* Add package for fasta
Add a package for the fasta sequence alignment tools.
The build system is novel (fasta is "venerable", so...). The source
tree includes nearly 50 variant Makefiles, the installer is expected
to pick one that's appropriate and then edit the "XDIR" variable to
specify the installation path. I can only test 64 bit darwin and
linux, so that's all I've included. I'm also assuming that every
64bit x86 system we'll see supports the SSE2 extensions. Other
situations can be dealt with when someone has a test case.
* Switch to MakefilePackage and clean up a bit
- Clean up the description
- Switch to MakefilePackage
- generalize the path to the chosen Makefile
- implement separate `edit`, `build`, and `install` phases.
* Fix call to format()
* Fix broken if logic
* packages/phist: new version 1.6.1
* packages/phist: depends on Python 3.x for generating Fortran and C++ bindings
* packages/phist: new version 1.7.2
* phist: depend on python@3 only for versions later than 1.7
* packages/phist: depend on python@3: rather than 3
* phist: python dependency is type='build', thans @adamjstewart
* libiberty: new package
The libiberty.a library from GNU binutils. Libiberty provides
demangling and support functions for the GNU toolchain.
This package uses the binutils tarfile but only builds the libiberty
subdirectory. This is useful for other packages that want the
demangling functions without the rest of binutils.
Add variant 'fpic' to compile with -fPIC.
Addresses some issues raised in PR #8806.
* libiberty: change variant name to 'pic'.
Allow libiberty to install the library in lib64 and don't try to copy
it to lib.
* update of veloc & dep versions (replace old non-working versions)
* veloc doesn't work with gcc <= 4.9.3
* explicitly pass MPI to CMake for veloc build
* elfutils: update version and add variants
Add latest version 0.173.
Add variants bzip2, xz and zlib to support reading compressed DWARF
sections, default True.
Move maintainer-mode to a variant with default False. This is only
useful for developers who want to modify the source for generated
files.
* Add dependency on zlib for reading compressed DWARF sections.
Add variants to use bzip2 and xz for compressed sections.
Remove maintainer mode and the dependencies on flex and bison.
These are not used for one-time builds.
Be sure to squash both the commits and the commit messages.
This commit continues the changes discussed in #8823 by creating a new
"apple-libunwind" placeholder package that supplies instructions for
how to configure packages.yaml to register Apple's libunwind
implementation with spack. This package also provides the "unwind"
virtual package representing the libunwind base API. The clang-apple
compiler version should be specified in packages.yaml so that
apple-unwind is only used with Apple's clang compiler, not the stock
LLVM compiler.
This commit begins addressing the ideas discussed in #8823. The
libunwind library now provides the "unwind" virtual package, which
represents the "libunwind base API" common to LLVM libunwind, Apple's
LLVM libunwind, and non-GNU libunwind.
* Switch to perf_event backend to allow user installations but with limited features.
* Fix flake8 issues
* Fix flake8 issues remove filter for INSTALL_CHOWN
* Incorporate the comments
* Add unzip to lua-luaposix
I ended up on an [Ubuntu] system that hadn't had unzip employed
and discovered lua-luaposix requires it (while buildig Lmod).
Closes#8533
* Move unzip prereq to lua, type=run
Rather than touching up each of the lua rocks (packages)
that need unzip, make it available as a run dependency in
lua.
Tested by building lmod on a minimal Ubuntu system.
Flang now uses its own version of llvm and clang (called flang-driver). This is
handled by adding flang-specific versions of the LLVM package and updates flang
to depend on those versions.
* libmonitor: update to version 2018.07.18 and add variant to configure
for hpctoolkit.
* Specify the @2013.02.18 version in cbtf-argonavis and cbtf-krell,
since this is no longer the default version. These are the only
other packages that use libmonitor.
* amg2013: fix homepage and url
* kripke: fix homepage and url
* lcals: fix homepage and url
* lulesh: fix homepage and move to git
* urls on single line
- This was a nasty workaround due to the way our compiler wrappers used
to work. We don't want to have to modify our elfutils installation to
install libdwarf.
- Since cd9691de5, we no longer need this because the package will always
come before dependencies in our include order.
Renames the flux package to flux-core and updates its dependencies, versions,
and variants. Adds a flux-sched package.
This also updates two flux-core dependencies: lua and czmq.
The mumps package was unable to build using the llvm clang compiler
suite, as it defaulted to using mpif90 for linking and mpif90 cannot
be used for linking shared library code. This PR modifies the MUMPS
package.py to allow it to use IBM XL Fortran for linking. It also
eliminates the need for the existing MUMPS IBM XL patches by having
package.py specify the compiler-dependent "shared" flag to the
linker, and always using the compiler suite's Fortran compiler
for linking.
