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```
File ".../spack/var/spack/environments/scale-mpi/.spack-env/._view/4yiorsdd4pefrnwgrwlwt3yzo5i235il/lib/python3.10/site-packages/h5py/_hl/base.py", line 19, in <module>
from collections import (Mapping, MutableMapping, KeysView,
ImportError: cannot import name 'Mapping' from 'collections' (.../spack/var/spack/environments/scale-mpi/.spack-env/._view/4yiorsdd4pefrnwgrwlwt3yzo5i235il/lib/python3.10/collections/__init__.py)
```
Fixed in https://github.com/h5py/h5py/pull/1069 which was first merged
in v2.9.
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* py-pytorch-lightning: add +extra variant
* Update dependencies
* py-fsspec: add v2023.1.0
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Signed-off-by: Loïc Pottier <pottier1@llnl.gov>
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* Add packages for scine modules
- lbfgspp (dependency for scine-utilities)
- scine-core
- scine-utilities and py-scine-utilities (virtual)
- scine-readuct and py-scine-readuct (virtual)
- scine-sparrow and py-scine-sparrow (virtual)
- scine-database and py-scine-database (virtual)
- scine-molassembler and py-scine-molassembler (virtual)
- scine-xtb and py-scine-xtb (virtual)
- py-scine-chemoton
- py-scine-puffin
* Fix line-length for flake8
* Remove virtual dependencies
* Update detection of boost, minor fixes in packages / dependencies
* Correctly declare build-only dependencies, add git versions
* Add sparrow dummy packages, fix dependencies
* Rename latest version from develop to master
* Restore original sparrow package
* Also rename latest version for chemoton and puffin
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* py-flatten-dict: require poetry to build.
The sources seem to contain a bundled, auto-generated `setup.py`.
Building with `pip` insist on using Poetry as mentioned in
`pyproject.toml`, so require it as a build dependency.
* Update var/spack/repos/builtin/packages/py-flatten-dict/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-flatten-dict/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
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* py-lazy: add 1.4 and 1.5
* py-lazy: add url_for_version
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* Add package `py-continuum`
* `py-continuum`: missing `py-pytest-mock` dependency
* `py-continuum`: add missing python dependency
* [@spackbot] updating style on behalf of thomas-bouvier
* Patch to remove useless `prospector` package
* Link to original PR
Co-authored-by: thomas-bouvier <thomas-bouvier@users.noreply.github.com>
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* py-pyspark: new versions
* py-py4j: new versions
* py-py4j: more style
* py-py4j: even more style
* py-spark, py4j: review remarks
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Currently 6.0.0 fails on develop about incorrect shasum, but I can't
reproduce; maybe the download was temporarily unavailable.
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py-scipy 1.6 and older come with pre cython-ized files that
use the _PyGen_Send symbol that was removed from python 3.10.0.161,
so do not build these old versions with python 3.10.1 and later
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First added as user-hdnnp in version 20210527.
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* Add package `py-nvidia-dali`
* Add linux check
* Add missing deps
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* Initial srcml
* [srcml]
- Fixed dependencies likely will need some more rework
- Disabling packaging cmake file (for now)
- Added patch to fix issue with source code library import
* [srcml] updated copyright
* [srcml] requires antlr complied with -fPIC
* [srcml] cleaned up dependencies
* [srcml] flake8
* [srcml] limiting boost versions
Co-authored-by: Benjamin Meyers <bsmits@rit.edu>
Co-authored-by: qwertos <qwertos@users.noreply.github.com>
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* Add whip 0.1.0
* Make pika depend on whip@0.1.0
Co-authored-by: msimberg <msimberg@users.noreply.github.com>
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* Updated for RMG version 5.0.1
* Update var/spack/repos/builtin/packages/rmgdft/package.py
Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
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Parts of libgcrypt should not be optimized with -O1/2/3, so it's best to
let the build system do that; the build system cannot know the compiler
wrapper would inject optimization flags
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* ParaView/VTK: Patch xdmf2 for HDF5 1.13
* Meson: update meson build system for 0.64
* ParaView: Change HDF5 1.13 patch to 1.13.1/2 patchs
* Mesa: Remove legacy mesa option from meson_args
* Use append to assemble meson args
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and htslib (#35118)
* samtools: add version 1.16.1 (for real this time!)
also, fix Copyright date
* bcftools and htslib: fix Copyright date
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Co-authored-by: github-actions[bot] <github-actions[bot]@users.noreply.github.com>
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* freeimage: fails to compile with c++17, use c++14
Only `opencascade` when a (non-default) variant depends on `freeimage`, which seems to have gone unmaintained. There are c++17 standard violations [[1]]( https://en.cppreference.com/w/cpp/language/except_spec) in the code, so we can at most expect c++14. Since some compilers default to c++17 (gcc-12) we need to be explicit.
* freeimage: install directly in prefix
* freeimage: fix inverted patch
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* samtools: add version 1.6.1
* htslib: update version to 1.6
* bcftools: update version to 1.6
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