For some mysterious reason Qt4 stopped building the xmlpatterns
component, needed by some downstream packages. With this patch, the
component successfully builds with
```
qt@4.8.7~dbus~debug~examples~framework~gtk~opengl~phonon+shared~sql~ssl~tools~webkit freetype=none arch=linux-rhel7-haswell %gcc@10.2.0
```
`sbang` now lives at https://github.com/spack/sbang, and it has its own
test suite that's more extensive than what's in Spack. We'll leave sbang
tests to sbang from now on, and just vendor `bin/sbang` directly.
Remaining `sbang` tests have to do with patching files, not with
`sbang`'s functionality.
This update also fixes a bug with `sbang` and multiple command line
arguments that was introduced in #19529. See:
* https://github.com/spack/sbang/pull/1
* https://github.com/spack/sbang/pull/2
- [x] include latest `sbang` from https://github.com/spack/sbang
- [x] remove old `sbang` tests from Spack
- [x] update `COPYRIGHT` and `cmd/license.py`
* Update package.py
Remove breaking patch.
Patching the shebang is useless is the dependencies are properly loaded before execution. Furthermore, the long paths which can be generated when installing with Spack can exceed the maximum length of the shebang.
* Add newer versions of strelka.
* [libcudf] created template
* [libcudf] depends on cuda
* [libcudf] set cmake dir
* [libcudf] depends on boost
* [libcudf] depends on py-pyarrow
* [libcudf] depends on librmm
* [libcudf] depends on dlpack
* [libcudf] added more dependency information from https://github.com/rapidsai/libcudf/blob/v0.15.0/CONTRIBUTING.md#customizing-the-build
* [libcudf] removed python dependencies
* [libcudf] fixed url that got mangled in package renaming
* [libcudf] added default build options from build.sh
* [libcudf] added version 0.16.0a
* [libcudf] removed version 0.16.0a as it's an alpha version
* [libcudf] added homepage and description. removed fixmes
* [libcudf] flake8
* [libcudf] arrow requires +orc
* [libcudf] requires +parquet
* [libcudf] checksum changed
`sbang` was previously a bash script but did not need to be. This
converts it to a plain old POSIX shell script and adds some options. This
also allows us to simplify sbang shebangs to `#!/bin/sh /path/to/sbang`
instead of `#!/bin/bash /path/to/sbang`.
The new script passes shellcheck (with a few exceptions noted in the file)
- [x] `SBANG_DEBUG` env var enables printing what *would* be executed
- [x] `sbang` checks whether it has been passed an option and fails gracefully
- [x] `sbang` will now fail if it can't find a second shebang line, or if
the second line happens to be sbang (avoid infinite loops)
- [x] add more rigorous tests for `sbang` behavior using `SBANG_DEBUG`
On Cori(Cray-XC40), I need to pass the entire path for the compilers, this is what is saved in c_compiler, cpp_compiler, f_compiler. Therefore, when for the MPI wrappers only the binary name is provided I run into the same issue. There is no drawback of passing the entire path, this is set by the user through the compiler path anyways.
* added -lpthread flag in kv/tests/CMakeLists.txt
* Update var/spack/repos/builtin/packages/papyrus/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
PHP supports an initial shebang, but its comment syntax can't handle our 2-line
shebangs. So, we need to embed the 2nd-line shebang comment to look like a
PHP comment:
<?php #!/path/to/php ?>
This adds patching support to the sbang hook and support for
instrumenting php shebangs.
This also patches `phar`, which is a tool used to create php packages.
`phar` itself has to add sbangs to those packages (as phar archives
apparently contain UTF-8, as well as binary blobs), and `phar` sets a
checksum based on the contents of the package.
Co-authored-by: Todd Gamblin <tgamblin@llnl.gov>
* New package: py-minrpc
* Delete package.py.save
* Update var/spack/repos/builtin/packages/py-minrpc/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* package/gunrock add v1.2
* Update var/spack/repos/builtin/packages/gunrock/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: sbulut <sbulut@3vgeomatics.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
`sbang` is not always accessible to users of packages, e.g., if Spack
is installed in someone's home directory and they deploy software
for others. Avoid this by:
1. Always installing the `sbang` script in the `install_tree`
2. Relocating binaries to point to the copy in the `install_tree`
and not the one in the Spack installation.
This PR also:
- ensures that `sbang` is reinstalled if it is modified in Spack
- adds tests
- updates the way `gobject-introspection` patches Makefiles
to support `sbang`
Co-authored-by: Todd Gamblin <tgamblin@llnl.gov>
* Add BLT package
* Switch install function
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Add type='run' to cmake dependency
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Add git attribute to BLT
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* cp2k: locate correct include dir when using intel-parallel-studio+mkl for fftw-api
* libxc: drop arch-specific intel opt. flags
fixes#17794
* libint: drop arch-specific intel opt. flags, always build Fortran example with FC
fixes#17509
* package/pmdk add variants, version 1.9
* add dependency
* Update var/spack/repos/builtin/packages/pmdk/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: sbulut <sbulut@3vgeomatics.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
The logic in `config.py` merges lists correctly so that list elements
from higher-precedence config files come first, but the way we merge
`dict` elements reverses the precedence.
Since `mirrors.yaml` relies on `OrderedDict` for precedence, this bug
causes mirrors in lower-precedence config scopes to be checked before
higher-precedence scopes.
We should probably convert `mirrors.yaml` to use a list at some point,
but in the meantie here's a fix for `OrderedDict`.
- [x] ensuring that keys are ordered correctly in `OrderedDict` by
re-inserting keys from the destination `dict` after adding the keys from
the source `dict`.
- [x] also simplify the logic in `merge_yaml` by always reinserting
common keys -- this preserves mark information without all the special
cases, and makes it simpler to preserve insertion order.
Assuming a default spack configuration, if we run this:
```console
$ spack mirror add foo https://bar.com
```
Results before this change:
```console
$ spack config blame mirrors
--- mirrors:
/Users/gamblin2/src/spack/etc/spack/defaults/mirrors.yaml:2 spack-public: https://spack-llnl-mirror.s3-us-west-2.amazonaws.com/
/Users/gamblin2/.spack/mirrors.yaml:2 foo: https://bar.com
```
Results after:
```console
$ spack config blame mirrors
--- mirrors:
/Users/gamblin2/.spack/mirrors.yaml:2 foo: https://bar.com
/Users/gamblin2/src/spack/etc/spack/defaults/mirrors.yaml:2 spack-public: https://spack-llnl-mirror.s3-us-west-2.amazonaws.com/
```
Shell integration no longer requires setting `SPACK_ROOT`, so we can
simplify the documentation on it. The docs on shell support and using
packages are getting a bit old, and information on `spack load` (which
seems to be everyone's most common way of using packages) is hard to
find.
This PR simplifies the shell documentation to remove SPACK_ROOT, and also
moves some sections around for clearer organization.
- [x] make docs on sourcing setup scripts clearer and simpler
- [x] introduce `spack load` early in the basic usage guide instead of
burying it in the module docs
- [x] clean up module docs so that spack module tcl loads comes later
- [x] be clear about the different ways to use packages so that the users
can find the docs better.
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
GROMACS still requires a version of FFTW when compiling it to utilize
NVIDIA GPUs. In fact, the type of calculation that depends on FFTW --
Particle-Mesh Ewald (PME) -- is generally run on the host system's CPUs,
even when GPUs are available.
