Commit graph

27428 commits

Author SHA1 Message Date
Manuela Kuhn
44746dfbd6
r-tidyverse: add 1.3.1 (#27291) 2021-11-29 18:24:44 -06:00
Harmen Stoppels
a86d574208
dsfmt package: fix shared libs (#27628)
Also:

* Remove 2.2.3 (doesn't build shared libs)
* Add versions 2.2.4 and 2.2.5
2021-11-29 15:57:32 -08:00
Satish Balay
cb71308d22
petsc: archive configure.log make.log from the build (#27677)
Also enable verbose build
2021-11-29 16:10:50 -07:00
Ben Darwin
02b4a65086
py-intensity-normalization: add package (at version 2.1.1) (#27593)
* py-scikit-fuzzy: new package (at version 0.4.2)

* py-intensity-normalization: new package (at version 2.1.1)
2021-11-29 15:33:16 -06:00
Manuela Kuhn
838294b10d
py-gevent: add 21.8.0 (#27699) 2021-11-29 15:29:09 -06:00
Manuela Kuhn
22eebff261
py-pyparsing: add 3.0.6 (#27693)
* py-pyparsing: add 3.0.6

* Add suggestions
2021-11-29 14:02:08 -07:00
Manuela Kuhn
a98e8ad4b5
py-packaging: add 21.3 (#27691)
* py-packaging: add 21.3

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

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

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2021-11-29 13:56:09 -07:00
Bernhard Kaindl
2d34082b0c
llvm: Fix building llvm@4:9 using %clang@6: and %gcc@10: (#27233)
Add z3 variant, fix @:9%gcc@9: with glibc2.31, fix no_cyclades range
2021-11-29 12:48:18 -08:00
Manuela Kuhn
1f1da6806c
py-tifffile: add 2021.11.2 (#27695) 2021-11-29 12:52:55 -07:00
Manuela Kuhn
647a26bc9e
py-httpretty: add 1.1.4 (#27687) 2021-11-29 11:42:58 -06:00
Manuela Kuhn
561b0ca029
py-zope-interface: add 5.4.0 (#27596) 2021-11-29 11:42:00 -06:00
Manuela Kuhn
3c5295ee8a
py-gast: add 0.5.3 (#27686) 2021-11-29 11:40:59 -06:00
Manuela Kuhn
914cf5ff87
py-importlib-metadata: add 4.8.2 (#27690) 2021-11-29 11:40:17 -06:00
Thomas Madlener
ecb588740a
Speed up install of environments with dev packages (#27167)
* only check file modification times once per dev package
2021-11-29 09:34:23 -08:00
Manuela Kuhn
4858a26400
py-humanize: add 3.12.0 (#27688) 2021-11-29 10:58:09 -06:00
Eric Brugger
995a29d2f3
VisIt: remove upper range restriction on llvm. (#27648) 2021-11-29 17:38:31 +01:00
Adam J. Stewart
fcd5f960f8
py-matplotlib: add v3.5.0 (#27486)
* py-matplotlib: add v3.5.0

* Remove deprecated versions, update setup.cfg filename

* Add additional dependencies, save config file

* Add patch to fix matplotlibrc
2021-11-29 17:19:01 +01:00
Howard Pritchard
54d88f1a1c
OpenMPI: add version 4.1.2 (#27645)
Signed-off-by: Howard Pritchard <howardp@lanl.gov>
2021-11-29 16:45:20 +01:00
Adam J. Stewart
fee8ac9721
py-scipy: add v1.7.3 (#27649) 2021-11-29 16:44:17 +01:00
Manuela Kuhn
1326e9d538
py-greenlet: add v1.1.2 (#27594) 2021-11-29 16:43:38 +01:00
Bernhard Kaindl
bd0960cda8
gpgme: Add 0.16.0 and address test suite issues (#27604)
A part of the gpgme testsuite by default even runs during normal
make and make install phases, creating a public keyring in ~/.gnupg.
Prevent this and avoid build failures in containers due to another
problem of the test suite and fix a test case of the new 0.16.0 release.
2021-11-29 16:43:12 +01:00
Ethan Stam
cfd2ea0cff
ParaView: Build edition strings should be uppercase (#27534) 2021-11-29 16:38:25 +01:00
Adam J. Stewart
e5e9dc2d92
py-pytorch-lightning: add v1.5.3 (#27650) 2021-11-29 16:31:58 +01:00
Derek Ryan Strong
f8d03b1060
pixz: add v1.0.7 (#27651) 2021-11-29 16:29:10 +01:00
Harmen Stoppels
037ece674b
distro: don't use deprecated linux_distribution (#27658) 2021-11-29 16:26:19 +01:00
Nicolas Cornu
87cf38a427
Random123: add v1.14.0 from github (#27660) 2021-11-29 16:13:50 +01:00
Massimiliano Culpo
0d10408a25
bootstrap: restrict patchelf to v0.13.x (#27685) 2021-11-29 15:41:25 +01:00
Bernhard Kaindl
48d98b4c9e
podman: new package (with dependencies) (#27603)
When the uidmap tools are installed on a system, this allows to run
containers as unprivileged user (rootless and daemonless) slimilar
to singularity, but using a familiar CLI: "alias docker=podman"

This is helpful to run e.g. spack builds in containers to reproduce
build failures from CI without requiring a installation of docker.
The required dependencies of podman are added as well.
2021-11-29 15:39:19 +01:00
Valentin Volkl
64c4fbd220
edm4hep: update hepmc dependency (#27678) 2021-11-29 14:55:07 +01:00
Bernhard Kaindl
af0ba4e3ef
gtkplus: fix build of GTK2 versions with gcc-11, skip X tests (#26970)
Fix to not attempt to patch a nonexisting file for old versions
when building with gcc-11. Skip the build-time tests as all access
the X DISPLAY and open many windows on the screen.
2021-11-29 14:46:51 +01:00
Harmen Stoppels
5dce4d79bd
patchelf: add v0.13.1, v0.14, v0.14.1 (#27681) 2021-11-29 13:46:15 +01:00
Paul Ferrell
c0edb17b93
Handle byte sequences which are not encoded as UTF8 while logging. (#21447)
Fix builds which produce a lines with non-UTF8 output while logging
The alternative is to read in binary mode, and then decode while
ignoring errors.
2021-11-29 13:27:02 +01:00
Vanessasaurus
bdde70c9d3
"branch" spelling mistake in libbeato (#27682)
I was browsing package metadata, as one does on a Sunday, and stumbled across a new kind of version attribute - brancch! I suspect this is supposed to be "branch."
2021-11-29 13:17:40 +01:00
iarspider
8ff81d4362
Fix py-astroid recipe (#27670) 2021-11-28 11:07:53 -06:00
Mark Grondona
1b71ceb384
add flux-core v0.31.0 and flux-sched v0.20.0 (#27336)
Update flux-core and flux-sched package.py to include latest releases.

For flux-sched:

 - Add patch to disable false-positive-happy valgrind test
 - pin yaml-cpp to 0.6.3 due to issue described at:
   https://github.com/flux-framework/flux-sched/issues/886
2021-11-28 02:18:00 +01:00
Joseph Wang
0ab5828d0d
gdk-pixbuf: Fix 2.42.2 and add 2.42.6 (#27254)
Starting with meson 0.60, unknown args produce errors and
the -Dx11 arg is only present in @:2.40
https://gitlab.gnome.org/GNOME/gtk-osx/-/issues/44

Add tiff variant: Default disabled since fails the tests in part.
Only libtiff@:3.9 pass, but these old versions have severe security issues.

Deprecate @:2.41 as they are affected by the high-severity CVE-2021-20240:
https://nvd.nist.gov/vuln/detail/CVE-2021-20240
2021-11-28 01:30:14 +01:00
iarspider
d5b243de14
py-scipy: update pybind11 versions (#27679) 2021-11-27 16:03:43 -06:00
iarspider
1d8d975721
Apply requested fix from #27643 (#27672) 2021-11-26 16:45:38 -06:00
iarspider
96ce0e393d
New version: py-send2trash 1.8.0 (#27583) 2021-11-26 14:35:03 -07:00
Jannis Schönleber
cf3762369c
dyninst: use spack libiberty path (#25779) 2021-11-26 15:58:53 -05:00
iarspider
8138ebaa32
New version: py-tomlkit 0.7.2 (#27633) 2021-11-26 13:11:20 -07:00
iarspider
eb42514124
New version: py-threadpoolctl 3.0.0 (#27632) 2021-11-26 13:10:58 -07:00
Harmen Stoppels
4d6891162d
Use bash in setup_git.sh (#27676) 2021-11-26 18:03:05 +00:00
iarspider
978f091822
Fix py-aiohttp recipe (#27671) 2021-11-26 08:17:01 -07:00
Massimiliano Culpo
a96f2f603b
Bootstrap patchelf like GnuPG (#27532)
Remove a custom bootstrapping procedure to
use spack.bootstrap instead

Modifications:
* Reference count the bootstrap context manager
* Avoid SpackCommand to make the bootstrapping
  procedure more transparent
* Put back requirement on patchelf being in PATH for unit tests
* Add an e2e test to check bootstrapping patchelf
2021-11-26 15:32:13 +01:00
iarspider
2cdc758860
Fix version constraint in py-ipykernel (#27665)
* Fix version constrains in py-ipykernel and py-ipython

Before the fix:
```
$ spack spec  py-ipykernel@6.4.1  ^py-jupyter-client@7.0.6
==> Error: py-ipykernel@6.4.1 ^py-jupyter-client@7.0.6 is unsatisfiable, conflicts are:
  no version satisfies the given constraints
```

After the fix:
```
```
(thanks god the old concretizer is still there - it provides sane error messages!)

* Fix py-ipython recipe

* Revert "Fix py-ipython recipe"

This reverts commit d65071665f002fa20721c3d87ae25354bec06ec5.
2021-11-25 17:58:43 -07:00
Seth R. Johnson
9904159356
New package: py-sphinx-argparse (#27663) 2021-11-25 13:54:34 -06:00
Maxim Belkin
6e095a9741
module_file_support: update format for configuration (#27598) 2021-11-25 08:41:32 +01:00
iarspider
90b4f55001
New version: py-theano 1.0.5 (#27631) 2021-11-24 18:16:48 -07:00
iarspider
60e683f5d3
New version: py-requests 2.26.0 (redo of #27579) (#27647) 2021-11-24 17:38:01 -07:00