Commit graph

28759 commits

Author SHA1 Message Date
Glenn Johnson
9fdb36585f
Fix openblas build with intel compiler (#34432)
This PR patches the f_check script to detect the ifort compiler and
ensure that F_COMPILER is iset to INTEL. This problem was introduced with
openblas-0.3.21. Without this patch, the value of F_COMPILER falls back
to G77 and icc rather than ifort is used for the linking stage. That
results in the openblas library missing libifcore, which in turn means
many Fotran programs can not be compiled with ifort.
2022-12-12 14:27:54 +01:00
Filippo Spiga
1f0a9fdc11
Adding NVIDIA HPC SDK 22.11 (#33954) 2022-12-12 14:26:39 +01:00
Jen Herting
0baba62900
arrow: dependency fixes (#33666)
+python needs more dependencies
don't look for dependency spec when it's not there
2022-12-12 14:26:02 +01:00
iarspider
4a0e34eda8
Add checksum for py-prometheus-client 0.14.1 (#34259) 2022-12-12 13:32:02 +01:00
Luke Diorio-Toth
88f2f59d92
Added ARM/aarch64 conflict to Eddy/Rivas lab tools (#34190) 2022-12-12 13:26:57 +01:00
Bernhard Kaindl
c1d11975f5
intel-parallel-studio: package is only available for x86_64 (#34392) 2022-12-12 12:09:29 +01:00
Glenn Johnson
cca56291c6
libgit2: add pcre dependency for @0.99: (#34289) 2022-12-12 11:55:49 +01:00
dependabot[bot]
ef155c16f0
build(deps): bump actions/setup-python from 4.3.0 to 4.3.1 (#34413)
Bumps [actions/setup-python](https://github.com/actions/setup-python) from 4.3.0 to 4.3.1.
- [Release notes](https://github.com/actions/setup-python/releases)
- [Commits](13ae5bb136...2c3dd9e7e2)

---
updated-dependencies:
- dependency-name: actions/setup-python
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

Signed-off-by: dependabot[bot] <support@github.com>

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2022-12-12 11:37:06 +01:00
Adam J. Stewart
0952d314bd
py-pytorch-lightning: add v1.8.4 (#34426) 2022-12-12 11:35:20 +01:00
Wileam Y. Phan
f29ac34558
nvhpc: add v22.11 (#34410) 2022-12-12 11:35:00 +01:00
snehring
47628521b9
delly2: add v1.1.6 (#34411) 2022-12-12 11:31:26 +01:00
Todd Gamblin
62da76cb5d
directives: depends_on should not admit anonymous specs (#34368)
Writing a long dependency like:

```python
     depends_on(
         "llvm"
         "targets=amdgpu,bpf,nvptx,webassembly"
         "version_suffix=jl +link_llvm_dylib ~internal_unwind"
     )
```

when it should be formatted like this:

```python
     depends_on(
         "llvm"
         " targets=amdgpu,bpf,nvptx,webassembly"
         " version_suffix=jl +link_llvm_dylib ~internal_unwind"
     )
```

can cause really subtle errors. Specifically, you'll get something like this in
the package sanity tests:

```
    AttributeError: 'NoneType' object has no attribute 'rpartition'
```

because Spack happily constructs a class that has a dependency with name `None`.

We can catch this earlier by banning anonymous dependency specs directly in
`depends_on()`.  This causes the package itself to fail to parse, and emits
a much better error message:

```
==> Error: Invalid dependency specification in package 'julia':
    llvmtargets=amdgpu,bpf,nvptx,webassemblyversion_suffix=jl +link_llvm_dylib ~internal_unwind
```
2022-12-12 11:24:28 +01:00
Brian Vanderwende
65c914fff7
netcdf-c: add libxml2 when +dap (#34178) 2022-12-12 11:04:38 +01:00
Mikael Simberg
dd7b2deb47
Only restrict CMake version in Umpire when examples and rocm are enabled (#32025)
* Only restrict CMake version in umpire when examples and rocm are enabled

* Add CMAKE_HIP_ARCHITECTURES to Umpire and lift cmake version restriction

Co-authored-by: Tom Scogland <scogland1@llnl.gov>
2022-12-12 10:55:37 +01:00
Adam J. Stewart
7d72aeb4fe
py-tensorboard-data-server: add Linux aarch64 support (#34437) 2022-12-12 10:40:48 +01:00
John W. Parent
43d97afd8b
Bump CMake version to 3.25.1 (#34336) 2022-12-12 10:35:27 +01:00
Robert Cohn
39f13853ba
intel-oneapi-* conflicts for non linux, x86 (#34441) 2022-12-12 09:23:14 +01:00
Sebastian Pipping
d65b9c559a
expat: Add latest release 2.5.0 with security fixes (#34453) 2022-12-12 00:08:44 -07:00
Stephen Sachs
bde5720a81
glib: Add list_url+list_depth to list versions (#33904)
Co-authored-by: Bernhard Kaindl <contact@bernhard.kaindl.dev>
2022-12-12 06:51:09 +01:00
Harmen Stoppels
2371ec7497
openblas: fix bound :7.3 to :7.3.0 (#34443)
This patch:

https://gcc.gnu.org/legacy-ml/gcc-patches/2018-01/msg01962.html

is actually in Amazon Linux GCC 7.3.1, which we use in CI.

So we should not hold openblas back because of it.

Old versions of OpenBLAS fail to detect the host arch of some of the
AVX512 cpus of build nodes, causing build failures.

Of course we should try to set ARCH properly in OpenBLAS to avoid that
it looks up the build arch, but that's quite some work.
2022-12-11 19:02:07 +01:00
Todd Gamblin
aa3b6e598f pkg grep: use capfd instead of executable for tests 2022-12-10 16:43:44 -08:00
Todd Gamblin
8035eeb36d Revert "Use urllib handler for s3:// and gs://, improve url_exists through HEAD requests (#34324)"
This reverts commit db8f115013.
2022-12-10 16:43:44 -08:00
Michael Kuhn
57383a2294
py-scipy: print error message if no Fortran compiler is available (#34439) 2022-12-10 20:19:50 +01:00
Adam J. Stewart
9517dab409
py-scikit-learn: add v1.2.0 (#34408) 2022-12-10 11:10:31 -06:00
Manuela Kuhn
84fa4e6c4c
py-setuptools-scm-git-archive: add 1.4 (#34422) 2022-12-10 09:58:39 -06:00
Harmen Stoppels
f33507961d
py-{boto3,botocore,jmespath,s3transfer} bump (#34423) 2022-12-10 09:07:58 -06:00
Adam J. Stewart
46010ef1e1
valgrind: add v3.20.0, mark macOS conflict (#34436) 2022-12-10 12:19:42 +01:00
Abhik Sarkar
f9d9d43b63
Support for building Pmix with Debian/Ubuntu external dependencies (#32690)
* Debian like distros use multiarch implementation spec
https://wiki.ubuntu.com/MultiarchSpec
Instead of being limited to /usr/lib64, architecture based
lib directories are used. For instance, under ubuntu a library package
on x86_64 installs binaries under /usr/lib/x86_64-linux-gnu.
Building pmix with external dependencies like hwloc or libevent
fail as with prefix set to /usr, that prefix works for
headers and binaries but does not work for libraries. The default
location for library /usr/lib64 does not hold installed binaries.
Pmix build options --with-libevent and --with-libhwloc allow us to
specify dependent library locations. This commit is an effort to
highlight and resolve such an issue when a users want to use Debian like
distro library packages and use spack to build pmix.
There maybe other packages that might be impacted in a similar way.

* Adding libs property to hwloc and libevent and some cleanups to pmix patch

* Fixing style and adding comment on Pmix' 32-bit hwloc version detection issue
2022-12-09 18:30:45 -08:00
Harmen Stoppels
db8f115013
Use urllib handler for s3:// and gs://, improve url_exists through HEAD requests (#34324)
* `url_exists` improvements (take 2)

Make `url_exists` do HEAD request for http/https/s3 protocols

Rework the opener: construct it once and only once, dynamically dispatch
to the right one based on config.
2022-12-10 00:20:29 +01:00
Manuela Kuhn
09b5476049
py-simplejson: add 3.18.0 (#34430) 2022-12-09 13:11:30 -07:00
Sinan
14c4896ec2
package/qt-base: add conflict for older gcc (#34420) 2022-12-09 12:47:29 -07:00
Ben Morgan
b5ef5c2eb5
geant4: version bumps for Geant4 11.1.0 release (#34428)
* geant4: version bumps for Geant4 11.1.0

- Version bumps for new data libraries
  - g4ndl 4.7
  - g4emlow 8.2
- Add geant4-data@11.1.0
- Checksum new Geant4 11.1.0 release
  - Limit +python variant to maximum of :11.0 due to removal of
    Geant4Py in 11.1
  - Update CLHEP dependency to at least 2.4.6.0 for this release
  - Update VecGeom dependency to at least 1.2.0 for this release,
    closing version ranges for older releases to prevent multiple
    versions satisfying requirement

* geant4: correct max version for python support
2022-12-09 12:26:22 -07:00
Scott Wittenburg
675afd884d
gitlab ci: more resources for paraview and py-torch (#34412) 2022-12-09 11:58:37 -07:00
shanedsnyder
0f5482dc9a
[darshan-runtime, darshan-util, py-darshan]: darshan 3.4.1 release updates (#34294) 2022-12-09 19:56:53 +01:00
Jen Herting
069e5f874c
New package: py-torchdiffeq (#34409)
* [py-torchdiffeq] new package

* [@spackbot] updating style on behalf of qwertos

Co-authored-by: qwertos <qwertos@users.noreply.github.com>
2022-12-09 12:38:14 -06:00
Manuela Kuhn
cad01a03cb
py-nbformat: add 5.7.0 and new package py-hatch-nodejs-version (#34361) 2022-12-09 12:32:41 -06:00
Manuela Kuhn
f10f8ed013
py-setupmeta: add 3.3.2 (#34421) 2022-12-09 12:32:19 -06:00
Todd Gamblin
d991ec90e3
new command: spack pkg grep to search package files (#34388)
It's very common for us to tell users to grep through the existing Spack packages to
find examples of what they want, and it's also very common for package developers to do
it. Now, searching packages is even easier.

`spack pkg grep` runs grep on all `package.py` files in repos known to Spack. It has no
special options other than the search string; all options passed to it are forwarded
along to `grep`.

```console
> spack pkg grep --help
usage: spack pkg grep [--help] ...

positional arguments:
  grep_args  arguments for grep

options:
  --help     show this help message and exit
```

```console
> spack pkg grep CMakePackage | head -3
/Users/gamblin2/src/spack/var/spack/repos/builtin/packages/3dtk/package.py:class _3dtk(CMakePackage):
/Users/gamblin2/src/spack/var/spack/repos/builtin/packages/abseil-cpp/package.py:class AbseilCpp(CMakePackage):
/Users/gamblin2/src/spack/var/spack/repos/builtin/packages/accfft/package.py:class Accfft(CMakePackage, CudaPackage):
```

```console
> spack pkg grep -Eho '(\S*)\(PythonPackage\)' | head -3
AwsParallelcluster(PythonPackage)
Awscli(PythonPackage)
Bueno(PythonPackage)
```

## Return Value

This retains the return value semantics of `grep`:
* 0  for found,
* 1  for not found
* >1 for error

## Choosing a `grep`

You can set the ``SPACK_GREP`` environment variable to choose the ``grep``
executable this command should use.
2022-12-09 10:07:54 -08:00
snehring
8353d1539f
py-torchvision: fix typo in version restriction for ffmpeg (#34415) 2022-12-09 11:05:43 -07:00
iarspider
bf3d18bf06
Add checksum for py-packaging11 0.12.3 (#34402) 2022-12-09 06:43:44 -07:00
John W. Parent
0e69710f41
Windows: reenable unit tests (#33385)
Unit tests on Windows are supposed to pass for any PR to pass CI.
However, the return code for the unit test command was not being
checked, which meant this check was always passing (effectively
disabled). This PR

* Properly checks the result of the unit tests and fails if the
  unit tests fail
* Fixes (or disables on Windows) a number of tests which have
  "drifted" out of support on Windows since this check was
  effectively disabled
2022-12-09 13:27:46 +00:00
Harmen Stoppels
ec62150ed7
binary distribution: warn about issues (#34152) 2022-12-09 13:25:32 +01:00
Massimiliano Culpo
d37dc37504
btop++: add new package (#34399) 2022-12-09 12:59:46 +01:00
iarspider
38d37897d4
Add checksum for py-onnxmltools 1.11.1 (#34400) 2022-12-09 04:04:20 -07:00
Todd Gamblin
606eef43bd
bugfix: spack load shell test can fail on macos (#34419)
At some point the `a` mock package became an `AutotoolsPackage`, and that means it
depends on `gnuconfig` on macOS. This was causing one of our shell tests to fail on
macOS because it was testing for `{a.prefix.bin}:{b.prefix.bin}` in `PATH`, but
`gnuconfig` shows up between them.

- [x] simplify the test to check `spack load --sh a` and `spack load --sh b` separately
2022-12-09 10:36:54 +00:00
Mikael Simberg
02a30f8d95
Add pika-algorithms package and pika 0.11.0 (#34397)
* Add 20 as a valid option for cxxstd to fmt

* Add pika 0.11.0

* Fix version constraint for p2300 variant in pika package

* Add pika-algorithms package
2022-12-09 11:26:48 +01:00
Harmen Stoppels
7e054cb7fc
s3: cache client instance (#34372) 2022-12-09 08:50:32 +01:00
Manuela Kuhn
d29cb87ecc
py-reportlab: add 3.6.12 (#34396)
* py-reportlab: add 3.6.12

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

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

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2022-12-08 20:08:00 -06:00
Bernhard Kaindl
f8c0d9728d
intel-mkl: It is only available for x86_64 (#34391) 2022-12-08 18:10:00 -07:00
Bernhard Kaindl
f5bff16745
bcache: Fix check for libintl to work correctly (#34383) 2022-12-08 17:37:10 -07:00