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2018-08-06libstdc++ detection uses os.path.realpath instead of os.readlink (#8865)Paul Chelarescu1-1/+1
2018-08-06Remove default variant bug from list of known issues (#8900)Adam J. Stewart1-32/+0
2018-08-06Docstring typo: builing -> building (#8896)George Hartzell1-1/+1
2018-08-04revert cd9691de5 (#4692) while we work on a fix.Todd Gamblin4-330/+158
2018-08-03spack spec: no extra newline with --yaml; error with no specsTodd Gamblin2-1/+16
- `spack spec` now returns an error if given no specs - removed superfluous trailing newline from `spack spec --yaml` output (only one newline now)
2018-08-03Add spack arch --operating-system and --target flagsAdam J. Stewart3-6/+40
2018-08-02libdwarf: remove use of hide_files()Todd Gamblin1-13/+0
- 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.
2018-08-01cc: package search paths come before dependency paths (#4692)becker334-158/+330
Spack currently prepends include paths, library paths, and rpaths to the compile line. This causes problems when a header or library in the package has the same name as one exported by one of its dependencies. The *dependency's* header will be preferred over the package's, which is not what most builds expect. This also breaks some of our production codes. This restores the original cc behavior (from *very* early Spack) of parsing compiler arguments out by type (`-L`, `-I`, `-Wl,-rpath`) and reconstituting the full command at the end. `<includes> <other_args> <library dirs> <rpaths>` This differs from the original behavior in one significant way, though: it *appends* the library arguments so that dependency libraries do not shadow those in the build. This is safe because semantics aren't affected by *interleaving* `-I`, `-L`, and `-Wl,-rpath` arguments with others, only with each other (so the order fo two `-L` args affects the search path, but we search for all libraries on the command line using the same search path). We preserve the following: 1. Any system directory in the paths will be listed last. 2. The root package's include/library/RPATH flags come before flags of the same type for any dependency. 3. Order will be preserved within flags passed by the build (except system paths, which are moved to be last) 4. Flags for dependencies will appear between the root flags and the system flags, and the flags for any dependency will come before those for *its* dependencies (this is for completeness -- we already guarantee this in `build_environment.py`)
2018-08-01docs: minor text changes (#8858)Holly3-13/+13
2018-08-01lmod: fix use of custom separator in prepend_path etc. (#8737)Stephen Herbein2-0/+19
fixes #8736
2018-07-31docs: update `spack view` argument synatx (#8839)Stephen Herbein1-2/+2
The `--dependencies` and `--exclude` flags are now arguments to the `spack view` comand rather than the `spack view symlink` command.
2018-07-29spec: `Spec.tree()` merges deptypes when only covering nodes (#8821)Todd Gamblin2-8/+56
- previously, output could be confusing when deptypes were only shown for one dependent when a node had *multiple* dependents - also fix default coverage of `Spec.tree()`: it previously defaulted to cover only build and link dependencies, but this is a holdover from when those were the only types.
2018-07-27Fixed a typo in the docs (the docker image to pull was wrong) (#8814)Massimiliano Culpo1-1/+1
2018-07-25Add docs on new top-level VCS attributesAdam J. Stewart1-108/+181
2018-07-25tests: convert mirror test to pytest with free functions.Todd Gamblin1-44/+47
2018-07-25tests: add checks and tests for consistent version() argumentsTodd Gamblin3-2/+60
- Previously, Spack didn't check the arguments you put in version() directives. - So, you could do something like this, where there are arguments for a URL fetcher AND for a git fetcher: version('1.0', md5='abc123', git='https://foo.bar', commit='feda2343') - Now, we check the arguments before constructing a fetcher, to ensure that each package has *only* arguments for a single type of fetcher. - Also added `test_package_version_consistency()` to the `package_sanity` test, so that all builtin packages are required to have valid `version()` directives.
2018-07-25tests: correct name of `check_db` to `check_repo`Todd Gamblin1-7/+6
- this test is checking the package *repository*, not the database.
2018-07-25core: differentiate package-level fetch URLs by args to `version()`Todd Gamblin2-84/+186
- packagers can specify two top-level fetch URLs if one is `url` - e.g., `url` and `git` or `url` and `svn` - allow only one VCS fetcher so we can differentiate between URL and VCS. - also clean up fetcher logic and class structure
2018-07-25core: add check for conflicting top-level fetch attributes in packagesTodd Gamblin4-6/+35
- ensure that packages can't have more than one of git, hg, svn, or url
2018-07-25style: clean up exception definitions in package.pyTodd Gamblin1-7/+2
2018-07-25core: fixes and tests for handling of fetcher attributes in packagesTodd Gamblin3-40/+174
- Packages can remove the top-level `url` attribute and still work - These are now legal: - Packages with *only* version-specific URLs (even with gaps) - Packages with a top-level git/hg/svn attribute and `version` directives for that. - If a package has both a top-level hg/git/svn attribute AND a top-level url attribute, the url attribute takes precedence.
2018-07-25core: quick fix for packages without URLsAdam J. Stewart1-11/+0
Some packages do not have a `url` and are instead downloaded via `git`, `hg`, or `svn`. Some packages like `spectrum-mpi` cannot be downloaded at all, and are placeholder packages for system installations. Previously, `__init__()` in `PackageBase` crashed if a package did not have a `url` attribute defined. I hacked this section of code out, but I have no idea what the repercussions of that are.
2018-07-24Fix order of regexes reported by spack url summaryAdam J. Stewart1-2/+2
2018-07-24core: make `spack.util.crypto` initialization less expensive.Todd Gamblin2-38/+54
- This hard-codes the hash lengths rather than computing them on import. - Also cleans up the code in `spack.util.crypto` to make it easier to understand.
2018-07-24bugfix: `spack module -m` error message (#8794)Todd Gamblin1-3/+2
Fix this output error: ``` $ spack -m module loads mpileaks ==> Error: `spack module loads -m t -m c -m l ...` has been moved. Try this instead: $ spack module t loads mpileaks $ spack module c loads mpileaks $ spack module l loads mpileaks ```
2018-07-24Die with a meaningful error if a deprecated command is usedMassimiliano Culpo2-3/+57
In case a deprecated form of the module command is used, the program will exit non-zero and print an informative error message suggesting which command should be used instead.
2018-07-24Grouped all the module commands under `spack module`Massimiliano Culpo13-390/+266
As requested in the review all the commands meant to manage module files have been grouped under the `spack module` command. Unit tests have been refactored to match the new command structure.
2018-07-24module file tutorial: rebuilt docker image and updated the scriptMassimiliano Culpo1-170/+216
2018-07-24Added --dependencies to the help text of spack loadMassimiliano Culpo2-3/+5
fixes #6321
2018-07-24spack load exits with 1 if module does not exist or is not installedMassimiliano Culpo2-7/+68
fixes #2215 fixes #2570 fixes #6676 fixes #7281 closes #3827 This PR reverts the use of `spack module loads` in favor of `spack module find` when loading module files via Spack. After this PR `spack load` will accept a single spec at a time, and will be able to interpret correctly the `--dependencies` option.
2018-07-24Added blacklisting of implicit modules in docs + regression testsMassimiliano Culpo5-1/+52
fixes #4400 The feature requested in #4400 was already part of the module file configuration, but it was neither tested nor documented. This commit takes care of adding a few lines in the documentation and a regression test.
2018-07-24Renamed 'patch_configuration' fixture to 'module_configuration'Massimiliano Culpo5-78/+79
This just because the fixture has been moved one level above the one it was originally defined. In this more general context there's more than one configuration file that could be patched for tests.
2018-07-24Added a unit test for 'spack lmod setdefault'Massimiliano Culpo4-12/+101
2018-07-24Updated references to `spack module` in the documentation.Massimiliano Culpo5-55/+46
2018-07-24Added 'setdefault' subcommand to 'spack lmod'Massimiliano Culpo2-12/+38
Added a subcommand that sets the default module to be loaded, if multiple installations of the same package are present.
2018-07-24Split 'spack module' into multiple commandsMassimiliano Culpo10-194/+413
'spack module' has been split into multiple commands, each one tied to a specific module type. This permits the specialization of the new commands with features that are module type specific (e.g. set the default module file in lmod when multiple versions of the same package are installed at the same time).
2018-07-24bugfix: fix spack spec --yamlTodd Gamblin3-1/+58
- repo membership test was broken by the refactor of spack/__init__.py - refactor singleton so that 'spec in repo' works again for `spack.repo.path` - fix spec command and add basic tests for `spack spec` and `spack spec --yaml`
2018-07-23docs: update old docs for `spack.package.PackageBase`Todd Gamblin1-205/+37
- There was a lot of documentation in `PackageBase` dating back to the very first versions of Spack. - It was repetitive and out of date, and the docs at spack.readthedocs.io are better. - Remove the outdated specifics, and leave the minimal useful set of developer docs in `package.py`.
2018-07-23core: use sha256 instead of md5 for `spack checksum` and `spack create`Todd Gamblin5-36/+95
- This changes `get_checksums_for_versions` to generate code that uses an explicit `sha256` argument instead if the bare `md5` hash we used to generate. - also use a generic digest parameter for the `version` directive, rather than a specific `md5` parameter.
2018-07-21bugfix: stage test no longer modifies ~/.spack/config.yamlTodd Gamblin1-2/+2
- two stage tests weren't properly using the mutable_config fixture. - this caused running `spack test` to modify the user's config.yaml
2018-07-21docs: doucment `spack config blame`Todd Gamblin1-4/+59
2018-07-21docs: updates to `spack config get` docs for command-line scopesTodd Gamblin1-21/+73
2018-07-21docs: command-line scopesElizabeth Fischer1-3/+111
Co-authored-by: Todd Gamblin <tgamblin@llnl.gov>
2018-07-21config: allow user to add configuration scopes on the command line.Elizabeth Fischer4-72/+194
- Add command-line scope option to Spack - Rework structure of main to allow configuration system to raise errors more naturally Co-authored-by: Todd Gamblin <tgamblin@llnl.gov>
2018-07-21locks: fix bug when creating lockfiles in the current directory.Todd Gamblin2-0/+25
- Fixes a bug in `llnl.util.lock` - Locks in the current directory would fail because the parent directory was the empty string. - Fix this and return '.' for the parent of locks in the current directory.
2018-07-19style: make core comply with pep8-namingTodd Gamblin30-94/+93
2018-07-19add py-pep8-naming packageTodd Gamblin1-5/+10
2018-07-18Better Makefile target detection (#8223)Adam J. Stewart1-21/+46
Replace regex-based target detection for Makefiles with a preliminary "make -q" to check if a target exists. This does not work for NetBSD make; additional work is required to detect if NetBSD make is present and to use a regex in that case. The affected makefile target checks are only performed when the "--test" flag is added to a "spack install" invocation.
2018-07-17shell: fixed a typo in spack --print-shell-vars (#8732)Massimiliano Culpo2-6/+6
2018-07-17Packages must be added to DB to be considered installed (#8038)Massimiliano Culpo3-6/+63
Fixes #8036 Before this PR Package.installed was returning True if the spec prefix existed, without checking the DB. This is wrong for external packages, whose prefix exists before being registered into the DB. Now the property checks for both the prefix and a DB entry.