Commit graph

15691 commits

Author SHA1 Message Date
Andrew Gaspar
0a3601a3f1
libgit2 v1.0.1 (#16952) 2020-06-04 16:34:19 -05:00
eugeneswalker
44ec8cc4e4
sz: patch in ctag optionality from robertu94/sz 3637a87f986c (#16953) 2020-06-04 09:16:11 -07:00
eugeneswalker
b64ec7fba4
pass hwloc to configure via useropt; use lib/ or lib64/ as appropriate for libunwind (#16941) 2020-06-04 06:58:33 -07:00
Adam J. Stewart
7617054a5d
Fix obsolete references to wx package (#16944) 2020-06-04 08:05:48 -05:00
Adam J. Stewart
0dd1d1f21a
NumPy: add 1.18.5 (#16943) 2020-06-04 08:05:22 -05:00
iarspider
ad50a02188
Add matplotlib 3.1.0 (#16921) 2020-06-03 22:26:13 -05:00
iarspider
6f4631ee48
Add py-jupyter-core@4.6.1 (#16922) 2020-06-03 22:25:38 -05:00
Seth R. Johnson
104a0c4259
Trilinos: add Stratimikos package (#16925)
Stratimikos is an optional dependency for our project. It depends on
Thyra, and thyra has subpackages that should be enabled based on
tpetra/epetra/epetraext.
2020-06-03 22:25:09 -05:00
Mathew Cleveland
02548c56fa
+ Add opppy-0_1_3 (#16926)
+ Update maintainers for OPPPY package
+ remove "run" requirement for setuptools and sphynx

Co-authored-by: Cleveland <cleveland@lanl.gov>
2020-06-03 22:16:46 -05:00
iarspider
16e8e434c2
Add pytest@5.3.4 (#16927)
Dropping atomicwrites dependency: https://github.com/pytest-dev/pytest/issues/6147
2020-06-03 22:15:01 -05:00
Seth R. Johnson
6f6c243699
mpfr: update hash for 4.0.2 patch (#16937) 2020-06-03 22:11:44 -05:00
Adam J. Stewart
61f61f3cde
py-openpyxl: add 3.0.3 (#16940) 2020-06-03 22:09:58 -05:00
Adam J. Stewart
5a7b555314
IPython: fix setuptools dependency (#16915)
* IPython: fix setuptools dependency

* Remove extra colon
2020-06-03 22:09:40 -05:00
Adam J. Stewart
dd19d6f863
Fix parsing of EvtGen URL (#16883)
* Fix parsing of EvtGen URL

* Flake8 fix
2020-06-03 22:09:22 -05:00
Adam J. Stewart
a02fc8ae58
Ignore __pycache__ directory (#16836) 2020-06-03 22:09:06 -05:00
Tom Payerle
0fb671a19e
Gnuplot fix 16928 (#16929)
* gnuplot: Fix for #16928

Dependency for --with-wx flag mistyped (should be wxwidgets)

* Revert "gnuplot: Fix for #16928"

This reverts commit 2b85814e5ccf5c9b2c70c7959994e89c18fdc3d8.

* gnuplot: Fix for #16928

Dependency spec for --with-wx flag mistyped (should be wxwidgets, not
wx)
2020-06-03 22:08:07 -05:00
shanedsnyder
748be57790
update darshan-runtime & darshan-util versions (#16934)
* update darshan-runtime & darshan-util versions

includes up through the current release, 3.2.1

* remove pre-releases, not needed in spack
2020-06-03 18:05:46 -07:00
Peter Scheibel
24775697f5
Mirrors: add option to exclude packages from "mirror create" (#14154)
* add an --exclude-file option to 'spack mirror create' which allows a user to specify a file of specs to exclude when creating a mirror. this is anticipated to be useful especially when using the '--all' option

* allow specifying number of versions when mirroring all packages

* when mirroring all specs within an environment, include dependencies of root specs

* add '--exclude-specs' option to allow user to specify that specs should be excluded on the command line

* add test for excluding specs
2020-06-03 17:43:51 -07:00
eugeneswalker
0086c47546
patch lambda capture issue for @1.1906.1, fixed in upstream faodel@master (#16935) 2020-06-03 11:38:27 -07:00
Greg Becker
3347ef2de4
Feature: add option to create view by copying/relocating files (#16480)
* add subcommand `spack view copy/relocate`

* update bash completions

* add copy/relocate commands to view tests

* allow copied views to be removed
2020-06-03 09:45:13 -07:00
Sergey Kosukhin
7aa9cb0f7a
Implicit rpaths for NAG/GCC mixed toolchain (#14782)
* Implicit rpaths for NAG.

* set up environment when checking for implicit rpaths
2020-06-03 09:42:13 -07:00
Massimiliano Culpo
70c3b0ba09
spack uninstall: improve help message (#16886)
fixes #12527

Mention that specs  can be uninstalled by hash also in
the help message. Reference `spack gc` in case people
are looking for ways to clean the store from build time
dependencies.

Use "spec" instead of "package" to avoid ambiguity in
the error message.
2020-06-03 16:30:12 +02:00
dmorone
600e2cfc4f
amber: updated dependency constraint on cuda (#16919)
Fix message 'amber requires cuda version :10.1.243, but spec asked for 10.2.89'
2020-06-03 13:17:36 +02:00
Amjad Kotobi
eed82a19be
openssh: added v8.3p1 and v8.1p1 (#16917) 2020-06-03 11:28:42 +02:00
Amjad Kotobi
417eb3c5b1
git: added v2.27.0 (#16918) 2020-06-03 11:24:08 +02:00
Justin S
5604c8d91a
mummer4: new package at 4.0.0-beta2 (#16907) 2020-06-02 22:09:39 -05:00
Robert Blake
0e71e8716a
Add new package: sbml (#16898)
* Adding a module for sbml.

* Adding support for all the languages.

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

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

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

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

Co-authored-by: Robert Blake <rob.c.blake.3@gmail.com>
Co-authored-by: Greg Becker <becker33@llnl.gov>
2020-06-02 17:54:50 -07:00
Adam J. Stewart
7f086af05e
Ruby: add warning about Avira antivirus (#16882) 2020-06-02 15:05:50 -07:00
Massimiliano Culpo
d5ffec1b2f
Unify tests for compiler command in the same file (#16891)
* Unify tests for compiler command in the same file

Tests for the "spack compiler" command were previously
scattered among different files.

* Tests should use mutable_config, since they modify the compiler list
2020-06-02 14:59:42 -07:00
Toyohisa Kameyama
76142124d2
alsa-lib: Add new version and python dependency. (#16905)
Add version 1.2.2.
Add conditional python dependency.
Add patch for 1.1.4.1 and python.
2020-06-02 14:23:14 -07:00
Justin S
5d37439a7b
gmap-gsnap: add 2020-06-01 (#16906) 2020-06-02 14:21:00 -07:00
Chuck Atkins
5ace804dc2
Bump ADIOS to 2.6.0 (#16908) 2020-06-02 14:15:23 -07:00
iarspider
9a17d48455
Add ipython 7.5.0 (#16801)
* Add ipython 7.5.0

* Update dependencies

* Update package.py
2020-06-02 15:09:35 -05:00
takanori-ihara
b60ab6eefd
ruby: fixed build with Fujitsu compilers (#16889) 2020-06-02 11:07:48 +02:00
Xavier Delaruelle
c7851f896c
environment-modules: added v4.5.1 (#16896) 2020-06-02 11:06:02 +02:00
Greg Becker
2795414a80
Fix satisfaction checks for excluding variants from matrices (#16893)
Because of the way abstract variants are implemented, the following 
spec matrix does not work as intended:
```
matrix:
- [foo]
- [bar=a, bar=b]
exclude:
- bar=a
```
because abstract variants always satisfy any variant of the same
name, regardless of values.

This PR converts abstract variants to whatever their appropriate 
type is before running satisfaction checks for the excludes clause 
in a matrix.

fixes #16841
2020-06-02 11:02:28 +02:00
takanori-ihara
0875c6a5d0
py-grpcio: fixed build with Fujitsu compilers (#16900) 2020-06-02 10:55:55 +02:00
Axel Huebl
6aa0e9944e
ccache: added v3.7.9 (#16902)
Add the latest CCache release. Fixes issues with `-x cu` that are
not present in the last checksummed release. This fixes workflows
with CMake.
2020-06-02 10:53:12 +02:00
Sinan
7f2db5c5b0
qt: add conflict for old gcc (#16904)
Co-authored-by: Sinan81 <Sinan81@github>
2020-06-02 10:51:35 +02:00
Michael Kuhn
6035b32748
go: added v1.14.4 and v1.13.12 (#16903) 2020-06-02 10:48:35 +02:00
Jonathon Anderson
feda2a3073
openmpi: add opa-psm2 dependency (#16873)
Also document with_or_without and enable_or_disable, (which are used
to configure the opa-psm2 dependency).
2020-06-01 15:33:24 -07:00
Amjad Kotobi
ab6905d5fa
r-exactextractr: package type fixed (#16881)
* r-exactextractr: should inherit from RPackage
* r-exactextractr: fixed URL
2020-06-01 14:01:41 -07:00
Massimiliano Culpo
2a4ca34a61
Recognize system installed gcc-10 as compilers (#16884)
Now that the version number of GCC reached double digits, an update
to the regex is needed to recognize gcc-10 as an executable to be
inspected when searching for compilers.
2020-06-01 13:59:14 -07:00
t-karatsu
9741de504f netcdf-cxx4: Add 'doxygen' dependency. 2020-06-01 13:56:07 -07:00
Jianwen WEI
4387975556 miniforge3: add version 4.8.3-4. 2020-06-01 13:54:53 -07:00
mic84
fe74c22184
amrex: add version 20.06 (#16895) 2020-06-01 13:53:49 -07:00
Christoph Junghans
daea1fcef6
exampm: fix build (#16894)
* cabana: add mpi variant

* cajita: initial import

* exampm: update deps

* flake8
2020-06-01 13:58:09 -06:00
健美猞猁
de63e1c2ac
healpix-cxx: added new package at v3.50.0 (#16846) 2020-06-01 06:13:35 +02:00
Greg Becker
b1bd777403
petsc: fix conditional activation of parmetis (#16533) 2020-05-31 14:13:10 -05:00
Hector Martinez-Seara
23a5f3f200
Updated unison to v2.51.2 (#16772)
The current package does not work. Also several ocaml versions do
not compile such as 4.09.0. Updated to the new ocaml version to
4.10.0, which is now a prerequisite.
2020-05-31 13:58:37 -05:00