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* docbook processing works correctly for gdk-pixbuf
1. The various bits of documentation in gdk-pixbuf include hardcoded
references to dtd's and stuff at their canonical, Internet,
locations. BUT, gdk-pixbuf runs xslt-proc with the `--nonet`
option, which forbids it from using the network. Sadness ensues.
Traditionally folks use XML Catalogs to map these to local copies.
Our docbook-xsl package wasn't setting the appropriate env var in
its dependents environments to use our catalog.
Now it does. Less sadness ensues.
2. If we're going to use these things, we should depend on them.
* Add gdk-pixbuf's bin to build environment
The "post-install.sh" script uses gdk-pixbuf-query-loaders, which was
installed earlier.
If py-psyclone can set its own bin on its PATH, so can we...
* Make gdk-pixbuf use recognizable docbook location
Our docbook-xsl package assumes that the canonical location is
`http://cdn.docbook.org/release/xsl/current/manpages/docbook.xsl`, but
the gdk-pixbuf's meson build script uses
`http://docbook.sourceforge.net/release/xsl/current/manpages/docbook.xsl`.
This means that our XML Catalog doesn't fix the reference and sadness
happens.
Just patch the build that we see what we want to see, then we can make
it all go away.
* Add commentary re docbook patch
* Make catalog helper a property
Thanks @adamjstewart!
* Run tests if/when run_tests is true
Thanks @adamjstewart!
* Tune up dependencies
Thanks @adamjstewart!
* Wordsmit commentary
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This adds a lot of fixes and updates for alpine ascent and its dependencies:
* add support for static (via ~shared) and use vtk-m 1.2
* update vtkh package to output cmake configure file and pinning it to vtkm 1.2
* make conduit respect ~python
* fix ascent python logic
* consistant cmake usage
* conditionally add tbb in ascent if vtkh
* enable openmp
* more robust handling of variants
* update ascent and conduit for static builds
* add optional support for mfem in ascent
* 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
* 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 preferred conduit version
* allow mfem to use conduit master
* adding rover package and editing ascent
* updating vtkm cmake dep
* 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
* add post install test
* add testing to ascent
* add testing of the using-with-make example
* add ctest output on error for run_tests
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From https://github.com/ibaned/omega_h
To https://github.com/SNLComputation/omega_h
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(#10297)
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* dealii: fix concretization of xsdk package
* tests: add concretization tests for deal.II and xSDK, which are often broken due to limitations in the concretizer
* use pytest.mark.parametrize
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Updated LBANN, Hydrogen, and Aluminum to not require CUDA-aware MPI
even when using CUDA. Fixed small bugs within both LBANN and Hydrogen
packages. Added requirements for breathe and cereal to LBANN.
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Fixes issues #9613 and #3209.
Remove the spack wrapper directories from PATH for the bootstrap step.
This was breaking the build for Cray (and other cross-compile) because
bjam was built for the BE and died on SIGILL on the FE.
This only affects building bjam. The boost libraries are still built
the normal spack way with the spack wrappers.
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Add variants 'cray' and 'bgq' to build for Cray and Blue Gene compute
nodes. These systems need separate options to find the MPI compiler
for hpcprof-mpi.
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The 4.0.1 release is the culmination of the SUNDIALS 4.0.0 preview releases,
i.e. the 4.0.0-dev versions. As such, the 4.0.0-dev releases are now
being removed.
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* py-checkm-genome: Add version 1.0.13
* py-checkm-genome: Add missing py-backports-functools-lru-cache dependency
* py-checkm-genome: Fix missing whitespace
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* Explicitly listing blas and lapack sections in site.cfg for numpy when using netlib-lapack so that scipy can find them as well.
* Reducing code to use a function call instead of copying and pasting.
* Fixing flake8 errors.
* Fixing python 3.6 error when site.cfg lists library_dirs multiple times.
* Formatting.
* Verifying blas and lapack are enabled before writing to site.cfg.
* Fixing flake8 errors.
* Fixing conflicts since this package file has been updated.
* Fixing flake8 stuff.
* Handling blas and lapack variants for netlib-lapack in site.cfg for py-numpy.
* Don't write netlib-lapack site.cfg file if no blas or lapack variants enabled in py-numpy.
* Removing redundant if statement.
* Fixing mistake in py-numpy site.cfg generation.
* Separating blas and lapack further in site.cfg for netlib-lapack in py-numpy.
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Allow customizing views with Spec-formatted directory structure
Allow views to specify projections that are more complicated than
merging every package into a single shared prefix. This will allow
sites to configure a view for the way they want to present packages
to their users; for example this can be used to create a prefix for
each package but omit the DAG hash from the path.
This includes a new YAML format file for specifying the simplified
prefix for a spec in a view. This configuration allows the use of
different prefix formats for different specs (i.e. specs depending
on MPI can include the MPI implementation in the prefix).
Documentation on usage of the view projection configuration is
included.
Depending on the projection configuration, paths are not guaranteed
to be unique and it may not be possible to add multiple installs of
a package to a view.
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'-g' (#10296)
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* elfutils: option to install elf.h header file
Add variant 'elfh' (default False) to install the elf.h header file to
the include directory. This provides access to a newer version of
elf.h and allows an elf application to build with the same elf.h that
libelf.so was built with.
Add version 0.175.
* Drop the variant 'elfh' and always install elf.h instead.
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* new package: git-fat
* backport of rsync -> older versions no longer available
Change-Id: I3a41f17df0f88ca11e08ea6fd2f2d381435e0f09
* fix legal stuff and use new git attribute
Change-Id: Ice156dfe8ad4137a861f7b2938ee92f4024142be
* use date as version number rather than hash
Change-Id: Ib537659e368f69124895306d6a6ac0c5e36061a7
* only use the date once
Change-Id: I2592fa28aaa53fed949ddc82959d712ff3f6f752
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Add the development version of OpenMPI from the git repo
in `master`.
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* Initial compiler support
* added arm.py
* Changed licence to Arm suggested header
* Changed licence to the same as clang.py
Main author of file is Nick Forrington <Nick.Forrington@arm.com>
Minor changes by Srinath Vadlamani <srinath.vadlamani@arm.com>
* compilers: add arm compiler detection to Spack
- added arm.py with support for detecting `armclang` and `armflang`
Co-authored-by: Srinath Vadlamani <srinath.vadlamani@arm.com>
* Changed to using get get_compiler_version
* linking to general cc for arm compiler
* For arm compiler add CFLAGS to use compiler-rt rtlib.
* Escape for special characters in rexep
* Cleaned up for Flake8 to pass.
* libcompiler-rt should be part of the LDFLAGS not CFLAGS
* fixed m4 when using clang to used LDFLAGS. Fixed comments for arm.py to display compiler --version output with # NOAQ for flakes pass.
* added arm compilers
* proper linked names
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* updated versions for r-ape
* added type=('build', 'run') to r dependency
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* updated versions for r-cowplot
* depends_on: added type=('build', 'run') to r, and added r-scales
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* updated versions for r-data-table
* added type=('build', 'run') to r dependency
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* added new versions, and tightened up depends_on() specs
* added type=('build', 'run') to r dependency
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* add the tfel package
* fix the tfel package
* fix the tfel package
* fix the tfel package
* Taking Adam J. Steward' remarks into account
* fixes trailing white spaces
* Update description
* Update dependencies following @adamjstewart adices
* Style fixes
* Style fixes
* Add java optional support
* add the maintainers attribute (following @alalazo advice), disable interface not selected (following @adamjstewart advice)
* flake8 fixes
* Fix Cast3M and python-bindings support. Python detection is made compatible with cmake'FindPythonLibs module (at least how it is used in TFEL)
* Style fixes
* Style fixes
* Fix test on python version
* Follow @adamjstewart advices: code is much cleaner and readable
* Small fix
* Small fix
* Add comment
* Small fix in cmake option
* try again (trying to overcome Travis CI unstable build process)
* Add support for the MFrontGenericInterfaceSupport project (MGIS)
* Style fixes
* Package documentation update
* Package documentation update
* Fix a typo thanks to Andreas Baumbach review
* Follow Adam J. Stewart advices
* Fix type
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* usearch: Make binary executable
* usearch: remove join_path
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* updated release and checksums, also tightened depends_on()
* remove blank line at end of file
* removing new version 0.5
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* libzip: Add zlib dependency
* libzip: Add version limit
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Change-Id: I2837dc098fce142b152d2969687d1873e182bbc8
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Add "-rtlib=compiler-rt" to CFLAGS when building with either Clang or
the ARM compiler.
Refs #10279
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Change-Id: Icf20035367a34fa88acfef2d3fa3742c3f3901ac
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* bowtie: new versions and %gcc@8.0.0: fix
Bowtie development shifted from Sourceforge to GitHub.
This commit adds several versions from GitHub, using the archive
tarballs. Note that the URL for 1.2.2 tarball is actually an '_p1'
tag....
It leaves the old 1.2 release download info in place.
Versions 1.2.0 and newer come from GitHub (I'm unsure if the 1.2 and
1.2.0 are equivalent).
Include a fix that enables %gcc@8.0.0: from:
https://github.com/BenLangmead/bowtie/issues/87
But, v1.2.2 has trouble with "newer" gcc's, so it only adds v1.2.2 for
%gcc@6.0.0:.
Feel free to tighten this. I know that:
- 1.2 -> 1.2.2 work with %gcc@5.5.0;
- 1.2 -> 1.2.1.1 work with %gcc@8.2.0; and
- 1.2.2 fails with %gcc@8.2.0
* Tighten to `conflicts('%gcc@8:', when='@1.2.2')`
* Point 1.2.2 and 1.2.2_p1 at the 1.2.2_p1 tarball
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* Update package.py
Doxygen has migrated from a private SVN to GitHub. This PR updates the URLs and adds versioned commit hashes from GitHub. It also includes version 1.8.15 as the latest option.
* Update package.py
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This enforces conventions that allow for correct handling of
multi-valued variants where specifying no value is an option,
and adds convenience functionality for specifying multi-valued
variants with conflicting sets of values. This also adds a notion
of "feature values" for variants, which are those that are understood
by the build system (e.g. those that would appear as configure
options). In more detail:
* Add documentation on variants to the packaging guide
* Forbid usage of '' or None as a possible variant value, in
particular as a default. To indicate choosing no value, the user
must explicitly define an option like 'none'. Without this,
multi-valued variants with default set to None were not parsable
from the command line (Fixes #6314)
* Add "disjoint_sets" function to support the declaration of
multi-valued variants with conflicting sets of options. For example
a variant "foo" with possible values "a", "b", and "c" where "c"
is exclusive of the other values ("foo=a,b" and "foo=c" are
valid but "foo=a,c" is not).
* Add "any_combination_of" function to support the declaration of
multi-valued variants where it is valid to choose none of the
values. This automatically defines "none" as an option (exclusive
with all other choices); this value does not appear when iterating
over the variant's values, for example in "with_or_without" (which
constructs autotools option strings from variant values).
* The "disjoint_sets" and "any_combination_of" methods return an
object which tracks the possible values. It is also possible to
indicate that some of these values do not correspond to options
understood by the package's build system, such that methods like
"with_or_without" will not define options for those values (this
occurs automatically for "none")
* Add documentation for usage of new functions for specifying
multi-valued variants
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* Added package osmctools
* Simplified
Removed functions that did the same as existing defaults
* flake8
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