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There are now separate flake8 configs for core vs. packages:
- core has a smaller set of flake8 exceptions
- packages allow `from spack import *` and module globals
- Allows core to take advantage of static checking for undefined names
- Allows packages to keep using Spack tricks like `from spack import *`
and dependencies setting globals for dependents.
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- `-a`/`--all` causes flake8 to run on all files rather than just
different ones.
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Jansson builds only a static library by default, which is probably
not what most users want. Add Cmake args required to build a shared
library and enable those via a default 'shared' variant of the
package.
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fixes #5721
This is to solve the fact that lmod needs to be configured
by the user (to specify a core compiler).
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* Add better spec matching to spack buildcache
* skip download of spec.yaml and keys if they exist
* autopep8
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* new package: hpgmg
* removed build and changed extend() to append()
* changes based on comments
* pep8 compliant
* addressed rest of comments
* trigger checks
* changed from fe_fv to two boolean variants
* fixed compilation issues
* cleared up ambiguities in solver variants
* removed +mpi condition
* changes based on review
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qt (#4958)
* Update Getting Started docs to clarify that full Xcode suite is required for qt
* Better error message when only the command-line tools are installed
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- Previously `spack blame` only worked for package names; now it works
for paths as well, so developers can use it on core spack files.
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#5776 cleaned up the way the the current working directory is
managed (less magic state).
bcl2fastq is packaged like a russian doll, rather than an archive file
that contains the source, there's a zip file that contains a tar.gz
file that contains the source. The package definition has a bit of
extra code that unpacks the inner tarball.
That extra bit of code now needs to explicitly arrange to be in the
correct directory before it does its work.
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* r-genomicfeatures: created new package
* modified version number and added versioned dependency on r
* fixed typo
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* dealii: blacklist boost 1.64 and 1.65
* flake8
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* py-mpi4py: Add develop version and dependencies
- Add cython dependency for develop version
- Add explicit python dependency
* py-mpi4py: Specify 2.0.1 instead of develop for conditional dep
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Perl installs a couple of config files that need to be munged so that
they don't refer to the spack compiler. These files are installed
read-only. Behind the scenes 'filter_file' moves its file to a safe
place, and tries to create a working file that is both O_WRONLY and
has the perms of the original file. On an NFSv4 filesystem, the
combination of 'r--r--r--' and O_WRONLY throws a permissions error.
This commit adds a simple context manager that temporarily makes the
files writable.
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I'm tracking down a problem with the perl package that's been
generating this error:
```
OSError: OSError: [Errno 2] No such file or directory: '/blah/blah/blah/lib/5.24.1/x86_64-linux/Config.pm~'
```
The real problem is upstream, but it's being masked by an exception
raised in `filter_file`s finally block.
In my case, `backup` is `False`.
The backup is created around line 127, the `re.sub()` calls
fails (working on that), the `except` block fires and moves the backup
file back, then the finally block tries to remove the non-existent
backup file.
This change just avoids trying to remove the non-existent file.
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* Add a new +clanglibcpp option for Boost
Currently, the compile of boost with clang will use the stdlibc++. This patch adds an optional flag to use clangs included libc++ instead.
* Linting
Fix long lines and white space errors
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- The shell script uses arrays and hence only works on sophisticated shells and not the default `sh`. For clarity the shebang `#!/bin/bash` has been used instead.
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- This fakes out GitFetchStrategy to try code paths for different git
versions.
- This allows us to test code paths for old versions using a newer git
version.
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- Tests use a session-scoped mock stage directory so as not to interfere
with the real install.
- Every test is forced to clean up after itself with an additional check.
We now automatically assert that no new files have been added to
`spack.stage_path` during each test.
- This means that tests that fail installs now need to clean up their
stages, but in all other cases the check is useful.
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- Be explicit about stage creation during the install process.
- This avoids accidental creation of stages
- e.g., during `spack install --fake`, stages were erroneously recreated
after being destroyed
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- This prevents the main spack install from being clusttered by
invocations of `spack test`.
- This uses a session-scoped stage fixture to ensure tests don't
interfere.
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- Spack's core package interface was previously overly stateful, in that
calling methods like `do_stage()` could change your working directory.
- This removes Stage's `chdir` and `chdir_to_source` methods and replaces
their usages with `with working_dir(stage.path)` and `with
working_dir(stage.source_path)`, respectively. These ensure the
original working directory is preserved.
- This not only makes the API more usable, it makes the tests more
deterministic, as previously a test could leave the current working
directory in a bad state and cause subsequent tests to fail
mysteriously.
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number (#5783)
* Forcing Paraview to avoid using git describe to determine its own version number.
* Shortening references to spec in paraview.
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depend on SLEPc (#5755)
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* Add krims to spack
* Add lazyten to spack
* Add description for lazyten
* Changes suggested by @davydden and @junghans
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1.64 had issues serialization (make_array and others) when built with
+mpi+python. It appears that those issues are fixed in 1.65.1
so we can remove preferred tag from 1.63.
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This reverts commit 6c3184820aa1052016d92f7ff0419b8085d8ad14.
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