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* Update URL parsing regexes and tests
* Get rid of no longer used README
* Merge py-udunits and py-cf-units
* netcdf -> netcdf-c
* setup_environment -> setup_*_environment
* Fix doc tests
* Few last minute fixes
* Simplify prefix removal copypasta
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* Update the module files for cbtf-krell and openspeedshop adding man paths and needed papi and libmonitor paths.
* Update module files for new API.
* Use the same python for both develop and release branches.
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* new package: SCS
* make flake8 happy
* add missing patch, improve style
* fix typo
* Update var/spack/repos/builtin/packages/scs/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* move filefilter to edit phase
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* add support for static (via ~shared) and use vtk-m 1.2
* updating vtkh package to output cmake configure file and pinning it to vtkm 1.2
* trying a different cmake for vtkh
* removing problematic b
* making conduit respect ~python
* fixing ascent python logic
* update ascent package
* consistant cmake usage
* conditionally add tbb in ascent if vtkh
* applying becker fix
* adding vtkh tag
* fixing vtkh tagged version
* updating ascent and conduit for static builds
* enabling openmp
* reverting files that should not have been changed
* ascent updates
* more robust handling of variants
* fixing ascent package typo
* ascent: add optional support for mfem
* enable mfem conduit support for ascent
* add optional adios dep to conduit
* remove ver req from conduit
* ascent: remove confusing comment
* tweaks to conduit and ascent pkg recipes
* fix typo in conduit package
* pref conduit master
* fixing mfem typo for ascent
* reverting files
* adding mirror for bzip
* changing mfem to depend on conduit@master to get updated relay
* restore use of conduit 0.3.1 or greater for mfem
* set master as prefered conduit version
* allow mfem to use conduit master
* adding rover package and editing ascent
* updating vtkm cmake dep
* updates from axom
* guard ascent python support on +shared
* removing rover to simply ascent package
* add fortran variant to conduit, to allow us to turn off conduit support even when a fortran compiler is specified
* fix fortran compiler check so it can work on cray systems
* working towards cuda fix for vtkm lagrange filter
* update ascent package with more variants, and patch to avoid nvcc issue
* hdf5 flags fix for BGQ
* flake8
* extra guards for cuda patch
* conduit and ascent fortran fix
* fix patch for non cuda case
* add test variant to conduit, tweak ascent pkg
* change min ver of cmake used for ascent
* h5z-zfp package: unset FC when ~fortran
* conform to expected upstream solution
* pinning vtkm
* going back to vtkm master
* add back vtk-m variant for shared libs
* update ascent and vtkh packages
* wire up option to run tests during install
* add post install test
* add testing to ascent
* tweak for blueos xl
* add ctest output on error for run_tests
* enable ctest output on error for run_tests
* add testing of the using-with-make example
* update using-with-make examples
* typo in ascent using-with-cmake test
* fix ascent using test exe names
* more fixes, less sleep
* more fixes, less sleep ...
* remove unwired up version
* improvments suggested on review
* adding new cmake
* Update package.py
* Update package.py
* changes post cori os update
* fix cray hack
* Update package.py
Fixing 'fix'. Inconsistent variable names in conduit package
* type in spack recipes
* add zfp support to conduit
* fix indent error in conduit pkg
* move to use build phases, add sphinx rtd as dep, fix ex names in tests
* add conduit 0.5.0 release
* flake8
* remove old cray hack
* incorp feedback from review
* fix to use proper build env sig
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* Fix gcc recipe for RHEL7.
+ It appears that macOS related changes to the gcc recipe broke gcc on RHEL7.
This bug manifests as `libstdc++.so: undefined reference to libiconv` when gcc
is used.
+ Fixes #13452 by moving
`--with-libiconv-prefix={0}'.format(spec['libiconv'].prefix)` into the darwin
OS section of the configuration.
+ Change qualification of `depends_on(libiconv)` to limit dependency to macOS.
* Replace deprecated 'setup_environment' with 'setup_run_environment'.
* Fix cut and paste error.
* Rename 'run_env' to just 'env'.
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Replace setup_environment/setup_dependent_environment with
setup__dependent_build_environment and setup_run_environment
according to 9ddc98e
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* Add cuDNN version 7.6.3-10.1 (for x86_64 and ppc64le)
* Add py-pytest and py-protobuf depenencies to LBANN
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(#13254)
* Add versinos 1.13.3, 1.13.2, 1.12.12, and 1.12.11
* Replace setup_environment/setup_dependent_environment with
setup_build_environment and setup_dependent_{build, run}_environment
according to 9ddc98e
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* Add dependency and patch perl-dbfile
There are two problems for the building of `perl-dbfile`:
1) this package depends on the package `berkeley-db`
2) fix the building using a patch, which locates the position of `berkeley-db` and modify the configuration file for the building
* Update and reformat the script package.py
* Simplify the patch
* Update package.py
* Update package.py
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* This filter_file was difficult to maintain and is no longer needed.
* Clarify lack of support for HDF5 in serial QE.
* Update QE and HDF5 conflicts based on user feedback.
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* Add Lizard (LZ5)
Add a new package for Lizard, formerly LZ5, a very fast compressor
and decompressor library.
* c-blosc2: use external lizard
Use an external Lizard (LZ5) dependency and add missing
"when="s for other compressor dependents.
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* Fixes for libbeagle
This PR fixes a couple of issues with the libbeagle package.
- Use args.append('--with-cuda=%s' % self.spec['cuda'].prefix)
- Disable the default of compiling with -march=native as Spack now
inserts architecture specific flags
- Set BEAST_LIB in the beast1 package not in libbeagle.
* Use new setup_run_environment method
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dependency of py-nbconvert
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* LLVM code-signing on OSX: link to the offical documentation
* LLVM: update setup_environment method
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Set include and library path to slurm explicitly.
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* docs: add a spack environment for building the docs
* docs: remove tutorial and link to spack-tutorial.readthedocs.io
The tutorial now has its own standalone website, versioned by instances
of the tutorial. Link to that instead of versioning it directly with Spack.
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Support mirroring all packages with `spack mirror create --all`.
In this mode there is no concretization:
* Spack pulls every version of every package into the created mirror.
* It also makes multiple attempts for each package/version combination
(if there is a temporary connection failure).
* Continues if all attempts fail. i.e., this makes its best effort to
fetch evrerything, even if all attempts to fetch one package fail.
This also changes mirroring logic to prefer storing sources by their hash
or by a unique name derived from the source. For example:
* Archives with checksums are named by the sha256 sum, i.e.,
`archive/f6/f6cf3bd233f9ea6147b21c7c02cac24e5363570ce4fd6be11dab9f499ed6a7d8.tar.gz`
vs the previous `<package-name>-package-version>.tar.gz`
* VCS repositories are stored by a path derived from their URL,
e.g. `git/google/leveldb.git/master.tar.gz`.
The new mirror layout allows different packages to refer to the same
resource or source without duplicating that download in the
mirror/cache. This change is not essential to mirroring everything but is
expected to save space when mirroring packages that all use the same
resource.
The new structure of the mirror is:
```
<base directory>/
_source-cache/ <-- the _source-cache directory is new
archive/ <-- archives/resources/patches stored by hash
00/ <-- 2-letter sha256 prefix
002748bdd0319d5ab82606cf92dc210fc1c05d0607a2e1d5538f60512b029056.tar.gz
01/
0154c25c45b5506b6d618ca8e18d0ef093dac47946ac0df464fb21e77b504118.tar.gz
0173a74a515211997a3117a47e7b9ea43594a04b865b69da5a71c0886fa829ea.tar.gz
...
git/
OpenFAST/
openfast.git/
master.tar.gz <-- repo by branch name
PHASTA/
phasta.git/
11f431f2d1a53a529dab4b0f079ab8aab7ca1109.tar.gz <-- repo by commit
...
svn/ <-- each fetch strategy has its own subdirectory
...
openmpi/ <-- the remaining package directories have the old format
openmpi-1.10.1.tar.gz <-- human-readable name is symlink to _source-cache
```
In addition to the archive names as described above, `mirror create` now
also creates symlinks with the old format to help users understand which
package each mirrored archive is associated with, and to allow mirrors to
work with old spack versions. The symlinks are relative so the mirror
directory can still itself be archived.
Other improvements:
* `spack mirror create` will not re-download resources that have already
been placed in it.
* When creating a mirror, the resources downloaded to the mirror will not
be cached (things are not stored twice).
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Restore upstream lock safety; avoid calling methods directly on upstream DB in test.
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* py-gensim: new package at 3.8.0
* py-gensim: add 3.8.1
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(#13435)
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reindexing takes a significant amount of time, and there's no reason to
do it from DB version 0.9.3 to version 5. The only difference is that v5
can contain "deprecated_for" fields.
- [x] Add a `_skip_reindex` list at the start of `database.py`
- [x] Skip the reindex for upgrades in this list. The new version will
just be written to the file the first time we actually have to write
the DB out (e.g., after an install), and reads will still work fine.
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Previously, spack would error out if we tried to fetch something with no
code, but that would prevent fetching dependencies. In particular, this
would fail:
spack fetch --dependencies xsdk
- [x] Instead of raising an error, just print a message that there is nothing
to be fetched for packages like xsdk that do not have code.
- [x] Make BundleFetchStrategy a bit more quiet about doing nothing.
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We've had `spack spec --yaml` for a while, and we've had methods for JSON
for a while as well. We just haven't has a `--json` argument for `spack spec`.
- [x] Add a `--json` argument to `spack spec`, just like `--yaml`
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New entry for K10 microarchitecture.
Reorder Zen* microarchitectures to avoid triggering as k10.
Remove some desktop-specific flags that were preventing Opteron Bulldozer/Piledriver/Steamroller/Excavator CPUs from being recognized as such.
Remove one or two flags which weren't produced in /proc/cpuinfo on older OS (RHEL6 and friends).
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* Fix python in views when python prefix is under a symlink
* Add todo for future generalization
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