-compositions (#20865)

* add version 0.4.10 to r-rlang (#20796)

* add version 0.3.6 to r-vctrs (#20878)

* amrex: add ROCm support (#20809)

* add version 2.0-0 to r-colorspace (#20864)

* add version 1.3-1 to r-coin (#20863)

* add version   0.19-4 to r-coda (#20862)

* add version 1.3.7 to r-clustergeneration (#20861)

* add version 0.3-58 to r-clue (#20860)

* add version 0.7.1 to r-clipr (#20859)

* add version 2.2.0 to r-cli (#20858)

* add version 0.4-3 to r-classint (#20857)

* add version 0.1.2 to r-globaloptions (#20855)

* add version 2.3-56 to r-chron (#20854)

* add version 0.4.10 to r-checkpoint (#20853)

* add version 2.0.0 to r-checkmate (#20852)

* add version 1.18.1 to r-catools (#20850)

* add version 1.2.2.2 to r-modelmetrics (#20849)

* add version 3.0-4 to r-cardata (#20847)

* add version 1.0.1 to r-caracas (#20846)

* r-lifecycle: new package at v0.2.0 (#20845)

* add version 3.0-10 to r-car (#20844)

* add version 3.4.5 to r-processx (#20843)

* add version 1.5-12.2 to r-cairo (#20842)

* add version 0.2.3 to r-cubist (#20841)

* add version 2.6 to r-rmarkdown (#20838)

* add version 1.2.1 to r-blob (#20819)

* add version 4.0.4 to r-bit (#20818)

* add version 2.4-1 to r-bio3d (#20816)

* add version 0.4.2.3 to r-bibtex (#20815)

* add version 3.1-4 to r-bayesm (#20807)

* add version 1.2.1 to r-backports (#20806)

* add version 2.0.3 to r-argparse (#20805)

* add version 5.4-1 to r-ape (#20804)

* add version 0.8-18 to r-amap (#20803)

* r-pixmap: added new package (#20795)

* zoltan: source code location change (#20787)

* refactor path logic

* added some paths to make compilers and libs discoverable

* add  to LD_LIBRARY_PATH so that it finds libimf.so
and cleanup PEP8

* refactor path logic

* adding paths to LIBRARY_PATH so compiler wrappers will find -lmpi

* added vals for CC=icx, CXX=icpx, FC=ifx to generated module

* back out changes to intel-oneapi-mpi, save for separate PR

* Update var/spack/repos/builtin/packages/intel-oneapi-compilers/package.py

path is joined in _ld_library_path()

Co-authored-by: Robert Cohn <rscohn2@gmail.com>

* set absolute paths to icx,icpx,ifx

* dang close parenthesis

Co-authored-by: Robert Cohn <rscohn2@gmail.com>
Co-authored-by: mic84 <mrosso@lbl.gov>
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
Co-authored-by: Chuck Atkins <chuck.atkins@kitware.com>
Co-authored-by: darmac <xiaojun2@hisilicon.com>
Co-authored-by: Danny Taller <66029857+dtaller@users.noreply.github.com>
Co-authored-by: Tomoyasu Nojiri <68096132+t-nojiri@users.noreply.github.com>
Co-authored-by: Shintaro Iwasaki <siwasaki@anl.gov>
Co-authored-by: Glenn Johnson <glenn-johnson@uiowa.edu>
Co-authored-by: Kelly (KT) Thompson <KineticTheory@users.noreply.github.com>
Co-authored-by: Henrique Mendonça <henrique@users.noreply.github.com>
Co-authored-by: h-denpo <57649496+h-denpo@users.noreply.github.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Thomas Green <tomgreen66@hotmail.com>
Co-authored-by: Tom Scogland <tom.scogland@gmail.com>
Co-authored-by: Thomas Green <ca-tgreen@gw4a64fxlogin00.head.gw4.metoffice.gov.uk>
Co-authored-by: Abhinav Bhatele <bhatele@cs.umd.edu>
Co-authored-by: a-saitoh-fj <63334055+a-saitoh-fj@users.noreply.github.com>
Co-authored-by: QuellynSnead <quellyn@lanl.gov>
2021-02-03 12:04:23 -08:00