* Add py-wub, with supporting fixes
- add py-wub
- add py-pycmd because py-wub needs it
- update py-statsmodels, which needs at least v0.9.0 to work with
python3.7 because cython.
* Update based on Adam's comments
* Fix dependency types for py-six in py-wub
* statsmodels tests fail, update comment w/ Issue #
The statsmodels tests weren't run in the previous version of the
package. If I enable them, the fail.
Update the package comment with the statsmodels issue I opened to
track the problem:
https://github.com/statsmodels/statsmodels/issues/6263
* Update dependency types in py-wub/package.py
* flake8 cleanups
* Make statsmodels tests work
- need to use patsy@0.5.1:
- need to run the tests from within the build/lib* dir
* Add mg, a gnu-emacs like fork of microemacs
* Use Package, since not really an Autotools package
Switch from AutotoolsPackage to Package. Even though mg has a
configure script, it's not really an Autotools package.
* Need to also provide --prefix to configure
* Make relative binaries relocate text files properly
* rb strings aren't valid in python 2
* move perl to new interface for setup_environment family methods
* fix metis src dl url
* update ascent, vtk-h and vtk-m recipes
* update conduit package
* fix vtk-m shas
* mfem conduit fix
* use vtk-h develop
* fix issue with stripped include paths in mfem
* more metis fixes
* simpler fix for mfem conduit include issue
* finish mfem changes
* pin to cmake 3.14, since we hit cuda issues with 3.15
* add rtd theme as dep for ascent
* add vtk-h 0.5.0 release, update ascent to use it
* add ascent 0.5.0 release
* fix cmake pin to allow all vers of 3.14
* fix format string error in mfem pkg
* review fixes for mfem pkg
* review fixes for vtk-h and vtk-m packages
* address review comments for ascent pkg
* changing default off of develop broke downstream use
* revert prefed
* guile package: Handling the threads option.
Currently guile by default tries to compile its thread variant.
However, the threaded version can only be compiled if bdw-gc is
compiled with some threads support. Currently, the default
compilation of the bdw garbage collector is compiled without any
thread support resulting in a compilation error.
I have changed the the default guile compilation to the non-threaded
version. I have also added the appropiated options for the bdw-gc
compilation in case the user prefers the threaded variant.
* guile package(flake8): fixed identation issues
* z3:
* Fixed python dependency to always be required.
* bugfix about fallthrough annotation.
* z3: Add patch for before ver.4.4.1.
* Update var/spack/repos/builtin/packages/z3/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Mark compiler/version conflict for CMake
Intel 14 lacks some C++11 features needed to compile new versions of
cmake.
```
/tmp/s3j/spack-stage/spack-stage-cmake-3.15.5-46lgp4ybhopy2p4rr66rxnew5iaddvmg/spack-src/Source/
cm_static_string_view.hxx(28): error: expected an operator
friend static_string_view operator"" _s(const char* data, size_t
^
```
* Mark compiler/version conflict for icu4c
With Intel 14.0.4 on Linux for icu4c 60.1 and higher:
```
locid.cpp(1156): error #1140: a using-declaration may not name a constructor or destructor
using KeywordEnumeration::KeywordEnumeration;
```
* Mark compiler/version conflict for nasm
Error installing `nasm@2.14.02%intel@14.0.4`:
```
In file included from nasmlib/crc64.c(35):
./include/nasmlib.h(116): error: expected a ";"
fatal_func nasm_assert_failed(const char *, int, const char *);
```
* Mark compiler/version conflict for bison
Installing `bison@3.4.2%intel@14.0.4`:
```
In file included from /tmp/s3j/spack-stage/spack-stage-bison-3.4.2-
uzjszv4owvqsymjpxtxvvegfavc6k5my/spack-src/lib/quotearg.c(33):
/tmp/s3j/spack-stage/spack-stage-bison-3.4.2-uzjszv4owvqsymjpxtxvvegfavc6k5my/spack-src/lib/
xalloc.h(51): warning #303: explicit type is missing ("int" assumed)
extern _Noreturn void xalloc_die (void);
```
* Mark compiler/version conflict for icu4c
With `icu4c@60.1%intel@16.0.4` and `icu4c@64.1%intel@16.0.4`:
```
In file included from ucurr.cpp(26):
static_unicode_sets.h(130): error #913: invalid multibyte character sequence
{POUND_SIGN, u'£'},
^
```
* Change conflict comments into messages
* py-matplotlib only needs backports when ^python@:2
This implements @scheibelp's suggestion in #13711.
py-matplotlib should only depends_on py-backports-functools-lru-cache
when it's using a python that actually *needs* it.
See #13711 for details.
* Don't depend_ons py-enum34 unless python@:3.3
* Tighten up enum34 dependency
@adamjstewart cracked open the setup.py files and suggested a tighter
dependency for py-enum34. 1.4 and 1.5 only require it for pythons
before 3.4, 1.3 requires it unconditionally. So...., we'll do the
same.
* Remove conflict on python 3.4 from enum34
at @adamjstewart's request see PR notes
* qscintilla_with_python_bindings_disabled
* pyqt5 with variant +qsci to compile qscintilla python bindings
* fix a dyn linking issue for Qsci python module
* fix a bug
* fix bug: use sip provided by py-pyqt5
* fix typo
* tidy up, make designer
* tidy up
* fix designer build issue, set env for designer plugin
* tidy up
* tidy up
* minor improvements
* improve style
* build Qscintilla python bindings here
* make qsci config option variant dependent
* get rid of commented out code
* improvements: add resource for qscintilla, improve config_args
* flake8: spaces, blank lines etc
* flake8: fix long lines
* Update var/spack/repos/builtin/packages/py-pyqt4/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-pyqt4/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-pyqt4/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/qscintilla/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* dont install source tree under prefix
* remove duplicate line
* use os.path.join instead of +
* separate build and run environment setups
* flake8
* Update var/spack/repos/builtin/packages/py-pyqt5/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-pyqt5/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-pyqt5/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* fix rsrc path
* use python_include_dir
* use "with working_dir"
* Update var/spack/repos/builtin/packages/py-pyqt4/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-pyqt5/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-pyqt5/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-pyqt5/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/qscintilla/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-pyqt4/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-pyqt4/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* flake8
* package/geopm: Added versions 1.0.0 and 1.1.0
Added changes for 1.1.0 and 1.0.0 in this patch.
Patch for 1.0.0 was previously not merged.
variant for hwloc removed since that is not a dependency since 0.5.1 and
variant('hwloc', when=:0.5.1 is not supported afaik.
made depends_on versions more explicit.
* package/geopm: removed 1.0.0 release candidates 1 and 2.
* Adding final bug-releases for the gromacs-2016 and -2018
* Added newer versions of plumed and libmatheval not a dependency >v2.5
* plumed package: chamge name git branch to master
Libbsd assumes GCC-defined compiler macros:
```
In file included from nlist.c(44):
local-elf.h(238): catastrophic error: #error directive: Unknown ELF machine type
#error Unknown ELF machine type
^
```
The `__amd64__` and `__x86_64__` macros should be equivalent, but the
latter is defined by intel.
* Update MVAPICH2 package for 2.3.2 release
Update default build from psm to mrail
* Update different provides for older versions based on feedback from Todd Gamblin
* Simplify rule so one rule covers 2.1 and 2.2
* Add support for disabling rpath based on feedback from Dr. Shende
* Add colon based on comment
* Address review comment by Adam Stewart
* Add declaration of the wrapperpath variant.
- Thanks to Massimiliano Culpo for the comment
* superlu_dist: fix build with xl compilers
* fix link error ../SRC/libsuperlu_dist.so.6.1.1: undefined reference to `ztrtri_'
* Fixed the ordering of the spec on the xl-611 patch.
* fix flake8 error
* Update nlopt package to add Python bindings to PYTHONPATH
* Use extends for nlopt/python fix
* nlopt - change develop to master and add python dep qualifiers
* athena: updated api call to setup build environment
* mvapich2: updated api call to setup build and run environment
* spectrum-mpi: updated api call to setup build and run environment
- depends on spfft starting from 6.4.0
- add magma variant
- avoid setting cuda_arch to none
- add python dependencies
- use release as default build type
* Adding in HMPT package for HPE MPI libraries
* Updating copyright dates
* Renaming HPE MPI package
* Fixing error in package file
* Tidying up defintions and linting
* liniting
* Adding in library setup so packages that want to manually add mpi libraries can do so (i.e. npb)
* Linting
* Linting
* Investigating old API errors
* Investigating api errors
* Investigating api errors
* Investigating api errors
* Investigating api errors
* Investigating api errors: adding back in functions to see when the build fails
* Investigating api errors: adding back in functions to see when the build fails
* Investigating api errors: adding back in functions to see when the build fails
* Investigating api errors: adding back in functions to see when the build fails
* Investigating api errors: adding back in functions to see when the build fails
* Linting
* Linting
* Fixing
* Fixing
* Add new strumpack version (3.2.0), with new
dependency on ButterflyPACK.
* add ButterflyPACK version 1.1.0
* Add strumpack version 3.3.0, add dependency on ButterflyPACK 1.1.0
* Sort ButterflyPACk versions from newest to oldest
* Add a shared variant for STRUMPACK
* Also allow possible newer versions of ButterflyPACK
* New Package: py-pyside2
https://wiki.qt.io/Qt_for_Python
The Qt for Python project aims to provide a complete port of the PySide module
to Qt 5. The development started on GitHub in May 2015. The project managed to
port Pyside to Qt 5.3, 5.4 & 5.5. During April 2016 The Qt Company decided to
properly support the por
* Address review comments:
+ Add a variant for `+doc` and only depned on some packages if this variant is
active.
+ Enable building the tests if requested.
+ Correct registered required verions for python and qt.
* Remove dead code, fix depends_on command args.
* fix one more flake8 issue.
* One more fix to arguments and change version name to .
* Add a variant for tests and parallelize builds
- Fix a bug with boost defaulting to cxxstd=98 when cxxstd=11 is the
minimum for hpx
- Disable tests by default and use a variant to enable them if requested
- Enable parallel builds: each process takes up to 1Gb when tests are
not enabled.
* Remove tests variant
- The variant doesn't change what gets installed. Testing can be
activated using `spack install --test=root hpx`
* Propagate MPI option in VTK to NetCDF
This fixes a conflict message reads as though NetCDF always requires
hdf5+mpi. It allows `visit~mpi` to resolve correctly without an
additional `^netcdf~mpi`.
* Tell VisIt not to look for 'hdf5_mpi' library
- patched versions are located in the same directory as the
original release. For example, 1906_191103 is located in
the 'v1906/' directory, not in 'v1906_191103/'.
- add master branch as a known version
* package py-zc-buildout
* package py-zc-buildout
* Update var/spack/repos/builtin/packages/py-zc-buildout/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-zc-buildout/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* license bits
* Update var/spack/repos/builtin/packages/py-zc-buildout/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* package py-cherrypy
* package py-cherrypy
* autopep8, docutils cleanup
* Update var/spack/repos/builtin/packages/py-cherrypy/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-cherrypy/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-cherrypy/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* portend depends on tempora, not cherrypy directly
* setuptools_scm bits
* dependency one level up
* license bits
* Update var/spack/repos/builtin/packages/py-cherrypy/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* package py-tempora
* package py-tempora
* Update var/spack/repos/builtin/packages/py-tempora/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* missing deps
* Update var/spack/repos/builtin/packages/py-tempora/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-tempora/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-tempora/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* license bits
* (py)arrow: new versions
* move py-arrow source to github as not all versions are on pypi
same checksum as pypi, adding build_directory
* move back to pypi sources
* drop 0.15.0 and 0.14.1 as only .whl are available on pypi
* add new dependencies
* Update var/spack/repos/builtin/packages/py-pyarrow/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* py-jupyter-core add new version and setuptools dependency
* update checksums to use pypi
* fixup url and python dep type
* Update var/spack/repos/builtin/packages/py-jupyter-core/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* new package: py-dateparser
* take setup.py dependencies into account
* fixup help->description
* reorder dependencies
* drop version constraints not enforced in setup.py
netcdf-fortran@4.5: will error if netcdf-c has been built with MPI
support:
```
configure: error:
-----------------------------------------------------------------------
The NetCDF C library is built with parallel I/O feature enabled, but
the Fortran compiler '.../lib/spack/env/gcc/gfortran' supplied in this configure command
does not support MPI-IO. Please use one that does. If parallel I/O
feature is not desired, please use a NetCDF C library with parallel
I/O feature disabled. Abort.
-----------------------------------------------------------------------
```
Copy logic from netcdf-c to add an `mpi` variant.
* pybind11: test get_include path
Helper for non-CMake downstream projects to find the pybind11
header location.
* pybind11: return proper get_include()
use our prefix instead of letting pybind11 trying to self-determine
it from given conda/virtualenv/global rules.
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* new package: py-ics
* drop 0.5 and move to tar-ball
* Update var/spack/repos/builtin/packages/py-ics/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-ics/package.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* mpi4py 3.0.3
Adds support for Python 3.8 with new Cython files.
I tried to build 3.0.0 with Python 3.8 and this builds as well,
therefor I added no conflict.
* mpi4py: update dependency version ranges
* update py-jupyter-notebook
* add setuptools dependency for newer version
the whole jupyter collection seems to use setuptools in case of
certain setup.py-arguments from the very beginning. However the latest
ones actually require it, otherwise the build will fail
* add newly introduced dependencies
* dependency constraints
* drop terminal variant and update python dep
* added relion 3.0.8 [latest stable version in 3.0 branch] as well as 3.1_beta
* relion 3.1 beta compiles without Benchmarking build type see https://github.com/3dem/relion/issues/533
* relion 3.0.X - 3.1 now supports latest cmake@3
