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* 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
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(#34294)
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* [py-torchdiffeq] new package
* [@spackbot] updating style on behalf of qwertos
Co-authored-by: qwertos <qwertos@users.noreply.github.com>
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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.
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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
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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
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* 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
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* 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>
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* Automatically convert 'cray' platform to 'linux'
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* Add version hdf5-vol-async@1.4
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* adding recipe for singularity-hpc - 1st go
* typo in singularity-hpc recipe
* singularity-hpc, spython recipes: added platform variant
* singularity-hpc, spython recipes: platform variant renamed to runtime
* style fix
* another style fix
* yet another style fix (why are they not reported altogether)
* singularity-hpc recipe: added Vanessa as maintainer
* singularity-hpc recipe: add podman variant
* singularity-hpc recipe: added variant for module system
* shpc recipe: add version for py-semver dependency
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* py-spython recipe: no need to specify generic python dep for a python pkg
* py-spython: py-requests not needed
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
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## Motivation
Our parser grew to be quite complex, with a 2-state lexer and logic in the parser
that has up to 5 levels of nested conditionals. In the future, to turn compilers into
proper dependencies, we'll have to increase the complexity further as we foresee
the need to add:
1. Edge attributes
2. Spec nesting
to the spec syntax (see https://github.com/spack/seps/pull/5 for an initial discussion of
those changes). The main attempt here is thus to _simplify the existing code_ before
we start extending it later. We try to do that by adopting a different token granularity,
and by using more complex regexes for tokenization. This allow us to a have a "flatter"
encoding for the parser. i.e., it has fewer nested conditionals and a near-trivial lexer.
There are places, namely in `VERSION`, where we have to use negative lookahead judiciously
to avoid ambiguity. Specifically, this parse is ambiguous without `(?!\s*=)` in `VERSION_RANGE`
and an extra final `\b` in `VERSION`:
```
@ 1.2.3 : develop # This is a version range 1.2.3:develop
@ 1.2.3 : develop=foo # This is a version range 1.2.3: followed by a key-value pair
```
## Differences with the previous parser
~There are currently 2 known differences with the previous parser, which have been added on purpose:~
- ~No spaces allowed after a sigil (e.g. `foo @ 1.2.3` is invalid while `foo @1.2.3` is valid)~
- ~`/<hash> @1.2.3` can be parsed as a concrete spec followed by an anonymous spec (before was invalid)~
~We can recover the previous behavior on both ones but, especially for the second one, it seems the current behavior in the PR is more consistent.~
The parser is currently 100% backward compatible.
## Error handling
Being based on more complex regexes, we can possibly improve error
handling by adding regexes for common issues and hint users on that.
I'll leave that for a following PR, but there's a stub for this approach in the PR.
## Performance
To be sure we don't add any performance penalty with this new encoding, I measured:
```console
$ spack python -m timeit -s "import spack.spec" -c "spack.spec.Spec(<spec>)"
```
for different specs on my machine:
* **Spack:** 0.20.0.dev0 (c9db4e50ba045f5697816187accaf2451cb1aae7)
* **Python:** 3.8.10
* **Platform:** linux-ubuntu20.04-icelake
* **Concretizer:** clingo
results are:
| Spec | develop | this PR |
| ------------- | ------------- | ------- |
| `trilinos` | 28.9 usec | 13.1 usec |
| `trilinos @1.2.10:1.4.20,2.0.1` | 131 usec | 120 usec |
| `trilinos %gcc` | 44.9 usec | 20.9 usec |
| `trilinos +foo` | 44.1 usec | 21.3 usec |
| `trilinos foo=bar` | 59.5 usec | 25.6 usec |
| `trilinos foo=bar ^ mpich foo=baz` | 120 usec | 82.1 usec |
so this new parser seems to be consistently faster than the previous one.
## Modifications
In this PR we just substituted the Spec parser, which means:
- [x] Deleted in `spec.py` the `SpecParser` and `SpecLexer` classes. deleted `spack/parse.py`
- [x] Added a new parser in `spack/parser.py`
- [x] Hooked the new parser in all the places the previous one was used
- [x] Adapted unit tests in `test/spec_syntax.py`
## Possible future improvements
Random thoughts while working on the PR:
- Currently we transform hashes and files into specs during parsing. I think
we might want to introduce an additional step and parse special objects like
a `FileSpec` etc. in-between parsing and concretization.
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* sw4
* use h5z-zfp develop
* update for macos
* Update package.py
Co-authored-by: Houjun Tang <tang@Houjuns-MacBook-Pro.local>
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* py-pywavelets: add 1.4.1
* Update var/spack/repos/builtin/packages/py-pywavelets/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-pywavelets/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
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* Update package.py
* Add full_index to patch URL
* Update var/spack/repos/builtin/packages/xrootd/package.py
* Restore list_url
Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
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Co-authored-by: Matt Lieber <lieber.31@osu.edu>
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* [quantum-espresso] Parallel make fails for 6.{6,7}
I run into a race condition in `make` with Intel compiler on icelake when building QE 6.6 and 6.7.
* Fix comment
Co-authored-by: Stephen Sachs <stesachs@amazon.com>
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* fix location of input for darshan-util tests
Darshan log file used for test input was removed from the Darshan
repo after the 3.4.0 release. This commit adds logic to use a
different log file as test input for later Darshan versions.
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* libctl: add new version
Change-Id: I16f91cfab198c66b60407ab5bb2cb3ebeac6bc19
* New package: libgdsii
Change-Id: I34b52260ab68ecc857ddf8cc63b124adc2689a51
* New package: mpb
Change-Id: I6fdf5321c33d6bdbcaa1569026139a8483a3bcf8
* meep: add new version and variants
Change-Id: I0b60a9a4d9a329f7bde9027514467e17376e6a39
* meep: use with_or_without
Change-Id: I05584cb13df8ee153ed385e77d367cb34e39777e
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* Fix Apptainer
* Add comments
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* LibCatalyst: Fix version of pre-release develop version
* ParaView: Requires libcatalyst@2:
* ParaView: Apply adios2 module no kit patch to 5.11
This patch is still pending in VTK and didn't make it into 5.11 as anticipated.
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* bcache: support external gettext when `libintl` is in glibc
Many glibc-based Linux systems don't have gettext's libintl because
libintl is included in the standard system's glibc (libc) itself.
When using `spack external find gettext` on those, packages like
`bcache` which unconditionally to link using `-lintl` fail to link
with -lintl.
Description of the fix:
The libs property of spack's gettext recipe returns the list of libs,
so when gettext provides libintl, use it. When not, there is no
separate liblint library and the libintl API is provided by glibc.
Tested with `spack external find gettext` on glibc-based Linux and
in musl-based Alpine Linux to make sure that when -lintl is really
needed, it is really used and nothing breaks.
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Co-authored-by: pelesh <peless@ornl.gov>
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
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