* transabyss: new package and dependencies
* fixed build deps in igraph and version conflict spec in abyss
* fixed versioning stuff and package structure
* fixed dep type
* fixing dep type for real this time
Build system "usually" autodetects mpi library but this is
not the case on many platforms. Provide mpi library name/version
as part for configure args.
* savanna: explicitly adding variant sz to adios since it is no longer enabled by default in adios
* savanna: removing +sz from adios as sz is now enabled in adios by default
* savanna: explicitly specifying adios variants required by savanna
* adios: conform to pep8
* adios: added versions 1.11.0 and 1.12.0
* adios: added variant no_mpi to explicitly disable mpi support
* adios: add new variant mxml
adios v1.12.0 onwards contains an xml library built within.
To build with an external mxml, a new variant must be used
* adios: new variant for sz transform
* adios: flexpath and dataspaces staging variants
Two new variants for staging: flexpath and dataspaces.
New variant 'staging' that will enable both
* adios: dependency on libtool:2.4.2 since adios does not build with newer libtool 2.4.6
* adios: better description for variant no-mpi
* adios: new variant for netcdf
as requested by @mamelara from LBL
* adios: renamed variant 'no_mpi' to 'serial'
* adios: removed variant mxml
* adios: corrected implementation of the mpi dependency, along with its relation with the 'serial' variant
Added conflicts between 'serial' and other variants
* adios: added 'else' clause when variants are not added
* adios: replaced variant 'serial' with 'mpi'
* adios: Added configure option to explicitly disable variants that are not enabled.
* adios: setting default zfp to true
* adios: fixed flake8 errors
* adios: removed some old comments
* adios: setting default sz to False.
It is recommended to set default to False when dependency is on develop (sz@develop).
* adios: removing dependency on develop for sz and setting default sz to true
* adios: updated url to latest release.
Just keeping it clean
* new package:SNAP
* removed boilerplate
* Delete .nfs00000000003a8b1700001358
* install another executable in bin and install readme
* added quotes around README.md
* moved readme to prefix
* Added a package for the MDAnalysis toolkit.
* Added a patch that allows Elemental to use cuBLAS internally.
* Added support for LBANN to use the new cuBLAS extension in Elemental.
* Added a proper variant for when LBANN does not want to use cuBLAS in
elemental.
* Added a package for the cnpy project and used it in the lbann package.
* Removed unnecessary comment lines.
* Removed blank lines
* Removed debug variant
* Add support for libjpeg-turbo
* Added additional variants for OpenCV features. Fixed bug when linking
in TIFF support, where libtiff used the regular JPEG library and
OpenCV used libjpeg-turbo. Now libtiff can use libjpeg-turbo.
* Removed the variant for getting Elemental to use the cublas variant.
Updated the requirements for OpenCV to add new options.
* Fixed a flake8 error in OpenCV and added a path to find cnpy in lbann.
* Fixed line too long flake8 error.
* Added a flag to specify the datatype size in lbann and fixed a flake8 error.
* Added a debug build variant using hte new build_type
* Fixed flake8
* Fixed how the debug build is pushed to Elemental
* Fixed a bug in the Elemental package where the blas search flags were
being overridden by the blas link flags. Changed how the sequential
initialization variant is implemented in LBANN.
* Added support via a variant to explicitly use mkl or openblas. This
helps work around variant forwarding problems.
* Updated package files to address pull request comments.
* new package: cns-nospec
* made changes as suggested and added proxy-app tag
* updated edit()
* adjusted logic for '+debug'
* install readme and license
* install readme and license
* new package: SMC
* removed template and added proxy-app tag
* added comp variant in edit()
* edited comp variant in edit()
* move executable and input file into bin and install readme and license
Fixes#4898
Constraints that were supposed to be conditionally activated for
specified values of a single-valued variant were being activated
unconditionally in the case that the variant was associated with
an implicit dependency. For example if X->Y->Z and Y places a
conditional constraint on Z for a given single-valued variant on
Y, then it would have been applied unconditionally when
concretizing X.
Earlier versions of boost had a fixed maximum number of jobs. 1.54
was 64, it bumped once or twice afterwards and in 1.59 [this
commit][commit] it became dynamic.
I need 1.54 for as a prereq for bcl2fastq but I can't build 1.54 on my
144 core build box.
This fixes that.
[commit]: 316e26ca71
* Fix cdefs macro to be compatible with gcc 4.8.x
See the discussion in #4945 (after the merge) for additional
background.
libbsd builds with gcc@5.4.0 on CentOS 7, but not with the system's
gcc@4.8.5. Others have reported problems with gcc@4.8.3 on Fedora 19.
The problem boils down to the lack of support for the clang extension
`__has_include_next`. The immediate symptom seems to be the
pre-processor using defining macro like this
```
```
then then tripping over an expansion of it like this:
```
blah.h:13:23: error: missing binary operator before token "("
```
This patch changes the macro definition to:
```
```
which swallows the arguments with which the macro is invoked.
The end result is that libbsd builds for me on CentOS 7 using the
system compiler.
* Apply this patch for any compiler version before 5
This includes subversions of 4, like 4.8.5.
* chlorop: new package
* chlorop: moving main script to bin and moving runtime tmp location.
* chlorop: fixing flake8 error.
* chlorop: cleaning up, removing CHLOROTMP, advising user to set it.
* chlorop: removing unused import
Adds ADIOS2, the C++ Exascale HPC I/O rewrite of ORNL's ADIOS
library.
Currently, many variants (especially for data transforms such as
compression) are not yet added. It already provides Python bindings.
* Changed every 'fpic' variant to 'pic'. fixes#2463
Every variant that activates compilation of position independent code
has been changed to 'pic'. Hardcoded compiler flags in packages have
been substituted with `self.compiler.pic_flag`.
* Changed literal uses of '-fpic' to 'self.compiler.pic_flag'
* Add a QMakePackage base class
* Fix sqlite linking bug in qt-creator
* Add latest version of qt-creator
* Add latest version of qwt
* Use raw strings for regular expressions
* Increase minimum required version of qt
* Add comment about specific version of sqlite required
* Fixes for latest version of qwt and qt-creator
* Older versions of Qwt only work with older versions of Qt
* SCR CMake package
* Fix dtcmp variant description and set pdsh deptypes to build/run
* added variants for system config file location
* add variants for several scr cmake options
* Added more variants for compile time options
* Added libyogrt and made corrosponding changes to scr package.
* Cleanup yogrt package now that Ive verified it works
* Added description for libyogrt
* upper case async api names
* Make use of mv variants
* fix pdsh package for scr
* added IBM BBAPI as async option
* update pdsh and scr to use static pdsh modules
* Add package for libbsd, add variant to expat for libbsd
The recent expat release requires a high quality source of randomness.
CentOS 7 does not seem to have one, but one is available in libbsd.
This commit adds a package for libbsd and adds a variant to expat to
use it (defaults to False).
* Make libbsd default for newer, conflict for older
Make the libbsd variant default to true.
Conflict if you're asking for libbsd and an older version of expat.
This means that in order to install an older version of expat you'll
need to specify `~libbsd`.
* Rework so that 2.2.0 and 2.2.2 work by default
Get rid of the conflicts and use better constraints/tests in the
`depends_on` and the `configure_args` bits.
* Add package for canu
There's a top-level perl script, which is touched up to use a
spack-built perl instead of `#!/usr/bin/env perl`. It's
self-contained, it uses `FindBin` to locate it's libaries.
* Add dependency on gnuplot
I noticed a hidden mention of the use of gnuplot in the docs.
This adds the dependency.
* Tighten dependencies, flake8 cleanup
gnuplot is a run dependency.
jdk is a run dependency.
perl is a run dependency.
Make flake8 happy.
* Protobuf: CMake
This rebuilds protobuf to be build with CMake,
so cmake config packages are created and installed, too.
Unfurtunately, this drops support for protobuf < 3.
* Protobuf CMake: Add .pc files
* libprotobuf.a: -fPIC
* Protobuf: Minor Updates
Updates from upstream review and planned patch inclusion.
* Fix xsdk build broken by petsc and trilinos
See #4891 for details
* Fix version conflict in trilinos package
Trilinos version 11 may conflict with superlu-dist.
The version "xsdk-0.2.0" was conflicting with superlu-dist,
even though it shouldn't. I added a lower bound to the
comparison to fix this problem.
Thanks for the help @davydden!
For packages which contain a mix of versions with formats X.Y and
X.Y.Z, if the user entered an X.Y version as a preference in
packages.yaml, Spack would get confused and favor any version A.B.Z
where X=A and Y=B. In the case where there is a mix of these version
types, this commit updates preferences so Spack will favor an exact
match.
Adds the cppzmq library, adding a C++ API to ZeroMQ (libzmq). In order to find the autotools-build libzmq, this requires the upcoming cppzmq release (or development branch).
