Commit graph

26164 commits

Author SHA1 Message Date
mcuma
23b7071bb0
wi4mpi: fix a missed conversion to string (#30541) 2022-05-10 07:42:21 +02:00
Erik Schnetter
359229f5f8
memkind: conflicts with jemalloc (#30070) 2022-05-10 07:41:01 +02:00
JDBetteridge
2db545ffdc
libflame: fix for linking with BLIS library (#30527) 2022-05-10 07:39:02 +02:00
Ryan Mulhall
3986ac3828
fms: add versions and expose more CMake build options (#28966)
Co-authored-by: rem1776 <Ryan.Mulhall@lscamd50-d.gfdl.noaa.gov>
2022-05-10 07:28:23 +02:00
Robert Cohn
c47c5d75e4
oneapi: add v2022.2 (#30531) 2022-05-10 07:25:06 +02:00
Todd Gamblin
a0d4630448
bugfix: spack pkg list should be more picky about what's a package (#30577)
`spack pkg list` tests were broken by #29593 for cases when your `builtin.mock` repo
still has stale backup files (or, really, stale directories) sitting around. This
happens if you switch branches a lot. In this case, things like this were causing
erroneous packages in the mock listing:

```
var/spack/repos/builtin.mock/packages/
    foo/
        package.py~
```

- [x] make `list_packages` consider only directories with one-deep `package.py` files.
2022-05-10 04:57:58 +00:00
Tom Scogland
7f1659786b
Add a Lua build-system (#28854)
Reworking lua to allow easier substitution of the base lua implementation.

Also adding in a maintained version of luajit and re-factoring the entire stack 
to use a custom build-system to centralize functionality like environment 
variable management and luarocks installation.

The `lua-lang` virtual is now versioned so that a package that requires 
Lua 5.1 semantics can get any lua, but one that requires 5.2 will only 
get upstream lua.

The luaposix package requires lua-bit32, but only when built with a 
lua conforming to version 5.1.  This adds the package, and the 
dependencies, but exposed a problem with luarocks dependency 
detection.  Since we're  installing each package in its own "tree" and 
there's no environment  variable to list extra trees, spack now 
generates a luarocks config  file that lists all the trees of all the 
dependencies, and references  it by setting `LUAROCKS_CONFIG` 
in the build environment of every LuaPackage.  This allows luarocks 
to find the spack installed  dependencies correctly rather than 
trying (and failing) to download them.

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Tom Scogland <tscogland@llnl.gov>
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2022-05-10 06:54:38 +02:00
Sam Grayson
b5da0d02bf
Fix py-numpy #30373 by backporting Numpy PR (#30486)
* Fix py-numpy #30373

* Update `when` for patch.
2022-05-09 22:13:39 -06:00
eugeneswalker
8575afac4e
e4s on mac ci: set SPACK_DISABLE_LOCAL_CONFIG=1 (#30568)
* e4s on mac ci: set SPACK_DISABLE_LOCAL_CONFIG=1
* export SPACK_USER_CACHE_PATH so that ~/.spack/... isn't used
2022-05-09 21:13:34 -06:00
Todd Gamblin
7997dfcf80
tests: fix references to hard-coded master branch in git tests (#30572)
Some of our `git` tests still fail when `init.defaultBranch` is set to something other
than `master`.

- [x] get rid of all hard-coded `master` refs
- [x] Use `'default'` to key tests that use the default branch
2022-05-09 16:42:25 -07:00
Erik Schnetter
19c8e02e32
sqlite: New version 3.38.5 (#30556) 2022-05-09 16:25:39 -06:00
sabrivatansever
320e6e06e6
Cutlang: Create package.py (#30535) 2022-05-09 20:39:53 +00:00
Adam J. Stewart
d7b66dd286
Python: add v3.8.13 and v3.7.13 (#30553)
Co-authored-by: Harmen Stoppels <harmenstoppels@gmail.com>
2022-05-09 13:49:41 -06:00
Rebecca Haluska
70a8b91ec2
sina: add 1.11 version (#27161)
* sina: add 1.11 version

* Moved 1.11 above 1.10
2022-05-09 19:27:59 +00:00
Douglas Thain
1883fedae7
cctools: add 7.4.2 (#28766)
* Update to cctools-7.4.2
* Add simple patch to remove broken test cases.
* import unlink
* add maintainers
2022-05-09 10:50:00 -07:00
Sergei Shudler
c4412306da
Added a new patched version for parallelmergetree (#29499)
* Added a new patched version for parallelmergetree

* Retain older versions instead of replacing them
2022-05-09 10:47:34 -07:00
Dom Heinzeller
c49508648a
Get timeout for web requests with urllib from spack config, same as for curl (#30468) 2022-05-09 10:35:17 -07:00
John W. Parent
9bcf496f21
Windows permissions: uninstalling and cleaning stages (#29714)
When running on Windows, Spack may generate files in the stage/install
prefixes that do not have write permissions, which prevents the
removal of those directories (e.g. when cleaning stages or uninstalling).
There should be a refactoring to avoid this in the first place, but that
is assumed to be longer term, so the temporary fix is to make such files
writable if they are not. This PR:

* Automatically handles these permissions errors when uninstalling
  packages from the Spack root (makes then writable)
* Updates similar already-existing logic when removing Spack-managed
  stage directories (the error-handling was assuming all errors were
  permissions errors and was therefore handling other errors
  inappropriately)

Note: these permissions issues only appear on Windows so this logic is
only applied there (permissions are not modified for this purpose on
Linux etc.).

This also adds special handling for a case where calling `isdir`
on an `os.DirEntry` object would fail for improperly-created symlinks
(e.g. on Windows, using `os.symlink` without `target_is_directory=True`).
Note this specific issue only came up when enabling link_tree tests
(specifically `source_merge_visitor_cant_be_cyclical`).
2022-05-09 10:28:14 -07:00
Will Saunders
060e88387e
hipsycl: add v0.9.2 (#30566) 2022-05-09 17:54:14 +02:00
Oliver Perks
a24bae1986
Updated ACfL package to 22.0.1, removing 21 package, as no licence required is now false. (#30562) 2022-05-09 15:12:08 +02:00
Erik Schnetter
d08520cb15
mpitrampoline: Correct build environment (#30549) 2022-05-09 13:40:10 +02:00
Erik Schnetter
5397dcee51
simulationio: add v9.0.2 (#30550) 2022-05-09 13:39:18 +02:00
Adam J. Stewart
d62e4b1d66
py-radiant-mlhub: add new versions (#30555) 2022-05-09 12:44:49 +02:00
Adam J. Stewart
9ed1c76486
py-cartopy: add new versions (#30554) 2022-05-09 12:44:33 +02:00
Adam J. Stewart
10efbc071f
py-geocube: add v0.3.1 (#30558) 2022-05-09 12:44:01 +02:00
Massimiliano Culpo
d517dcdc71
tcl: add v8.6.12 (#30560) 2022-05-09 11:12:16 +02:00
Massimiliano Culpo
104d60887f
CI: fix bootstrapping on Fedora (#30559)
Fedora updated git, so we need to apply, again, the
workaround for CVE-2022-24765
2022-05-09 09:11:03 +00:00
Erik Schnetter
1bde91735b
mpitrampoline: New version 4.0.2 (#30548) 2022-05-09 10:01:41 +02:00
Erik Schnetter
335083d2dc
openssl: Update to 1.1.1o (#30551) 2022-05-08 22:57:37 -06:00
Peter Scheibel
0858c281e4
Cray manifest file: accept "nvidia" as "nvhpc" (#30428)
* create function for translating compiler names on specs/compiler entries in manifest

* add tests for translating compiler names on spec/compiler entries

* use higher-level function in test and add comment to prefer testing via higher-level function

* opensuse clingo check should not fail on account of this pr, but I cannot get it to pass by restarting via CI UI
2022-05-08 17:51:27 -07:00
Erik Schnetter
adc8a2ca00
curl: New version 7.83.0 (#30552) 2022-05-09 00:36:03 +02:00
Derek Ryan Strong
dc6d45c8b4
Add latest Lmod 8.6, 8.7 (#30542)
Co-authored-by: Harmen Stoppels <harmenstoppels@gmail.com>
2022-05-07 20:04:10 -06:00
Harmen Stoppels
fcaf9c8cdf
gcc: version 12.1.0 (#30537) 2022-05-07 19:28:54 -06:00
Phil Carns
1f74dc63dc
Add mochi-margo 0.9.9 (#30539)
- necessary for compatibility with upcoming Mercury 2.2.0 release
2022-05-07 19:28:36 -06:00
Francesco Di Natale
ceaad43e54
Addition of 1.1.9dev version for py-maestrowf (#30523)
* Addition of 1.1.9dev version.

* Small style fix -- extra blank line.

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

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

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

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

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

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

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

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

* Additional dependencies and version constraints.

* Revert to py-poetry.

* Remove run from cryptography (build only).

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2022-05-07 19:28:23 -06:00
Erik
4c8eb92314
Put make() inside a self.run_test call (#30536) 2022-05-07 18:45:57 -06:00
Ryan Marcellino
89775e32c0
vim: add +gtk variant to pair with +gui (#30520)
* vim: add +gtk3 variant to pair with +gui

* address review comments
2022-05-07 17:49:33 -06:00
Robert Pavel
5ab526185a
Force GCC to always provide a C++14 flag (#29781)
* Force GCC to always provide a C++14 flag

Updated gnu logic so that the c++14 flag for g++ is always propagated.
This fixes issues with build systems that error out if passed an empty
string for a flag.

Engaging in the best kind of software engineering by updating the unit
test to pass with the value it is now passed. This should better match
the expected flag for g++ compiling with the C++14 standard
2022-05-07 13:09:20 -04:00
WYF
654a07d642
nmap: fix build issue (#30429) 2022-05-07 03:02:26 +02:00
JDBetteridge
dfdbd1151d
Eigen: turn on BUILD_TESTING for build to complete (#30528)
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2022-05-06 16:28:33 -06:00
Sebastian Schmitt
22f3ef0a21
Add sphinx-tabs package (#27698)
* Add py-docutils@0.16

* Add sphinx-tabs package

* Update var/spack/repos/builtin/packages/py-sphinx-tabs/package.py

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

* Update var/spack/repos/builtin/packages/py-sphinx-tabs/package.py

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

* Update var/spack/repos/builtin/packages/py-sphinx-tabs/package.py

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

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2022-05-06 10:33:38 -05:00
Jim Galarowicz
165bcf5cc3
openspeedshop: fix missing import statement (#30506) 2022-05-06 10:27:09 -05:00
Greg Becker
27462bc982
Fix improper type for InvalidDependencyError argument (#30504) 2022-05-06 16:23:12 +02:00
eugeneswalker
c2afb4b916
arborx: inherit from CudaPackage, ROCmPackage (#30490) 2022-05-06 16:18:06 +02:00
Thomas Dickerson
6c6685b5fa
boost: add support for alternate boost-context backends (#30496)
The fcontext backend is the default high-performance backend.
The ucontext backend is needed when using Boost context in conjunction with ASAN.
The WinFibers backend...also exists.

https://www.boost.org/doc/libs/1_79_0/libs/context/doc/html/context/cc/implementations__fcontext_t__ucontext_t_and_winfiber.html
2022-05-06 16:14:45 +02:00
Ken Raffenetti
17c32811fb
level-zero: add new package (#30253)
Co-authored-by: Robert Cohn <rscohn2@gmail.com>
Co-authored-by: Robert Cohn <robert.s.cohn@intel.com>
Co-authored-by: John Mellor-Crummey <johnmc@rice.edu>
2022-05-06 16:12:23 +02:00
WYF
ad1391db75
gdb: fix run issue with v9.2 (#30491) 2022-05-06 07:53:40 -06:00
Chuck Atkins
d8e010a9f5
ci: Enable the ParaView GUI in the DAVSDK pipeline (#30473)
* ci: Enable the ParaView GUI in the DAVSDK pipeline

* qt: Patch for long paths in ci
2022-05-06 09:36:56 -04:00
Seth R. Johnson
5a55e78073
py-qrcode: new package (#30529) 2022-05-06 07:05:53 -06:00
Todd Gamblin
c1007efe5a
slurm: add new versions to address CVEs 2022-29500, 2022-29501 and 2022-29502 (#30525)
Due to CVE 2022-29500, CVE 2022-29501, and CVE 2022-29502, SLURM versions prior to
21.08.8 and 20.11.9 are deprecated.

See:
* https://www.schedmd.com/news.php?id=260#OPT_260
* https://cve.report/CVE-2022-29500
* https://cve.report/CVE-2022-29501
* https://cve.report/CVE-2022-29502

- [x] Deprecate versions prior to 21.08.8 and 20.11.9
- [x] Add 21-08-8-1, 21-08-8-2, and 20-11-9-1
2022-05-06 07:05:41 -06:00