* savanna: Runtime framework for online workflow management from the ECP CODAR project
* savanna: added version 0.5
* savanna: Copying the package contents to prefix as part of installation
* savanna: Doing submodules=true for git checkout of develop version
* savanna: removed dependency on adios@develop. depends on adios
* Savanna: Converted package to MakefilePackage
* New Package: Pathfinder
* Added index for String format
* Changed to make Makefile edit more specific
* Make Flake8 Happy
* Removed unneeded conversion
* Add package for Sniffles
* Wire up a manual install step
The cmake infra doesn't install anything, so do it by hand.
The binaries land in a location that embeds the version...
* hybpiper: new package and spades dependency
* hybpiper: making flkae8 happy
* hybpiper: fixing dependency errors
* fixing python dep type
* removing cmake from spade dependencies
* libwebsockets: new versions
both new versions fix a nasty bug leading to a hanging
connection on connect.
* ISAAC Server: Fix libwebsockets
ISAAC server did hang in docker containers due to a bug
in libwebsockets.
* Add two python packages for editing mach-O headers. Much faster than calling otool and install_name_tool directly
* remove non-overriding function
* autopep8
* Adding OpenMP variant to Trilinos. Also building NetCDF with PNetCDF in Trilinos when necessary.
* Adding runtime error for PNetCDF variant in Trilinos when necessary. Omitting unnecessary openmp variant for Trilinos in Nalu.
* Changing variant checks to conflicts statements.
* Adding comments to Trilinos package.
Adds the `gearshifft` package, a benchmark suite for heterogeneous implementations of FFTs.
Adds clFFT, a software library containing FFT functions written in OpenCL.
see: https://github.com/clMathLibraries/clFFT
The vcftools package was installing its Perl libraries into a
directory in the staging directory named 'lib', instead of installing
them into `prefix.lib` where they should have been because the value
passed to the configure script was wrong.
The result was that any attempt to run one of the scripts in the
package failed with something like:
> Can't locate VcfStats.pm in @INC (you may need to install the
> VcfStats module) [...]
This fix provides the correct information in `configure_args`.
Tested lightly on CentOS 7.
* Dataspaces spack package, hard-wired for ubuntu VM
* Initial commit of dataspaces spack package
* Made changes and additions necessary to install on Cori and Titan
* Added temp 1.6.2.1 for testing
* Updated tar file for 1.6.2
* Fixed formatting
* Set the type of build dependencies
* Changed the way autogen.sh is called for compatibility
* Use append instead of extend to add configure flags
* Various syntax fixes
* Switched string checking to method for compatibility
Now using the six library for Python 3 compatibility. Thanks @adamjstewart
* Made MPI variant default
- renamed develop version from 'plus' to 'develop'
- patches now prefixed by corresponding OpenFOAM version number.
This makes it easier to sort and see what old/junk exists.
- remove MPI_BUFFER_SIZEk env variable (for all openfoam variants).
The OpenFOAM shell setup addresses this and there is no reason
to pollute the module environment at this stage.
* sabre initial commit, works but test does not
* removing test until I have time to fix it
* sabre: fixing flake8 errors
* sabre: changing to MakefilePackage
* mpifileutils: update to v0.7
* mpifileutils: disable --enable-experimental in v0.6 and earlier
* mpifileutils: list newest version first, avoid experimental switch unless at v0.7 or later
* * add mpii* wrappers for use with intel compilers
* in mumps package, scotch is compiled without metis option when
ptscotch variant is selected. This removes confusion over which
metis.h to use
* for intel mkl, add SPACK_COMPILER_EXTRA_RPATHS ending in 'intel64'
* scotch lib requires libz when compression is turned on. This
caused a link issue on some Ubuntu distributions (not
redhat). Change Scotch package to add -lz when needed
* * intel-mkl append to SPACK_COMPILER_EXTRA_RPATHS rather than setting
* use more concise method to obtain libz libraries for scotch
* remove changes to intel mpi
* remove commented out depends_on
* fix flake8 errors
* Add package for primer3
Built and mildly tested on CentOS 7.
* Convert to MakefilePackage
I always forget about this...
* Set build_directory the easy way
Life's not always complicated. Don't go out of my way
to make it so....
* Fix Flake8 issue
* added perl-star-fusion and perl-intervaltree
* added perl-star-fusion and all dependencies
* changes
* made changes as requested to perl-star-fusion dependencies
* changed perl-intervaltree dependency
* changes to star fusion
* now using perl properly
- Thanks to pointer from @adamjstewart - can avoid this either by
avoiding an external mxml dependency, or by making certain that they
both use consistent code generation.
The adios package uses '-fPIC' for python linkage and this seems to
require the same for mxml too. If the adios-internal version of mxml
is used, it has the same flags for both.
- The buggy flex-2.6.2 was blacklisted in the corresponding flex
package, but now also removed the md5sum to avoid suggesting that
this version should be revived.
The 2.6.3 has similar problems (at least for scotch), but 2.6.4
seems to work.
- Rejig flex restriction for scotch to exclude 2.6.2-2.6.3 only. Since
flex-2.6.4 appears to be okay again, we can remove the flex version
restriction that trickled through into the openfoam packages as a
consequent of an spack spec bug.
- Make flex a build dependency for the openfoam packages
(seems to have been an earlier oversight).
* Remove unneeded patch lines which fail for the most recent CNTK version on the head of the git repo
* Really check for NVML/GDK
* Fix some violations
* gtkplus: set XDG_DATA_DIRS
* shared-mime-info: database of common MIME types
* gtkplus: needs shared-mime-info for correct handling of stock icons
* shared-mime-info: builds with newer intltool than provided by some platforms
* atk: set XDG_DATA_DIRS at run-time
* gdk-pixbuf: set XDG_DATA_DIRS at run-time
* gtkplus: set XDG_DATA_DIRS at run-time
* pango: set XDG_DATA_DIRS at run-time
* shared-mime-info: set XDG_DATA_DIRS at run-time
* enable some of the tools
do not make zoltan default
* modify moab package
add shared, debug options to cgm, too
build some tools by default (mbsize, mbconvert)
add hdf5, netcdf dependency
add pnetcdf variant (dependency), metis, parmetis, zoltan
add shared, debug, fortran options to moab
* few kinks for moab
zoltan should be built without fortran api, otherwise moab
complains (need to fix)
also, notice that when built with cgm, shared can't find
cgm libraries for the new tools/geometry execs
install in serial for the time being (because of example makefile
duplicate?)
for example, these builds are successful:
spack install moab+mpi+hdf5+zoltan ^mpich@3.2
spack install moab+mpi+hdf5+shared ^mpich@3.2
* force hdf5+mpi if both are specified
also, something like this works:
spack install moab+mpi+hdf5+cgm ^mpich@3.2 ^cgm+oce+mpi ^oce@0.17.2
use mpich32, and cgm built with oce 0.17.2
* forgot about irel, fbigeom, mbcoupler
* add meshkit package
simple build so far, moab and cgm deps only
also, an example of complex build for cgm
spack install moab+mpi+hdf5+cgm+irel+fbigeom ^mpich@3.2 ^cgm+oce+mpi ^oce@0.17.2
* for meshkit, moab needs to have irel, fbigeom
* forgot to self.spec
after building moab with cgm with oce 0.17.2, we can build
meshkit with something like this
spack install meshkit ^moab/tsb75zk
cgm depencency is found out from moab
moab has to be built with irel and fbigeom
* add netgen package and review
do not support yet older versions of meshkit
(which depend on lasso, etc)
add netgen package; tested with meshkit (netgen has to be built without
occ, for meshkit)
We are not enforcing that yet, we may have to test
* use conflicts where needed, suggested by review
remove release candidates
* flake8 alignment errors
* flake8
* reviews
flake8 alignment
explicit options, even for default variants
variant for netgen should be "gui", with the default ~gui (False)
FIXME: with-occ does not work right for netgen ; maybe it should be disabled?
also, with +gui, it should depend on a lot more, like tk, tcl?
* flake8 issues
whitespaces and a comment in netgen
* add more explicit options
--without-mpi needs fixing for cgm, moab and meshkit
add variable url for netgen (although we don''t know if other
versions will appear)
* flake8, trailing whitespace
* ninja-fortran: a Fortran-capable fork of ninja build tool
* Use url_for_version for clarity
* Clean ninja-fortran
* Cleanup in the original ninja package
* added py-tomopy package
* fixed dependencies and added import_modules
* edited deps for tomopy with import_modules and added py-olefile pkg
* changed module name
* changed dependency to python because it will not build with setuptools
* fixed dependency list for py-tomopy and py-dxchange
* added py-nose dependency
* fixed tests
* commented out dependency py-counter
* fixed dependency py-pybtex-docutils
* removed nose as a dependency
* fixed flake8 errors
* fixed import_modules
* fixed import_modules indent
* fixed various issues in tomopy and deps files
- paraview 5.2.1 -> 5.4.0 supports both Qt4 and Qt5, but the assumed
default version changes between versions. So explicitly define
which QT major version is being used.
* Several improvements for the openfoam packages
--
Refactor openfoam packages by adding an OpenfoamArch class
Use separate configure, build, install phases.
Provide FOAM_PROJECT_DIR dependent env for openfoam packages
- easier way to locate
Eliminate intermediate installation directories
- unneeded clutter.
- makes it less than easy to find the etc/bashrc file
Add versioning for all openfoam patches
- no certainty which parts (if any) will be needed in future versions,
especially if we strive to ensure that the upstream version builds
well with spack to begin with.
Support build of develop branches
- helps track build regressions for future openfoam releases
STYLE: use common/ and assets/ to provide additional (build) resources ...
* - adjust OpenFOAM provider
Move openfoam-com up front since this is the one being used as a base
for the others
Added line in package.py to patch using ipopt_ppc_build.patch. The patch simply adds support in config.guess and Ipopt/config.guess to build ipopt on ppc64le.
* adding H5Z-ZFP; updating zfp to use choice variant for bit stream word size
* fixing homepage url
* removed fortran error message...just build fortran if can, otherwise ignore
* Added magma package
* Incorporated Serban's change
* fftw: patch configuration file to remove search for xlc_r compiler
when compiler not gcc
FFTW assumes there are only 2 compilers: gcc and IBM XL. When
building threaded fftw, the configuration file is looking for
the threaded IBM XL's xlc_r compiler when the compiler is not gcc.
The PGI compiler is not gcc.
* Include depends_on for gperf
Sometime around 2.12.2 fontconfig acquired a build-time
dependency on `gperf` (this commit, I think:
59fd9960bbb58fd6257adb13ec0f918882149332).
This adds the dependency.
`gperf` is called in the `src/Makefile`, see line 907 of
`src/Makefile.in`.
* Only depend_on gperf if @2.12.2:
The gperf dependency *seems* to only be required when @2.12.2:.
Earlier releases do not check the arg type of the gperf lookup
function (which requires gperf) and are able to use pre-generated
files so gperf is not required at build time.
* fixes#967
* Version bump to 0.9.1
- Bugfixes for spack find
- 0.9.1 can read specs from current develop.
* Don't assume spack is in the path when building docs.
* fixing Makefile override of PREFIX and install w/gcc-6
* oce changes for cgm
cgm can be configured with oce, but oce needs
to have X11 enabled, because some libraries
(like TKCAF in occ/oce) gets built only of X11 is NOT disabled
so introduce a variant +X11 for oce, which is needed when
configuring cgm with oce(+X11)
* follow up review
simplify by removing the patch and different url paths
use append instead of extend, when necessary
make mpi true by default
X11 dependency is still to be addressed; it pulls in some opengl
library (on laptop nvidia seem to work, on virtual linux machine
mesa was good enough)
- invoke make with the correct TARGET for aarch64
- foforce PILERDRIVER as openblas cannot correctly detect CPU on aarch64
- update url to more recent version
