Commit graph

12887 commits

Author SHA1 Message Date
Benjamin Fovet
7338730528 gmsh: add version 4.4.1 (#13366) 2019-10-22 18:18:19 -05:00
Frédéric Simonis
ab5135db1c Boost package: Fix iostream autodetect libraries (#12440)
Boost iostream autodetects the compression libraries libzstd and
liblzma outside of the Spack environment.

This commit disables mentioned libraries. In the future if the
Spack zstd/lzma packages were added as dependencies of the Spack
Boost package, additional work could be done to build Boost with
the Spack-built versions of these libraries.
2019-10-22 14:25:03 -07:00
Axel Huebl
0f931cfc87 ADIOS2: Document endian_reverse variant (#13226)
Update the documentation of the `endian_reverse` variant in ADIOS2.
The short description caused some confusion (for me) :-)
2019-10-22 11:06:06 -05:00
Ruben Di Battista
49291d5a40 git-lfs: Add new version (#13356)
PS: The old versions do not work: it's likely that they changed git
history on submodules
2019-10-22 10:45:45 -05:00
Adam J. Stewart
526ee113ea
Default to Python 3.7 (#10319)
* Default to Python 3

* Fix build with Intel compilers
2019-10-22 10:22:32 -05:00
Adam J. Stewart
48e8029fb1
Add latest version of py-scikit-learn (#13295)
* Add latest version of py-scikit-learn

* setup_environment -> setup_build_environment
2019-10-22 09:16:58 -05:00
Adam J. Stewart
09070b0c9b
Add latest version of npth (#13353) 2019-10-22 09:16:33 -05:00
Adam J. Stewart
2de807d4cb
Add latest version of py-macs2 (#13358) 2019-10-22 09:16:07 -05:00
Adam J. Stewart
e0c310bfd3
Add latest version of py-sphinxcontrib-programoutput (#13359) 2019-10-22 09:15:39 -05:00
Adam J. Stewart
809733c7e6
Restrict parallel build of py-astropy to Python 3 (#13360) 2019-10-22 09:15:11 -05:00
Massimiliano Culpo
cfbdd2179e microarchitectures: add optimization flags for Intel compilers (#13345)
* Added optimization flags for Intel compilers with Intel CPUs
* Added optimization flags for Intel compilers with AMD CPUs
2019-10-22 00:33:59 -07:00
Omar Padron
fd58c98b0e fetching: S3 upload and download (#11117)
This extends Spack functionality so that it can fetch sources and binaries from-, push sources and binaries to-, and index the contents of- mirrors hosted on an S3 bucket.

High level to-do list:

- [x] Extend mirrors configuration to add support for `file://`, and `s3://` URLs.
- [x] Ensure all fetching, pushing, and indexing operations work for `file://` URLs.
- [x] Implement S3 source fetching
- [x] Implement S3 binary mirror indexing
- [x] Implement S3 binary package fetching
- [x] Implement S3 source pushing
- [x] Implement S3 binary package pushing

Important details:

* refactor URL handling to handle S3 URLs and mirror URLs more gracefully.
  - updated parse() to accept already-parsed URL objects.  an equivalent object
    is returned with any extra s3-related attributes intact.  Objects created with
    urllib can also be passed, and the additional s3 handling logic will still be applied.

* update mirror schema/parsing (mirror can have separate fetch/push URLs)
* implement s3_fetch_strategy/several utility changes
* provide more feature-complete S3 fetching
* update buildcache create command to support S3

* Move the core logic for reading data from S3 out of the s3 fetch strategy and into
  the s3 URL handler.  The s3 fetch strategy now calls into `read_from_url()` Since
  read_from_url can now handle S3 URLs, the S3 fetch strategy is redundant.  It's
  not clear whether the ideal design is to have S3 fetching functionality in a fetch
  strategy, directly implemented in read_from_url, or both.

* expanded what can be passed to `spack buildcache` via the -d flag: In addition
  to a directory on the local filesystem, the name of a configured mirror can be
  passed, or a push URL can be passed directly.
2019-10-22 00:32:04 -07:00
Adam J. Stewart
6cb972a9d2
Add dependency version constraint to libgcrypt (#13351) 2019-10-22 00:43:44 -05:00
Adam J. Stewart
2aa51697c5
Fix configure arg to libassuan (#13350) 2019-10-22 00:43:29 -05:00
Adam J. Stewart
598274a278
Fix configure arg to libksba (#13352) 2019-10-22 00:43:11 -05:00
Adam J. Stewart
fb219cd91c
Add latest version of gnupg (#13349) 2019-10-22 00:42:56 -05:00
Adam J. Stewart
326db657da
Add latest version of patchelf (#13348) 2019-10-22 00:42:40 -05:00
Adam J. Stewart
5e6dc7ab4b
Add latest version of zstd (#13340)
* Add latest version of zstd

* setup_environment -> setup_build_environment
2019-10-21 21:45:48 -05:00
Toyohisa Kameyama
98c0d59a0c sniffles: fix zlib header lookup directory. (#13063)
* sniffles: fix zlib header lookup directory.

* use bamtools and zlib to spack installed package.

* remove unneeded patch.
2019-10-21 18:38:05 -05:00
noguchi-k
7b62b64b03 elsi:add CMAKE Fortran MODDIR FLAG for Fujitsu compiler (#13244)
* add CMAKE Fortran MODDIR FLAG for Fujitsu compiler

* elsi:remove extra fix
2019-10-21 18:28:38 -05:00
t-karatsu
0e3e1836ff arpack-ng: Fixed error that is not compatible with isnan. (#13246) 2019-10-21 18:27:39 -05:00
t-karatsu
26141ad489 bpp-core: Clarify 'isnan' function's namespace. (#13260) 2019-10-21 18:24:10 -05:00
Michael Kuhn
edf56d8ac4 qt: Fix build for newer versions (#13262)
For some reason, newer versions of qt fail to build because they cannot
find certain system libraries such as libatomic and libdl.

Leaving the qmake compiler set to gcc seems to fix the problem.

Fixes #13221
2019-10-21 18:23:03 -05:00
健美猞猁
26687988eb New package: Fl (#12877) 2019-10-21 12:04:00 -07:00
Massimiliano Culpo
3d77ecd92e Bootstrap environment modules optimizing for generic architectures (#13105)
fixes #13073

Since #3206 was merged bootstrapping environment-modules was using the architecture of the current host or the best match supported by the default compiler. The former case is an issue since shell integration was looking for a spec targeted at the host microarchitecture.

1. Bootstrap an env modules targeted at generic architectures
2. Look for generic targets in shell integration scripts
3. Add a new entry in Travis to test shell integration
2019-10-21 11:20:05 -07:00
Massimiliano Culpo
498f448ef3 microarchitectures: fix custom compiler versions (#13222)
Custom string versions for compilers were raising a ValueError on
conversion to int. This commit fixes the behavior by trying to detect
the underlying compiler version when in presence of a custom string
version.

* Refactor code that deals with custom versions for better readability
* Partition version components with a regex
* Fix semantic of custom compiler versions with a suffix
* clang@x.y-apple has been special-cased
* Add unit tests
2019-10-21 10:24:57 -07:00
Adam J. Stewart
4ab63c17d5
Fix Python 3.8 build on macOS (#13338) 2019-10-21 11:21:47 -05:00
Adam J. Stewart
4d99663ef9
Add latest version of py-cffi (#13322)
* Add latest version of py-cffi

* setup_environment -> setup_build_environment
2019-10-21 11:19:48 -05:00
Adam J. Stewart
038f7b1b66
Add latest version of py-numpy (#13307)
* Add latest version of py-numpy

* setup_environment -> setup_build_environment
2019-10-21 11:19:05 -05:00
Adam J. Stewart
72177b6e97
Add latest version of py-tables (#13291)
* Add latest version of py-tables

* setup_environment -> setup_build_environment
2019-10-21 11:17:52 -05:00
Adam J. Stewart
5090071693
Add latest version of py-torch (#13290)
* Add latest version of py-torch

* setup_environment -> setup_build_environment
2019-10-21 11:17:15 -05:00
Adam J. Stewart
f2d91f7e3c
Use specific version of googletest for uriparser (#13339) 2019-10-20 19:08:23 -05:00
Adam J. Stewart
01e64886ac
Tut cannot be built with Python 3.7+ (#13341) 2019-10-20 19:08:04 -05:00
Adam J. Stewart
7f2aacfffc
Add latest version of proj (#13337) 2019-10-20 17:56:37 -05:00
Adam J. Stewart
030b2f8657
Add missing zlib dependency to openjpeg (#13336) 2019-10-20 17:06:43 -05:00
Adam J. Stewart
0cfc88c7d7
openblas: http -> https (#13335) 2019-10-20 17:06:30 -05:00
Adam J. Stewart
785d5d9ca3
mapserver: http -> https (#13334) 2019-10-20 16:31:55 -05:00
Adam J. Stewart
4789ac956c
liblas: http -> https (#13331) 2019-10-20 15:51:35 -05:00
Adam J. Stewart
529d1246f6
libtiff: http -> https (#13332) 2019-10-20 15:51:23 -05:00
Adam J. Stewart
b56e46ece8
libgeotiff: http -> https (#13330) 2019-10-20 15:51:08 -05:00
Adam J. Stewart
f1e595cb61
Add latest version of libyaml (#13333) 2019-10-20 15:50:48 -05:00
Adam J. Stewart
04e999162d
Add latest version of libgcrypt (#13329) 2019-10-20 14:45:00 -05:00
Adam J. Stewart
73c5a9c736
Add latest version of googletest (#13328) 2019-10-20 14:44:43 -05:00
Adam J. Stewart
1673dc5aeb
GEOS: http -> https (#13327) 2019-10-20 14:44:28 -05:00
Adam J. Stewart
c767444f88
Add missing test dependency to py-alabaster (#13325) 2019-10-20 14:44:14 -05:00
Adam J. Stewart
a602ed873d
Add latest version of py-typing (#13287) 2019-10-20 13:18:02 -05:00
Adam J. Stewart
d462749b59
Add missing dependencies to py-apipkg (#13324) 2019-10-20 13:17:44 -05:00
Adam J. Stewart
32879df9d0
Add latest version of py-babel (#13323) 2019-10-20 13:17:28 -05:00
Adam J. Stewart
ea90d2b88a
Add latest version of py-chardet (#13321) 2019-10-20 11:44:12 -05:00
Adam J. Stewart
d2744a072b
Add latest version of py-click (#13320) 2019-10-20 11:43:56 -05:00