Commit Graph

15329 Commits

Author SHA1 Message Date
Desmond Orton
1c0230f7d0
rnaquast: add new package (#22648) 2021-04-06 08:49:58 +02:00
Glenn Johnson
65b03a9f03
trf: add v4.09.1 and other updates (#22782)
- add new version, 4.09.1
- use github url
- convert to autotools package
- deprecate version 4.07b: This version requires manual download and is
  a binary only installation.
2021-04-06 08:48:04 +02:00
Glenn Johnson
6df1b509fa
repeatmasker: update and fix package (#22785)
- version 4.0.7 was not building
- version 4.0.9 was not setting search correctly due to an extra "return"
  in config
- added version 4.1.2-p1
- new version needs py-h5py
- new version does not need utf8 patch
- url format changed
2021-04-06 08:35:51 +02:00
Glenn Johnson
a4f19853b8
hmmer: add v3.3.2 (#22787) 2021-04-06 08:26:22 +02:00
Andrew W Elble
b924440f79
exabayes: add v1.5.1 (#22789) 2021-04-06 08:11:48 +02:00
Axel Huebl
c1cf643780
libfabric: add v1.12.1 (#22790)
Add latest patch release to fix build issues with unconditional
usage of `infiniband/ib.h`
2021-04-06 07:06:01 +02:00
Valentin Volkl
1908e6834d
qt: backport build issue fix on 5.14 due to isystem (#22772) 2021-04-04 09:55:42 -04:00
Cameron Stanavige
bfb3b55414
rankstr: add v0.0.3 (#22763) 2021-04-03 21:11:37 +02:00
Jen Herting
3a36ca4b36
New package: r-anytime (#22624)
Co-authored-by: Alex C Leute <aclrc@rit.edu>
2021-04-02 21:09:50 -05:00
Jen Herting
b51363e0ac
New package: r-pheatmap (#22617)
Co-authored-by: Alex C Leute <aclrc@rit.edu>
2021-04-02 20:57:09 -05:00
Jen Herting
0d4e0b8198
New package: r-amelia (#22623)
Co-authored-by: Alex C Leute <aclrc@rit.edu>
2021-04-02 20:54:29 -05:00
Desmond Orton
76b54816cf
New package py-gffutils (#22552) 2021-04-02 22:33:20 +02:00
Axel Huebl
2dbaf23fca
Ascent: CUDA ~shared (#22760)
Add a conflict for CUDA and shared libraries in Ascent.
The new concretizer will automatically change the default for
Ascent in that case. Until then, dependencies like WarpX need
to hint the `~shared` wish explicitly.
2021-04-02 12:16:27 -07:00
Axel Huebl
5a75f7e0d6
WarpX: 21.04 (#22740)
Update WarpX: add first tagged version.
2021-04-02 14:37:56 -04:00
Robert Mijakovic
d978d72e19
py-wheel: new version (#22751)
Co-authored-by: Robert Mijakovic <robert.mijakovic@lrz.de>
2021-04-02 09:56:16 -05:00
iarspider
9f90659aa7
igprof: new package (#22666) 2021-04-02 15:41:58 +02:00
darmac
d528ff6e5a
sandbox: add build dependency on gawk (#22748) 2021-04-02 14:45:05 +02:00
Thilina Rathnayake
bbaf6e05d2
nekRS: new package (#22519)
This initial package recipe uses a custom-built wrapper to drive an internal CMake file. Since nekRS also includes built-in copies of several dependencies such as BLAS and HYPRE, it cannot be linked with other such dependencies. However, to work with the `ceed` metapackage, we cannot add `^blas` conflicts to nekRS.

See https://github.com/spack/spack/pull/22519 for discussion.
2021-04-02 07:50:31 -04:00
Chris White
45c616529c axom: convert to Cached CMakePackage
This updates axom to use the new CachedCMakePackage superclass.

Co-authored-by: Greg Becker <becker33@llnl.gov>
2021-04-01 20:06:39 -07:00
Todd Gamblin
fc48c63355 Revert "CachedCMakePackage for using *.cmake initial config files (#19316)""
This reverts commit 7daf582357.
2021-04-01 20:06:39 -07:00
Robert Pavel
3f7c111e29
Added ML Suite to ECP Proxy App Suite (#22728) 2021-04-01 17:52:17 -07:00
Shintaro Iwasaki
7e6048fef5
argobots: add Argobots 1.1 and 1.0.1 (#22729) 2021-04-01 18:49:11 -06:00
Jose E. Roman
49b222442f
Update SLEPc and slepc4py to version 3.15 (#22714)
Co-authored-by: Satish Balay <balay@mcs.anl.gov>
2021-04-01 17:38:47 -07:00
AMD Toolchain Support
252f42f115
Fix for static library export issue in blis package (#22673) 2021-04-01 16:57:46 -07:00
Amiya Maji
73a4a5d394
gdal package needs to import the 'os' module (#22731)
* 'gdal+java' build needs to import the 'os' module (line 191).

* Make style-check happy.
2021-04-01 17:52:04 -06:00
Michael Kuhn
c89fa98b16
Fix pkgconfig dependencies (#22702)
pkgconfig is the correct virtual provider.
2021-04-01 23:45:01 +00:00
Simon Bolding
9c139bf7a2
mpark-variant: ICC Patch (#22727)
* Add patch for Intel C++ compiler

- On some machines (in particular MacOSX Catalina), the icpc in some way
utilizes the preprocessor of the associated "developer tools" used by
icpc. This leads to, in some cases, a preprocessor claiming support for
__tuple_element_packs, even though icpc (as of version 21.1) can't
actually parse such code. Just use the MPARK_TUPLE_ELEMENT_PACK impl
with __icc until icpc supports it, to avoid issues with developer tools
that are untested.
- The same patch has been PRed against mpark-variant
2021-04-01 23:15:25 +00:00
mic84
2ae7e25501
amrex: new version 21.04 (#22730) 2021-04-01 14:11:14 -07:00
Daniel Arndt
cf1b8dd72b
xSDK: add ArborX (#22619) 2021-04-01 11:59:05 -05:00
iarspider
1e70ee38a2
New version of OpenLoops (#22240)
New version of OpenLoops; new list of processes; update lcg process collection
Add script to scrape openloops website for process list
2021-04-01 17:06:03 +02:00
Nick Forrington
e22b2ff5c9
arm-forge: cleanup and upgrade to forge v21.0 (#22015)
Backwards incompatible cleanup to target single-tarball-per-arch builds
going forwards.

* Replace per-distro versions with new per-arch builds, and add
  url_for_version to avoid specifying per tarball.
* Customise environment setup to avoid adding lib to LD_LIBRARY_PATH.
* Update homepage and licensing URLs.
* Avoid shell interpretation when running textinstall.sh.
* Added NickRF as maintainer.
2021-04-01 15:47:32 +02:00
iarspider
034211f993
Extra environment variables for Qt (#22717) 2021-04-01 12:40:56 +00:00
Chris Richardson
5ed00560cd
Fenicsx package updates for basix install (#22679)
Co-authored-by: Garth N. Wells <gnw20@cam.ac.uk>
2021-04-01 14:35:01 +02:00
Robert Mijakovic
efaa2c160f
py-cython: new version (#22712)
Co-authored-by: Robert Mijakovic <robert.mijakovic@lrz.de>
2021-04-01 14:28:12 +02:00
William Downs
db87f62aa5
gchp: add version 13.0.1 and remove release candidate (#22572) 2021-04-01 14:07:13 +02:00
Rémi Lacroix
67f182bb6d
MUMPS: Various improvements to the package (#22575)
Use `conflicts` directive whenever possible.
This allows failing early when conflicting variants are used.

Do not silently ignore `+parmetis` variant when `~metis`.
Instead throw an error during concretization.

Simplify the "Makefile.inc" generation.
This will make easier to add new variants in the future.
2021-04-01 14:06:22 +02:00
Michael Kuhn
4a059aad17
libfabric: add 1.12.0 (#22694) 2021-04-01 06:01:19 -06:00
Michael Kuhn
76424c1a91
sqlite: add 3.35.3 (#22697) 2021-04-01 13:57:20 +02:00
Michael Kuhn
2556490cb0
leveldb: add 1.23 (#22695) 2021-04-01 13:56:25 +02:00
Michael Kuhn
5a10c6f822
glib: add 2.66.8 (#22691) 2021-04-01 13:44:09 +02:00
Amiya Maji
09dcb16a70
qt: restrict patch to 5.12.7 (#22705) 2021-04-01 04:38:06 +00:00
Michael Kuhn
bfece29858
pkgconf: add 1.7.4 (#22696) 2021-03-31 21:37:02 -07:00
Michael Kuhn
f7d7cbfacf
readline: add 8.1 (#22698) 2021-03-31 21:36:40 -07:00
Michael Kuhn
487ea02044
tar: add 1.34 (#22700) 2021-03-31 21:36:20 -07:00
Michael Kuhn
2922068fdc
curl: add 7.76.0 (#22693) 2021-03-31 21:36:01 -07:00
Anthony J. Zukaitis
1c084cd4dd
Added version patch for 1.4.0 tag on mpark-variant (#22496)
* Added version patch for 1.4.0 tag on mpark-variant

Redirected urls to git and github tags.

* Updated to commit hashes

* Update var/spack/repos/builtin/packages/mpark-variant/package.py

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

* Update var/spack/repos/builtin/packages/mpark-variant/package.py

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

* Update var/spack/repos/builtin/packages/mpark-variant/package.py

Co-authored-by: Anthony J Zukaitis <zukaitis@lanl.gov>
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
2021-03-31 22:35:00 -06:00
Michael Kuhn
4f2a972c2f
util-linux(-uuid): add 2.36.2 (#22701) 2021-03-31 21:32:07 -07:00
takanori-ihara
3e532db04d
fujitsu-ssl2: Add the headers method (#22629)
* fujitsu-ssl2: Add the headers method

* fujitsu-ssl2: Fix for comments

* fujitsu-ssl2: Fix for comments
2021-04-01 03:59:10 +00:00
Greg Becker
7daf582357 CachedCMakePackage for using *.cmake initial config files (#19316)"
Original commit message:
This feature of CMake allows packages to increase reproducibility, especially between
Spack- and manual builds. It also allows packages to sidestep certain parsing bugs in
extremely long ``cmake`` commands, and to avoid system limits on the length of the
command line.

Adding:
Co-authored by: Chris White <white238@llnl.gov>

This reverts commit c4f0a3cf6c.
2021-03-31 18:38:22 -07:00
Chris White
c4f0a3cf6c Revert "CachedCMakePackage for using *.cmake initial config files (#19316)"
This reverts commit 764c170530.
2021-03-31 18:34:45 -07:00