Commit graph

16736 commits

Author SHA1 Message Date
vvolkl
46fb456b54
[root] add dataframe cmake option (#17962)
* [root] add dataframe cmake option

@chissg @HadrienG2  @drbenmorgan


This has been a separate cmake option starting v6-19 I believe: 31292b9082
It should default to true -- not sure why, but this recipe sets it to off.

I could add a variant too, but since it has become an integral part of root and doesn't introduce extra dependencies, I'd propose to just set it to true like I do here.

* Update package.py
2020-08-15 10:13:11 -05:00
Massimiliano Culpo
395b478b1b
spack config update (bugfix): packages.yaml with empty attributes (#18057)
Before this PR, packages.yaml files that contained an
empty "paths" or "modules" attribute were not updated
correctly, since the update function was not reporting
them as changed after the update.

This PR fixes that issue and adds a unit test to
avoid regression.
2020-08-14 19:31:55 -07:00
Chuck Atkins
a6a5708c44
pugixml: add version 1.10, add option for shared libs (#18072) 2020-08-14 17:45:30 -07:00
Adam J. Stewart
9ab8521a1c
Python: add spack external find support (#16684) 2020-08-14 16:08:42 +02:00
Adam J. Stewart
512ef506a7
pkgconfig: add spack external find support (#16690) 2020-08-14 16:07:17 +02:00
Adam J. Stewart
c18167d01f
Autoconf: add spack external find support (#16692) 2020-08-14 16:06:26 +02:00
Adam J. Stewart
73fe3ce158
M4: add spack external find support (#16693) 2020-08-14 16:05:30 +02:00
darmac
f901947f69
bmake: fix compilation error and added v20200710 (#17956) 2020-08-14 11:32:06 +02:00
Adam J. Stewart
2430ac5b7c
GDAL: add spack external find support (#18004) 2020-08-14 08:59:34 +02:00
Adam J. Stewart
c27e82f0ac
gmake: add spack external find support (#18009) 2020-08-14 08:58:22 +02:00
Levi Baber
5eea09d43d
nextflow: added v20.07.1 (#18058) 2020-08-14 08:53:16 +02:00
Adam J. Stewart
be046d7341
Bazel: add spack external find support (#18008) 2020-08-14 08:48:49 +02:00
Adam J. Stewart
84a16e62d6
OpenGL: add spack external find support (#18003) 2020-08-14 08:48:11 +02:00
Adam J. Stewart
70419c752d
GMT: add spack external find support (#18007) 2020-08-14 08:44:32 +02:00
Robert Blake
bcae9e354b
Adding external package support for tar. (#18002)
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-08-14 08:43:27 +02:00
Robert Blake
a9b1f22ba1
External package recognition for git. (#18010)
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-08-14 08:42:53 +02:00
Adam J. Stewart
a14648ffd0
external packages: redirect stderr too (#18037) 2020-08-14 08:40:58 +02:00
Greg Sjaardema
8ade93d09d
NETCDF-C: added v4.7.4 (#18051) 2020-08-14 08:25:41 +02:00
Greg Sjaardema
4f14d67537
SEACAS: added v2020-05-12 and v2020-08-13 (#18053) 2020-08-14 08:25:06 +02:00
Jed Brown
fe718afaa5
ceed: fix @3.0.0 dependency on hypre@2.18.2 (#17983)
Co-authored-by: Veselin Dobrev <dobrev1@llnl.gov>
2020-08-14 08:18:58 +02:00
Adam J. Stewart
2dad0e5825
Matplotlib: added v3.3.1 (#18061) 2020-08-14 08:01:37 +02:00
Adam J. Stewart
32710f1f28
py-certifi: add v2020.6.20 (#18060) 2020-08-14 08:00:57 +02:00
Adam J. Stewart
35bba4223f
Bash: add v5.0.18, external package detection (#18062) 2020-08-14 08:00:25 +02:00
Kai Germaschewski
1d152a44fd
fix configure.ac/autotools issue that casues problems on RHEL 7.7 (#17465) 2020-08-13 16:20:05 -07:00
Massimiliano Culpo
31f660bd90
Improve output of the external find command (#18017)
This commit adds output to the "spack external find"
command to inform users of the result of the operation.

It also fixes a bug introduced in #17804 due to the fact
that a function was not updated to conform to the new
packages.yaml format (_get_predefined_externals).
2020-08-13 14:36:58 -07:00
Jim Galarowicz
c0342e4152
Update the change to add gomp compatibity to llvm-openmp. (#17400)
* Update the change to add gomp compatibity to llvm-openmp.

* Update the change to add gomp compatibity to llvm-openmp using append instead of extend.

* Fix flake8 issue.

Co-authored-by: Jim Galarowicz <jgalarowicz@newmexicoconsortium.org>
2020-08-13 15:41:20 -05:00
Alicia Klinvex
8398265638
Add support for pFUnit version 4 (#17683)
* pFUnit: Added support for version 4

pFUnit v4 uses submodules, so we must fetch from the repo rather
than grabbing the tarball (see #11642).

* pFUnit: Added conflicts

pFUnit 4 causes an internal compiler error with gcc 7.2.0, and
several pFUnit versions are incompatible with shared libraries.

* pFUnit: Added conflicts for version 4

Verson 4 uses Fortran 2008 features and cannot be built with gcc
compilers prior to 8.4.

* pFUnit: Fixed conflicts/dependencies as suggested

* pFUnit: Version 4 no longer fetches from git

Checksummable files are fetched instead.

* pFUnit: Simplify major version check

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

* pFUnit: Removed unnecessary patch for v4

The patch is still applied to v3.

* pFUnit: Modified MPI flag for v4

pFUnit v3 and v4 use different CMake flags to enable/disable MPI
support. Also added a conflict for v3 with MPI enabled using
gfortran 10, since newer gfortran is more finicky about datatypes.

* pFUnit: Rearranged mpi logic

* pFUnit: changed m4 to a build dependency

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

* pFUnit: Added URL back

I did not realize it was needed by "spack versions" and
"spack checksum". Thanks @adamjstewart!

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-08-13 15:35:00 -05:00
Ganesh Kumar
3dfd99c57a
AMD ROCm Mathlibs (#17699)
* ROCm Mathlibs

* fixed the review comments

* fixed flake8 issues
2020-08-13 15:34:30 -05:00
Massimiliano Culpo
4a2136670d
gcc: improve detection functions (#17988)
* Don't detect Apple's clang as gcc@4.2.1
* Avoid inspecting links except for Cray platforms
* Always return string paths from compiler properties
* Improved name-based filtering (apt-based packages)
2020-08-13 12:17:02 -07:00
Nikolay Simakov
f61b14106a
IOR package: added 3.3.0rc1 and develop version (#18036)
* IOR package: added 3.3.0rc1 and develop version

* IOR package: reordered versions, set 3.2.1 as preferred
2020-08-13 13:28:50 -05:00
Harmen Stoppels
f5d3b82bcd
Make mpich buildable without fortran (#17964)
When the user explicitly sets ~fortran, mpich builds without fortran
support. This will make building C/C++ libraries using clang easier,
since clang does not offer a fortran compiler by default (yet).

Since the user has to disable Fortran support explicitly, this change
is not breaking.
2020-08-13 13:25:55 -05:00
Harmen Stoppels
d6587ea365
fix buildcache create for environments with uninstalled root specs (#17859)
* Handle uninstalled rootspecs in buildcache

- Do not parse specs / find matching specs when in an environment and no
package string is provided
- Error only when a spec.yaml or spec string are not installed. In an
environment it is fine when the root spec does not exist.
- When iterating through the matched specs, simply skip uninstalled
packages
2020-08-13 09:59:20 -07:00
Massimiliano Culpo
d2f56830f1
"spack config update" can handle comments in YAML files (#18045)
fixes #18031

With this fix "spack config update" can update YAML
files that contain comments, while previously it
couldn't.
2020-08-13 09:54:07 -07:00
Matt Larsen
29818fda00
update vtk-h release (#18052) 2020-08-13 09:30:32 -07:00
Todd Gamblin
b476f8aa63 Merge tag 'v0.15.4' into develop 2020-08-13 07:23:02 -07:00
Massimiliano Culpo
ecf4829de7
llvm: added external detection capabilities (#17989)
* llvm: added external detection capabilities

* Added comment with reference to external package detection docs

* Fix typo in a comment
2020-08-13 09:03:09 -05:00
Todd Gamblin
764cafc1ce update CHANGELOG.md for 0.15.4 2020-08-13 00:41:59 -07:00
Todd Gamblin
091b45c3c7 bump version number for 0.15.4 2020-08-13 00:33:31 -07:00
Massimiliano Culpo
1707448fde Move Python 2.6 unit tests to Github Actions (#17279)
* Run Python2.6 unit tests on Github Actions
* Skip url tests on Python 2.6 to reduce waiting times
* Skip foreground background tests on Python 2.6 to reduce waiting times
* Removed references to Travis in the documentation
* Deleted install_patchelf.sh (can be installed from repo on CentOS 6)
2020-08-13 00:33:31 -07:00
Patrick Gartung
4d25481473 Buildcache: bindist test without invoking spack compiler wrappers. (#15687)
* Buildcache:
   * Try mocking an install of quux, corge and garply using prebuilt binaries
   * Put patchelf install after ccache restore
   * Add script to install patchelf from source so it can be used on Ubuntu:Trusty which does not have a patchelf pat package. The script will skip building on macOS
   * Remove mirror at end of bindist test
   * Add patchelf to Ubuntu build env
   * Revert mock patchelf package to allow other tests to run.
   * Remove depends_on('patchelf', type='build') relying instead on
   * Test fixture to ensure patchelf is available.

* Call g++ command to build libraries directly during test build

* Flake8

* Install patchelf in before_install stage using apt unless on Trusty where a build is done.

* Add some symbolic links between packages

* Flake8

* Flake8:

* Update mock packages to write their own source files

* Create the stage because spec search does not create it any longer

* updates after change of list command arguments

* cleanup after merge

* flake8
2020-08-13 00:33:31 -07:00
Massimiliano Culpo
ecbfa5e448 Use "fetch-depth: 0" to retrieve all history from remote 2020-08-13 00:33:31 -07:00
Massimiliano Culpo
c00773521e Simplified YAML files for Github Actions workflows
Updated actions where needed
2020-08-13 00:33:31 -07:00
Massimiliano Culpo
a4b0239635 Group tests with similar duration together
Style and documentation tests take just a few minutes
to run. Since in Github actions one can't restart a single
job but needs to restart an entire workflow, here we group
tests with similar duration together.
2020-08-13 00:33:31 -07:00
Todd Gamblin
303882834a docs: document releases and branches in Spack
- [x] Remove references to `master` branch
- [x] Document how release branches are structured
- [x] Document how to make a major release
- [x] Document how to make a point release
- [x] Document how to do work in our release projects
2020-08-13 00:33:31 -07:00
Todd Gamblin
5b63ec8652 Remove references to master from CI
- [x] remove master from github actions
- [x] remove master from .travis.yml
- [x] make `develop` the default branch for `spack ci`
2020-08-13 00:30:51 -07:00
Massimiliano Culpo
fc94dde3fc Moved flake8, shell and documentation tests to Github Action (#17328)
* Move flake8 tests on Github Actions

* Move shell test to Github Actions

* Moved documentation build to Github Action

* Don't run coverage on Python 2.6

Since we get connection errors consistently on Travis
when trying to upload coverage results for Python 2.6,
avoid computing coverage entirely to speed-up tests.
2020-08-13 00:30:51 -07:00
Robert Blake
c064088cf3 Bugfix for #17999: use cudart instead of cuda. (#18000)
This is needed because libcuda is used by the driver,
whereas libcudart is used by the runtime. CMake searches
for cudart instead of cuda.

On LLNL LC systems, libcuda is only found in compat and
stubs directories, meaning that the lookup of libraries
fails.
2020-08-12 23:58:10 -07:00
Todd Gamblin
c05fa25057 bugfix: fix spack -V with releases/latest and shallow clones (#17884)
`spack -V` stopped working when we added the `releases/latest` tag to
track the most recent release. It started just reporting the version,
even on a `develop` checkout. We need to tell it to *only* search for
tags that start with `v`, so that it will ignore `releases/latest`.

`spack -V` also would print out unwanted git eror output on a shallow
clone.

- [x] add `--match 'v*'` to `git describe` arguments
- [x] route error output to `os.devnull`
2020-08-12 23:58:10 -07:00
Patrick Gartung
8e2f41fe18 Buildcache create: change NoOverwriteException back to a warning as in v0.14 (#17832)
* Change buildcache create `NoOverwriteException` back to a warning.
2020-08-12 23:58:10 -07:00
Axel Huebl
50f76f6131 Hotfix: move CUDAHOSTCXX (#17826)
* Hotfix: move CUDAHOSTCXX

Set only in dependent packages.

* dependent compiler
2020-08-12 23:58:10 -07:00