Commit graph

4302 commits

Author SHA1 Message Date
Todd Gamblin
3637b611a7 concretizer: move dump logic into solver.asp
- moving the dump logic into spack.solver.asp.solve() allows us to print
  out useful debug info sooner

- prior approach required a successful solve to print out anyhting.
2020-11-17 10:04:13 -08:00
Todd Gamblin
81e187e410 concretizer: first rudimentary round-trip with asp-based solver 2020-11-17 10:04:13 -08:00
Todd Gamblin
c7812f7e10 concretizer: add rudimentary variants with defaults to ASP solve 2020-11-17 10:04:13 -08:00
Todd Gamblin
a8a6d943d6 concretizer: beginnings of solve() command
- `spack solve` command outputs a really basic ASP program that handles
  unconditional dependencies, architecture and versions

- doesn't yet handle conflicts, picking latest versions, preferred
  versions, compilers, etc.

- doesn't handle variants
2020-11-17 10:04:13 -08:00
Todd Gamblin
5b725a37bc repo: Add all_package_classes() method.
- We were able to get names and instances previously
- Add a convenience function to get package classes
2020-11-17 10:04:13 -08:00
Robert Underwood
f359664493
include share/pkgconfig in user environments (#19909)
According to the documentation for spack and pkg-config,
$view/share/pkgconfig should also be a valid place to look
for package config files.  This commit ensures that when
spack activate env $dir is called, the environment has this
directory in PKG_CONFIG_PATH.
2020-11-17 11:10:28 -06:00
Tamara Dahlgren
6fa6af1070
Support parallel environment builds (#18131)
As of #13100, Spack installs the dependencies of a _single_ spec in parallel.
Environments, when installed, can only get parallelism from each individual
spec, as they're installed in order.  This PR makes entire environments build
in parallel by extending Spack's package installer to accept multiple root
specs.  The install command and Environment class have been updated to use
the new parallel install method.

The specs and kwargs for each *uninstalled* package (when not force-replacing
installations) of an environment are collected, passed to the `PackageInstaller`,
and processed using a single build queue.

This introduces a `BuildRequest` class to track install arguments, and it
significantly cleans up the code used to track package ids during installation.
Package ids in the build queue are now just DAG hashes as you would expect,

Other tasks:

- [x] Finish updating the unit tests based on `PackageInstaller`'s use of
      `BuildRequest` and the associated changes
- [x] Change `environment.py`'s `install_all` to use the `PackageInstaller` directly
- [x] Change the `install` command to leverage the new installation process for multiple specs
- [x] Change install output messages for external packages, e.g.:
       `[+] /usr` -> `[+] /usr (external bzip2-1.0.8-<dag-hash>`
- [x] Fix incomplete environment install's view setup/update and not confirming all 
       packages are installed (?)
- [x] Ensure externally installed package dependencies are properly accounted for in 
       remaining build tasks
- [x] Add tests for coverage (if insufficient and can identity the appropriate, uncovered non-comment lines)
- [x] Add documentation
- [x] Resolve multi-compiler environment install issues
- [x] Fix issue with environment installation reporting (restore CDash/JUnit reports)
2020-11-17 02:41:07 -08:00
Wouter Deconinck
423e80af23
spack edit: accept readonly packages (#19949) 2020-11-16 17:14:46 -08:00
Scott Wittenburg
ef0a555ca2
pipelines: support testing PRs from forks (#19248)
This change makes improvements to the `spack ci rebuild` command
which supports running gitlab pipelines on PRs from forks.  Much
of this has to do with making sure we can run without the secrets
previously required for running gitlab pipelines (e.g signing key,
aws credentials, etc).  Specific improvements in this PR:

Check if spack has precisely one signing key, and use that information
as an additional constraint on whether or not we should attempt to sign
the binary package we create.

Also, if spack does not have at least one public key, add the install
option "--no-check-signature"

If we are running a pipeline without any profile or environment
variables allowing us to push to S3, the pipeline could still
successfully create a buildcache in the artifacts and move on.  So
just print a message and move on if pushing either the buildcache
entry or cdash id file to the remote mirror fails.

When we attempt to generate a pacakge or gpg key index on an S3
mirror, and there is nothing to index, just print a warning and
exit gracefully rather than throw an exception.

Support the use of PR-specific mirrors for temporary binary pkg
storage.  This will allow quality-of-life improvement for developers,
providing a place to store binaries over the lifetime of a PR, so
that they must only wait for packages to rebuild from source when
they push a new commit that causes it to be necessary.

Replace two-pass install with a single pass and the new option:
 --require-full-hash-match.  Doing this also removes the need to
save a copy of the spack.yaml to be copied over the one spack
rewrites in between the two spack install passes.

Work around a mirror configuration issue caused by using
spack.util.executable to do the package installation.

* Update pipeline trigger jobs for PRs from forks

Moving to PRs from forks relies on external synchronization script
pushing special branch names.  Also secrets will only live on the
spack mirror project, and must be propagated to the E4S project via
variables on the trigger jobs.

When this change is merged, pipelines will not run until we update
the "Custom CI configuration path" in the Gitlab CI Settings, as the
name of the file has changed to better reflect its purpose.

* Arg to MirrorCollection is used exclusively, so add main remote mirror to it

* Compute full hash less frequently

* Add tests covering index generation error handling code
2020-11-16 15:16:24 -08:00
Adam J. Stewart
3536433c41
macOS: Big Sur reports as either 10.16 or 11.0 (#19900) 2020-11-15 11:54:39 -06:00
Greg Becker
fafff0c6c0
move sbang to unpadded install tree root (#19640)
Since #11598 sbang has been installed within the install_tree. This doesn’t play
nicely with install_tree padding, since sbang can’t do its job if it is installed in a
long path (this is the whole point of sbang).

This PR changes the padding specification.  Instead of $padding inside paths,
we now have a separate `padding:` field in the `install_tree` configuration.

Previously, the `install_tree` looked like this:

```
    /path/to/opt/spack_padding_padding_padding_padding_padding/
        bin/
            sbang
        .spack-db/
            ...
        linux-rhel7-x86_64/
            ...
```

```
This PR updates things to look like this:

    /path/to/opt/
        bin/
            sbang
        spack_padding_padding_padding_padding_padding/
            .spack-db/
                ...
            linux-rhel7-x86_64/
                ...

So padding is added at the start of all install prefixes *within* the unpadded
root.  The database and all installations still go under the padded root.

This ensures that `sbang` is in the shorted possible path while also allowing
us to make long paths for relocatable binaries.
2020-11-12 16:08:55 -08:00
Peter Scheibel
32bfe0a001
Testing: ensure that all packages can be pickled (#19890)
As of #18205, all packages must be pickle-able to be installed by
Spack.

This adds a test to check that each package can be pickled. If any
package fails to pickle, the test keeps going and collects the names
of all failed packages; it then takes the first one that failed and
attempts to re-pickle it, generating the full stack trace for the
failed pickle attempt.
2020-11-12 15:55:34 -08:00
Adam J. Stewart
02281a891d
MavenPackage: allow additional build args (#19676) 2020-11-12 12:57:49 -08:00
Peter Scheibel
bb42470211
macos: update build process to use spawn instead of fork (#18205)
Spack creates a separate process to do package installation. Different
operating systems and Python versions use different methods to create
it but up until Python 3.8 both Linux and Mac OS used "fork" (which
duplicates process memory, file descriptor table, etc.).

Python >= 3.8 on Mac OS prefers creating an entirely new process
(referred to as the "spawn" start method) because "fork" was found to
cause issues (in other words "spawn" is the default start method used
by multiprocessing.Process). Spack was dependent on the particular
behavior of fork to replicate process memory and transmit file
descriptors.

This PR refactors the Spack internals to support starting a child
process with the "spawn" method. To achieve this, it makes the
following changes:

- ensure that the package repository and other global state are
  transmitted to the child process
- ensure that file descriptors are transmitted to the child process in
  a way that works with multiprocessing and spawn
- make all the state needed for the build process and tests picklable
  (package, stage, etc.)
- move a number of locally-defined functions into global scope so that
  they can be pickled
- rework tests where needed to avoid using local functions

This PR also reworks sbang tests to work on macOS, where temporary
directories are deeper than the Linux sbang limit. We make the limit
platform-dependent (macOS supports 512-character shebangs)

See: #14102
2020-11-12 12:26:23 -08:00
Scott Wittenburg
fbbd71d3d7
Pipelines: Compare target family instead of architecture (#19884)
In compiler bootstrapping pipelines, we add an artificial dependency
between jobs for packages to be built with a bootstrapped compiler
and the job building the compiler.  To find the right bootstrapped
compiler for each spec, we compared not only the compiler spec to
that required by the package spec, but also the architectures of
the compiler and package spec.

But this prevented us from finding the bootstrapped compiler for a
spec in cases where the architecture of the compiler wasn't exactly
the same as the spec.  For example, a gcc@4.8.5 might have 
bootstrapped a compiler with haswell as the architecture, while the 
spec had broadwell.  By comparing the families instead of the architecture
 itself, we know that we can build the zlib for broadwell with the gcc for 
haswell.
2020-11-12 10:46:15 -08:00
Greg Becker
527a81b469
Keep output machine readable using spack find --format in an env (#19698)
Currently, full JSON output is the only machine readable option for `spack find`
in an environment.

`spack find --format` is also designed to be machine readable, but we print extra
headers in environments.

-[x] don't print headers in `spack find` output when in an environment
2020-11-11 22:13:51 -08:00
Satish Balay
33469414a5
fix typo wrt target=graviton (#19865)
* fix typo wrt target=graviton

This fixes spack build on aarch64 box

* update archspec hash
2020-11-11 19:29:13 -06:00
Massimiliano Culpo
e80276cd14
spack env deactivate/spack unload: demote warning message to debug message (#19864) 2020-11-11 12:02:03 -08:00
Adam J. Stewart
d1ca322aef
Restore spack checksum verbosity (#19480) 2020-11-11 11:26:17 -06:00
Peter Scheibel
9d5f4f9c6f
Binary caching: fix buildcache list (multiple invocations) (#19848)
When invoking "buildcache list" multiple times, the command was
reporting no specs in the cache the second time around. The
presence of an up-to-date index was causing the internal
representation to be left un-initialized.
2020-11-10 23:24:18 -08:00
Greg Becker
0183a51c6c
tutorial cmd: fix gpg invocation (#19829) 2020-11-09 21:09:36 -08:00
Adam J. Stewart
228a4d353c
Fix minor typo in function comment (#19804) 2020-11-09 20:25:45 -05:00
Emir İşman
98e709da3b
[docs] getting_started.rst: fix typo (#19815) 2020-11-09 16:31:53 -06:00
Todd Gamblin
4092c90b57
commands: add spack tutorial command (#19808)
Added a command to set up Spack for our tutorial at
https://spack-tutorial.readthedocs.io.

The command does some common operations we need first-time users to do.
Specifically:

- checks out a particular branch of Spack
- deletes spurious configuration in `~/.spack` that might be
  left over from prior parts of the tutorial
- adds a mirror and trusts its public key
2020-11-09 12:47:08 +01:00
Greg Becker
8b96e10ecc
Remove hardcoded version numbers from container logic (#19716)
Previously, we hardcoded a list of Spack versions which could be used by the containerize command.

This PR removes that list. It's a maintenance burden when cutting a release, and prevents older versions of Spack from creating containers to be used by newer versions.
2020-11-05 18:59:44 +01:00
Tamara Dahlgren
619eb6c08b
bug fix: Display error when curl is missing even in non-debug mode (#19695) 2020-11-04 15:47:08 -08:00
Shahzeb Siddiqui
75e73d7fcc
documentation: fix formatting of code-block section (#19693) 2020-11-03 12:15:46 +01:00
Todd Gamblin
ecc3bfd484
Bugfix - hashing: don't recompute full_hash or build_hash (#19672)
There was an error introduced in #19209 where `full_hash()` and
`build_hash()` are called on older specs that we've read in from the DB;
older specs may not be able to compute these hashes (e.g. if they have
removed patches used in computing the full_hash).

When serializing a Spec, we want to generate the full/build hash when
possible, but we need a mechanism to skip it for Specs that have
themselves been read from YAML (and may not support this).

To get around this ambiguity and to fix the issue, we:

- Add an attribute to the spec called `_hashes_final`, that is `True`
  if we can't lazily compute `build_hash` and `full_hash`.
- Set `_hashes_final` to `False` for new specs (i.e., lazily
  computing hashes is ok)
- Set `_hashes_final` to `True` for concrete specs read in via
  `from_node_dict`, as it may be too late to recompute hashes.
- Compute and write out all hashes in `node_dict_with_hashes` *if
  possible*.

Effectively what this means is that we can round-trip specs that are
missing `_build_hash` and `_full_hash` without recomputing them, but for
all new specs, we'll compute them and store them. So Spack should work
fine with old DBs now.
2020-11-02 13:21:11 -08:00
Todd Gamblin
a80d221bfa sbang: fixes for sbang relocation
This fixes sbang relocation when using old binary packages, and updates
code in `relocate.py`.

There are really two places where we would want to handle an `sbang`
relocation:

1. Installing an old package that uses `sbang` with shebang lines like
   `#!/bin/bash $spack_prefix/sbang`
2. Installing a *new* package that uses `sbang` with shebang lines like
   `#!/bin/sh $install_tree/sbang`

The second case is actually handled automatically by our text relocation;
we don't need any special relocation logic for new shebangs, as our
relocation logic already changes references to the build-time
`install_tree` to point to the `install_tree` at intall-time.

Case 1 was not properly handled -- we would not take an old binary
package and point its shebangs at the new `sbang` location. This PR fixes
that and updates the code in `relocation.py` with some notes.

There is one more case we don't currently handle: if a binary package is
created from an installation in a short prefix that does *not* need
`sbang` and is installed to a long prefix that *does* need `sbang`, we
won't do anything. We should just patch the file as we would for a normal
install. In some upcoming PR we should probably change *all* `sbang`
relocation logic to be idempotent and to apply to any sort of shebang'd
file. Then we'd only have to worry about which files to `sbang`-ify at
install time and wouldn't need to care about these special cases.
2020-11-01 16:23:48 -08:00
Massimiliano Culpo
c4aa5cb5bc
Update documentation on containers (#19631)
fixes #15183

- Moved the container related content from
  workflows.rst into containers.rst
- Deleted the docker_for_developers.rst file,
  since it describes an outdated procedure

Co-authored-by: Axel Huebl <a.huebl@hzdr.de>
Co-authored-by: Omar Padron <omar.padron@kitware.com>
2020-10-30 21:17:15 +01:00
Massimiliano Culpo
33c3c3c700
Config: cache results of get_config (#19605)
`config.get_config` now caches the results and returns the same
configuration if called multiple times with the same arguments
(i.e. the same section and scope).

As a consequence, it is expected that users will always call
update methods provided in the `config` module after changing
the configuration (even if manipulating it as a Python nested
dictionary). The following two examples should cover most
scenarios:

* Most configuration update logic in the core (e.g. relating to
  adding new compiler) should call `Configuration.update_config`
* Tests that need to change the global configuration should use the
  newly-provided `config.replace_config` function.

(if neither of these methods apply, then the essential requirement
is to use a method marked as `_config_mutator`)

Failure to call such a function after modifying the configuration
will lead to unexpected results (e.g. calling `get_config` after
changing the configuration will not reflect the changes since the
first call to get_config).
2020-10-30 13:10:45 -07:00
Massimiliano Culpo
458d88eaad
Make archspec a vendored dependency (#19600)
- Added archspec to the list of vendored dependencies
- Removed every reference to llnl.util.cpu
- Removed tests from Spack code base
2020-10-30 13:02:14 -07:00
Scott Wittenburg
31f57e56bb
Binary caching: use full hashes (#19209)
* "spack install" now has a "--require-full-hash-match" option, which
  forces Spack to skip an available binary package when the full hash
  doesn't match. Normally only a DAG-hash match is required, which
  ensures equivalent Specs, but does not account for changing logic
  inside the associated package.
* Add a local binary cache index which tracks specs that have a binary
  install available in a remote binary cache. It is updated with
  "spack buildcache list" or for a given spec when a binary package
  is retrieved for that Spec.
2020-10-30 12:53:33 -07:00
Peter Scheibel
3a863020f0
CI: disable vermin check for deprecated hash (#19612)
Spack has a fallback for hash checking with m55sums that may not be
supported in earlier versions of Python 3.x. The comments in the
Spack code acknowledge that this is best effort and may fail, but
recent vermin checks (running as part of our CI) reject this. This
disables vermin checks for that fallback.
2020-10-29 22:23:36 -07:00
Frank Willmore
c954d50998
Oneapi add compiler (#19330)
* enable flatcc to be built with gcc/9.X.X

* add static option for building libyogrt

* cleanup

* Initial working version

* rework new oneapi wrappers

* tested and removed my initials from source

* cleanup

* Update __init__.py

* remove whitespace

* working now with mods for testing, detection. Detection for oneapi is working, but entry needs to be modified to add link path for libimf.so. Cleared cruft for old Intel versions

* fixed some formatting

* cleanup

* flake8 cleanup

* flake8

* fixed syntax of compiler version detection tests

* fixed syntax of compiler version detection tests

	modified:   detection.py

* fix typo

* fixes for compilers tests

* remove erroneous tests for outdated -std= flags, remove ifx version check (output won't parse)

Co-authored-by: Frank Willmore <willmore@anl.gov>
2020-10-29 16:52:54 -05:00
Todd Gamblin
aebf20ebdc sbang: vendor sbang
`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`
2020-10-28 17:43:23 -07:00
Todd Gamblin
ec9456feb8 sbang: convert sbang script to POSIX shell
`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`
2020-10-27 13:59:46 -07:00
Toyohisa Kameyama
bb00b1a7c9
sbang: add support for php (#18299)
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>
2020-10-26 22:11:43 -07:00
Patrick Gartung
1c2c30a139
sbang: put sbang in the install_tree (#11598)
`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>
2020-10-26 12:37:54 -07:00
Todd Gamblin
fd6c163e02
bugfix: test_push_and_fetch_keys should be skipped w/o gpg (#19511)
- [x] add a `@pytest.skipif` decorator
2020-10-26 07:24:49 -07:00
Todd Gamblin
01953dc513
bugfix: fix config merge order for OrderdDicts (#18482)
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/
```
2020-10-24 16:48:04 -07:00
Todd Gamblin
2893c23e7c
docs: update docs on shell support and using packages (#19486)
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>
2020-10-23 22:16:01 -07:00
Todd Gamblin
560beb098e
csh: don't require SPACK_ROOT for sourcing setup-env.csh (#18225)
Don't require SPACK_ROOT for sourcing setup-env.csh and make output more consistent
2020-10-23 18:54:34 -07:00
Massimiliano Culpo
4ec404dfc0
Add scratch module roots to test configuration (#19477)
fixes #19476

Module file content is written to file in a
temporary location and read back to be analyzed
by unit tests.

The approach to patch "open" and write to a
StringIO in memory has been abandoned, since
over time other operations insisting on the
filesystem have been added to the module file
generator.
2020-10-22 13:59:39 -07:00
Todd Gamblin
8060cca494
tests: increase tolerance of termios tests (#19456)
Synchronization on GitHub macOS runners seems to be very slow, and
frequently the foreground/background tests fail due to the race this
causes. This increases the tolerance for slowness a bit more, to allow up
to 4 spurious output lines in the tests.

This should hopefully result in no more false negatives on these tests
for macOS on GitHub.
2020-10-21 18:12:48 -07:00
Tamara Dahlgren
e78764caa1
Added _poll_lock exception tests (#19446) 2020-10-21 17:32:04 -07:00
iarspider
399ca3b671
Add qgraf (#19404)
* Add recipe for qgraf

* Revert "Add recipe for qgraf"

This reverts commit 76783f73867a32b4a96e980e31a433ed3c0037fd.

* Add qgraf

* Update package.py

Changes from review

* Changes from MR

* Fix for URLs containing @ symbol

Co-authored-by: Ivan Razumov <ivan.razumov@cern.ch>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-10-21 19:16:11 -05:00
Massimiliano Culpo
c696518efd
Skip malformed spec strings when searching for externals (#19438)
fixes #19266

fzf search method has also been updated

Co-authored-by: Tom Scogland <tom.scogland@gmail.com>
2020-10-21 21:35:02 +02:00
Omri Mor
1147220b9b
CMakePackage: added 'ipo' variant (#18374)
+ipo sets CMAKE_INTERPROCEDURAL_OPTIMIZATION=ON
The option is not supported for CMake < 3.9
2020-10-21 11:09:45 +02:00
Massimiliano Culpo
bed929e7a9
Make url_fetch test independent of locale settings (#19390) 2020-10-21 09:18:50 +02:00
Greg Becker
a5faf7d27a
Change 'any' to wildcard for variants (#19381) 2020-10-21 08:05:29 +02:00
Massimiliano Culpo
a51702e3a2
py-archspec: added new package at v0.1.1 (#19395) 2020-10-20 18:40:31 +02:00
GaneshPrasadMA
0253f0af29
Adding AOCC compiler to SPACK community (#19345)
* Adding AOCC compiler to SPACK community

The AOCC compiler system offers a high level of advanced optimizations, multi-threading and processor support that includes global optimization, vectorization, inter-procedural analyses, loop transformations, and code generation. AMD also provides highly optimized libraries, which extract the optimal performance from each x86 processor core when utilized. The AOCC Compiler Suite simplifies and accelerates development and tuning for x86 applications.

* Added unit tests for detection and flags for AOCC

* Addressed reviewers comments w.r.t version checks and url,checksum related line lengths

Co-authored-by: Test User <spack@example.com>
2020-10-20 10:50:09 -05:00
Greg Becker
bf47045302
Fix python scripts relying on external python in env (#19241) 2020-10-20 10:09:13 +02:00
Scott Wittenburg
f561d3845b
Fix "buildcache update-index --keys ..." when mirror is S3 (#19141) 2020-10-19 15:24:41 -06:00
Sergey Kosukhin
fd7bfb1a50
filter_compiler_wrappers: a fix for NAG (#17133) 2020-10-18 23:18:18 -05:00
elsagermann
4750d479a0
Add testing option to dev-build command (#17293)
* ADD: testing to dev-build command

* RM: mutally exclusive group for testing in parser

* FIX: test option to subparser and not testing

* ADD: spack-completion.bash

* RM: local devbuildcosmo cmd

* FIX: bad merge --drop-in -b --before options forgotten

* FIX: --test place in spack-completion.bash

* FIX: typo

* FIX: blank line removing

* FIX: trailing white space

Co-authored-by: Elsa Germann <egermann@tsa-ln002.cm.cluster>
2020-10-18 23:17:07 -05:00
Wouter Deconinck
9471e9cb03
[docs] Pkg list: current version, not latest release (#18213)
The package list at https://spack.readthedocs.io/en/latest/package_list.html claims "it is automatically generated based on the packages in the latest Spack release" but it is actually based on the develop branch. This leads to confusion when users find that e.g. herwigpp is included in the list, but it cannot be found when they install the latest release. That latest release has a package list at https://spack.readthedocs.io/en/stable/package_list.html which does indeed not include herwigpp.

Changing the language from "the latest Spack release" to "this Spack version" might make that clearer. Maybe.
2020-10-18 23:11:20 -05:00
Jason Miller
25f817b8ae
Fix for buildcache -o (#19354)
* Fix for buildcache -o

The method has more positional arguments than the caller expects.

* Address length issue.

Fix pylint/flake errors.
2020-10-18 19:40:28 -05:00
Omri Mor
bff0291dac
Spec: fix multiple generator iteration in satisfies_dependencies (#18527) (#18559) 2020-10-17 11:40:31 +02:00
Scott McMillan
a612be1c98
New compiler: nvhpc (NVIDIA HPC SDK) (#19294)
* Add nvhpc compiler definition: "spack compiler add" will now look
  for instances of the NVIDIA HPC SDK compiler executables
  (nvc, nvc++, nvfortran) in supplied paths
* Add the nvhpc package which installs the nvhpc compiler
* Add testing for nvhpc detection and C++-standard/pic flags

Co-authored-by: Scott McMillan <smcmillan@nvidia.com>
2020-10-16 14:04:27 -07:00
iarspider
8c7385096e
spack external find: fix debug output (#19342)
Output was, e.g. `Executables in /bin and /,u,s,r,/,b,i,n are both associated with the same spec xz@5.2.2`, will be `Executables in /bin and /usr/bin are both associated with the same spec xz@5.2.2`.
2020-10-16 16:46:41 +02:00
Toyohisa Kameyama
a481087695
autotools: recursively patch config.guess and config.sub (#18347)
Previously config.guess and config.sub were patched only
in the root of the source path. 

This modification extend the previous behavior to patch every
config.guess or config.sub file even in subfolders, if need be.

Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2020-10-16 11:30:06 +02:00
Greg Becker
7a6268593c
Environments: specify packages for developer builds (#15256)
* allow environments to specify dev-build packages

* spack develop and spack undevelop commands

* never pull dev-build packges from bincache

* reinstall dev_specs when code has changed; reinstall dependents too

* preserve dev info paths and versions in concretization as special variant

* move install overwrite transaction into installer

* move dev-build argument handling to package.do_install

now that specs are dev-aware, package.do_install can add
necessary args (keep_stage=True, use_cache=False) to dev
builds. This simplifies driving logic in cmd and env._install

* allow 'any' as wildcard for variants

* spec: allow anonymous dependencies

raise an error when constraining by or normalizing an anonymous dep
refactor concretize_develop to remove dev_build variant
refactor tests to check for ^dev_path=any instead of +dev_build

* fix variant class hierarchy
2020-10-15 17:23:16 -07:00
Tomoki, Karatsu
72f431b67b
autotools.py: fix the list of objects to be removed from libtool (Fujitsu). (#19303) 2020-10-14 19:01:49 +02:00
Massimiliano Culpo
b84812256d
autotools: add attribute to delete libtool archives .la files (#18850)
* autotools: add attribute to delete libtool archives .la files

According to Autotools Mythbuster (https://autotools.io/libtool/lafiles.html)
libtool archive files are mostly vestigial, but they might create issues
when relocating binary packages as shown in #18694.

For GCC specifically, most distributions remove these files with
explicit commands:

https://git.stg.centos.org/rpms/gcc/blob/master/f/gcc.spec#_1303

Considered all of that, this commit adds an easy way for each
AutotoolsPackage to remove every .la file that has been installed.
The default, for the time being, is to maintain them - to be consistent
with what Spack was doing previously.

* autotools: delete libtool archive files by default

Following review this commit changes the default for
libtool archive files deletion and adds test to verify
the behavior.
2020-10-13 09:15:48 -07:00
Massimiliano Culpo
2399c2e78d
autotools: refactor search paths for aclocal in its own method (#19258)
This commit refactors the computation of the search path
for aclocal in its own method, so that it's easier to reuse
for packages that need to have a custom autoreconf phase.

Co-authored-by: Toyohisa Kameyama <kameyama@riken.jp>
2020-10-12 16:35:52 +02:00
Tomoki, Karatsu
db16f3e0d4
autotools.py: removed some options from libtool only for Fujitsu. (#19217) 2020-10-12 14:42:49 +02:00
Adam J. Stewart
372ac4a073
Add testing for Python 3.9 (#19261) 2020-10-11 21:16:00 -07:00
Adam J. Stewart
759e8ee4c2
CUDA: update maintainers (#19262) 2020-10-11 21:11:17 -07:00
谭九鼎
5e9f4dc982
Use https for links (#19244) 2020-10-09 11:24:09 -05:00
Scott Wittenburg
438f80d19e
Revert binary distribution cache manager (#19158)
This reverts #18359 and follow-on PRs intended to address issues with
#18359 because that PR changes the hash of all specs. A future PR will
reintroduce the changes.

* Revert "Fix location in spec.yaml where we look for full_hash (#19132)"
* Revert "Fix fetch of spec.yaml files from buildcache (#19101)"
* Revert "Merge pull request #18359 from scottwittenburg/add-binary-distribution-cache-manager"
2020-10-05 16:02:37 -07:00
Scott Wittenburg
7cfdf61979
Fix location in spec.yaml where we look for full_hash (#19132)
When we attempt to determine whether a remote spec (in a binary mirror)
is up-to-date or needs to be rebuilt, we compare the full_hash stored in
the remote spec.yaml file against the full_hash computed from the local
concrete spec.  Since the full_hash moved into the spec (and is no longer
at the top level of the spec.yaml), we need to look there for it.  This
oversight from #18359 was causing all specs to get rebuilt when the
full_hash wasn't fouhd at the expected location.
2020-10-02 15:37:47 -06:00
Scott Wittenburg
a44135dccf
Update buildcache key index when we update the package index (#19117)
This changes makes sure that when we run the pipeline job that updates
the buildcache package index on the remote mirror, we also update the
key index.  The public keys corresponding to the signing keys used to
sign the package was pushed to the mirror as a part of creating the
buildcache index, so this is just ensuring those keys are reflected
in the key index.

Also, this change makes sure the "spack buildcache update-index"
job runs even when there may have been pipeline failures, since we
would like the index always to reflect the true state of the mirror.
2020-10-02 11:00:42 -06:00
Scott Wittenburg
d3d98075c5
Fix fetch of spec.yaml files from buildcache (#19101)
Since those files currently exist in buildcaches (in S3 buckets) with
potentially different content types, we should be less restrictive in
what content types we accept when attempting to fetch them.  This PR
removes the content type constraint so any file with the matching
name will be found.
2020-10-01 14:32:43 -06:00
Patrick Gartung
a2795519df
Binary caching: avoid duplicate RPATHs, unnecessary updates (#19061)
* Remove duplication of reconstructed RPATHs caused by multiple
  identical entries in prefixes dictionary
* Don't rewrite RPATHs if relative RPATHs are unchanged because the
  directory layout is unchanged
2020-10-01 13:21:02 -07:00
Patrick Gartung
a380ceb139
Buildcache: Need to check the binary is not a Mach-o binary in a linux package or an ELF binary in a macOS package. (#18670)
* Need to check the binary is not a Mach-o binary in a linux package or an ELF binary in a macOS package.

* use sys.platform

* Darwin -> darwin for sys.platform
2020-10-01 12:39:59 -05:00
Scott Wittenburg
075c3e0d92
Merge pull request #18359 from scottwittenburg/add-binary-distribution-cache-manager
Add binary distribution cache manager
2020-09-30 16:37:35 -06:00
Axel Huebl
8edb31e934
CUDA: added v11.1.0 (#19036)
Compiler conflicts have been updated accordingly
2020-09-29 11:38:56 +02:00
David Beckingsale
04771ad9f8
Fixup conflicts for CUDA 11.0.2 and GCC (#19035)
* Fixup conflicts for CUDA 11.0.2 and GCC
* Updates for ppc64le
* Fix missing "or newer"

Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
2020-09-28 18:01:20 -07:00
Tomoki, Karatsu
b76189a2e5
autotools: patch 'libtool' recursively in subdirectories (#18620)
Previous version was doing it only in the root build directory.
2020-09-28 10:53:56 +02:00
Adam J. Stewart
c8ac61979b
Fix usage of builtin file as variable name (#19018) 2020-09-28 07:14:39 +02:00
Omar Padron
2d93154119
Streamline key management for build caches (#17792)
* Rework spack.util.web.list_url()

list_url() now accepts an optional recursive argument (default: False)
for controlling whether to only return files within the prefix url or to
return all files whose path starts with the prefix url.  Allows for the
most effecient implementation for the given prefix url scheme.  For
example, only recursive queries are supported for S3 prefixes, so the
returned list is trimmed down if recursive == False, but the native
search is returned as-is when recursive == True.  Suitable
implementations for each case are also used for file system URLs.

* Switch to using an explicit index for public keys

Switches to maintaining a build cache's keys under build_cache/_pgp.
Within this directory is an index.json file listing all the available
keys and a <fingerprint>.pub file for each such key.

 - Adds spack.binary_distribution.generate_key_index()
   - (re)generates a build cache's key index

 - Modifies spack.binary_distribution.build_tarball()
   - if tarball is signed, automatically pushes the key used for signing
     along with the tarball
   - if regenerate_index == True, automatically (re)generates the build
     cache's key index along with the build cache's package index; as in
     spack.binary_distribution.generate_key_index()

 - Modifies spack.binary_distribution.get_keys()
   - a build cache's key index is now used instead of programmatic
     listing

 - Adds spack.binary_distribution.push_keys()
   - publishes keys from Spack's keyring to a given list of mirrors

 - Adds new spack subcommand: spack gpg publish
   - publishes keys from Spack's keyring to a given list of mirrors

 - Modifies spack.util.gpg.Gpg.signing_keys()
   - Accepts optional positional arguments for filtering the set of keys
     returned

 - Adds spack.util.gpg.Gpg.public_keys()
   - As spack.util.gpg.Gpg.signing_keys(), except public keys are
     returned

 - Modifies spack.util.gpg.Gpg.export_keys()
   - Fixes an issue where GnuPG would prompt for user input if trying to
     overwrite an existing file

 - Modifies spack.util.gpg.Gpg.untrust()
   - Fixes an issue where GnuPG would fail for input that were not key
     fingerprints

 - Modifies spack.util.web.url_exists()
   - Fixes an issue where url_exists() would throw instead of returning
     False

* rework gpg module/fix error with very long GNUPGHOME dir

* add a shim for functools.cached_property

* handle permission denied error in gpg util

* fix tests/make gpgconf optional if no socket dir is available
2020-09-25 12:54:24 -04:00
Greg Becker
f616422fd7
refactor install_tree to use projections format (#18341)
* refactor install_tree to use projections format

* Add update method for config.yaml

* add test for config update config
2020-09-25 11:15:49 -05:00
Greg Becker
5565b6494d
typo (#18845) 2020-09-21 11:54:23 -05:00
Massimiliano Culpo
fcb4dfc307
Ensure variant defaults are parsable from CLI. (#18661)
- Add a unit test to check if there are unparsable defaults
- Fix 'rust' and 'nsimd' variants
2020-09-19 07:54:26 +02:00
Greg Becker
7585b37865
do out of source builds in hashed directories (#18574) 2020-09-18 12:21:13 -07:00
Greg Becker
2e4892c111
env view failures: print underlying error message (#18713) 2020-09-18 10:21:14 -07:00
Scott Wittenburg
28ef5b1204 Do not assume we sit in the directory where the env file lives. 2020-09-14 10:37:42 -06:00
Scott Wittenburg
031490f6aa Remove :<name> interpolation, add SPACK_VERSION variables
Also fix issues with documentation to reflect changes
2020-09-14 10:37:42 -06:00
Scott Wittenburg
bf90cdd6c7 Document pipeline keys which can be global but overridden
Update pipelines documentation to describe how 'tags', 'variables',
'image', 'before_script', 'script', and 'after_script' can be
supplied at the top level, to be used by any of the runner mappings,
and also overridden by any of the runner mappings.

Also show an example of capturing the custom spack SHA at pipeline
generation time, so all jobs are sure to run with the same version
of spack, as a means to illustrate the $env:VARIABLE_NAME syntax.
2020-09-14 10:37:42 -06:00
Scott Wittenburg
d9e0718c9d Allow overridable global runner attributes 2020-09-14 10:37:42 -06:00
Scott Wittenburg
e686f1500e Update pipeline documentation to describe user-provided scripts 2020-09-14 10:37:42 -06:00
Scott Wittenburg
e18612a321 Add test for variable interpolation and scripts 2020-09-14 10:37:42 -06:00
Scott Wittenburg
2386f7582a Support variable interpolation at pipeline generation time 2020-09-14 10:37:42 -06:00
Scott Wittenburg
ace52bd476 Provide your own script, before_script, and after_script 2020-09-14 10:37:42 -06:00
Massimiliano Culpo
4ca7d46e15
Fix a typo in test/concretize.pyi (#18662) 2020-09-14 09:58:14 -05:00
Richarda Butler
8116153f2a
bugfix: include configuration ignoring files with the same basename (#18487)
* Use the config path instead of the basename

* Removing unused variables

Co-authored-by: Greg Becker <becker33@llnl.gov>

* Test
Making sure if there are 2 include config files with the same basename they are both implemented

* Edit test assert

Co-authored-by: Greg Becker <becker33@llnl.gov>
2020-09-11 16:45:36 -07:00
Massimiliano Culpo
8ad2cc2acf
Environments: Avoid inconsistent state on failed write (#18538)
Fixes #18441 

When writing an environment, there are cases where the lock file for
the environment may be removed. In this case there was a period 
between removing the lock file and writing the new manifest file
where an exception could leave the manifest in its old state (in
which case the lock and manifest would be out of sync).

This adds a context manager which is used to restore the prior lock
file state in cases where the manifest file cannot be written.
2020-09-11 10:57:29 -07:00
Rémi Lacroix
fa04ad5d92
tcl module files: fix configuration overriding (#18514)
This is a special case of overriding since each section is being matched with the current spec.

The trailing ':' for sections with override is now removed when parsing the configuration so the special handling for the modules configuration stopped working but it went unnoticed.
2020-09-09 18:05:58 +02:00