| Age | Commit message (Collapse) | Author | Files | Lines |
|---|
|
it (#13408)
fd58c98 formats the `Stage`'s `archive_path` in `Stage.archive` (as part of `web.push_to_url`). This is not needed and if the formatted differs from the original path (for example if the archive file name contains a URL query suffix), then the copy fails.
This removes the formatting that occurs in `web.push_to_url`.
We should figure out a way to handle bad cases like this *and* to have nicer filenames for downloaded files. One option that would work in this particular case would be to also pass `-J` / `--remote-header-name` to `curl`. We'll need to do follow-up work to determine if we can use `-J` everywhere.
See also: https://github.com/spack/spack/pull/11117#discussion_r338301058
|
|
|
|
only available for syaml.dump_config) (#13403)
|
|
Add a new entry in `config.yaml`:
config:
shared_linking: 'rpath'
If this variable is set to `rpath` (the default) Spack will set RPATH in ELF binaries. If set to `runpath` it will set RUNPATH.
Details:
* Spack cc wrapper explicitly adds `--disable-new-dtags` when linking
* cc wrapper also strips `--enable-new-dtags` from the compile line
when disabling (and vice versa)
* We specifically do *not* add any dtags flags on macOS, which uses
Mach-O binaries, not ELF, so there's no RUNPATH)
|
|
`spack deprecate` allows for the removal of insecure packages with minimal impact to their dependents. It allows one package to be symlinked into the prefix of another to provide seamless transition for rpath'd and hard-coded applications using the old version.
Example usage:
spack deprecate /hash-of-old-openssl /hash-of-new-openssl
The spack deprecate command is designed for use only in extroardinary circumstances. The spack deprecate command makes no promises about binary compatibility. It is up to the user to ensure the replacement is suitable for the deprecated package.
|
|
* mysql: Use correct python command
python~pythoncmd does not provide a python symlink for python3, so make
sure we pick the right command.
* mysql: Adapt to build env changes
|
|
* hypre: Add new variants to expost existing features.
* hypre: Add new variants to expose existing features.
* hypre: Shorten description line.
* hypre: Add an explicit else clause to disable some features.
|
|
Previously this command only showed total counts for each regular
expression. This doesn't give you a sense of which regexes are working
well and which ones are not. We now display the number of right, wrong,
and total URL parses per regex.
It's easier to see where we might improve the URL parsing with this
change.
|
|
|
|
|
|
|
|
It seems that 3.4.2 includes a change that is supposed to fix parallel
builds (https://lists.gnu.org/archive/html/bug-bison/2019-08/msg00000.html).
Instead, it actually breaks it for me (with -j48) with errors such as:
```
mv: cannot stat 'examples/c/reccalc/scan.stamp.tmp': No such file or directory
Makefile:9323: recipe for target 'examples/c/reccalc/scan.stamp' failed
```
|
|
|
|
|
|
|
|
|
|
python~pythoncmd does not provide a python symlink for python3, so make
sure we pick the right command.
|
|
python~pythoncmd does not provide a python symlink for python3, so make
sure we pick the right command.
|
|
* Ace package. Initial commit
* Correcting header now with licence.
* Using sha256
* Making requested changes:removing import line, urls and checksums in one line, and making it an MakefilePackage.
* Removing extra line
|
|
python~pythoncmd does not provide a python symlink for python3, so make
sure we pick the right command.
|
|
* petsc: add version 3.12.1 [and variant: batch]
* fix test_prs_update_old_api errors
|
|
This updates the configuration loading/dumping logic (now called
load_config/dump_config) in spack_yaml to preserve comments (by using
ruamel.yaml's RoundTripLoader). This has two effects:
* environment spack.yaml files expect to retain comments, which
load_config now supports. By using load_config, users can now use the
':' override syntax that was previously unavailable for environment
configs (but was available for other config files).
* config files now retain user comments by default (although in cases
where Spack updates/overwrites config, the comments can still be
removed).
Details:
* Subclasses `RoundTripLoader`/`RoundTripDumper` to parse yaml into
ruamel's `CommentedMap` and analogous data structures
* Applies filename info directly to ruamel objects in cases where the
updated loader returns those
* Copies management of sections in `SingleFileScope` from #10651 to allow
overrides to occur
* Updates the loader/dumper to handle the processing of overrides by
specifically checking for the `:` character
* Possibly the most controversial aspect, but without that, the parsed
objects have to be reconstructed (i.e. as was done in
`mark_overrides`). It is possible that `mark_overrides` could remain
and a deep copy will not cause problems, but IMO that's generally
worth avoiding.
* This is also possibly controversial because Spack YAML strings can
include `:`. My reckoning is that this only occurs for version
specifications, so it is safe to check for `endswith(':') and not
('@' in string)`
* As a consequence, this PR ends up reserving spack yaml functions
load_config/dump_config exclusively for the purpose of storing spack
config
|
|
`test_envoronment_status()` was printing extra output during tests.
- [x] disable output only for `env('status')` calls instead of disabling
it for the whole test.
|
|
This PR ensures that environment activation sets all environment variables set by the equivalent `module load` operations, except that the spec prefixes are "rebased" to the view associated with the environment.
Currently, Spack blindly adds paths relative to the environment view root to the user environment on activation. Issue #12731 points out ways in which this behavior is insufficient.
This PR changes that behavior to use the `setup_run_environment` logic for each package to augment the prefix inspections (as in Spack's modulefile generation logic) to ensure that all necessary variables are set to make use of the packages in the environment.
See #12731 for details on the previous problems in behavior.
This PR also updates the `ViewDescriptor` object in `spack.environment` to have a `__contains__` method. This allows for checks like `if spec in self.default_view`. The `__contains__` operator for `ViewDescriptor` objects checks whether the spec satisfies the filters of the View descriptor, not whether the spec is already linked into the underlying `FilesystemView` object.
|
|
This PR ensures that on Darwin we always append /sbin and /usr/sbin to PATH, if they are not already present, when looking for sysctl.
* Make sure we look into /sbin and /usr/sbin for sysctl
* Refactor sysctl for better readability
* Remove marker to make test pass
|
|
These changes update our gcc microarchitecture descriptions based on manuals found here https://gcc.gnu.org/onlinedocs/ and assuming that new architectures are not added during patch releases.
|
|
Travis macOS builds are taking too long to run, so we'll only run them on
`develop` until they get faster.
|
|
|
|
Boost iostream autodetects the compression libraries libzstd and
liblzma outside of the Spack environment.
This commit disables mentioned libraries. In the future if the
Spack zstd/lzma packages were added as dependencies of the Spack
Boost package, additional work could be done to build Boost with
the Spack-built versions of these libraries.
|
|
Update the documentation of the `endian_reverse` variant in ADIOS2.
The short description caused some confusion (for me) :-)
|
|
PS: The old versions do not work: it's likely that they changed git
history on submodules
|
|
* Default to Python 3
* Fix build with Intel compilers
|
|
* Add latest version of py-scikit-learn
* setup_environment -> setup_build_environment
|
|
|
|
|
|
|
|
|
|
* Added optimization flags for Intel compilers with Intel CPUs
* Added optimization flags for Intel compilers with AMD CPUs
|
|
This extends Spack functionality so that it can fetch sources and binaries from-, push sources and binaries to-, and index the contents of- mirrors hosted on an S3 bucket.
High level to-do list:
- [x] Extend mirrors configuration to add support for `file://`, and `s3://` URLs.
- [x] Ensure all fetching, pushing, and indexing operations work for `file://` URLs.
- [x] Implement S3 source fetching
- [x] Implement S3 binary mirror indexing
- [x] Implement S3 binary package fetching
- [x] Implement S3 source pushing
- [x] Implement S3 binary package pushing
Important details:
* refactor URL handling to handle S3 URLs and mirror URLs more gracefully.
- updated parse() to accept already-parsed URL objects. an equivalent object
is returned with any extra s3-related attributes intact. Objects created with
urllib can also be passed, and the additional s3 handling logic will still be applied.
* update mirror schema/parsing (mirror can have separate fetch/push URLs)
* implement s3_fetch_strategy/several utility changes
* provide more feature-complete S3 fetching
* update buildcache create command to support S3
* Move the core logic for reading data from S3 out of the s3 fetch strategy and into
the s3 URL handler. The s3 fetch strategy now calls into `read_from_url()` Since
read_from_url can now handle S3 URLs, the S3 fetch strategy is redundant. It's
not clear whether the ideal design is to have S3 fetching functionality in a fetch
strategy, directly implemented in read_from_url, or both.
* expanded what can be passed to `spack buildcache` via the -d flag: In addition
to a directory on the local filesystem, the name of a configured mirror can be
passed, or a push URL can be passed directly.
|
|
|
|
|
|
|
|
|
|
|
|
* Add latest version of zstd
* setup_environment -> setup_build_environment
|
|
* sniffles: fix zlib header lookup directory.
* use bamtools and zlib to spack installed package.
* remove unneeded patch.
|
|
* add CMAKE Fortran MODDIR FLAG for Fujitsu compiler
* elsi:remove extra fix
|
|
|
|
|
|
For some reason, newer versions of qt fail to build because they cannot
find certain system libraries such as libatomic and libdl.
Leaving the qmake compiler set to gcc seems to fix the problem.
Fixes #13221
|
