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Spack currently cannot run as a background process uninterrupted because some of the logging functions used in the install method (especially to create the dynamic verbosity toggle with the v key) cause the OS to issue a SIGTTOU to Spack when it's backgrounded.
This PR puts the necessary gatekeeping in place so that Spack doesn't do anything that will cause a signal to stop the process when operating as a background process.
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This makes sure that a package's fetch_options are used when fetching
new versions to checksum. This allows working around problems with
slow servers or those requiring a cookie to be set.
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When a patches sha256 is missing, also show the
packagename, so that analyzing is easier.
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Bug: Spack hangs on some Cray machines
Reason: The TERM environment variable is necessary to run bash -lc "echo $CRAY_CPU_TARGET", but we run that command within env -i, which wipes the environment.
Fix: Manually forward the TERM environment variable to env -i /bin/bash -lc "echo $CRAY_CPU_TARGET"
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- [x] move some logic for handling virtual packages from the `spack
dependencies` command into `spack.package.possible_dependencies()`
- [x] rework possible dependencies tests so that expected and actual
output are on the left/right respectively
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`spack.package.possible_dependencies()` was forgetting to pass the
`visited` dict to recursive calls; this fixes it
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When trying to use an upstream Spack repository, as of f2aca86 Spack
was attempting to write to the upstream DB based on a new metadata
directory added in that commit. Upstream DBs are read-only, so this
should not occur.
This adds a check to prevent Spack from writing to the upstream DB
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* try extend path to solve PyQt5.sip not found issue
* disable private sip installation in sippackage class
* undo manual PyQt5 dir creation in py-sip site-packages dir
* fix typo
* fix typo
* also apply fix to PyQt4
* tidy up
* flake8 and tidy up
* tidy and undo hardcoding of python_include_dir
* replace hardcoded python inc dir
* fix minor issues
* rethink include dir variable name
* improve style
* add new versions
* implement new sip setup to qsci installation
* set sip-incdir correctly for the new setup
* setup extend_path thing before qsci python bindings
* take care of conflict
* flake8
* also extend for PyQt4
* improve style
* improve style
* SipPackage build sys should depend on py-sip
* consolidate extend_path fixes into SipPackage
* fix typo
* fix bugs
* flake8
* revert sip doc to pre-resource setup
* import os module
* flake8
Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
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(#15512)
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search string (#15508)
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Add a 'define_from_variant` helper function to CMake-based Spack
packages to convert package variants into CMake arguments. For
example:
args.append('-DFOO=%s' % ('ON' if '+foo' in self.spec else 'OFF'))
can be replaced with:
args.append(self.define_from_variant('foo'))
The following conversions are handled automatically:
* Flag variants will be converted to CMake booleans
* Multivalued variants will be converted to semicolon-separated strings
* Other variant values are converted to CMake string arguments
This also adds a 'define' helper method to convert any variable to
a CMake argument. It has the same conversion rules as
'define_from_variant' (but operates directly on values rather than
requiring the user to supply the name of a package variant).
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* Buildcache: Install into non-default directory layouts
Store a dictionary mapping of original dependency prefixes to dependency hashes
Use the loaded spec to grab the new dependency prefixes in the new directory layout.
Map the original dependency prefixes to the new dependency prefixes using the dependency hashes.
Use the dependency prefixes map to replace original rpaths with new rpaths preserving the order.
For mach-o binaries, use the dependency prefixes map to replace the dependency library entires for libraries and executables and the replace the library id for libraries.
On Linux, patchelf is used to replace the rpaths of elf binaries.
On macOS, install_name_tool is used to replace the rpaths and dependency libraries of mach-o binaries and the id of mach-o libraries.
On Linux, macholib is used to replace the dependency libraries of mach-o binaries and the id of mach-o libraries.
Binary text with padding replacement is attempted for all binaries for the following paths:
spack layout root
spack prefix
sbang script location
dependency prefixes
package prefix
Text replacement is attempted for all text files using the paths above.
Symbolic links to the absolute path of the package install prefix are replaced, all others produce warnings.
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PR #15212 added a new connect_timeout option that can be overridden
using fetch_options but had to specified per-version. This adds a new
per-package variable that can be used to override fetch_options for
all versions in the package. This includes connect_timeout as well
as 'cookie' (e.g. for the jdk package).
Packages can combine package-level fetch_options with per-version
fetch_options, in which case the version fetch_options completely
override the package-level fetch_options.
This commit includes tests for the added behavior.
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fixes #15449
Before this PR a call to pkg.url_for_version was modifying
class attributes determining different results for subsequents
calls and an error when the urls was empty.
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* bugfix: ensure bootstrapped compilers built before packages using the compiler
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available. (#15412)
* Revert to gzip as the default buildcache compression as bzip2 is not always available.
* Flake8
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This is a minor permission fix on the new installer.py introduced in #13100.
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(#15319)
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* add --skip-unstable-versions option to 'spack mirror create' which skips sources/resource for packages if their version is not stable (i.e. if they are the head of a git branch rather than a fixed commit)
* '--skip-unstable-versions' should skip all VCS sources/resources, not just those which are not cachable
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* Fix for being able to 'spack load' packages that have been renamed.
* tests: add test for 'spack load' of a installed, but renamed/deleted package
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Allows spack.config InternalConfigScope and Configuration.set() to
handle keys with trailing ':' to indicate replacement vs merge
behavior with respect to lower priority scopes.
Lists may now be replaced rather than merged (this behavior was
previously only available for dictionaries).
This commit adds tests for the new behavior.
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* Recover coverage from subprocesses during unit tests
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Testing the install StopIteration exception resulted in an attribute error:
AttributeError: 'StopIteration' object has no attribute 'message'
This PR adds a unit test and resolves that error.
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This recovers the old behavior of replace_prefix_bin that was
modified to work with elf binaries by prefixing os.sep to new prefix
until length is the same as old prefix.
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Removed the code that was converting the old index.yaml format into
index.json. Since the change happened in #2189 it should be
considered safe to drop this (untested) code.
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* use os.sep instead of null byte to pad replacement paths in binaries
* Prefix the pading os.sep's
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Spack's fflags are meant for both f77 and fc. Therefore, they must
be passed as FFLAGS and FCFLAGS to the configure scripts of
Autotools-based packages.
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The distributed build PR (#13100) -- did not check the install status of dependencies when using the `--only package` option so would refuse to install a package with the claim that it had uninstalled dependencies whether that was the case or not.
- [x] add install status checks for the `--only package` case.
- [x] add initial set of tests
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* Fix detection of redhat enterprise compute node
* Add comma
* Remove space
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This allows packages to override the global connect_timeout.
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This allows us to support higher-level concepts such as 'cookie' and
'timeout' without users having to specify curl options.
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connect_timeout can be used to increase the time Spack waits for the
server to answer. This can be used to work around slow connections or
servers.
Fixes #14700
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* CudaPackage: add support for Tesla K80 and older CUDA
* Flake8 fixes
* Fix cuda_arch when no arch is set
* Fine-tune cuda_arch=37,50 supported CUDA versions
* CUDA 6.5+ supports SM_37
* Add @svenevs as a maintainer
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The new build process, introduced in #13100 , relies on a spec's dependents in addition to their dependencies. Loading a spec from a yaml file was not initializing the dependents.
- [x] populate dependents when loading from yaml
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This PR corrects a few minor things and adds a note about colorized
output.
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buildcaches. (#15090)
* Make -d directory a required option. Print messages about where buildcaches will be written.
* Add mutually exclusive required options
* spack commands --update-completion
* Apply @opadron's patch
* Update share/spack/spack-completion.bash
* Incorporate @opadron's suggestions
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* add --only option to buildcache create cmd
replaces the --no-deps option
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* remove catch-all exception handling in buildcache command
* fix test
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buildcaches on linux (#15192)
* Buildcache command: add install option -o/--otherarch
This will allow matching specs from other archs, for example
installing macOS buildcaches on linux hosts.
* spack commands --update-completion
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