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Now it tests all GPUs, syscall and python.
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This shouldn't be an issue, but avoid self references
on "^asio".
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AUTOTYPE is set by default in the 2.7.6 release, it was not previously.
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* py-pythran: apply patch to fix compilation with GCC 13
* Update var/spack/repos/builtin/packages/py-pythran/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
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Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
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This fixes errors like
```
294 In file included from /build_stage/spack-stage-hh-suite-3.3.0-4kkv3zqhcadpubeo63l73xq3shr7gjmh/spack-src/src/a3m_compress.cpp:8:
>> 295 /build_stage/spack-stage-hh-suite-3.3.0-4kkv3zqhcadpubeo63l73xq3shr7gjmh/spack-src/src/a3m_compress.h:37:37: error: 'uint16_t' has not been declared
296 37 | void writeU16(std::ostream& file, uint16_t);
297 | ^~~~~~~~
>> 298 /build_stage/spack-stage-hh-suite-3.3.0-4kkv3zqhcadpubeo63l73xq3shr7gjmh/spack-src/src/a3m_compress.h:38:28: error: 'uint16_t' has not been declared
299 38 | void readU16(char** ptr, uint16_t &result);
300 | ^~~~~~~~
>> 301 /build_stage/spack-stage-hh-suite-3.3.0-4kkv3zqhcadpubeo63l73xq3shr7gjmh/spack-src/src/a3m_compress.h:40:37: error: 'uint32_t' has not been declared
302 40 | void writeU32(std::ostream& file, uint32_t);
303 | ^~~~~~~~
>> 304 /build_stage/spack-stage-hh-suite-3.3.0-4kkv3zqhcadpubeo63l73xq3shr7gjmh/spack-src/src/a3m_compress.h:41:27: error: 'uint32_t' has not been declared
305 41 | void readU32(char**ptr, uint32_t &result);
306 | ^~~~~~~~
```
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This shouldn't be an issue, but express this limitation
with a conflict.
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Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
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Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
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Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
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Fixes #42297
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These shouldn't be an issue, but they can be expressed
in terms of variants on the package.
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Also, remove a couple of duplicate directives
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* py-pymummer: init
* Update py-pymummer copyright date
Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
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Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
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Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
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Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
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* fix ipyrad numpy depedencies
ipyrad versions through 0.9.90 use np.int, which is deprecated in numpy 1.20.
* fix whitespace
* Correct numpy dependency restrictions
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conflicts (#42350)
Fix two separate problems:
1. We want to always visit parents before children while creating views
(when it comes to ignoring conflicts, the first instance generated in
the view is chosen, and we want the parent instance to have precedence).
Our preorder traversal does not guarantee that, but our topological-
order traversal does.
2. For copy style views with packages x depending on y, where
<x-prefix>/foo is a symlink to <y-prefix>/foo, we want to guarantee
that:
* A conflict is not registered
* <y-prefix>/foo is chosen (otherwise, the "foo" symlink would become
self-referential if relocated relative to the view root)
Note that
* This is an exception to [1] (in this case the dependency instance
overrides the dependent)
* Prior to this change, if "foo" was ignored as a conflict, it was
possible to create this self-referential symlink
Add tests for each of these cases
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* Sqlite requires the user to provide a command line arg (DYNAMIC_SHELL)
to export shared symbols to import lib from .def
* Add other options recommended by Sqlite docs:
https://github.com/sqlite/sqlite/blob/master/doc/compile-for-windows.md
* Some of these options mean we can restore variants that were
disabled for Windows (fts, functions, rtree).
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* Updated with generic test functions
* Added level_zero test
As the compiler is not installed by TAU, it should be loaded first and run with --dirty. Will check if there is a way to make it work without --dirty.
* Update var/spack/repos/builtin/packages/tau/package.py
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
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Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
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The main script body is over-written for power. Putting thet timing
aggregation in the after script allows it to be called on all of the
current pipelines.
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