It was reported that UnifyFS had a bug with the --enable-mpi-mount
config option, which corresponds to the auto-mount variant. This bug
was fixed in the UnifyFS dev branch, however remains broken for the
0.9.0 version.
This adds a patch to the unifyfs package to fix the auto-mount
variant when installing with version 0.9.0.
This also removes the openssl dependency as unifyfs does not directly
depend on it. This was said to be a non-explicit dependency in #15258.
However, if it is needed, it is likely a non-explicit dependency of
one of unifyfs's dependencies and should be added there.
Fixes: #15292
* lammps: add most recent stable release
* Update var/spack/repos/builtin/packages/lammps/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Add package for ripgrep:
ripgrep is a line-oriented search tool that recursively searches
your current directory for a regex pattern. ripgrep is similar to
other popular search tools like The Silver Searcher, ack and grep.
* [opensubdiv] created stub for opensubdiv
* [opensubdiv] added homepage and description
* [opensubdiv] removed boilerplate
* [opensubdiv] working on dependencies and variants
* [opensubdiv] fixed syntax error
* [opensubdiv] defined spec
* [opensubdiv] added dev version
* [opensubdiv] building on CudaPackage
* [opensubdiv] always build with open gl and depends_on('gl')
* [opensubdiv] applying cuda flags
* [opensubdiv] worked on doc variant
* [opensubdiv] added some x11 libraries
* [opensubdiv] depends on glfw
* [opensubdiv] locating glew
* [opensubdiv] added openmp variant
* [opensubdiv] flake8 fixing
* [opensubdiv] fixed develop version name
* [opensubdiv] fixed description to not need @
* ADIOS2: Version `master`
Rename branch version to supported, real development branch `master`.
The old name is legacy Spack when alternative development branch
names were not yet supported.
* ADIOS: Simplify via spec Variable
use the already defined local variable `spec` to shorten
lines
Since 1.9.0 is broken for Darwin, which impacts many developers, and
the fix is still a RC, let's keep the previous release as default.
This avoids distruption for OSX developers and CI.
* @develop needs the full git repo to use "git describe"
properly
* If not specifying the cxxstd variant, let cmake use its
default
* Improve fmt dependencies: fairlogger < 1.6.2 does not
work with fmt >= 6.
* Small other stuff
Just `depend_on('ncurses')`, pkgconfig seems to cause the right thing
to happen if the package is built +termlib or ~termlib (tested both
ways on a CentOS 7 system).
Additional details in: https://github.com/spack/spack/issues/15281
Tested by building all of the releases of tmux on a CentOS 7 box.
* add preliminary afqmc support in qmcpack
* afqmc updates
* fix spack typos
* edit AFQMC to only allow up 3.7 or above
* added NCCL library support for AFQMC build
* add CMAKE args for BUILD_AFQMC_WITH_NCCL
* update for just AFQMC support. No AFQMC+GPU support
* remove nccl for afqmc
* flake8 whitespace fix
* Update flag_handler for 'netcdf-fortran'.
* Refactoring.
* Enable old versions of netcdf-fortran for NAG.
* Disable parallel 'make check' for versions before 4.5.0.
* Fix shared libraries built with NAG instead of conflicting it.
* Add 'skosukhin' as a maintainer of 'netcdf-fortran'.
This PR adds some fixes for the tcsh package.
- Adds new version
- adds list_url so fetching works for current and old tarballs
- sets ncurses dependency explicitly to `ncurses+termlib`
If `+termlib` is not set then it will link against the system libtinfo.
* Quantum-Espresso: qe-6.5 fails to detect MKL for FFT
qe-6.5 fails to detect MKL for FFT if BLAS_LIBS is set due to
an unfortunate upsteam change in their autoconf/configure:
- qe-6.5/install/m4/x_ac_qe_blas.m4 only sets 'have_blas'
but no 'have_mkl' if BLAS_LIBS is set (which seems to be o.k.)
- however, qe-6.5/install/m4/x_ac_qe_fft.m4 in 6.5 unfortunately
relies on x_ac_qe_blas.m4 to detect MKL and set 'have_mkl'
- qe-5.4 up to 6.4.1 had a different logic and worked fine with
BLAS_LIBS being set
However, MKL is correctly picked up by qe-6.5 for BLAS and FFT if
MKLROOT is set (which SPACK does automatically for ^intel-mkl).
Thus, do not set BLAS_LIBS when compiling qe-6.5 with intel-mkl.
* replace all '^intel-mkl' by '^mkl' to match other packages which also provide MKL
e.g. intel-parallel-studio+mkl as mentioned by @adamjstewart in #15276
* Filter problematic flag from std_cmake_args
Including '-DCMAKE_VERBOSE_MAKEFILE:BOOL=ON' in the cmake args causes
bits of cmake's output to end up in the autoconf-generated configure
script. See https://github.com/spack/spack/issues/15274 and
* Don't build in parallel (sigh)
* Constrain hackery for newer versions...
... to newer versions.
* [WIP] new package: qgis
* add maintainer
* further improvements
* reflect improvements to qscintilla installation paths
* comment out qtkeychain dependency as the package is created
* uncomment qtkeychaing dependency, since this package is now created
* a comment on webkit
* specify versions of dependencies, add variant
* fix variant description
* fix proj dependency logic
* adjust conflicts and dependencies so that one can compile qgis@2 with qt4, python2.7
* minor improvement
* fix some build errors, improve dependency specs
* qsci python bindings will be build by py-pyqt
* cmake variable QSCINTILLA_LIBRARY should point to library itself not the parent folder
* turn grass off explicitly, fix typo, turn qspatialite off explicitly
* fix typo
* specify more cmake options that doesn"t seem to be set properly, and use spack provided pkg-config
* fix libzip
* fix build issue with sqlite variant, add runtime dependencies
* add more runtime python package dependencies
* reflect variant name change in sqlite
* add maintainer, correct typo
* add TODO's
* add more versions
* improve style
* add latest versions
* netcdf -> netcdf-c
* add variants as shown in cmake config
* add conflict: v3.8.1 won't build if qt@5.13:
* change preferred version to latest long term release, 3.10.3
* add a zillion of build options
* improve style
* add descriptions for variants
* remove and already implemented compilation tip
* add "when" statements for optional dependencies
* make flake8 happy
* Update var/spack/repos/builtin/packages/qgis/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/qgis/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/qgis/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/qgis/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/qgis/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* convert conflicts to depends_on
* undo str conversion for path objects
* fix flake8 E131
* fix flake8 E128, E124
* improve style
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Caliper depends on python3.
The package needs to be told where to find it.
* More flake8 formatting edits.
* Change explicit python3 to spec['python'].command.path
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Removing defunct import for flake8
* Flake8 trailing whitespace warning.
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
This PR adds 'http://' to the homepage setting of a few packages that do
not have it set. Not having that set can cause problems with some wiki
apps when embedding the homepage value into markdown syntax.
- bowtie2
- exuberant-ctags
- perl-want
- samtools
- add version info for v1.8.0
- v1.8.0 adds a new source file, `file.c`, which need to be included
in our hardcoded list of objects to link.
I discovered this while demonstrating "how easy it is to add a new
package to Spack", only to scratch my head when it failed `spack
install` but worked when I ran `make` in the stage dir. Finally
looked at tree/package.py and it All Became Clear.
Perhaps someone should rewrite this to use MakefilePackage, but the
Makefile starts off with a bunch of twisty turny "uncomment these
lines to run on this platform", so it might not be worth it.
* Added package py-versioneer
* Update python version
* Added python2 to versioneer
* Added python2 to versioneer
* Update var/spack/repos/builtin/packages/py-versioneer/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Cleaning comments
* Removed temporarily @warner as a maintainer, waiting for answer
* Removed line
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* gromacs: add v2019.6
* Update var/spack/repos/builtin/packages/gromacs/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
- Tell make about the source code path
- Install actual header files, not a wrapper with wrong paths
- Add a patch to prevent compiler warnings
- Improve description
* Fixups for jupyter
This PR fixes a few things for some jupyter related packages.
py-ipython:
- make the python depends_on statements reflect needs of different
versions
- remove an unneeded conflicts directive
py-ipywidgets:
- add new version
- set version constraints for py-widgetsnbextension
py-jupyter-console
- add new version
- set python dependencies for versions as needed
- set version constraint for py-ipython
- set version constraints for py-prompt-toolkit
py-pyqt5
- build with py-sip
py-qtconsole
- add dependency on py-pyqt5
* Update var/spack/repos/builtin/packages/py-jupyter-console/package.py
Tweak version ranges.
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-jupyter-console/package.py
Tweak version range.
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Make py-pyqt5 a run dependency
Also, make formatting more consistent.
* Fix site_packages_dir
Change reference of site_packages_dir to self.site_packages_dir. Oddly,
this did not show up as a problem until I regenerated the module.
* Restore py-pyqt5 to previous state
* Explicitly set path to site_packages_dir
This change prevents an error when regenerating the py-pyqt5 module
file.
* Fix flake8 errors
* Make sure prefix is in join_path
* Fix flake8 errors
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* New package: py-librosa
This PR adds the py-librosa package, along with new dependency packages
and some updates of existing dependency packages.
- new package: py-audioread
- new package: py-resampy
- new package: py-soundfile
- update package: py-numba
- update package: py-llvmlite
py-numba:
- add updated version
- adjust constraints
py-llvmlite:
- add updated version
- adjust constraints
- fix version specifications for llvm
- add environment function to set PIC
* Update var/spack/repos/builtin/packages/py-numba/package.py
Ah, yes, I see that `setuptools` is listed in the `install_requires` array. I missed that before.
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Fix dependency
- Add dependency of py-soundfile depends on libsndfile
- Add new libsndfile package
* Add py-pytest-runner build dep
* Make numpy a variant for py-soundfile
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
When building gcc7 and gcc8 on RHEL6 with Spack and installing it as
a spack-available compiler, OpenBLAS will fail to compile because GCC
generates newer instructions than rhel6's `as` assembler knows about
(e.g. "vpermpd").
Building gcc8 with binutils succeeds, and it generates a GCC that can
then successfully build OpenBLAS. This is also expected to work for
gcc7 on RHEL6.
* Added version 0.12.0 to fix issue #15218
* Added dependencies specs with compatible versions
* Switched py-scipy dependency to variant (default F)
* Removed variant py-scipy and didn't add py-dask
* Fixed typo: missing '
* Update var/spack/repos/builtin/packages/py-pyfftw/package.py
Fixing typos from version ranges in dependencies.
Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja>
* Update var/spack/repos/builtin/packages/py-pyfftw/package.py
Removed repeating dependency option.
Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja>
* Update var/spack/repos/builtin/packages/py-pyfftw/package.py
Limited version of py-numpy dependency to <2.0.
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Adding an option to build the C api for Umpire.
This is useful if you need to link to a C code and you're using
a compiler suite that doesn't support fortran.
* Also updating the versions while I'm here.
* Adding conflict: Fortran requires C.
To ease transition and confusion, default to C-bindings being
present. This shouldn't hurt anyone who is upgrading an existing
installation.
LLVM is the only package that explicitly sets the "termlib" variant
of ncurses and it specifies +termlib. ncurses defaults to ~termlib;
if a package depends on LLVM and ncurses, there is a concretizer bug
that incorrectly detects a constraint conflict (see #267). Setting
+termlib as the default is a stopgap measure to avoid this conflict.
If other packages were to explicitly request ~termlib in the future,
the same issue would come up again (and could not be resolved by
adjusting the default of "termlib").
Setting +termlib on ncurses moves some symbols into a separate
"libtinfo". Not all packages may be able to detect libtinfo properly
so may require an update; vim, samtools, and libedit have been
updated to use ncurses+termlib (in the case of libedit, the only
necessary action was to add a newer version where the build system
was updated to check libtinfo).
* Flake8 OK
* Update var/spack/repos/builtin/packages/py-basis-set-exchange/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-basis-set-exchange/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Added missing dependencies proposed by @adamjstewart
* Without py-versioneer
* Added py-versioneer
* Python2 for bse
* Python build error
* Update var/spack/repos/builtin/packages/py-basis-set-exchange/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Removed py-versioneer, according to @adamjstewart
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
- When compiling qrupdate with `FFLAGS=-fdefault-integer-8` it can be perfectly used for larger problem dimensions.
- Improved the readability of the file with the added rules.
