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For some instances of externally-provided Python (e.g. Homebrew),
the LDLIBRARY/LIBRARY config variables don't actually refer to
libraries and should therefore be excluded from ".libs".
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Only enable the hdf5-vfd-gds package if it can compile.
- hdf5-vfd-gds needs cuda@11.7.1+ to be able to `find_library` for cuFile.
- Only enable hdf5-vfd-gds in the sdk if cuda@11.7.1+ is available.
If an earlier version of cuda is being used, do not depend on the
hdf5-vfd-gds package at all.
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* take two
* Add missing import statement
* Group dependencies together
* Extract libtiff arguments
* Extract libpng arguments
* Push preamble variable into png_args and tiff_args
* Extract setting args associated with the screenshot variant
* Inlined a few variables
* Modify only build targets and install targets
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
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Whenever the rpath string actually _grows_, it falls back to patchelf,
when it stays the same length or gets shorter, we update it in-place,
padded with null bytes.
This PR only deals with absolute -> absolute rpath replacement. We don't
use `_build_tarball(relative=True)` in our CI. If `relative` then it falls
back to the old replacement code.
With this PR, relocation time goes down significantly, likely because patchelf
does some odd things with mmap, causing lots of overhead. Example:
- `binutils`: 700MB installed, goes from `1.91s` to `0.57s`, or `3.4x` faster.
Relocation time: 27% -> 10% of total install time
- `llvm`: 6.8GB installed, goes from `28.56s` to `5.38`, or `5.3x` faster.
Relocation time: 44% -> 13% of total install time
The bottleneck is now decompression.
Note: I'm somewhat confused about the "relative rpath" code paths. Right
now this PR only deals with absolute -> absolute replacement. As far as
I understand, if you embrace relative rpaths when uploading to the
buildcache, the whole point is you _don't_ want to patch rpaths on
install? So it seems fine to not expand `$ORIGIN` again imho.
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When a package asks for non-parallel make, we need to force `make -j1` because just doing `make` will run in parallel under jobserver (e.g. `spack env depfile`).
We now always add `-j1` when asked for a non-parallel execution (even if there is no jobserver).
And each `MakeExecutable` can now ask for jobserver support or not. For example: the default `ninja` does not support jobserver so spack applies the default `-j`, but `ninja@kitware` or `ninja-fortran` does, so spack doesn't add `-j`.
Tips: you can run `SPACK_INSTALL_FLAGS=-j1 make -f spack-env-depfile.make -j8` to avoid massive job-spawning because of build tools that don't support jobserver (ninja).
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* testing ssh key
* test
* LR : Creating the packge to install the gegelati app
* LR : Gegelati, a TPG C++ library added and fully tested
* LR : adjusting for fork
* LR: taking out the boilerplates
* LR: taking out the rest
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We try to avoid non-default variant values in the concretizer, but this doesn't make
sense for variants forced to take some non-default value by variant propagation.
Counting this as a penalty effectively biases the concretizer for small specs dependency
graphs -- something we try very hard to avoid elsewhere because it can lead to very
strange decisions.
Example: with the penalty, `spack spec hdf5` will choose the default `openmpi` as its
`mpi` provider, but `spack spec hdf5 ~~shared` will choose `mpich` because it has to set
fewer non-default variant values because `mpich`'s DAG is smaller. That's not a good
reason to prefer a non-default virtual provider.
To fix this, if the user explicitly requests a non-default value to be propagated, there
shouldn't be a penalty. Variant values set on the CLI already don't count as default; we
just need to extend that to propagated values.
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Adds another post install hook that loops over the install prefix, looking for shared libraries type of ELF files, and sets the soname to their own absolute paths.
The idea being, whenever somebody links against those libraries, the linker copies the soname (which is the absolute path to the library) as a "needed" library, so that at runtime the dynamic loader realizes the needed library is a path which should be loaded directly without searching.
As a result:
1. rpaths are not used for the fixed/static list of needed libraries in the dynamic section (only for _actually_ dynamically loaded libraries through `dlopen`), which largely solves the issue that Spack's rpaths are a heuristic (`<prefix>/lib` and `<prefix>/lib64` might not be where libraries really are...)
2. improved startup times (no library search required)
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Untouched spec pruning was added to reduce the number of specs
developers see getting rebuilt in their PR pipelines that they
don't understand. Because the state of the develop mirror lags
quite far behind the tip of the develop branch, PRs often find
they need to rebuild things untouched by their PR.
Untouched spec pruning was previously implemented by finding all
specs in the environment with names of packages touched by the PR,
traversing in both directions the DAGS of those specs, and adding
all dependencies as well as dependents to a list of concrete specs
that should not be considered for pruning.
We found that this heuristic results in too many pruned specs, and
that dependents of touched specs must have all their dependencies
added to the list of specs that should not be considered for pruning.
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* Bump HighFive to v2.5.0
* Adding myself as maintainers
* fix format with black
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* SEACAS: Update package.py to handle new SEACAS project name
The base project name for the SEACAS project has changed from
"SEACASProj" to "SEACAS" as of @2022-10-14, so the package
needed to be updated to use the new project name when needed.
The refactor also changes several:
"-DSome_CMAKE_Option:BOOL=ON"
to
define("Some_CMAKE_Option", True)
* SEACAS: Additional refactorings
* Replaced all cmake "-Dsomething=other" lines with either `define`
or `define_from_variant` functions.
Consolidated the application (fortran, legacy, all) enabling lines
into loops over the code names. Easier to see categorization of
applications and also to add/move/remove an application
Reordered some lines; general cleanup and restructuring.
* Address flake8 issues
* Remove trailing whitespace
* Reformat using black
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Co-authored-by: Harmen Stoppels <harmenstoppels@gmail.com>
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* add new package: py-pylatex
* fix bugs
* add extras indicated in setup.py
* Update var/spack/repos/builtin/packages/py-pylatex/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-pylatex/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* improvements
* remove git merge related lines
* tidy
* Update var/spack/repos/builtin/packages/py-pylatex/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* remove variant
* [@spackbot] updating style on behalf of Sinan81
Co-authored-by: sbulut <sbulut@3vgeomatics.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Sinan81 <Sinan81@users.noreply.github.com>
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This issue was introduced in #29761:
```
==> Installing ncurses-6.3-22hz6q6cvo3ep2uhrs3erpp2kogxncbn
==> No binary for ncurses-6.3-22hz6q6cvo3ep2uhrs3erpp2kogxncbn found: installing from source
==> Using cached archive: /spack/var/spack/cache/_source-cache/archive/97/97fc51ac2b085d4cde31ef4d2c3122c21abc217e9090a43a30fc5ec21684e059.tar.gz
==> No patches needed for ncurses
==> ncurses: Executing phase: 'autoreconf'
==> ncurses: Executing phase: 'configure'
==> ncurses: Executing phase: 'build'
==> ncurses: Executing phase: 'install'
==> Error: AttributeError: 'str' object has no attribute 'propagate'
The 'ncurses' package cannot find an attribute while trying to build from sources. This might be due to a change in Spack's package format to support multiple build-systems for a single package. You can fix this by updating the build recipe, and you can also report the issue as a bug. More information at https://spack.readthedocs.io/en/latest/packaging_guide.html#installation-procedure
/spack/lib/spack/spack/build_environment.py:1075, in _setup_pkg_and_run:
1072 tb_string = traceback.format_exc()
1073
1074 # build up some context from the offending package so we can
>> 1075 # show that, too.
1076 package_context = get_package_context(tb)
1077
1078 logfile = None
```
It turns out this was caused by a bug that had been around much longer, in which the flags were passed by reference to the flag_handler, and the flag_handler was modifying the spec object, not just the flags given to the build system. The scope of this bug was limited by the forking model in Spack, which is how it went under the radar for so long.
PR includes regression test.
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* remove deptype_query remnants
* deptypes -> deptype
These arguments haven't existed since 2017, but `traverse` now fails on unknown **kwargs, so they have finally popped up.
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Initial spackage for Hypar proxy app
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* damask3.0.0-alpha7
* [@spackbot] updating style on behalf of MarDiehl
Co-authored-by: MarDiehl <MarDiehl@users.noreply.github.com>
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* Add new python package
* Fix isort style issues
* Add additional dependencies
* Add additional dependencies
* Remove comments
* Add additional explicit dependencies
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* package_qgis_fix_pythonpath
* check if bindings enabled also
Co-authored-by: sbulut <sbulut@3vgeomatics.com>
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The base project name for the SEACAS project has changed from
"SEACASProj" to "SEACAS" as of @2022-10-14, so the package
needed to be updated to use the new project name when needed.
The refactor also changes several:
"-DSome_CMAKE_Option:BOOL=ON"
to
define("Some_CMAKE_Option", True)
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* v1503
* v1504
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This updates the propagation logic used in `concretize.lp` to avoid rules with `path()`
in the body and instead base propagation around `depends_on()`.
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Currently, compiler flags and variants are inconsistent: compiler flags set for a
package are inherited by its dependencies, while variants are not. We should have these
be consistent by allowing for inheritance to be enabled or disabled for both variants
and compiler flags.
- [x] Make new (spec language) operators
- [x] Apply operators to variants and compiler flags
- [x] Conflicts currently result in an unsatisfiable spec
(i.e., you can't propagate two conflicting values)
What I propose is using two of the currently used sigils to symbolized that the variant
or compiler flag will be inherited:
Example syntax:
- `package ++variant`
enabled variant that will be propagated to dependencies
- `package +variant`
enabled variant that will NOT be propagated to dependencies
- `package ~~variant`
disabled variant that will be propagated to dependencies
- `package ~variant`
disabled variant that will NOT be propagated to dependencies
- `package cflags==True`
`cflags` will be propagated to dependencies
- `package cflags=True`
`cflags` will NOT be propagated to dependencies
Syntax for string-valued variants is similar to compiler flags.
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Fixes an issue on the RHEL8 UBI container where this test would fail because `gr_mem`
was empty for every entry in the `grp` DB.
You have to check *both* the `pwd` database (which has primary groups) and `grp` (which
has other gorups) to do this correctly.
- [x] update `llnl.util.filesystem.group_ids()` to do this
- [x] use it in the `sbang` test
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This PR introduces breadth-first traversal, and moves depth-first traversal
logic out of Spec's member functions, into `traverse.py`.
It introduces a high-level API with three main methods:
```python
spack.traverse.traverse_edges(specs, kwargs...)
spack.traverse.traverse_nodes(specs, kwags...)
spack.traverse.traverse_tree(specs, kwargs...)
```
with the usual `root`, `order`, `cover`, `direction`, `deptype`, `depth`, `key`,
`visited` kwargs for the first two.
What's new is that `order="breadth"` is added for breadth-first traversal.
The lower level API is not exported, but is certainly useful for advanced use
cases. The lower level API includes visitor classes for direction reversal and
edge pruning, which can be used to create more advanced traversal methods,
especially useful when the `deptype` is not constant but depends on the node
or depth.
---
There's a couple nice use-cases for breadth-first traversal:
- Sometimes roots have to be handled differently (e.g. follow build edges of
roots but not of deps). BFS ensures that root nodes are always discovered at
depth 0, instead of at any depth > 1 as a dep of another root.
- When printing a tree, it would be nice to reduce indent levels so it fits in the
terminal, and ensure that e.g. `zlib` is not printed at indent level 10 as a
dependency of a build dep of a build dep -- rather if it's a direct dep of my
package, I wanna see it at depth 1. This basically requires one breadth-first
traversal to construct a tree, which can then be printed with depth-first traversal.
- In environments in general, it's sometimes inconvenient to have a double
loop: first over the roots then over each root's deps, and maintain your own
`visited` set outside. With BFS, you can simply init the queue with the
environment root specs and it Just Works. [Example here](https://github.com/spack/spack/blob/3ec73046995d9504d6e135f564f1370cfe31ba34/lib/spack/spack/environment/environment.py#L1815-L1816)
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