Due to formatting differences, the older version of perl-bioperl was
getting picked up as the preferred version. This PR explicitly sets the
newer version to be preferred.
Because of a bug in the current concretizer,
spack install gromacs
fails because gromacs depends on hwloc (default is v2), and Open MPI
(the default MPI library) depends on hwloc v1.
As discussed in https://github.com/spack/spack/issues/14339, this
workaround should be removed once the concretizer is fixed
Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
* create package py-zarr
* specify setuptools versions
* add more dependencies, improve style
* Update var/spack/repos/builtin/packages/py-zarr/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-zarr/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-zarr/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* add dependencies, remove python version constraint
* remove windows specific dependency
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Updated versions and more variants
- Added 'develop' and '3.0.0' versions
- Added 'tau', 'upcxx', 'gotcha', and 'likwid'
* Added conflict handling for +cupti~cuda
* Removed extra cmake args line
* Add Avizo Recipe
* make changes as per review
* fix home url and linting
* Fix url
* fix identation
* change checksum to sha256 instead of md5
* fix installation
* fix lint
* fix identation
* make it compatible with python 2.6
* enhancing recipe and fixing avizo licensing
changes as per suggestions from reviewer; fix licensing
* fix identation
* use new setup_run_environment function
Users can now list mirrors of the main url in packages.
- [x] Instead of just a single `url` attribute, users can provide a list (`urls`) in the package, and these will be tried by in order by the fetch strategy.
- [x] To handle one of the most common mirror cases, define a `GNUMirrorPackage` mixin to handle all the standard GNU mirrors. GNU packages can set `gnu_mirror_path` to define the path within a mirror, and the mixin handles setting up all the requisite GNU mirror URLs.
- [x] update all GNU packages in `builtin` to use the `GNUMirrorPackage` mixin.
* Add symbols patch
* Apply symbols patch to pgmath
* Add github issue number for symbols patch.
* Add naromero77 as a maintainer.
* Patch only applied to March 2019 release and master.
* Record that old versions of ROOT don't support modern GCC
* Well, actually I don't know about 6.07
* Fix typo and follow odd version recommendation from @chissg
* Add QE 6.5
* Support for serial HDF5 case with serial (no mpi) QE is now supported but requires a patch for 6.4.1 and 6.5.
* Add naromero77 as a maintainer.
* Start cinema package
* Remove boilerplate and add description
* Formatting for pep8
* Correct milestone tag
* 'master' instead of 'develop'
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Two variants, both with numpy and other small changes
* When +image for scikit
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
- Add an optional argument so that `possible_dependencies()` will report
missing dependencies.
- Add a test to ensure it works.
- Ignore missing dependencies in `possible_dependencies()` by default.
* Add dependencies for hpcrypt
* address review comments
* flake
* license-fix
* fix checksums
* Update py-hvace homepage
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* update py-hvac url
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* add new package : filebench
* remove alpha version and duplicated autoheader cmd
* refine automake cmd in sh()
* refine filebench url as a stable tarball link
* root: Rationalize and improve version, variant and ROOT option handling.
* Completely re-vamp CMake option handling for readability and maintainability:
* Three categories of option: control, builtin and feature, alphabetically sorted.
* Each option is described as a list: an option name followed by an optional value which is either Boolean or a string representing the name of a variant. If the value is omitted, it defaults to the option name.
* New functions `_process_opts()` and `_process_opt()` (nested) to turn all supplied option/value specifications into CMake arguments.
* Remove overly-terse per-option comments in favor of (much) more comprehensive notes in README.md.
* Variants and conflicts:
* Remove `test` variant in favor of pegging ROOT `testing` option to the value of `self.run_tests` since the install is unaffected, per ROOT developer.
* Remove commented-out and never-functional variants: `asimage`, `avahi`, `kerberos`, `ldap`, `libcxx`, `odbc`, `oracle`, `pythia8`, `xinetd`.
* New variant `vmc` (default `OFF`) to control the Virtual Monte Carlo interface.
* Conflict: `+opengl` is incompatible with `~x`.
* Conflict: `http` is now an unconditional conflict due to dependency issues (see README.md).
* Remove commented-out and non-existent dependencies `avahi`, `kerberos`, `ldap`, `libcxx`, `odbc`, `oracle`, `pythia`, `veccore` (per #13949).
* New and changed options:
* Option `pch` was inadvertently set to `OFF` due to its dependence on a nonexistent variant `pch`. As it happens its value is ignored in the ROOT configuration handling, so there was no deleterious effect. It has been fixed to `ON` to better reflect actual behavior pending enablement of tuntime C++ modules.
* Add new versions 6.18.0{0,2,4}:
* Require CMake 3.9 for 6.18.00+.
* Add conflicts for variants `qt4` and `table` representing ROOT build options for which support was discontinued. Remove redundant conflict on \@master.
* C++ standard is now specified with `-DCMAKE_CXX_STANDARD=X` rather than `-Dcxx=X`.
* Remove old version 5.34.38 (wrong build system).
See README.md for more details of option-related changes.
* Flake8
* `rpath` option is a control option rather than a feature.
* Add new DD4hep release and some forgotten build requirements
* PR review suggestions
Use master naming convention for development branch, and put versions in decreasing order.
* rose: Update boost dependency for rose
* rose: Updated rose to version 0.9.12.45
* rose: Updated jdk dependency
* rose: Updated rose to version 0.9.13.0
* rose: Fixed formatting
* rose: Added maintainer and switch dependency to java@8
* Added package for Half C++ header-only library.
Fixed an checksum for Hydrogen 1.3.2. Cleaned up the Clara package to
not create an empty bin directory.
* Fixed flake8
* Added maintainer
* add new package : cosbench
* add cosbench depends and remove unstable version
* Update var/spack/repos/builtin/packages/cosbench/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/cosbench/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* when constructing package hash, default to including a method in the content hash if we can't determine whether it would be included by examining the AST
* add a test for updated content-hash calculations
* refactor content hash tests to eliminate repeated lines
PR #13975 added makefile filtering to replace gcc/g++ with the spack
compiler. This conflicts with other filtering that is done in the package to
add paths for dependencies. The text of the dependency paths might
have 'gcc' in the path name, depending on the install_path_scheme, and
that was being replaced by the new compiler filters. That would mangle
the path to the dependecy resulting in a failed build.
This PR moves the compiler filters to be before the other filters to
make sure that the compiler is set before the dependency paths.
* Add missing dependency on setuptools to py-subprocess32
* Update package.py
* Update var/spack/repos/builtin/packages/py-subprocess32/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update package.py
PR #10589 introduced a libiconv dependency to doxygen. This causes
problems on Linux systems, since the iconv symbols are included in libc,
which causes CMake to use the external header but not the external
library. Work around this by always using the external libiconv.
The xed CLI is handy, and can be gotten by building the examples in the
intel-xed package. This PR builds the examples and installs the xed CLI.
It would also be possible to install more of the example binaries if
someone thinks they are useful.
