Commit graph

16666 commits

Author SHA1 Message Date
TZ
084994db9c
ncl: fix compilation errors with Intel compilers (#17391)
The Intel compilers are more strict and require special command
line options (like -std=c99) to properly compile NCL.
2020-07-08 08:42:49 +02:00
Simon Byrne
f85da868ac
Improve Travis sample in the docs (#17420)
- printf is better than echo for multiline strings
- ** should be &&
- use line continuation
- Use multiline block
2020-07-08 07:25:37 +02:00
iarspider
f1f31e3dfe
Fix YODA and Rivet recipes (#17412)
* Fix Rivet recipe; restrict Yoda versions for a give Rivet version

* Fix YODA recipe

* More tweaks to YODA version requirements

* Flake-8
2020-07-07 22:24:48 -05:00
Patrick Gartung
7f8e827db8
Relocate rpaths for all binaries, then do text bin replacement if the rpaths still exist after running patchelf/otool (#17418) 2020-07-07 16:46:39 -05:00
Adam J. Stewart
a63761f875
oneDNN: add v1.5.1 (#17419) 2020-07-07 16:38:47 -05:00
Adam J. Stewart
3ce16c89b7
GDAL: add v3.1.2 (#17416) 2020-07-07 15:45:25 -05:00
Massimiliano Culpo
f4ac3770b4
CudaPackage: maintainers are listed in the docstring (#17409)
fixes #17396

This prevents the class attribute to be inherited and
saves current maintainers from becoming the default
maintainers of every Cuda package.
2020-07-07 20:45:41 +02:00
Todd Gamblin
b0506a722e
releases: document releases/latest tag (#17402)
We got rid of `master` after #17377, but users still want a way to get
the latest stable release without knowing its number.

We've added a `releases/latest` tag to replace what was once `master`.

Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2020-07-07 11:44:15 -07:00
Peter Scheibel
650ab563f4
Uninstall: tolerate hook failures when force=true (#16513)
Fixes #16478

This allows an uninstall to proceed even when encountering pre-uninstall
hook failures if the user chooses the --force option for the uninstall.

This also prevents post-uninstall hook failures from raising an exception,
which would terminate a sequence of uninstalls. This isn't likely essential
for #16478, but I think overall it will improve the user experience: if
the post-uninstall hook fails, there isn't much point in terminating a
sequence of spec uninstalls because at the point where the post-uninstall
hook is run, the spec has already been removed from the database (so it
will never have another chance to run).

Notes:

* When doing spack uninstall -a, certain pre/post-uninstall hooks aren't
  important to run, but this isn't easy to track with the current model.
  For example: if you are uninstalling a package and its extension, you
  do not have to do the activation check for the extension.
* This doesn't handle the uninstallation of specs that are not in the DB,
  so it may leave "dangling" specs in the installation prefix
2020-07-07 11:37:36 -07:00
Christoph Junghans
90285c7d61
votca-tools: fix build with mkl (#17414) 2020-07-07 13:27:10 -05:00
Frank Willmore
6c300ab717
snappy: added v1.1.8 (#17397) 2020-07-07 17:25:26 +02:00
g-mathias
05d8ba170b
jube: added v2.4.0 (#17404)
Co-authored-by: lu64bag3 <gerald.mathias@lrz.de>
2020-07-07 16:11:53 +02:00
figroc
51f65152a5
abseil-cpp: added v20200225.2 (#17383) 2020-07-07 14:02:21 +02:00
Harmen Stoppels
1113357e35
libtree: fixed checksums (#17393)
The hash was wrongly computed for the `tar.gz` 
that Github provides, not the custom tarball which 
includes submodules as well.
2020-07-07 12:56:57 +02:00
ketsubouchi
d65a076c0d
bliss: add spaces to __DATE__ (#17385)
C++11 requires a space between literal and string macro.
2020-07-07 11:28:55 +02:00
Glenn Johnson
845139740f
mumax: new package at v3.10beta (#17398)
This PR creates a new spack package for

mumax: GPU accelerated micromagnetic simulator.

This uses the current beta version because
- it is somewhat dated, ~2018
- it is the only one that supports recent GPU kernels
2020-07-07 11:01:59 +02:00
TZ
1f87b07689
nco: added v4.8.[0,1] and v4.9.[0-3] (#17389) 2020-07-07 10:18:27 +02:00
TZ
cbaa1bca1c
ncview: added v2.1.8 (#17388) 2020-07-07 10:09:27 +02:00
Sinan
5fb6a06c37
gunrock: improved package recipe (added variants for applications and others) (#17340)
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
2020-07-07 10:02:37 +02:00
Adam Moody
6e38fc56f6 mpifileutils: add v0.10.1 2020-07-06 18:19:29 -07:00
Todd Gamblin
c00a05bfba bugfix: no infinite recursion in setup-env.sh on Cray
On Cray platforms, we rely heavily on the module system to figure out
what targets, compilers, etc. are available. This unfortunately means
that we shell out to the `module` command as part of platform
initialization.

Because we run subcommands in a shell, we can get infinite recursion if
`setup-env.sh` and friends are in some init script like `.bashrc`.

This fixes the infinite loop by adding guards around `setup-env.sh`,
`setup-env.csh`, and `setup-env.fish`, to prevent recursive
initializations of Spack. This is safe because Spack never shells out to
itself, so we do not need it to be initialized in subshells.

- [x] add recursion guard around `setup-env.sh`
- [x] add recursion guard around `setup-env.csh`
- [x] add recursion guard around `setup-env.fish`
2020-07-06 13:55:14 -07:00
Todd Gamblin
9ec9327f5a 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
2020-07-06 11:39:19 -07:00
Todd Gamblin
11088df402 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`
2020-07-06 11:39:19 -07:00
Todd Gamblin
4ea76dc95c change master/child to controller/minion in pty docstrings
PTY support used the concept of 'master' and 'child' processes. 'master'
has been renamed to 'controller' and 'child' to 'minion'.
2020-07-06 11:39:19 -07:00
cedricchevalier19
f0275d7e1b
Fix gcc + binutils compilation. (#9024)
* fix binutils deptype for gcc

binutils needs to be a run dependency of gcc

* Fix gcc+binutils build on RHEL7+

static-libstdc++ is not available with system gcc.
Anyway, as it is for bootstraping, we do not really care depending on
a shared libstdc++.

Co-authored-by: Michael Kuhn <michael@ikkoku.de>
2020-07-06 13:02:35 -05:00
Michael Kuhn
516c3e659f
autotools bugfix: handle missing config.guess (#17356)
Spack was attempting to calculate abspath on the located config.guess
path even when it was not found (None); this commit skips the abspath
calculation when config.guess is not found.
2020-07-06 10:53:02 -07:00
iarspider
e62ddcb582
Add Rivet and YODA (#17372)
* Add Rivet and YODA

* Add patches

* Flake-8

* Set level for Rivet patches

* Syntax fix

* Fix dependencies of Rivet

* Update var/spack/repos/builtin/packages/rivet/package.py

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

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-07-06 10:51:36 -05:00
TZ
b3bc538df6
esmf: set ESMF_COMM=intelmpi also for ^intel-mpi (#17387)
Not only intel-parallel-studio+mpi provides Intel MPI but also
intel-mpi.
2020-07-06 11:40:11 +02:00
fcannini
29fc94e29e
psi4: fix "filter_compilers" signature (#17375) 2020-07-06 09:07:26 +02:00
Adam J. Stewart
466f7fd996
GMT: add v6.1.0 (#17384) 2020-07-05 21:06:05 -05:00
darmac
58cfe4e078
acl: fix depends error (#17341) 2020-07-05 15:28:29 -05:00
darmac
00f7577273
brpc: fix depends issue (#17347) 2020-07-05 15:27:49 -05:00
Wouter Deconinck
4e6d189a94
[opencascade] depends_on freetype, tcl, tk, gl (#17357)
* [opencascade] depends_on freetype, tcl, tk, gl

* [opencascade] new version 7.4.0p1 and url_for_version
2020-07-05 15:25:38 -05:00
iarspider
9abadd4985
New version of LHAPDF: 6.3.0 (#17367) 2020-07-05 15:23:03 -05:00
figroc
66d4bc3f3c
protobuf: add versions (#17381) 2020-07-05 15:22:31 -05:00
yellowhat
52cafe6c96
amdblis bump to 2.2. (#17369) 2020-07-05 15:22:11 -05:00
g-mathias
8d5aa46765
package Amber: amber tools 20 (#17374)
* package amber: added amber_tools 20 hash; added minor version for amber_tools

* fix flake8 issues

Co-authored-by: lu64bag3 <gerald.mathias@lrz.de>
2020-07-05 15:17:38 -05:00
Gilles Gouaillardet
e5ec89ad5b
openblas: fix fj compiler support in 0.3.10 (#17376)
The latest 0.3.10 version openblas changed how Fortran libraries
are detected, and this broke Fujitsu compiler support.

This (new) openblas patch addresses that issue.
2020-07-05 15:14:36 -05:00
Timo Heister
7bba9cd2a5
update aspect to 2.2.0 (#17379) 2020-07-05 15:13:22 -05:00
Adam J. Stewart
cce629e791
SciPy: add v1.5.1 (#17380) 2020-07-05 14:58:26 -05:00
TZ
bb15addad5
inel-mpi: fix for wrong structure name instroduced in ea8a0be4 (#17382)
it's    mpi_compiler_wrappers
and not mpi_compiler._wrappers

fixes 2nd part of #17371
2020-07-05 11:10:28 -05:00
Adam J. Stewart
e9e3e88f63
Fix Intel MPI super invocation, again (#17378) 2020-07-05 11:09:24 -05:00
fcannini
c797a0611c
dtfbplus: New package. (#15191)
* dtfbplus: New package.

* dftbplus: Addresses @adamjstewart's comments on PR #15191

* dftbplus: Fixes format() calls that slipped in previous commit.

* dftbplus: Appease flake8.

* dftbplus: Change 'url' and misc. fixes.

* Add a resource to do the job of './utils/get_opt_externals'
2020-07-04 08:27:32 -05:00
Shahzeb Siddiqui
04f3000646
Pipelines doc: fixed two broken links (#17355) 2020-07-03 12:29:45 +02:00
Amjad Kotobi
f3eba3c482
py-python-swiftclient: added v3.10.0 (#17352) 2020-07-03 12:25:54 +02:00
g-mathias
02fa7b680f
elpa: added v2019.11.001 and v2020.05.001 (#17368)
Co-authored-by: lu64bag3 <gerald.mathias@lrz.de>
2020-07-03 11:52:02 +02:00
Paul R. C. Kent
8fcd917e51
libelf: added extra url (#17358) 2020-07-03 11:49:58 +02:00
g-mathias
9c85d87b90
jube: added v2.3.0 (#17366)
Co-authored-by: lu64bag3 <gerald.mathias@lrz.de>
2020-07-03 10:13:37 +02:00
yellowhat
b45fc97564
Package request: HPCG (#17350)
* use patch from upstream

Co-authored-by: Michael Kuhn <michael.kuhn@informatik.uni-hamburg.de>
2020-07-03 10:05:24 +02:00
ketsubouchi
986f68f7ed
blktrace: use Spack compiler wrappers (#17365) 2020-07-02 23:39:04 -07:00