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This commit removes logic from Spec that was there only to be used in
tests, and allows to set a new prefix cleanly in user's code.
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The flag_handlers method was being set as a bound method, but when
reset in the package.py file it was being set as an unbound method
(all python2 issues). This gets the underlying function information,
which is the same in either case.
The bug was uncovered for parmetis in #6858. This is a partial fix.
Included are changes to the parmetis package.py file to make use of
flag_handlers.
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The feature added in #4611 is currently broken. This commit fixes the
behavior of the command and adds unit tests to ensure the basic semantic
is maintained.
It also changes slightly the behavior of Spec.concretized to avoid
copying caches before the concretization (as this may result in a
wrong hash computation for the DAG).
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- Generating the HTML from for >2300 packages from RST in Sphinx seems to
take forever.
- Add an option to `spack list` to generate straight HTML instead.
- This reduces the doc build time to about a minute (from 5 minutes on a mac laptop).
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* Vendor ordereddict for python2.6 only
This commit substitutes the custom module 'ordereddict_backport' with
the more known 'ordereddict' and vendors it only for python 2.6. Other
supported versions of python will use 'collections.OrderedDict'.
* Use absolute imports also for python 2.6
See PEP-328 for more information on the subject
* Added provenance of vendored ordereddict
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See #6794
This fixes cases where test-only dependencies were omitted from
consideration when modifying the environment at build time. This
includes an update to the python package definition to add
testing-related python extensions to its specialized environment
setup.
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This updates the conflict-checking logic to require that the conflict
spec matches exactly and that all fields mentioned in the conflict
spec are present in the concretized spec in order to report a
conflict. This will automatically skip all conflict checks for
dependencies of externals (since externals strip dependencies). This
will not affect non-external packages since all fields and
dependencies are fully specified for such packages.
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* Keep track of source and versions for external libraries
* Note source of more obscure libraries
* We aren't upgrading jsonschema after all
* Add note on modifications made to pytest
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* Update to pytest 3.2.5
* Get pytest to pass Python 2.6 compatibility checks
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* Update to the latest version of py
* Revert back to py 1.4.34
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* Add unit tests for spack versions command
* Fix bug in web spidering for Python 2.6
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Some servers report a content-type header instead of Content-Type.
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* add OctavePackage
1. remove import CudaPackage which is not needed anymore
2. mention CudaPackage and OctavePackage in packaging guide
3. adjust OctavePackageTemplate
4. add clue file for Octave build
5. sanity check on self.prefix
* use setup_environment
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* Add unit tests for spack help command
* Work around issue with using `spack help` twice in tests
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* Update to the latest version of argparse
* Re-add colified logic
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* Update to the latest version of distro
* Update distro to 1.0.4
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Fixes #4573
"spack mirror remove" was not actually removing mirrors from the
configuration.
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In Python 2, filter() returns a list, but in Python 3, filter()
returns an iterator, and iterators have no length.
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* Only specify a file as needing relocation if it contains the spack
root as a text string (this constraint also applies to binaries)
* Don't fail if there is an error retrieving RPATH information from a
binary (even if it is specified as requiring relocation)
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This adds the ability for packages to apply compiler flags in one of
three ways: by injecting them into the compiler wrapper calls (the
default in this PR and previously the only automated choice);
exporting environment variable definitions for variables with
corresponding names (e.g. CPPFLAGS=...); providing them as arguments
to the build system (e.g. configure).
When applying compiler flags using build system arguments, a package
must implement the 'flags_to_build_system_args" function. This is
provided for CMake and autotools packages, so for packages which
subclass those build systems, they need only update their flag
handler method specify which compiler flags should be specified as
arguments to the build system.
Convenience methods are provided to specify that all flags be applied
in one of the 3 available ways, so a custom implementation is only
required if more than one method of applying compiler flags is
needed.
This also removes redundant build system definitions from tutorial
examples
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* dealii: add GMSH dependency
* CMakePackage: add CMAKE_FIND_APPBUNDLE to prevent picking up binaries from /Applications
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Fixes #5940
This PR changes the option '--restage' of 'spack install' to
'--dont-restage', inverting its meaning and the default behavior
of the command.
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Fixes #6200
For compilers that successfully run a version detection script but
don't actually return a version, Spack was keeping track of the
empty version and then failing when attempting to construct a
compiler spec. This skips any attempt to add a compiler entry when
no version is reported (but logs when a compiler fails to report
a version).
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* Support pruning of vars with Env from_sourcing_file (issue #6501)
- Blacklist string literals or regular expressions of environment
variables that are to be removed from consideration as being affect
by the sourcing of the file. Conversely, whitelist modifications
that should not ignored. Whitelisted variables have priority over
blacklisting.
Eg,
EnvironmentModifications.from_sourcing_file
(
bashrc
blacklist=['JUNK_ENV', 'OPTIONAL_.*'],
whitelist=['OPTIONAL_REQUIRED.*']
)
This modification can be used to eliminate environment variables that
are not generalized for modules (eg, user-specific variables).
* BUG: module prepend-path in wrong order (fixes #6501)
* STYLE: module variables in sorted order (issue #6501)
- looks nicer and also helps when comparing the contents of different
module files.
* ENH: remove duplicates from env paths when creating modules (issue #6501)
- this makes for a cleaner module environment and helps avoid some
unnecessary changes to the environment that are only provoked by
redundancies in the PATH.
eg,
before PATH=/usr/bin
after PATH=/usr/bin:/usr/bin:/my/application/bin
should only result in /my/application/bin being added to the PATH
and not /usr/bin:/my/application/bin
Activate via the 'clean' flag (default: False):
EnvironmentModifications.from_sourcing_file(bashrc, clean=True,..
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* add -d option for edit command and improve suffix extrapolation from '.py' to use glob
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Fixes #2440
The "Getting started" guide should be short and sweet. This commit
simplifies the "Environment-Modules" section pruning:
- outdated / wrong suggestions as noted in #2440
- uncommon setups that are better treated in a reference guide
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According to the documentation here:
http://www.sphinx-doc.org/en/stable/ext/autodoc.html
"For module data members and class attributes, documentation can either
be put into a comment with special formatting (using a #: to start the
comment instead of just #), or in a docstring after the definition."
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* Updated function which checks if a binary file needs relocation.
Previously this was incorrectly identifying ELF binaries as symbolic
links (so they were being excluded from relocation). Added test to
check that ELF binaries are not considered symlinks.
* relocate_text was not replacing paths in text files. Added test to
check that text files are relocated properly (i.e. paths in the file
are converted to the new prefix).
* Exclude backup files created by filter_file when installing from
binary cache.
* Update write_buildinfo_file method signature to distinguish between
the spec prefix and the working directory for the binary cache
package.
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"spack spec" was providing helpful error information about conflicts
that was missing from "spack install", this updates "spack install"
to provide the same information.
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The original docstring had confusing wording re: what is going to
symlinked and where when using the `extend` directive, and how exactly
the symlinking is performed (not automatically on install, but using
`spack activate`). See #5559.
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